Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 138 of 173
Found at i:41902478 original size:19 final size:19
Alignment explanation
Indices: 41902454--41902497 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
41902444 AGGGATCAAA
* *
41902454 TTGAGACAAATCA-GAAATT
1 TTGAGA-AAAACATGAAAAT
41902473 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
41902492 TTGAGA
1 TTGAGA
41902498 TGCAGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:41903655 original size:40 final size:40
Alignment explanation
Indices: 41903600--41903760 Score: 205
Period size: 40 Copynumber: 4.0 Consensus size: 40
41903590 GAGGTACCAC
*
41903600 AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAAGGGTATCGA
* * * * *
41903640 AGTACAAAAAGGGGCACGTATGAGGATTCAAGGTTATCAA
1 AGTACAAAAAGGGGCACATATGTGCATTCAAGGGTATCGA
* * * *
41903680 AGTACAAACAGGGGCACGTATGTGCTTTCAAGGGTACCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAAGGGTATCGA
* * *
41903720 AGTACAAACAGGGGCACATATGGGCATTCAGGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAAGGGTATCGA
41903760 A
1 A
41903761 ATAAGTCTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (40 bp):
AGTACAAAAAGGGGCACATATGTGCATTCAAGGGTATCGA
Found at i:41906869 original size:5 final size:5
Alignment explanation
Indices: 41906859--41906883 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41906849 CTTAGTAATT
41906859 ATTGA ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA ATTGA ATTGA
41906884 TAGTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATTGA
Found at i:41908071 original size:20 final size:20
Alignment explanation
Indices: 41908024--41908112 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
41908014 TTGTATGGGA
41908024 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
41908044 TATACACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
41908064 TTTGCACTAT-AGTGCCTCTA
1 TTTGCACT-TCGGTGCCTCTG
* *
41908084 CTTGCACATTC-GTGCCTTTG
1 TTTGCAC-TTCGGTGCCTCTG
*
41908104 TATGCACTT
1 TTTGCACTT
41908113 TGATGCCCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:41909114 original size:20 final size:20
Alignment explanation
Indices: 41909067--41909120 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
41909057 AATTTTAATC
*
41909067 AAGTATCGATACACATATATA
1 AAGTATCGATAC-CATAAATA
*
41909088 AAGTATCGATACCATAAATT
1 AAGTATCGATACCATAAATA
*
41909108 AATTATCGATACC
1 AAGTATCGATACC
41909121 CCTATTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (20 bp):
AAGTATCGATACCATAAATA
Found at i:41911876 original size:42 final size:41
Alignment explanation
Indices: 41911811--41912042 Score: 173
Period size: 43 Copynumber: 5.5 Consensus size: 41
41911801 CATTGAATAA
* *
41911811 AAAGGGGTTGCTAAGTG-TGGATTCCCTGAATTATTGACTTT
1 AAAGGGGTTGCTAAGTGCT-GATTCCCCGTATTATTGACTTT
* *
41911852 AAAGGTGGTTGCTAAGTGCTGATTCAACCGTATCT-TTGACTGTC
1 AAAGG-GGTTGCTAAGTGCTGATTC-CCCGTAT-TATTGACT-TT
* * * * * *
41911896 AACGGGGTTGTTATGTGCTGATTCCCCGTATTACTGAATAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
* * * *
41911937 AAAGGTGGTTGCTAAGTGCTGAATCCACCGTATTTTTTACTGTG
1 AAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATTATTGACT-TT
* * * * * *
41911981 AAAGGGGCTGCTATGTGCTGATTCCCAGTATCACTGAATTT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
*
41912022 -AAGTTGGTTGCTAAGTGCTGA
1 AAAG-GGGTTGCTAAGTGCTGA
41912043 ATCCACCGAG
Statistics
Matches: 146, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.02
41 25 0.17
42 52 0.36
43 55 0.38
44 11 0.08
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (41 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
Found at i:41911957 original size:85 final size:84
Alignment explanation
Indices: 41911850--41912050 Score: 276
Period size: 85 Copynumber: 2.4 Consensus size: 84
41911840 ATTATTGACT
* * * *
41911850 TTAAAGGTGGTTGCTAAGTGCTGATTCAACCGTATCTTTGACTGTCAACGGGGTTGTTATGTGCT
1 TTAAAGGTGGTTGCTAAGTGCTGAATCAACCGTATCTTTGACTGTCAAAGGGGCTGCTATGTGCT
* *
41911915 GATTCCCCGTATTACTGAA
66 GATTCCCAGTATCACTGAA
* * * *
41911934 TATAAAGGTGGTTGCTAAGTGCTGAATCCACCGTATTTTTTACTGTGAAAGGGGCTGCTATGTGC
1 T-TAAAGGTGGTTGCTAAGTGCTGAATCAACCGTATCTTTGACTGTCAAAGGGGCTGCTATGTGC
41911999 TGATTCCCAGTATCACTGAA
65 TGATTCCCAGTATCACTGAA
* * *
41912019 TTTAAGTTGGTTGCTAAGTGCTGAATCCACCG
1 TTAAAGGTGGTTGCTAAGTGCTGAATCAACCG
41912051 AGTAACGAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 30 0.29
85 74 0.71
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (84 bp):
TTAAAGGTGGTTGCTAAGTGCTGAATCAACCGTATCTTTGACTGTCAAAGGGGCTGCTATGTGCT
GATTCCCAGTATCACTGAA
Found at i:41918011 original size:51 final size:51
Alignment explanation
Indices: 41917950--41918047 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
41917940 TAGTTTTGGA
41917950 TGGTTCAGCTTGTAGTTGTTTCTCAACTTGTTGATTGAACCCTTGAGATGG
1 TGGTTCAGCTTGTAGTTGTTTCTCAACTTGTTGATTGAACCCTTGAGATGG
* * *
41918001 TGGTTCAGCTTGTGGTTGTTTCTGAATTTGTTGATTGAACCCTTGAG
1 TGGTTCAGCTTGTAGTTGTTTCTCAACTTGTTGATTGAACCCTTGAG
41918048 GTTGACTTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.16, C:0.14, G:0.27, T:0.43
Consensus pattern (51 bp):
TGGTTCAGCTTGTAGTTGTTTCTCAACTTGTTGATTGAACCCTTGAGATGG
Found at i:41924589 original size:40 final size:40
Alignment explanation
Indices: 41924488--41924628 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
41924478 TAGCGGCGTT
** *
41924488 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAGTGGCGTT
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCG-C
* * * *
41924529 TATGAGAAAAATGCCGCAAAAAGTTAAGCATTAACGGCGC
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCGC
41924569 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACAGG-GC
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAAC-GGCGC
*
41924609 TATGAGAAAAATGCCACAAA
1 TATGAGAAAAACGCCACAAA
41924629 GTATCATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 52 0.60
41 35 0.40
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (40 bp):
TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCGC
Found at i:41924737 original size:21 final size:21
Alignment explanation
Indices: 41924713--41924756 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41924703 CCTTATCTTT
41924713 TCCCTAAAAATT-TTCCCCAAA
1 TCCCT-AAAATTATTCCCCAAA
*
41924734 TCCCTAAATTTATTCCCCAAA
1 TCCCTAAAATTATTCCCCAAA
41924755 TC
1 TC
41924757 AAAATCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (21 bp):
TCCCTAAAATTATTCCCCAAA
Found at i:41935432 original size:22 final size:22
Alignment explanation
Indices: 41935407--41935450 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41935397 TGTGCTGCTG
*
41935407 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
41935429 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
41935451 ATTATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:41935893 original size:31 final size:31
Alignment explanation
Indices: 41935858--41935936 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
41935848 ATAATGTAAT
41935858 ATTTGATTGAAAAATGCAATAAGATGGCATG
1 ATTTGATTGAAAAATGCAATAAGATGGCATG
41935889 ATTTGATTGAAAAATGCAATAAGATGGCATG
1 ATTTGATTGAAAAATGCAATAAGATGGCATG
*
41935920 ATTTGATTGAAGAATGC
1 ATTTGATTGAAAAATGC
41935937 CTATCCTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (31 bp):
ATTTGATTGAAAAATGCAATAAGATGGCATG
Found at i:41941460 original size:9 final size:9
Alignment explanation
Indices: 41941448--41941517 Score: 74
Period size: 9 Copynumber: 8.0 Consensus size: 9
41941438 TATATCATAT
41941448 CATAACTTA
1 CATAACTTA
41941457 CATAACTTA
1 CATAACTTA
41941466 CATAACTTA
1 CATAACTTA
41941475 CATAA--TA
1 CATAACTTA
*
41941482 CATAA-ATA
1 CATAACTTA
* * *
41941490 TATATCATA
1 CATAACTTA
41941499 TCATAACTTA
1 -CATAACTTA
41941509 CATAACTTA
1 CATAACTTA
41941518 ATCATACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
7 7 0.13
8 5 0.09
9 35 0.66
10 6 0.11
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:41943135 original size:43 final size:43
Alignment explanation
Indices: 41943087--41943258 Score: 218
Period size: 43 Copynumber: 4.0 Consensus size: 43
41943077 AGAACATGAC
* * *
41943087 CTTTAGCAGCGTTTGTGGGGAAAGTGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * * *
41943130 CTTTAGTGGTGTTTGTGGGGAAAGCGCCACTAAAGATCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * *
41943173 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * * *
41943216 CTGTAGCGGCGCTTGTGGGGAAAGCGCTGTTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
41943259 TTATAGCAGC
Statistics
Matches: 108, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
Found at i:41944672 original size:17 final size:18
Alignment explanation
Indices: 41944650--41944683 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
41944640 AGTTATTTGG
*
41944650 ATTGTGGTTT-GGGTTTC
1 ATTGTGCTTTAGGGTTTC
41944667 ATTGTGCTTTAGGGTTT
1 ATTGTGCTTTAGGGTTT
41944684 TCATGCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.06, G:0.32, T:0.53
Consensus pattern (18 bp):
ATTGTGCTTTAGGGTTTC
Found at i:41945323 original size:21 final size:19
Alignment explanation
Indices: 41945291--41945329 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
41945281 AAAAATTATA
*
41945291 AATAAAAATAAATAATAAT
1 AATAAAAATAAAGAATAAT
41945310 AATAATAACATAAAGAATAA
1 AATAA-AA-ATAAAGAATAA
41945330 CCTACACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (19 bp):
AATAAAAATAAAGAATAAT
Found at i:41945652 original size:20 final size:20
Alignment explanation
Indices: 41945616--41945654 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41945606 TCAAAGAAAT
*
41945616 ATATAAAATATATTTTAAAA
1 ATATAAAATATAATTTAAAA
41945636 ATATAATAATA-AATTTAAA
1 ATATAA-AATATAATTTAAA
41945655 TTTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAATATAATTTAAAA
Found at i:41949637 original size:31 final size:31
Alignment explanation
Indices: 41949602--41949683 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 31
41949592 CTAATTTTTA
*
41949602 ATTTTTATTTTTAAAATT-AT-ATATCTTTG
1 ATTTTTATTTATAAAATTAATCATATCTTTG
* *
41949631 ACATTTTAGTTTATATAATTAATCATATCTTTG
1 A-TTTTTA-TTTATAAAATTAATCATATCTTTG
41949664 ATTTTTATTTAAATAAAATT
1 ATTTTTATTT--ATAAAATT
41949684 TAATGAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 12 0.29
32 7 0.17
33 17 0.40
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (31 bp):
ATTTTTATTTATAAAATTAATCATATCTTTG
Found at i:41949781 original size:13 final size:13
Alignment explanation
Indices: 41949765--41949791 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41949755 AAAATTTATC
41949765 TAATAAATAAATA
1 TAATAAATAAATA
41949778 TAATAAATAAATA
1 TAATAAATAAATA
41949791 T
1 T
41949792 TTATGAATAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAAATAAATA
Found at i:41950989 original size:18 final size:20
Alignment explanation
Indices: 41950955--41950993 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
41950945 TGTTTAGTTA
41950955 TTTGTTTTTAGTTTAATTTT
1 TTTGTTTTTAGTTTAATTTT
41950975 TTTG-TTTTA-TTTAATTTT
1 TTTGTTTTTAGTTTAATTTT
41950993 T
1 T
41950994 CACATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTGTTTTTAGTTTAATTTT
Found at i:41955361 original size:11 final size:11
Alignment explanation
Indices: 41955345--41955371 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
41955335 TTCATCTTTA
41955345 AGTTTTTAAAT
1 AGTTTTTAAAT
41955356 AGTTTTTAAAT
1 AGTTTTTAAAT
41955367 AGTTT
1 AGTTT
41955372 CTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (11 bp):
AGTTTTTAAAT
Found at i:41958266 original size:20 final size:20
Alignment explanation
Indices: 41958238--41958286 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
41958228 TTGTTTCTCT
* *
41958238 CACGACCGTGTGAACTCCCT
1 CACGCCCGTGTGAACTCCCA
*
41958258 CACTCCCGTGTGAACTCCCA
1 CACGCCCGTGTGAACTCCCA
41958278 CACGCCCGT
1 CACGCCCGT
41958287 ATGGCTCGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (20 bp):
CACGCCCGTGTGAACTCCCA
Found at i:41962667 original size:30 final size:30
Alignment explanation
Indices: 41962610--41962669 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
41962600 GCATATGGTC
** *
41962610 AGCCCGTGTGGTTCACACGGGCGTGTGGCT
1 AGCCCGTGTGGTTCACACAAGCATGTGGCT
*
41962640 AGCCCGTGTGGTTCGCACAAGCATGTGGCT
1 AGCCCGTGTGGTTCACACAAGCATGTGGCT
41962670 GCTGAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.27, G:0.37, T:0.23
Consensus pattern (30 bp):
AGCCCGTGTGGTTCACACAAGCATGTGGCT
Found at i:41967087 original size:19 final size:19
Alignment explanation
Indices: 41967065--41967104 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
41967055 TATTCAAAAG
41967065 CACCATTTTTTTATGATTT
1 CACCATTTTTTTATGATTT
41967084 CACCATTTTTTTATGATTT
1 CACCATTTTTTTATGATTT
41967103 CA
1 CA
41967105 GTTTCATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (19 bp):
CACCATTTTTTTATGATTT
Found at i:41970943 original size:62 final size:63
Alignment explanation
Indices: 41970813--41970943 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 63
41970803 GTATCCCTGA
* * * * **
41970813 CTGTGTGGTGTTATACCACAAATAGTGAGTTAAACGGCCAAGGCACACGCCCGTGTTCCTGGC
1 CTGTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTTCCCCGC
* * * * *
41970876 C-GTGTGGTCTTATACTACAAACAGTGAGTTACACGACCCAGACACACGGCCTTG-TCCCCGC
1 CTGTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTTCCCCGC
41970937 CTGTGTG
1 CTGTGTG
41970944 ACCCCAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
61 6 0.11
62 49 0.88
63 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (63 bp):
CTGTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTTCCCCGC
Found at i:41971564 original size:30 final size:28
Alignment explanation
Indices: 41971542--41971596 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 28
41971532 AGAGTCAAAG
41971542 AAGTAAAACAAAGAAAGAAAAGAAGAAAAA
1 AAGTAAAA-AAA-AAAGAAAAGAAGAAAAA
41971572 AAGTAAAAAAAAAAG-AAAGAAGAAA
1 AAGTAAAAAAAAAAGAAAAGAAGAAA
41971597 GAAGAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
28 4 0.16
29 3 0.12
30 8 0.32
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (28 bp):
AAGTAAAAAAAAAAGAAAAGAAGAAAAA
Found at i:41971604 original size:20 final size:19
Alignment explanation
Indices: 41971551--41971607 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
41971541 GAAGTAAAAC
*
41971551 AAAGAAAGAAAAGAAGAAAA
1 AAAGAAAGAAAAAAAG-AAA
41971571 AAAGTAAA-AAAAAAAGAAA
1 AAAG-AAAGAAAAAAAGAAA
*
41971590 GAAGAAAGAAGAAAAAGA
1 AAAGAAAGAA-AAAAAGA
41971608 TACAAACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 8 0.25
20 18 0.56
21 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAGAAAGAAAAAAAGAAA
Found at i:41972647 original size:18 final size:19
Alignment explanation
Indices: 41972613--41972652 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
41972603 TCCAAATTAA
41972613 TAAATTTATTAAACT-AAT
1 TAAATTTATTAAACTAAAT
41972631 TAAATTT-TTAAACCTAAAT
1 TAAATTTATTAAA-CTAAAT
41972650 TAA
1 TAA
41972653 CCTAAGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTATTAAACTAAAT
Found at i:41975518 original size:51 final size:51
Alignment explanation
Indices: 41975463--41975660 Score: 222
Period size: 51 Copynumber: 3.9 Consensus size: 51
41975453 ATGTGAAAGT
* * *
41975463 GAAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCG
* *
41975514 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCG
1 GAAAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCG
* * ** ** *
41975564 GATAGCTTA-AATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
1 GAAAG-TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCG
* * *
41975615 GATAGTGTTGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
41975661 ATTCGGTATC
Statistics
Matches: 120, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 3 0.03
50 41 0.34
51 75 0.62
53 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCG
Found at i:41977753 original size:31 final size:32
Alignment explanation
Indices: 41977718--41977791 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
41977708 TACAATATAT
*
41977718 ATAAAATAAAATCCTAAAAA-AT-CAACCAAAA
1 ATAAAATAAAATCCTAAAAATATAAAACC-AAA
* *
41977749 ATAAAAT-AAGTCTTAAAAATATAAAACCAAA
1 ATAAAATAAAATCCTAAAAATATAAAACCAAA
41977780 ATAAAATTAAAA
1 ATAAAA-TAAAA
41977792 ATGTTCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.29
31 18 0.51
32 5 0.14
33 2 0.06
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.20
Consensus pattern (32 bp):
ATAAAATAAAATCCTAAAAATATAAAACCAAA
Found at i:41987162 original size:32 final size:32
Alignment explanation
Indices: 41987126--41987200 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
41987116 TACAATATAT
*
41987126 ATAAAATAAAATCCTAAAAAAAT-CAACCAAAA
1 ATAAAATAAAATCCTAAAAAAATAAAACC-AAA
* * *
41987158 ATAAAAT-AAGTCTTAAAAATATAAAACCAAA
1 ATAAAATAAAATCCTAAAAAAATAAAACCAAA
41987189 ATAAAATTAAAA
1 ATAAAA-TAAAA
41987201 ATGTTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 21 0.60
32 12 0.34
33 2 0.06
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.20
Consensus pattern (32 bp):
ATAAAATAAAATCCTAAAAAAATAAAACCAAA
Found at i:41987452 original size:18 final size:19
Alignment explanation
Indices: 41987407--41987453 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
41987397 CGGGGTCTCC
41987407 TCCTCCTCCTCCTCATCATCA
1 TCCTCCT-CTCCT-ATCATCA
* *
41987428 TCATCCTCTCCT-TCATCG
1 TCCTCCTCTCCTATCATCA
41987446 TCCTCCTC
1 TCCTCCTC
41987454 GTCTAGTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.11, C:0.51, G:0.02, T:0.36
Consensus pattern (19 bp):
TCCTCCTCTCCTATCATCA
Found at i:41990133 original size:50 final size:50
Alignment explanation
Indices: 41990027--41990318 Score: 282
Period size: 50 Copynumber: 5.7 Consensus size: 50
41990017 GGAAATAAGA
* * *
41990027 TCCCATGTAAGACCATGTCGGGGACATGGCATTGGCATCATTGGGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-GATGAGAGG
* * *
41990083 TCCCATGTAAGACCATTTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
41990133 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
41990183 TCCCCCGTAAGACAATGTCTGGGACATCGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * *
41990233 TCCCATGTAAGACCATATCTGGGATATGACATTGGTA--GTACAAGAAACG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
41990282 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
41990319 TGTTATTATC
Statistics
Matches: 198, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 124 0.63
51 2 0.01
55 1 0.01
56 33 0.17
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:41992030 original size:16 final size:17
Alignment explanation
Indices: 41992011--41992042 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41992001 CACAAAAAAT
41992011 AAAATTT-AAAATAAAC
1 AAAATTTAAAAATAAAC
41992027 AAAATTTAAAAATAAA
1 AAAATTTAAAAATAAA
41992043 GTCAGTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTTAAAAATAAAC
Found at i:41993380 original size:10 final size:10
Alignment explanation
Indices: 41993334--41993380 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
41993324 AACATGTTGG
41993334 ATTTTTATTA
1 ATTTTTATTA
41993344 ATTTTATAATTA
1 ATTTT-T-ATTA
**
41993356 ATTTTGGTTA
1 ATTTTTATTA
41993366 ATTTTTATT-
1 ATTTTTATTA
41993375 ATTTTT
1 ATTTTT
41993381 GATAGATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 15 0.48
11 1 0.03
12 9 0.29
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:41994237 original size:19 final size:19
Alignment explanation
Indices: 41994213--41994266 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
41994203 AATCTTCAAG
41994213 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
41994232 GATATGTAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
*
41994251 GATATGCTATCTTAGA
1 GATATGCAATCTTAGA
41994267 AGATATGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41994517 original size:23 final size:23
Alignment explanation
Indices: 41994473--41994517 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
41994463 TCTTATTTTG
* *
41994473 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
41994496 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
41994518 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:41994740 original size:3 final size:3
Alignment explanation
Indices: 41994734--41994777 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
41994724 TGACATCATC
* * * *
41994734 ATT ATT ATT ATT ATT ATT GTT ATT ATT TTT ATT TTT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
41994778 ATTCATGCGC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (3 bp):
ATT
Found at i:42000717 original size:25 final size:25
Alignment explanation
Indices: 42000689--42000759 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
42000679 AGCTACTCCA
42000689 AGCTGAAACATGGTAAGCTCAT-ACG
1 AGCTGAAA-ATGGTAAGCTCATCACG
* * *
42000714 AGCTGAGAATTAGTAAGCTC-TCATG
1 AGCTGA-AAATGGTAAGCTCATCACG
42000739 AGCTGAAAATTGGTAAGCTCA
1 AGCTGAAAA-TGGTAAGCTCA
42000760 AACAAGATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (25 bp):
AGCTGAAAATGGTAAGCTCATCACG
Found at i:42002574 original size:54 final size:54
Alignment explanation
Indices: 42002498--42002645 Score: 181
Period size: 54 Copynumber: 2.7 Consensus size: 54
42002488 AAGAGAAGAA
* * * * *
42002498 TGGTAAATATGGAAAACCCTGAAAGAATGATATGTATGGCTAACT-TAGAAGGGC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCT-GAAGGAC
* *
42002552 TGGTAGATATGGTAAACTCTGAAAGAATAAAATGTGTGGCTAACTCTGAAGGAC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCTGAAGGAC
* * * *
42002606 TGGTTGATATGGTAAACTTTGAGAGAACGATATGTGTGGC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGC
42002646 GAATTCCGAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 79 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (54 bp):
TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCTGAAGGAC
Found at i:42004319 original size:12 final size:13
Alignment explanation
Indices: 42004289--42004323 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
42004279 TTAATCGGCC
42004289 ATCGATTGAATTAG
1 ATCGATT-AATTAG
42004303 ATCGATTAATT-G
1 ATCGATTAATTAG
42004315 ATCGATTAA
1 ATCGATTAA
42004324 CCAAATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 4 0.19
14 7 0.33
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (13 bp):
ATCGATTAATTAG
Found at i:42011911 original size:19 final size:19
Alignment explanation
Indices: 42011885--42011928 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
42011875 CTAAAATATA
* *
42011885 AAATTTTTATTTAAATTTTT
1 AAATTTTT-TTAAAAATTTT
42011905 AAATTTTTTTAAAAATTTT
1 AAATTTTTTTAAAAATTTT
42011924 AAATT
1 AAATT
42011929 AGCAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATTTTTTTAAAAATTTT
Found at i:42017044 original size:27 final size:27
Alignment explanation
Indices: 42017010--42017187 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
42017000 ATATTGAGCC
* * *
42017010 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
42017037 CGCTCACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* * *
42017064 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
** ** *
42017092 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
42017119 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
42017146 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
42017173 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42017188 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:42017170 original size:54 final size:54
Alignment explanation
Indices: 42017010--42017186 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 54
42017000 ATATTGAGCC
* * * * * *
42017010 CGCACACTCAGTGCTAT-ATAATCAACTCGCTCACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATATTCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
42017064 CGCACACTTAGTGC-TACATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATA-TTCA-ACTCGCACACTTAGTGCAACATAGTCAAAT
**
42017119 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATATTCAACTCGCACACTTAGTGCAACATAGTCAAAT
42017173 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42017187 TGTACAATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
54 57 0.56
55 43 0.42
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATATTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:42042268 original size:73 final size:73
Alignment explanation
Indices: 42042144--42042305 Score: 245
Period size: 73 Copynumber: 2.2 Consensus size: 73
42042134 TTCACACATC
* *
42042144 GCCTCATTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTATTATTGGAGTTTAACCGTG
1 GCCTCGTTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTAGTATTGGAGTTTAACCGTG
42042209 TAACCAAA
66 TAACCAAA
* * * *
42042217 GCCTCGTTCAATTTTTGACTGACTATC-AGATTATGGATGAAAGGTCGTATTGGAGTTTAACTGT
1 GCCTCGTTCAATTTCTGACTGACCATCGA-ATTATGGATGAAAGGTAGTATTGGAGTTTAACCGT
42042281 GTAACCAAA
65 GTAACCAAA
*
42042290 GCCTTGTTCAATTTCT
1 GCCTCGTTCAATTTCT
42042306 TCTAGAACTG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 1 0.01
73 79 0.99
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (73 bp):
GCCTCGTTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTAGTATTGGAGTTTAACCGTG
TAACCAAA
Found at i:42053504 original size:17 final size:19
Alignment explanation
Indices: 42053483--42053524 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
42053473 TCCAATCAAG
*
42053483 ATATAAAGGAAAAAATGAT
1 ATATACAGGAAAAAATGAT
*
42053502 ATAATACATGAAAAAATGAT
1 AT-ATACAGGAAAAAATGAT
42053522 ATA
1 ATA
42053525 CAGGTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (19 bp):
ATATACAGGAAAAAATGAT
Found at i:42059370 original size:40 final size:40
Alignment explanation
Indices: 42059282--42059371 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
42059272 TGAGTGGATT
* * *
42059282 CAGGGGTACCGAAGTACAAACAGGGGCCTGTATATGCAAT
1 CAGGGGTACCGAAGTACAAACAGGAGCCTATATATGCAAC
** * *
42059322 CAACGGTACCGAAGTACAAACATGAGCAC-ATATGTGCAAC
1 CAGGGGTACCGAAGTACAAACAGGAGC-CTATATATGCAAC
42059362 CAGGGGTACC
1 CAGGGGTACC
42059372 AATGCATGTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAACAGGAGCCTATATATGCAAC
Found at i:42059415 original size:20 final size:20
Alignment explanation
Indices: 42059390--42059498 Score: 60
Period size: 20 Copynumber: 5.5 Consensus size: 20
42059380 TATGTGAAAT
42059390 TAGGGGCACCGAAGTACAAA
1 TAGGGGCACCGAAGTACAAA
** * *
42059410 TAGGGGCA-CGTATCTGCAAT
1 TAGGGGCACCG-AAGTACAAA
* * *
42059430 TAGGGGTATCGAAGTACAAG
1 TAGGGGCACCGAAGTACAAA
** * *
42059450 TAGGGGCA-CGTATCTGCAAT
1 TAGGGGCACCG-AAGTACAAA
* *
42059470 TAAGGGTACCGAAGTACAAA
1 TAGGGGCACCGAAGTACAAA
*
42059490 CAGGGGCAC
1 TAGGGGCAC
42059499 GTACGTGCAA
Statistics
Matches: 62, Mismatches: 23, Indels: 8
0.67 0.25 0.09
Matches are distributed among these distances:
19 4 0.06
20 54 0.87
21 4 0.06
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.17
Consensus pattern (20 bp):
TAGGGGCACCGAAGTACAAA
Found at i:42059443 original size:40 final size:40
Alignment explanation
Indices: 42059387--42059509 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
42059377 ATGTATGTGA
*
42059387 AATTAGGGGCACCGAAGTACAAATAGGGGCACGTATCTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
* *
42059427 AATTAGGGGTATCGAAGTACAAGTAGGGGCACGTATCTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
* *
42059467 AATTAAGGGTACCGAAGTACAAACAGGGGCACGTA-CGTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATC-TGC
42059507 AAT
1 AAT
42059510 CAGCAACAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
Found at i:42059477 original size:108 final size:108
Alignment explanation
Indices: 42059283--42059479 Score: 234
Period size: 108 Copynumber: 1.8 Consensus size: 108
42059273 GAGTGGATTC
* *
42059283 AGGGGTACCGAAGTACAAACAGGGGCCTGTATATGCAATCAACGGTACCGAAGTACAAACATGAG
1 AGGGGCACCGAAGTACAAACAGGGGCCTGTATATGCAATCAACGGTACCGAAGTACAAACAGGAG
* *
42059348 CACATATGTGCAACCAGGGGTACCAATGCATGTATGTGAAATT
66 CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGAAATT
* * * ** * ** *
42059391 AGGGGCACCGAAGTACAAATAGGGGCAC-GTATCTGCAATTAGGGGTATCGAAGTACAAGTAGGG
1 AGGGGCACCGAAGTACAAACAGGGGC-CTGTATATGCAATCAACGGTACCGAAGTACAAACAGGA
* **
42059455 GCACGTATCTGCAATTAAGGGTACC
65 GCACATATCTGCAACCAAGGGTACC
42059480 GAAGTACAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
108 71 0.99
109 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (108 bp):
AGGGGCACCGAAGTACAAACAGGGGCCTGTATATGCAATCAACGGTACCGAAGTACAAACAGGAG
CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGAAATT
Found at i:42062496 original size:21 final size:21
Alignment explanation
Indices: 42062457--42062499 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
42062447 ACTTGATCTA
42062457 AATAATCAAATTCATTCCATTC
1 AATAATC-AATTCATTCCATTC
42062479 AATAATC-ATTCTATTCCATTC
1 AATAATCAATTC-ATTCCATTC
42062500 TATCCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATCAATTCATTCCATTC
Found at i:42104690 original size:20 final size:22
Alignment explanation
Indices: 42104653--42104694 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
42104643 ATTTTTTAAA
*
42104653 AATATTCATATTATTTTAATTT
1 AATATTCATATTAATTTAATTT
42104675 AATATTCA-A-TAATTTAATTT
1 AATATTCATATTAATTTAATTT
42104695 TTTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTCATATTAATTTAATTT
Found at i:42105135 original size:67 final size:67
Alignment explanation
Indices: 42105060--42105188 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
42105050 ATTTGACAAA
* *
42105060 ATTTTTTTCTTTCATTTTCTCTCTTGCCAAACAACACTTTTT-TTCTTCAAATCACATGGTTGCT
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACA-TTTTTCTTCTTCAAAACACATGGTTGCT
42105124 GCC
65 GCC
* * *
42105127 ATTTTTTTCTCTCATTTTTTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTG
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACATTTTTCTTCTTCAAAACACATGGTTG
42105189 GCTCATTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 5 0.09
67 51 0.91
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.49
Consensus pattern (67 bp):
ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACATTTTTCTTCTTCAAAACACATGGTTGCTG
CC
Found at i:42111985 original size:66 final size:66
Alignment explanation
Indices: 42111879--42112005 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
42111869 AGACCATGTC
* **
42111879 TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGCCCATGTTTGGGACATGGCCTAC
1 TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCCTAC
42111944 A
66 A
* *
42111945 TGGGACATGGCGTTGGCA-CTGAGATGAGAGGTCCTATGTAAGACCATGTCCGGGACATGGC
1 TGGGACATGACGTTGGCATC-GAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGC
42112006 GTTGGCACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (66 bp):
TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCCTAC
A
Found at i:42112025 original size:50 final size:50
Alignment explanation
Indices: 42111945--42112163 Score: 267
Period size: 50 Copynumber: 4.4 Consensus size: 50
42111935 ATGGCCTACA
* *
42111945 TGGGACATGGCGTTGGCACTGAGATGAGAGGTCCTATGTAAGACCATGTC
1 TGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * *
42111995 CGGGACATGGCGTTGGCACTGAGATAAGAGGTCCTATGTAAGACCATGTC
1 TGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTC
* ** *
42112045 TGGGACATGGCATTGGCACTGAGATTAGAGGTCCCCCGTAAGACAATGTC
1 TGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * ** *
42112095 TGGGACATAGCATGGGCACTGATATGAGAACATCCCATGTAAGACCATCTC
1 TGGGACATGGCATTGGCACTGAGATGAG-AGGTCCCATGTAAGACCATGTC
* *
42112146 TGGCACATGGCTTTGGCA
1 TGGGACATGGCATTGGCA
42112164 TGTTATTATC
Statistics
Matches: 145, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
50 115 0.79
51 30 0.21
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
TGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:42119540 original size:50 final size:50
Alignment explanation
Indices: 42119462--42119804 Score: 445
Period size: 50 Copynumber: 6.8 Consensus size: 50
42119452 ATTTGGGTAA
* *
42119462 AGAGGTCCCATGTAATACCGTGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
42119512 AGAGGTCCCATGTAAGCCCATGTATGGGACATGGTGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
42119562 AGAGGTCCTATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
42119612 AGAGGTCCCATGTAAGACCATGT-TCGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATG
* *
42119662 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
42119712 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
42119762 AGAACATCTCATGTAAGACCATGTCAGGGACATGTCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
42119805 TGTTATTATC
Statistics
Matches: 255, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.00
50 223 0.87
51 31 0.12
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:42124018 original size:6 final size:6
Alignment explanation
Indices: 42124007--42124038 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
42123997 CAAAGATCTG
42124007 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
42124039 ACCAGCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:42128296 original size:19 final size:19
Alignment explanation
Indices: 42128273--42128367 Score: 86
Period size: 19 Copynumber: 5.0 Consensus size: 19
42128263 AAATTTGTAG
*
42128273 CAAAATAGTAAAAAAAAAA
1 CAAAACAGTAAAAAAAAAA
* * **
42128292 GAAAA-AG-AAAATAGCAA
1 CAAAACAGTAAAAAAAAAA
42128309 CAAAACAGTAAAAAAAAACAA
1 CAAAACAGT-AAAAAAAA-AA
* *
42128330 CAAAACATTAAAAAAACAA
1 CAAAACAGTAAAAAAAAAA
*
42128349 CAAAACATTAAAAAAAAAA
1 CAAAACAGTAAAAAAAAAA
42128368 ATTTTGCATA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
17 11 0.18
18 4 0.07
19 24 0.39
20 12 0.20
21 10 0.16
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (19 bp):
CAAAACAGTAAAAAAAAAA
Found at i:42128330 original size:21 final size:20
Alignment explanation
Indices: 42128306--42128366 Score: 88
Period size: 19 Copynumber: 3.0 Consensus size: 20
42128296 AAGAAAATAG
42128306 CAACAAAACAGTAAAAAAAAA
1 CAACAAAACA-TAAAAAAAAA
*
42128327 CAACAAAACAT-TAAAAAAA
1 CAACAAAACATAAAAAAAAA
42128346 CAACAAAACATTAAAAAAAAA
1 CAACAAAACA-TAAAAAAAAA
42128367 AATTTTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.47
20 2 0.06
21 17 0.47
ACGTcount: A:0.75, C:0.15, G:0.02, T:0.08
Consensus pattern (20 bp):
CAACAAAACATAAAAAAAAA
Found at i:42131767 original size:31 final size:32
Alignment explanation
Indices: 42131732--42131791 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
42131722 GAGAAAAAGA
*
42131732 AGAAGATAA-GAAAAGGAAA-AAAAAAAGAGGG
1 AGAAGA-AATGAAAAAGAAAGAAAAAAAGAGGG
*
42131763 AGAAGAAATGAAAAAGAAAGAACAAAAGA
1 AGAAGAAATGAAAAAGAAAGAAAAAAAGA
42131792 AAATGGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.03
Consensus pattern (32 bp):
AGAAGAAATGAAAAAGAAAGAAAAAAAGAGGG
Found at i:42131824 original size:23 final size:26
Alignment explanation
Indices: 42131786--42131845 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
42131776 AAGAAAGAAC
*
42131786 AAAAGAAAATGGGAAAA-TGG-GAAAG
1 AAAAGAAAA-GAGAAAAGTGGAGAAAG
42131811 AAAA-AAAAGAGAAAAGTGGAAGAAAG
1 AAAAGAAAAGAGAAAAGTGG-AGAAAG
42131837 AAAAGAAAA
1 AAAAGAAAA
42131846 TGAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.20
24 7 0.23
25 4 0.13
26 9 0.30
27 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAGAGAAAAGTGGAGAAAG
Found at i:42139791 original size:18 final size:18
Alignment explanation
Indices: 42139768--42139831 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
42139758 TATTCATTGC
42139768 AAATATTCAAATATTCAT
1 AAATATTCAAATATTCAT
***
42139786 AAATATTGTTATATATC-T
1 AAATATTCAAATAT-TCAT
*
42139804 ACA-A-TCAAATATTCAT
1 AAATATTCAAATATTCAT
42139820 AAATATTCAAAT
1 AAATATTCAAAT
42139832 TCAAATTATC
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 2 0.06
18 20 0.59
19 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATATTCAAATATTCAT
Found at i:42150473 original size:26 final size:25
Alignment explanation
Indices: 42150422--42150473 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
42150412 CAAAAATAAT
* **
42150422 ATCTATTCTAAAAAGAAAAGGGAAA
1 ATCTAATCTAAAAAGAAAAGAAAAA
42150447 ATCTAATCTAAAAATGAAAAGAAAAA
1 ATCTAATCTAAAAA-GAAAAGAAAAA
42150473 A
1 A
42150474 GAAAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (25 bp):
ATCTAATCTAAAAAGAAAAGAAAAA
Found at i:42150497 original size:5 final size:5
Alignment explanation
Indices: 42150489--42150540 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
42150479 AAAGAAAAGA
42150489 AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT
1 AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT
42150539 AA
1 AA
42150541 AACTAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (5 bp):
AACCT
Found at i:42156738 original size:19 final size:19
Alignment explanation
Indices: 42156714--42156754 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
42156704 AGTGCACATA
42156714 ACAAAAGAGACTCTAAATT
1 ACAAAAGAGACTCTAAATT
*
42156733 ACAAAAGAGACTCTAGATT
1 ACAAAAGAGACTCTAAATT
42156752 ACA
1 ACA
42156755 TTTCCTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (19 bp):
ACAAAAGAGACTCTAAATT
Found at i:42158640 original size:13 final size:13
Alignment explanation
Indices: 42158622--42158655 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
42158612 GAAGAATATG
42158622 AAAGGTACATGTC
1 AAAGGTACATGTC
42158635 AAAGGTACATGTC
1 AAAGGTACATGTC
42158648 AAAGGTAC
1 AAAGGTAC
42158656 CTTATTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (13 bp):
AAAGGTACATGTC
Found at i:42162939 original size:21 final size:21
Alignment explanation
Indices: 42162915--42162999 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
42162905 AATAGAAGCA
*
42162915 CATAAGTGCTAAACAGAAACC
1 CATAAGGGCTAAACAGAAACC
* *
42162936 CATAAGGGTTAAACAGAAGCTC
1 CATAAGGGCTAAACAGAAAC-C
* * * * *
42162958 GTAAAAGAGCTGAACGGAAACC
1 -CATAAGGGCTAAACAGAAACC
*
42162980 CATAAGGGTTAAACAGAAAC
1 CATAAGGGCTAAACAGAAAC
42163000 TCAAAAGAAC
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
21 31 0.67
22 2 0.04
23 13 0.28
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (21 bp):
CATAAGGGCTAAACAGAAACC
Found at i:42162979 original size:44 final size:42
Alignment explanation
Indices: 42162930--42163042 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
42162920 GTGCTAAACA
*
42162930 GAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTC--AAAAGAACTGAACG
*
42162974 GAAACCCATAAGGGTTAAACAGAAACTCAAAAGAACTGAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAACTGAACG
* * * *
42163016 AAAACTCATATGAGTTAAACAGAAGCT
1 GAAACCCATAAGGGTTAAACAGAAGCT
42163043 TGTGAGAGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 35 0.56
44 27 0.44
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAACTGAACG
Found at i:42164934 original size:2 final size:2
Alignment explanation
Indices: 42164927--42164970 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
42164917 ATATGAACAT
42164927 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
42164969 CA
1 CA
42164971 TCTATATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:42166980 original size:107 final size:107
Alignment explanation
Indices: 42166785--42167005 Score: 261
Period size: 107 Copynumber: 2.1 Consensus size: 107
42166775 TCGTCGCTGA
* * * * * *
42166785 GCAAT-CGAGGTGGCAGGTCATTATTGTCGGGCAATTCGAGATGACATTACTATATTCATAAACC
1 GCAATCCGAGGTGGCAGGTCATCATTGCCGAGCAATCCGAGATGACATTACTATAATAATAAACC
*** * *
42166849 ATCATTTTTTGGCAATCTACGGTGGTAAGCCAACATCGTTGG
66 ATCATTTACCGACAATCTACGGTGGTAAGCCAACATCGTCGG
42166891 GCAATCCGAGGTGGCAGGTCATCATTGCCGAGCAATCCGAGATGACAGTT-CTATAATAATAAAC
1 GCAATCCGAGGTGGCAGGTCATCATTGCCGAGCAATCCGAGATGACA-TTACTATAATAATAAAC
* * *
42166955 CATCA-TTACCGAACAATTTGA-GGTGGTAGGCCATCATCGTCGG
65 CATCATTTACCG-ACAATCT-ACGGTGGTAAGCCAACATCGTCGG
42166998 GCAATCCG
1 GCAATCCG
42167006 GGCCGGTAGG
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
106 8 0.08
107 86 0.89
108 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (107 bp):
GCAATCCGAGGTGGCAGGTCATCATTGCCGAGCAATCCGAGATGACATTACTATAATAATAAACC
ATCATTTACCGACAATCTACGGTGGTAAGCCAACATCGTCGG
Found at i:42169223 original size:253 final size:253
Alignment explanation
Indices: 42168775--42169284 Score: 932
Period size: 253 Copynumber: 2.0 Consensus size: 253
42168765 TATGTTCAAG
* *
42168775 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAATTTGGATTATGCCATGTT
1 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
42168840 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
66 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
*
42168905 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCGGAAGCTCGTTCGGTTTGGAAGCT
131 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
*
42168970 CGTCAGAGACCTATCACACTATCCCGTAACTATTTC-AGAAGATTTTGAGGTTTTGAAT
196 CGTCAGAGACCTATCACACTATCCCGCAACTATTTCGA-AAGATTTTGAGGTTTTGAAT
42169028 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
1 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
42169093 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
66 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
* *
42169158 TATGCTTACATAGTCTTATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTTGGTTTGGAAGCT
131 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
* *
42169223 CGTCGGAGACCTATCACACTATCCCGCGACTATTTCGAAAGATTTTGAGGTTTTGAAT
196 CGTCAGAGACCTATCACACTATCCCGCAACTATTTCGAAAGATTTTGAGGTTTTGAAT
42169281 TATG
1 TATG
42169285 GTTATAATGG
Statistics
Matches: 248, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
253 247 1.00
254 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (253 bp):
TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
CGTCAGAGACCTATCACACTATCCCGCAACTATTTCGAAAGATTTTGAGGTTTTGAAT
Found at i:42172312 original size:30 final size:29
Alignment explanation
Indices: 42172272--42172388 Score: 99
Period size: 32 Copynumber: 3.8 Consensus size: 29
42172262 AAAGGTCAAA
*
42172272 AAAAAATTTTTACCAACTTTTAAGGACCC
1 AAAAAATTTTTTCCAACTTTTAAGGACCC
** *
42172301 AAAAAATTTTTTTGAAGCTTTTAAGGGCCC
1 AAAAAATTTTTTCCAA-CTTTTAAGGACCC
* * *
42172331 AAAATATATTTTTTACCAACTGTGAAGGGACCTAA
1 AAAA-A-ATTTTTT-CCAACTTTTAA-GGACC--C
*
42172366 AAAAAATTTTCTCCAACTTTTAA
1 AAAAAATTTTTTCCAACTTTTAA
42172389 ATAACCTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
29 13 0.19
30 16 0.24
31 1 0.01
32 21 0.31
33 12 0.18
34 1 0.01
35 4 0.06
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (29 bp):
AAAAAATTTTTTCCAACTTTTAAGGACCC
Found at i:42178408 original size:17 final size:18
Alignment explanation
Indices: 42178381--42178416 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42178371 ATACTCTAAC
*
42178381 AAATGACAAATAATCAAT
1 AAATGACAAATAAACAAT
42178399 AAAT-ACAAATAAACAAT
1 AAATGACAAATAAACAAT
42178416 A
1 A
42178417 CCGTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATGACAAATAAACAAT
Found at i:42179176 original size:3 final size:3
Alignment explanation
Indices: 42179163--42179197 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
42179153 ATTGATAAAA
* *
42179163 AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42179198 CAAGAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42180642 original size:51 final size:51
Alignment explanation
Indices: 42180544--42180644 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
42180534 ACTCCACTTC
* * *
42180544 AGCTTTAATCTATTCTACTGCAACGCTAGGGAAACAATATTCACTACCTTT
1 AGCTTTAATCTATTCTACTACAACGCAAGGGAAACAAGATTCACTACCTTT
* * **
42180595 AGCTTTAATCTGTT-TCACTACAACGCAAGGGAAATAAGATTTGCTACCTT
1 AGCTTTAATCTATTCT-ACTACAACGCAAGGGAAACAAGATTCACTACCTT
42180645 CAGTCTTAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
AGCTTTAATCTATTCTACTACAACGCAAGGGAAACAAGATTCACTACCTTT
Found at i:42180897 original size:123 final size:121
Alignment explanation
Indices: 42180678--42181050 Score: 349
Period size: 123 Copynumber: 3.0 Consensus size: 121
42180668 GATTTGCTAC
* * * * *
42180678 CTTCAGCTTTAATCTGCTCCGCTGCAACATCAGGGAAACAAGATTCGCTACATTTAGCTTTAATA
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCATTTAGCTTTAATC
* * * * * * *
42180743 TGTTCCAATGTAACGCCAAGGAGATAGGATTCGCTACCTTTAGCTTTAATCCGCTCCA
66 TGTT-CTATG-AACGCTAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
* ** *
42180801 CTTCAGGTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTTGCTGCTTTTAGCTTTAATC
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCATTTAGCTTTAATC
* *
42180866 TGTTCTACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAG-TCTTAACGCCAAGATTCGCTG
66 TGTTCTA-TG-AACGCTAGGGAAATAAGATTCGCTGCCTTTAGCT-TTAA-TCC--G-TTC-C--
*
42180930 C
121 A
* * * * * *
42180931 CTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCATTTAGCTTTAATC
* * * *
42180996 --TACTATG-ACGCTAGGGAAATAAGATTTGCTGCCTTTAACTTTAATCTGTTCCA
66 TGTTCTATGAACGCTAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
42181049 CT
1 CT
42181051 GCAATGCCAA
Statistics
Matches: 204, Mismatches: 36, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
118 2 0.01
120 1 0.00
121 3 0.01
122 4 0.02
123 92 0.45
124 3 0.01
125 32 0.16
126 2 0.01
127 4 0.02
128 5 0.02
130 56 0.27
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (121 bp):
CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCATTTAGCTTTAATC
TGTTCTATGAACGCTAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
Found at i:42180970 original size:79 final size:79
Alignment explanation
Indices: 42180839--42180987 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
42180829 ACCAGGGAAA
* * * * * * *
42180839 CAAGATTTGCTGCTTTTAGCTTTAATCTGTTCTACTGCAACGCTAGGGAAATAAGATTCGCTGCC
1 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
42180904 TTCAGTCTTAACGC
66 TTCAGTCTTAACGC
* *
42180918 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCC
1 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
42180983 TTCAG
66 TTCAG
42180988 CTTTAATCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (79 bp):
CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
TTCAGTCTTAACGC
Found at i:42181038 original size:46 final size:47
Alignment explanation
Indices: 42180919--42181506 Score: 305
Period size: 51 Copynumber: 12.1 Consensus size: 47
42180909 TCTTAACGCC
* * *
42180919 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACT--A-TG-AACGCCAAGGAAAT
* * * *
42180970 AAGATTTGTTGCCTTCAGCTTTAATCTACTATG-ACGCTAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAAGGAAAT
* * * *
42181016 AAGATTTGCTGCCTTTAACTTTAATCTGTTCCACTGCAATGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATC--TACTA-TG-AACGCCAAGGAAAT
* * * *
42181067 AAGATTTGCTGCCTTTAGCTTTAATCTA-T-TGCGACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATG-AACGCCAAGGAAAT
* * * *
42181113 AAGATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATC--TACTA-TG-AACGCCAAGGAAAT
** *
42181164 AAGATTCACTGCCTTCTACTTTAATCTA-T-TGCAACGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATG-AACGCCAAGGAAAT
* * *
42181210 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACT--A-TG-AACGCCAAGGAAAT
* ** ** * * *
42181261 AAGATTCGCTATCTTCTGCTTTAATCTATTGTG-ACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAAGGAAAT
* * * * * *
42181307 AAGATTCGTTGCCTTCAGCTTTAATCTATTCCACTGCAATGCAAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTA--CTA-TG-AACGCCAAGGAAAT
* * ** * * * * *
42181358 AAAATTGGCCACCTTCAGCTTTAATCTATTGTG-ACACCACGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAAGGAAAT
* * ** * * * * *
42181404 -AGAATTCGTTTTCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAAT
1 AAG-ATTTGCTGCCTTCAACTTTAATC--TACTA-TG-AACGCCAAGGAAAT
* * * *
42181455 AAGATTTGCTGCCTTTAGCTTTAATCTA-T-TGCGACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATG-AACGCCAAGGAAAT
42181501 AAGATT
1 AAGATT
42181507 CGCTATGATA
Statistics
Matches: 416, Mismatches: 94, Indels: 59
0.73 0.17 0.10
Matches are distributed among these distances:
45 1 0.00
46 191 0.46
47 1 0.00
48 11 0.03
49 10 0.02
51 200 0.48
52 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (47 bp):
AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAAGGAAAT
Found at i:42181087 original size:97 final size:97
Alignment explanation
Indices: 42180919--42181510 Score: 749
Period size: 97 Copynumber: 6.1 Consensus size: 97
42180909 TCTTAACGCC
* * *
42180919 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
* * * *
42180984 TCAGCTTTAATCTACTATGACGCTAGGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * *
42181016 AAGATTTGCTGCCTTTAACTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATTTGCTGCCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
*
42181081 TTAGCTTTAATCTATTGCGACGCCAGGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* **
42181113 AAGATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
** *
42181178 TCTA-CTTTAATCTATTGCAACGCCAAGGAAAT
66 T-TAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * * * * **
42181210 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTATCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
42181275 TCT-GCTTTAATCTATTGTGACGCCAGGGAAAT
66 T-TAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * * * * * * **
42181307 AAGATTCGTTGCCTTCAGCTTTAATCTATTCCACTGCAATGCAAAGGAAATAAAATTGGCCACCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
* * *
42181372 TCAGCTTTAATCTATTGTGACACCACGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* ** * * *
42181404 -AGAATTCGTTTTCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTTGCTGCC
1 AAG-ATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCC
*
42181468 TTTAGCTTTAATCTATTGCGACGCCAGGGAAAT
65 TTTAGCTTTAATCTATTGTGACGCCAGGGAAAT
42181501 AAGATTCGCT
1 AAGATTCGCT
42181511 ATGATAACTT
Statistics
Matches: 430, Mismatches: 60, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
96 2 0.00
97 424 0.99
98 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (97 bp):
AAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
Found at i:42181284 original size:291 final size:291
Alignment explanation
Indices: 42180919--42181510 Score: 837
Period size: 291 Copynumber: 2.0 Consensus size: 291
42180909 TCTTAACGCC
* * * *
42180919 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
* * * *
42180984 TCAGCTTTAATCTACTATGACGCTAGGGAAATAAGATTTGCTGCCTTTAACTTTAATCTGTTCCA
66 TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTATTCCA
* * * ** * * *
42181049 CTGCAATGCCAAGGAAATAAGATTTGCTGCCTTTAGCTTTAATCTATTGCGACGCCAGGGAAATA
131 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
*
42181114 -AGATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCT
196 GA-ATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCACTGCCT
42181178 TCTA-CTTTAATCTATTGCAACGCCAAGGAAAT
260 T-TAGCTTTAATCTATTGCAACGCCAAGGAAAT
* * * *
42181210 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTATCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
* * * * *
42181275 TCTGCTTTAATCTATTGTGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTATTCCA
66 TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTATTCCA
*
42181340 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGTGACACCACGGAAATA
131 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
** * * **
42181405 GAATTCGTTTTCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTTGCTGCCTT
196 GAATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCACTGCCTT
* *
42181470 TAGCTTTAATCTATTGCGACGCCAGGGAAAT
261 TAGCTTTAATCTATTGCAACGCCAAGGAAAT
42181501 AAGATTCGCT
1 AAGATTCGCT
42181511 ATGATAACTT
Statistics
Matches: 263, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
290 2 0.01
291 260 0.99
292 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (291 bp):
AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTATTCCA
CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
GAATTCGTTGCCTTCAACTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCACTGCCTT
TAGCTTTAATCTATTGCAACGCCAAGGAAAT
Found at i:42181855 original size:24 final size:24
Alignment explanation
Indices: 42181821--42181878 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
42181811 CGGATTGCCC
*
42181821 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
42181845 CTACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
42181869 CCACTATAAT
1 CCACTGTAAT
42181879 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:42187279 original size:34 final size:34
Alignment explanation
Indices: 42187238--42187307 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
42187228 AACCACCTTT
42187238 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
1 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
*
42187272 CTTGGCTGACTTACAGTAATTGATCTTGAGTAAC
1 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
42187306 CT
1 CT
42187308 GTGTTATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (34 bp):
CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
Found at i:42200042 original size:28 final size:28
Alignment explanation
Indices: 42199997--42200071 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 28
42199987 TTTTGAAGAT
42199997 AAGAAGAGAAGAGTAAAAAAATTGGTTGTAG
1 AAGAAGAGAA-A--AAAAAAATTGGTTGTAG
42200028 AAGAAGAG---AAAAAAATTGGTTGTAG
1 AAGAAGAGAAAAAAAAAATTGGTTGTAG
42200053 AAGAAGAGAAAACAAAAAA
1 AAGAAGAGAAAA-AAAAAA
42200072 GAATTCGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
25 25 0.62
28 1 0.03
29 6 0.15
31 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.25, T:0.15
Consensus pattern (28 bp):
AAGAAGAGAAAAAAAAAATTGGTTGTAG
Found at i:42200045 original size:25 final size:25
Alignment explanation
Indices: 42200003--42200064 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 25
42199993 AGATAAGAAG
42200003 AGAAGAGTAAAAAAATTGGTTGTAGA
1 AGAAGAG-AAAAAAATTGGTTGTAGA
42200029 AGAAGAGAAAAAAATTGGTTGTAGA
1 AGAAGAGAAAAAAATTGGTTGTAGA
42200054 AGAAGAGAAAA
1 AGAAGAGAAAA
42200065 CAAAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 29 0.81
26 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (25 bp):
AGAAGAGAAAAAAATTGGTTGTAGA
Found at i:42202980 original size:15 final size:15
Alignment explanation
Indices: 42202960--42202988 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42202950 TACAAGCTTG
42202960 AAAATTAAGTCAAAT
1 AAAATTAAGTCAAAT
42202975 AAAATTAAGTCAAA
1 AAAATTAAGTCAAA
42202989 CATTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAAATTAAGTCAAAT
Found at i:42208815 original size:20 final size:20
Alignment explanation
Indices: 42208767--42208815 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
42208757 ATTTTTGATA
*
42208767 AACTCCCCT-CCAATCCCTT
1 AACTTCCCTCCCAATCCCTT
*
42208786 AACTT-TCTCCCATATCCC-T
1 AACTTCCCTCCCA-ATCCCTT
42208805 AACTTCCCTCC
1 AACTTCCCTCC
42208816 TAAAAAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.20, C:0.49, G:0.00, T:0.31
Consensus pattern (20 bp):
AACTTCCCTCCCAATCCCTT
Found at i:42211321 original size:82 final size:82
Alignment explanation
Indices: 42211184--42211349 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
42211174 ATCAAAATTA
*
42211184 TAATCACAAATCATGTCATAATTGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
42211249 TTATAATTAATATATAT
66 TTATAATTAATATATAT
* *
42211266 TAATCACAAATCATGTCATAATAGAATCTTCGATACATTCAAAACATCTAATAATATAAAGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
*
42211331 TTGTAATTAATATATAT
66 TTATAATTAATATATAT
42211348 TA
1 TA
42211350 TCAACTTTCT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (82 bp):
TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
TTATAATTAATATATAT
Found at i:42219151 original size:15 final size:15
Alignment explanation
Indices: 42219131--42219161 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42219121 AAAAAAAAAT
42219131 CCACCCCACCCCATC
1 CCACCCCACCCCATC
*
42219146 CCACCCCACCCTATC
1 CCACCCCACCCCATC
42219161 C
1 C
42219162 AGTATCCACT
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:0.19, C:0.71, G:0.00, T:0.10
Consensus pattern (15 bp):
CCACCCCACCCCATC
Found at i:42221607 original size:77 final size:77
Alignment explanation
Indices: 42221480--42221640 Score: 313
Period size: 77 Copynumber: 2.1 Consensus size: 77
42221470 AAAAATTTAC
42221480 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
1 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
42221545 CATAGACAATCA
66 CATAGACAATCA
*
42221557 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGTTATAAGTATGTGTGTATATCTATA
1 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
42221622 CATAGACAATCA
66 CATAGACAATCA
42221634 TTTTAAT
1 TTTTAAT
42221641 TTGTTCTTCC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.42
Consensus pattern (77 bp):
TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
CATAGACAATCA
Found at i:42222625 original size:11 final size:11
Alignment explanation
Indices: 42222609--42222646 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
42222599 TTATAAAATG
42222609 ACAATATCTCA
1 ACAATATCTCA
42222620 ACAATATCTCA
1 ACAATATCTCA
42222631 ACAATATCTCA
1 ACAATATCTCA
42222642 ACAAT
1 ACAAT
42222647 TGATAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:42225830 original size:92 final size:91
Alignment explanation
Indices: 42225673--42225881 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
42225663 TTGATTTTAG
* ** * *
42225673 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTACCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
42225738 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
42225765 TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
42225829 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
42225857 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
42225882 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:42225844 original size:24 final size:25
Alignment explanation
Indices: 42225809--42225856 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
42225799 TTATGAAATT
42225809 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
42225833 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
42225857 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:42226010 original size:66 final size:63
Alignment explanation
Indices: 42225935--42226372 Score: 278
Period size: 66 Copynumber: 7.2 Consensus size: 63
42225925 AAATATATTT
42225935 AATATTAATTATTTCAAATTTAAATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTT-AATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
42226000 G
63 G
* * * * * **
42226001 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
42226055 AATAATAATTATGTT-AATTTATAGTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTTA-A-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
42226119 AG
62 AG
* * * * **
42226121 AATATTAATTATTAAGAATTT-A-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
42226174 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTTA-A-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
42226238 AG
62 AG
* * * * **
42226240 AATATTAATTATTTAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
42226294 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTTA-A-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
42226358 AG
62 AG
42226360 AATATTAATTATT
1 AATATTAATTATT
42226373 AAGAATTTTA
Statistics
Matches: 280, Mismatches: 44, Indels: 97
0.67 0.10 0.23
Matches are distributed among these distances:
52 5 0.02
53 21 0.08
54 30 0.11
55 12 0.04
56 13 0.05
57 8 0.03
58 3 0.01
59 33 0.12
60 29 0.10
61 21 0.08
62 4 0.01
63 11 0.04
64 9 0.03
65 19 0.07
66 52 0.19
67 10 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTAATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:42226057 original size:15 final size:15
Alignment explanation
Indices: 42226022--42226073 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
42226012 TTAAGAATTT
*
42226022 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42226036 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42226050 TATTTAATAATAAT-
1 TATTTAATTATAATA
42226064 TATGTTAATT
1 TAT-TTAATT
42226074 TATAGTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:42226176 original size:15 final size:15
Alignment explanation
Indices: 42226141--42226312 Score: 58
Period size: 15 Copynumber: 11.6 Consensus size: 15
42226131 ATTAAGAATT
*
42226141 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42226155 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42226169 TATTTAATAATAAT-
1 TATTTAATTATAATA
42226183 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
42226197 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
42226212 TATTATGATT-TGAGTA
1 TATT-TAATTAT-AATA
* * * *
42226228 AATTCATATAAGAATA
1 TATTTA-ATTATAATA
* * * *
42226244 TTAATTATTTAGAATTT
1 -TATTTAATTATAA-TA
*
42226261 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42226275 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42226289 TATTTAATAATAAT-
1 TATTTAATTATAATA
42226303 TATGTTAATT
1 TAT-TTAATT
42226313 TATATTTTAC
Statistics
Matches: 113, Mismatches: 28, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
12 3 0.03
13 21 0.19
14 20 0.18
15 38 0.34
16 26 0.23
17 5 0.04
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:42226180 original size:119 final size:120
Alignment explanation
Indices: 42225897--42226427 Score: 944
Period size: 120 Copynumber: 4.4 Consensus size: 120
42225887 AATTATTTTA
* * * * *
42225897 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTA-AAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
42225960 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
42226017 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
42226082 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
42226137 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
42226201 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTTAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
42226256 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
42226321 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
42226376 AATTTTATTAAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
42226428 TAAATATGAT
Statistics
Matches: 399, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
119 156 0.39
120 241 0.60
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:42226324 original size:239 final size:240
Alignment explanation
Indices: 42225897--42226432 Score: 945
Period size: 239 Copynumber: 2.2 Consensus size: 240
42225887 AATTATTTTA
* * * *
42225897 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTAAATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTAAATT
*
42225961 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
42226026 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCA
130 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCA
42226091 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
195 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
42226137 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTA-AATT
*
42226200 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTTAGAATTTTATT
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
*
42226265 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
130 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCA
42226330 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
195 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
42226376 AATTTTATTAAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
42226433 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
238 6 0.02
239 252 0.89
240 22 0.08
241 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (240 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTAAATTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCAT
ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:42226410 original size:15 final size:15
Alignment explanation
Indices: 42226390--42226421 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42226380 TTATTAAATT
*
42226390 ATATATTTAATTATA
1 ATATATTTAATAATA
42226405 ATATATTTAATAATA
1 ATATATTTAATAATA
42226420 AT
1 AT
42226422 TATGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTTAATAATA
Found at i:42226523 original size:239 final size:236
Alignment explanation
Indices: 42225900--42226510 Score: 702
Period size: 239 Copynumber: 2.6 Consensus size: 236
42225890 TATTTTAAAT
* * * * * * *
42225900 TTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTAAATTTAT
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATATATA-TTAC
* * * * * **
42225964 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA
63 AG-ATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTACCAAA
** *
42226029 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCATAT
127 ACAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCATAT
42226094 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
192 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
*
42226139 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACA
1 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA--TATATATTACA
* * * * * * ** *
42226204 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTTAGAATTTTATTAAAT
64 G-ATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTACCAAAA
* * *
42226269 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
128 CAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCATATA
42226334 TTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
193 TTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
42226378 TTTTATTAAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTTTAA-ATATGATTA-
1 -TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAATATAT-ATTAC
* * *
42226440 A-ATTATTTATTATTGATATT-AAT-AA-TCTTATTAA-AAT-TTAAATAACAATAACAATAATT
63 AGATCATATATTA-TGAT-TTGAATAAATTCATA-TAAGAATATT-AAT--CAATAACAAT-ATT
42226499 ACCAAAACAAAT
121 ACCAAAACAAAT
42226511 TTCTGCTAAT
Statistics
Matches: 334, Mismatches: 25, Indels: 28
0.86 0.06 0.07
Matches are distributed among these distances:
233 2 0.01
234 10 0.03
235 14 0.04
236 12 0.04
237 16 0.05
238 5 0.01
239 250 0.75
240 25 0.07
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (236 bp):
TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATATATATTACAGA
TCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTACCAAAACAA
ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCATATATTA
TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:42226587 original size:153 final size:155
Alignment explanation
Indices: 42226365--42226676 Score: 499
Period size: 153 Copynumber: 2.0 Consensus size: 155
42226355 ATAAGAATAT
*
42226365 TAATTATTAAGAATTTTATTAAATTATATATTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATGAAATTATATATTTAATTATAATATATTTAATAATAATTATGTTTA
* *
42226430 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
*
42226495 -A-A-TTACCAAAACAAATTTCTGC
131 AACATTTACCAAAACAAATTTATGC
*
42226517 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTA-AA-ATGAGTTTAATAATATTTATGT
1 TAATTATTAAGAATTTTATGAAATTATATA-TTTAATTATAATAT-A-TTTAATAATAATTATGT
*
42226580 TTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATCAC
63 TTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC
42226645 AATAATCATTTACCAAAACAAATTTATGC
128 AATAA-CATTTACCAAAACAAATTTATGC
42226674 TAA
1 TAA
42226677 AGGTATTCTA
Statistics
Matches: 147, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
151 2 0.01
152 32 0.22
153 89 0.61
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (155 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AACATTTACCAAAACAAATTTATGC
Found at i:42226824 original size:16 final size:16
Alignment explanation
Indices: 42226799--42226834 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
42226789 GATTTGCTAT
*
42226799 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
42226815 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42226831 TACA
1 TACA
42226835 GCGAACCAAA
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:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:42228011 original size:71 final size:71
Alignment explanation
Indices: 42227895--42228038 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
42227885 CATGATGAAG
*
42227895 TAAGCTTTCACTCAACTATACCACGCACGTGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
1 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
42227960 CTTATA
66 CTTATA
42227966 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
1 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
42228031 CTTATA
66 CTTATA
42228037 TA
1 TA
42228039 CCTTTTACTC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (71 bp):
TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
CTTATA
Found at i:42239868 original size:24 final size:24
Alignment explanation
Indices: 42239841--42239892 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42239831 TTAGTAAGTC
*
42239841 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
42239865 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
42239889 AAAT
1 AAAT
42239893 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:42241836 original size:24 final size:24
Alignment explanation
Indices: 42241809--42241860 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
42241799 TTAGTAAGTC
*
42241809 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
42241833 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
42241857 AAAT
1 AAAT
42241861 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:42243916 original size:51 final size:51
Alignment explanation
Indices: 42243826--42243936 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
42243816 ACCAGTAAAA
* * * * * *
42243826 TAAAAATTTAGCCCTCAAATTTTACATATTATATTAATTT-AGCCATAATTT
1 TAAAAAATTAACCCTCAAATTTTACAAATGATATCAATTTGAGCC-TAATTC
* * *
42243877 TAAAAAATTAACCCTCAAATTTTACAAATGGTCTCAATTTGATCCTAATTC
1 TAAAAAATTAACCCTCAAATTTTACAAATGATATCAATTTGAGCCTAATTC
42243928 TAAAAAATT
1 TAAAAAATT
42243937 CAAAGAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 47 0.94
52 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (51 bp):
TAAAAAATTAACCCTCAAATTTTACAAATGATATCAATTTGAGCCTAATTC
Found at i:42243991 original size:27 final size:30
Alignment explanation
Indices: 42243935--42243993 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 30
42243925 TTCTAAAAAA
42243935 TTCAAAGAAATATATAAAAATACATAAATATT
1 TTCAAAGAAATATAT--AAATACATAAATATT
42243967 TTCAAA-AAATATAT-AATA-ATAAATATT
1 TTCAAAGAAATATATAAATACATAAATATT
42243994 AATATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 9 0.33
28 4 0.15
31 8 0.30
32 6 0.22
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
TTCAAAGAAATATATAAATACATAAATATT
Found at i:42243997 original size:6 final size:6
Alignment explanation
Indices: 42243974--42244064 Score: 91
Period size: 6 Copynumber: 15.2 Consensus size: 6
42243964 ATTTTCAAAA
* *
42243974 AATATAT AATAATA AATATT AATATT AATATT AATATT AATATT AA-ATA
1 AATAT-T AAT-ATT AATATT AATATT AATATT AATATT AATATT AATATT
*
42244023 AATATAAT TATATT AA-A-T AA-ATT AATATT AATATT AATATT A
1 AATAT--T AATATT AATATT AATATT AATATT AATATT AATATT A
42244065 TTAATTTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.06
5 8 0.11
6 48 0.67
7 6 0.08
8 6 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:42244041 original size:15 final size:15
Alignment explanation
Indices: 42243991--42244064 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 15
42243981 AATAATAAAT
42243991 ATTAATATTAATATTAA
1 ATTAATATTAA-A-TAA
42244008 TATTAATATTAAATAA
1 -ATTAATATTAAATAA
42244024 ATATAATTATATTAAATAA
1 AT-T-A--ATATTAAATAA
42244043 ATTAATATT-AAT--
1 ATTAATATTAAATAA
42244055 ATTAATATTA
1 ATTAATATTA
42244065 TTAATTTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.18
14 3 0.06
15 7 0.14
16 4 0.08
17 3 0.06
18 12 0.24
19 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATATTAAATAA
Found at i:42245440 original size:15 final size:14
Alignment explanation
Indices: 42245418--42245451 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
42245408 TGATAAATCA
*
42245418 AATAAAAATAATAT
1 AATAAAAATAAAAT
42245432 AATATAAAATAAAAT
1 AATA-AAAATAAAAT
42245447 AATAA
1 AATAA
42245452 CACAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:42249398 original size:19 final size:20
Alignment explanation
Indices: 42249366--42249404 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
42249356 GAGAATGTAG
*
42249366 GGGAAGAAGAAGAAGAGAAA
1 GGGAAAAAGAAGAAGAGAAA
42249386 GGGAAAAAG-AGAAGAGAAA
1 GGGAAAAAGAAGAAGAGAAA
42249405 AATAGGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
GGGAAAAAGAAGAAGAGAAA
Found at i:42249635 original size:21 final size:20
Alignment explanation
Indices: 42249593--42249635 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
42249583 TTGGGTTTTG
*
42249593 GATTTTTTTTATTTAGGTTT
1 GATTTTTTTTATTTAGGGTT
*
42249613 GATTTTTTTTATATTTGGGTT
1 GATTTTTTTTAT-TTAGGGTT
42249634 GA
1 GA
42249636 CTTTGTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (20 bp):
GATTTTTTTTATTTAGGGTT
Found at i:42260110 original size:19 final size:20
Alignment explanation
Indices: 42260085--42260133 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
42260075 TTCTCTTACA
**
42260085 ATTTTTGATATTTTCTCATT
1 ATTTTTGATATTCCCTCATT
*
42260105 -TTTTTGGTATTCCCTCATT
1 ATTTTTGATATTCCCTCATT
42260124 ATTTTTGATA
1 ATTTTTGATA
42260134 CACCCTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.61
Consensus pattern (20 bp):
ATTTTTGATATTCCCTCATT
Found at i:42262196 original size:110 final size:110
Alignment explanation
Indices: 42262003--42262231 Score: 431
Period size: 110 Copynumber: 2.1 Consensus size: 110
42261993 GAAATTGAGC
*
42262003 CCTAACGTATTAGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
1 CCTAACGTACTAGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
42262068 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
* *
42262113 CCTAACGTACTGGGTTCTGATTTTCTTTGATGATCTTAAATAATTGAGGATATTCTTTATTCAAA
1 CCTAACGTACTAGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
42262178 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
42262223 CCTAACGTA
1 CCTAACGTA
42262232 TTGGATGTGG
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 116 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (110 bp):
CCTAACGTACTAGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
Found at i:42273530 original size:45 final size:45
Alignment explanation
Indices: 42273453--42273736 Score: 229
Period size: 44 Copynumber: 6.4 Consensus size: 45
42273443 GGTTGAAAAG
* * * * *
42273453 TAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCGAAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
* *
42273498 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
* *** * * *
42273543 AAGCAGATCTTGTCTTCATGTACTGG-AGTGAAGTAGATCAAATA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
* * *
42273587 TACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
* * ** *
42273632 AAGCAGATCTTGTCTT--CAT-GTATTAACATGAAGTAGATC-AGAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGC--GAAGTAGATCGA-AGA
* ** * * *
42273676 TAGCAGATCTTATCTTCATATATTGATA-TGAAGTAGATCGAAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
**
42273720 TAATAGATCTTGTCTTC
1 TAGCAGATCTTGTCTTC
42273737 ATGTATTGAC
Statistics
Matches: 187, Mismatches: 44, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 88 0.47
45 88 0.47
46 2 0.01
47 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
TAGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA
Found at i:42273681 original size:44 final size:44
Alignment explanation
Indices: 42273617--42274486 Score: 919
Period size: 44 Copynumber: 19.9 Consensus size: 44
42273607 TACTGGTGGC
* * * *
42273617 GAAGTAGATCGGAGAAAGCAGATCTTGTCTTCATGTATTAACAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * *
42273661 GAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
*
42273705 GAAGTAGATC-GAAGATAATAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* * *
42273749 GAAGTAGATCAGAGATAGTAGATCTTATCTTCATATATTGATAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* *
42273793 GAAGTAGATC-GAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* *
42273837 GAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
*
42273881 GAAGTAGATC-GAAGATAAT-GAATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAG-AGATAGTAG-ATCTTGTCTTCATGTATTGACAT
* *
42273925 GAAGTAGATCAGAGATAATAGATCTTATCTTC----A-T---AT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * *
42273961 GAAGTAGAACAAAGATAATGGATCTTGTCTTCATGTATTGACCT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * *
42274005 GAAGTAGATCAGAGATAGAAAATCTTATCTTCATGTATTGACAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * *
42274049 GAAGTAGATC-GAAGATAATGGATCTTGTCTTCATGTATTAACAT
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
*
42274093 GAAGTAGATTAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* *
42274137 AAAGTAGATC-GAGGATAATAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAGA-GATAGTAGATCTTGTCTTCATGTATTGACAT
* *** * ***
42274181 GAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTA-TTGACAT
*
42274226 GAAGTAGATC-GAAGATAATAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* *** * ***
42274270 GAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTA-TTGACAT
* *
42274315 GAAGTAGATC-GAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * * *
42274359 GAAGTAGATCAGAGATAGCAGATCTTATCTTTATATATTAATAT
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * *
42274403 GAAGTAGATC-GAAGATAATGGATCTTGTCTTCGTGTATTGACAG
1 GAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * *
42274447 GAAGTAGATCAAAGACAGCAGACCTTGTCTTCCTGTATTG
1 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTG
42274487 GCAGCGAGGA
Statistics
Matches: 683, Mismatches: 115, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
36 30 0.04
39 1 0.00
40 2 0.00
41 1 0.00
43 8 0.01
44 565 0.83
45 76 0.11
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (44 bp):
GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
Found at i:42273742 original size:88 final size:88
Alignment explanation
Indices: 42273532--42274478 Score: 1162
Period size: 88 Copynumber: 10.8 Consensus size: 88
42273522 GGTGGCGAAA
* * * * * *
42273532 TAGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTGGA-GTGAAGTAGATCAAATATACCAGAT
1 TAGATCGAAGATAA-TAGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCAGAGATAGCAGAT
* ** * * **
42273595 CTTGTCTTCCCATACTGGTGGCGAAG
64 CTTATCTTCATATATTGAT-ATGAAG
* * *
42273621 TAGATCGGAGA-AAGCAGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGCAGATC
1 TAGATCGAAGATAA-TAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATC
42273685 TTATCTTCATATATTGATATGAAG
65 TTATCTTCATATATTGATATGAAG
*
42273709 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
42273774 TATCTTCATATATTGATATGAAG
66 TATCTTCATATATTGATATGAAG
*
42273797 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
42273862 TATCTTCATGTATTGACATGAAG
66 TATCTTCATATATTGATATGAAG
**
42273885 TAGATCGAAGATAAT-GAATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAATAGATC
1 TAGATCGAAGATAATAG-ATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATC
42273949 TTATCTTC--------ATATGAAG
65 TTATCTTCATATATTGATATGAAG
* * * * * *
42273965 TAGAACAAAGATAATGGATCTTGTCTTCATGTATTGACCTGAAGTAGATCAGAGATAGAAAATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
42274030 TATCTTCATGTATTGACATGAAG
66 TATCTTCATATATTGATATGAAG
* * * *
42274053 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATTAGAGATAGTAGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* * * *
42274118 TGTCTTCATGTATTGACATAAAG
66 TATCTTCATATATTGATATGAAG
* **
42274141 TAGATCGAGGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTGGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* ** * * *
42274206 TGTCTTCCCATACTGGTGGTGAAG
66 TATCTTCATATATTGAT-ATGAAG
**
42274230 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTGGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* ** * * *
42274295 TGTCTTCCCATACTGGTGGTGAAG
66 TATCTTCATATATTGAT-ATGAAG
*
42274319 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
42274384 TATCTTTATATATTAATATGAAG
66 TATCTTCATATATTGATATGAAG
* * * * * *
42274407 TAGATCGAAGATAATGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAAAGACAGCAGACCT
1 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
*
42274472 TGTCTTC
66 TATCTTC
42274479 CTGTATTGGC
Statistics
Matches: 772, Mismatches: 73, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
80 71 0.09
81 1 0.00
87 1 0.00
88 466 0.60
89 233 0.30
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (88 bp):
TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
TATCTTCATATATTGATATGAAG
Found at i:42273977 original size:36 final size:36
Alignment explanation
Indices: 42273923--42273994 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
42273913 ATGTATTGAC
* *
42273923 ATGAAGTAGATCAGAGATAATAGATCTTATCTTCAT
1 ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
* *
42273959 ATGAAGTAGAACAAAGATAATGGATCTTGTCTTCAT
1 ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
42273995 GTATTGACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (36 bp):
ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
Found at i:42274242 original size:45 final size:45
Alignment explanation
Indices: 42274180--42274346 Score: 205
Period size: 45 Copynumber: 3.7 Consensus size: 45
42274170 TGTATTGACA
*
42274180 TGAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
* *** * ***
42274225 TGAAGTAGATC-GAAGATAATAGATCTTGTCTTCATGTA-TTGACA
1 TGAAGTAGATCAG-AGATAATGGATCTTGTCTTCCCATACTGGTGG
*
42274269 TGAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
42274314 TGAAGTAGATC-GAAGATAATGGATCTTGTCTTC
1 TGAAGTAGATCAG-AGATAATGGATCTTGTCTTC
42274347 ATGTATTGAC
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
44 35 0.35
45 64 0.65
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
Found at i:42276370 original size:16 final size:15
Alignment explanation
Indices: 42276343--42276397 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
42276333 ATTTTCATAA
42276343 ATATATATTATT-TT
1 ATATATATTATTATT
42276357 ATATATATCCTATTATT
1 ATATATAT--TATTATT
*
42276374 -TATATACTTATTATAC
1 ATATATA-TTATTAT-T
42276390 ATATATAT
1 ATATATAT
42276398 AAGTGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 11 0.32
17 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:42278093 original size:20 final size:19
Alignment explanation
Indices: 42278055--42278181 Score: 67
Period size: 20 Copynumber: 6.4 Consensus size: 19
42278045 AATACCAACC
42278055 AATTTTTGGTAGAC-CCTCAT
1 AATTTTTGGT--ACTCCTCAT
42278075 AATTTTTGGTACTCACTCAT
1 AATTTTTGGTACTC-CTCAT
** * *
42278095 GTTTTTTGATACTTCCTTAT
1 AATTTTTGGTAC-TCCTCAT
* * * *
42278115 AAGTTTTGGTATTTCTTCAA
1 AATTTTTGGTA-CTCCTCAT
** *
42278135 AATTTTTGGTACCTTTTAAT
1 AATTTTTGGTA-CTCCTCAT
* *
42278155 ATTTTTTGGTATTCTCTCAT
1 AATTTTTGGTACTC-CTCAT
42278175 AATTTTT
1 AATTTTT
42278182 TGGCGCACTA
Statistics
Matches: 78, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 72 0.92
21 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (19 bp):
AATTTTTGGTACTCCTCAT
Done.