Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003220.1 Hibiscus syriacus cultivar Beakdansim tig00006782_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 155937
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:4385 original size:2 final size:2
Alignment explanation
Indices: 4378--4409 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4368 ATTTTCTTTA
4378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4410 TAAATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9272 original size:30 final size:30
Alignment explanation
Indices: 9236--9296 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9226 CCACAGTCTA
9236 CTCCGGTTTTGGGTGTCCAAATTCTTAGAG
1 CTCCGGTTTTGGGTGTCCAAATTCTTAGAG
* *
9266 CTCCGGTTTTGGGTGTCCGAATTCTTGGAG
1 CTCCGGTTTTGGGTGTCCAAATTCTTAGAG
9296 C
1 C
9297 GGCTGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.13, C:0.21, G:0.30, T:0.36
Consensus pattern (30 bp):
CTCCGGTTTTGGGTGTCCAAATTCTTAGAG
Found at i:11676 original size:24 final size:24
Alignment explanation
Indices: 11648--11725 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
11638 GTTTATTTAG
11648 TTAATATTCTTAAAGTTAAACTCA
1 TTAATATTCTTAAAGTTAAACTCA
* ** * * *
11672 TTAAT-TCGCTTTATTGTT-TATTTA
1 TTAATAT-TC-TTAAAGTTAAACTCA
11696 CTTAATATTCTTAAAGTTAAACTCA
1 -TTAATATTCTTAAAGTTAAACTCA
11721 TTAAT
1 TTAAT
11726 TCGCTTTAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 1 0.03
24 20 0.54
25 15 0.41
26 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (24 bp):
TTAATATTCTTAAAGTTAAACTCA
Found at i:11686 original size:49 final size:49
Alignment explanation
Indices: 11633--11733 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
11623 TTAATCTCCA
*
11633 TTATTGTTTATTTAGTTAATATTCTTAAAGTTAAACTCATTAATTCGCT
1 TTATTGTTTATTTACTTAATATTCTTAAAGTTAAACTCATTAATTCGCT
11682 TTATTGTTTATTTACTTAATATTCTTAAAGTTAAACTCATTAATTCGCT
1 TTATTGTTTATTTACTTAATATTCTTAAAGTTAAACTCATTAATTCGCT
11731 TTA
1 TTA
11734 GTAGTAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (49 bp):
TTATTGTTTATTTACTTAATATTCTTAAAGTTAAACTCATTAATTCGCT
Found at i:13225 original size:9 final size:9
Alignment explanation
Indices: 13213--13237 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13203 GCGAGAACCT
13213 GAAGGAGAG
1 GAAGGAGAG
13222 GAAGGAGAG
1 GAAGGAGAG
13231 GAAGGAG
1 GAAGGAG
13238 TTGAACGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (9 bp):
GAAGGAGAG
Found at i:14087 original size:2 final size:2
Alignment explanation
Indices: 14082--14124 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14072 ACTATATAAG
14082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14124 A
1 A
14125 CATACTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17212 original size:14 final size:15
Alignment explanation
Indices: 17193--17221 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17183 AAATTTCCTT
17193 CATTTTTTC-TTTCA
1 CATTTTTTCATTTCA
17207 CATTTTTTCATTTCA
1 CATTTTTTCATTTCA
17222 TTTTCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (15 bp):
CATTTTTTCATTTCA
Found at i:24165 original size:19 final size:19
Alignment explanation
Indices: 24119--24171 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
24109 CTAGCCATAG
*
24119 AGTATCGATACTCTTGCAAA
1 AGTATCGATACT-TTACAAA
* * *
24139 AGTTTCGATACTTTATATA
1 AGTATCGATACTTTACAAA
24158 AGTATCGATACTTT
1 AGTATCGATACTTT
24172 TAAACATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (19 bp):
AGTATCGATACTTTACAAA
Found at i:28765 original size:59 final size:59
Alignment explanation
Indices: 28678--28791 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 59
28668 ATATGAAACA
* * *
28678 AATGTTTACACATACATATGGTATGTGACA-AAAGAAAAG-TAATATGTGATTATAAGATC
1 AATGATTACACATACATATGATACGTGACAGAAA-AAAAGAT-ATATGTGATTATAAGATC
* * * *
28737 AATGATTACACATATATGTGATACGTGACAGAAAAGAAGATATATGTGTTTATAA
1 AATGATTACACATACATATGATACGTGACAGAAAAAAAGATATATGTGATTATAA
28792 AAGAAATGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 42 0.91
60 4 0.09
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (59 bp):
AATGATTACACATACATATGATACGTGACAGAAAAAAAGATATATGTGATTATAAGATC
Found at i:28939 original size:31 final size:31
Alignment explanation
Indices: 28901--29010 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
28891 AGGGTCGAGG
28901 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
28932 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
28963 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
28994 GTTTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
29011 AGAATCTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:29021 original size:31 final size:31
Alignment explanation
Indices: 28901--29025 Score: 173
Period size: 31 Copynumber: 4.0 Consensus size: 31
28891 AGGGTCGAGG
*
28901 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
28932 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
28963 GTTTACCTATGTTCTTC-GAGACATATGGACT
1 GTTTACCTATGTTCTTCGGA-ACATATGGACT
* *
28994 GTTTACCTAGGTTCTTCAGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
29025 G
1 G
29026 GTCCTTCAGG
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
30 1 0.01
31 83 0.95
32 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:30098 original size:15 final size:13
Alignment explanation
Indices: 30067--30113 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
30057 TTTTGTTGTC
*
30067 TATATGTTGTATG
1 TATATATTGTATG
30080 TATATATTGTATG
1 TATATATTGTATG
*
30093 CATATATTATGTATG
1 TATATA-T-TGTATG
30108 T-TATAT
1 TATATAT
30114 GTTCTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (13 bp):
TATATATTGTATG
Found at i:30314 original size:3 final size:3
Alignment explanation
Indices: 30267--30299 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
30257 TTATATTAAA
*
30267 ATT A-T ATT ATT ATT ATT ATT AAT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30300 ATGTTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:38803 original size:1 final size:1
Alignment explanation
Indices: 38799--38886 Score: 149
Period size: 1 Copynumber: 88.0 Consensus size: 1
38789 TAAAAAAATG
**
38799 AAAAAAAATGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
38864 AAAAAAAAAAAAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
38887 GGGGGTTCAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.97, C:0.00, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:40248 original size:55 final size:55
Alignment explanation
Indices: 40164--40443 Score: 483
Period size: 55 Copynumber: 5.1 Consensus size: 55
40154 TGAAGCAAAA
40164 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
40219 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
40274 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
40327 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
40382 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
40437 GGAGATT
1 GAAGATT
40444 ATTGTTCGAG
Statistics
Matches: 210, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
53 47 0.22
54 6 0.03
55 157 0.75
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:40367 original size:108 final size:110
Alignment explanation
Indices: 40164--40446 Score: 507
Period size: 108 Copynumber: 2.6 Consensus size: 110
40154 TGAAGCAAAA
40164 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
40229 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* *
40274 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* *
40337 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
40382 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
40447 GTTCGAGTTC
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
108 101 0.62
109 6 0.04
110 57 0.35
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
Found at i:40499 original size:52 final size:52
Alignment explanation
Indices: 40439--40887 Score: 736
Period size: 52 Copynumber: 8.6 Consensus size: 52
40429 CGATCGTTGG
40439 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
40491 AGATTATTGTTTGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
40543 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
40595 AGATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * * *
40647 AGATTATTTTTCGAGTTCTAGTCCCTTAAGAAAATTGGACAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
40699 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
40751 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
40803 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTTGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
40855 AGATTATCGTTCGAGTTCTACTCCTTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
40888 TAGAAAGCGA
Statistics
Matches: 371, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 371 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:41188 original size:3 final size:3
Alignment explanation
Indices: 41141--41173 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
41131 TTATATTAAA
*
41141 ATT A-T ATT ATT ATT ATT ATT AAT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
41174 ATGTTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44271 original size:36 final size:35
Alignment explanation
Indices: 44222--44332 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 35
44212 TTTTTGGGCC
* *
44222 ACCCGACCTGACCCGACGAAATTAAGGTTTCACGAG
1 ACCCGACC-GACCCGACAAAATTAAGGTTTCACCAG
*
44258 ACCCGACTCGACCCGACAAAATTAAGGTTTCACTAG
1 ACCCGAC-CGACCCGACAAAATTAAGGTTTCACCAG
44294 A--C--CCGACCCGACAAAATTAAGGTTTCACCAG
1 ACCCGACCGACCCGACAAAATTAAGGTTTCACCAG
44325 ACCCGACC
1 ACCCGACC
44333 CGAAATAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
31 28 0.42
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.03
36 33 0.49
37 1 0.01
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.16
Consensus pattern (35 bp):
ACCCGACCGACCCGACAAAATTAAGGTTTCACCAG
Found at i:44304 original size:31 final size:31
Alignment explanation
Indices: 44221--44335 Score: 140
Period size: 31 Copynumber: 3.5 Consensus size: 31
44211 ATTTTTGGGC
* * *
44221 CACCCGACCTGACCCGACGAAATTAAGGTTT
1 CACCAGACCCGACCCGACAAAATTAAGGTTT
*
44252 CACGAGACCCGACTCGACCCGACAAAATTAAGGTTT
1 CACCAGA--C--C-CGACCCGACAAAATTAAGGTTT
*
44288 CACTAGACCCGACCCGACAAAATTAAGGTTT
1 CACCAGACCCGACCCGACAAAATTAAGGTTT
44319 CACCAGACCCGACCCGA
1 CACCAGACCCGACCCGA
44336 AATAATAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
31 43 0.59
32 1 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 26 0.36
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (31 bp):
CACCAGACCCGACCCGACAAAATTAAGGTTT
Found at i:47878 original size:2 final size:2
Alignment explanation
Indices: 47871--47899 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
47861 CGACAGGCTA
47871 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47900 TACCTTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:49560 original size:23 final size:23
Alignment explanation
Indices: 49534--49597 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
49524 CAACTCATAT
49534 AATTGCACCTAAGTGCCA-CGTAG
1 AATTGCACCT-AGTGCCAGCGTAG
*
49557 AATTGCACCGGAGTG-CAGCGTAG
1 AATTGCACC-TAGTGCCAGCGTAG
49580 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
49598 TATAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 32 0.89
24 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCTAGTGCCAGCGTAG
Found at i:49738 original size:103 final size:103
Alignment explanation
Indices: 49613--49933 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
49603 TAATGTCCAT
*
49613 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
49678 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
49716 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATTTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * *
49781 GACTTCACACATGTTCCAAAGAACACATATATATCCCA
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
49819 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
49884 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
49922 AAGGACCACATA
1 AAGGACCACATA
49934 GACCATCTAC
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:50454 original size:19 final size:20
Alignment explanation
Indices: 50415--50453 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50405 TTTTTTATTA
*
50415 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
50435 TGGGGGTATCGATTCCCCC
1 TGGGGGAATCGATTCCCCC
50454 TAGCGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.23
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:51738 original size:18 final size:19
Alignment explanation
Indices: 51694--51743 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
51684 CTCTTAATTG
*
51694 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCAT
*
51714 CAGTATCGATACTC-CCAT
1 GAGTATCGATACTCACCAT
*
51732 GAGTATCAATAC
1 GAGTATCGATAC
51744 CAATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 13 0.50
20 13 0.50
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCAT
Found at i:55195 original size:178 final size:178
Alignment explanation
Indices: 54870--55228 Score: 574
Period size: 178 Copynumber: 2.0 Consensus size: 178
54860 TGGTTATGCA
* * * *
54870 AATGATCGGTTTACCTGTAACTGATTGGTTGTGATTATCATGCATTGTTCAAATTGTTTCGAGAC
1 AATGACCGGTTTACCTCTAACTGATTGGTTGCGATTATCATGCATTGTTCAAATTGCTTCGAGAC
* * *
54935 TTTAGATTATTCGTTGATATTCATTTTCATGTGTTACACAATGTATGATTTAAATTTTATGTTTA
66 TTTAGATTATTCGTTGATATTCATTGTCATGTGTTACAAAATGTATGATTTAAATTTTATATTTA
* *
55000 TGCTTAGTTCACATGATTTAGGGTTTCAATTCTATCTGAAAAGATTAG
131 TACTTAGTACACATGATTTAGGGTTTCAATTCTATCTGAAAAGATTAG
*
55048 AATGACCGGTTTACCTCTAACTGATTGGTTGCGATTATCATGCATTGTTCAGATTGCTTCGAGAC
1 AATGACCGGTTTACCTCTAACTGATTGGTTGCGATTATCATGCATTGTTCAAATTGCTTCGAGAC
*
55113 TTTAGATTATTCGTTGATATTCATTGTCATGTGTTACAAAATGTATGATTTAAATTTTATATTTC
66 TTTAGATTATTCGTTGATATTCATTGTCATGTGTTACAAAATGTATGATTTAAATTTTATATTTA
* * * * *
55178 TACTTAGTACTCATGATTTAGGGTTTCAGTTCTATTTGACAATATTAG
131 TACTTAGTACACATGATTTAGGGTTTCAATTCTATCTGAAAAGATTAG
55226 AAT
1 AAT
55229 CTGATGTATG
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
178 165 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (178 bp):
AATGACCGGTTTACCTCTAACTGATTGGTTGCGATTATCATGCATTGTTCAAATTGCTTCGAGAC
TTTAGATTATTCGTTGATATTCATTGTCATGTGTTACAAAATGTATGATTTAAATTTTATATTTA
TACTTAGTACACATGATTTAGGGTTTCAATTCTATCTGAAAAGATTAG
Found at i:56855 original size:60 final size:59
Alignment explanation
Indices: 56721--56855 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 59
56711 ATAGTCAGGT
* **
56721 ACCATTTTGTAACTTTTATAGTCAATGGACTTAACAAAGCAACATTCTGTAGTTAGAGG
1 ACCATTTTGTAACTTTTATAGTCAAAGGACTTAACAAAGCAACACCCTGTAGTTAGAGG
* * * * * * *
56780 ACTATTTTATAACTTTTAATAGTCAAAGGATTTAATAAAGGAATACCCTTTAGTTAGAGG
1 ACCATTTTGTAACTTTT-ATAGTCAAAGGACTTAACAAAGCAACACCCTGTAGTTAGAGG
56840 ACCATTTGTGT-ACTTT
1 ACCATTT-TGTAACTTT
56856 ACCCCTATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
59 15 0.24
60 45 0.73
61 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (59 bp):
ACCATTTTGTAACTTTTATAGTCAAAGGACTTAACAAAGCAACACCCTGTAGTTAGAGG
Found at i:57436 original size:15 final size:14
Alignment explanation
Indices: 57418--57495 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
57408 AAGCAAAGAT
*
57418 AAAATAGTAAGTAAA
1 AAAATA-TAAATAAA
*
57433 AAAATATAAATAAT
1 AAAATATAAATAAA
*
57447 AAAATATATATAAA
1 AAAATATAAATAAA
*
57461 AAAGA-A-AAAGAAA
1 AAA-ATATAAATAAA
*
57474 AAGAAAATAAATAAA
1 AA-AATATAAATAAA
57489 ACAAATA
1 A-AAATA
57496 AACAAAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
13 8 0.16
14 24 0.48
15 17 0.34
16 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAATATAAATAAA
Found at i:57721 original size:11 final size:13
Alignment explanation
Indices: 57692--57799 Score: 52
Period size: 13 Copynumber: 8.3 Consensus size: 13
57682 ATATATATAT
57692 ATATAATAATAAA
1 ATATAATAATAAA
57705 ATATAATAA-AAA
1 ATATAATAATAAA
*
57717 A-AT-A-AATGAA
1 ATATAATAATAAA
* *
57727 A-ATAAT-TTAAT
1 ATATAATAATAAA
*
57738 ATATATATATATATAC
1 ATATA-ATA-ATA-AA
57754 ATATAATAATAATA
1 ATATAATAATAA-A
57768 ACT-TGAATAATAAA
1 A-TAT-AATAATAAA
57782 A-ATAAATGAATAAA
1 ATAT-AAT-AATAAA
57796 ATAT
1 ATAT
57800 CTATATAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 26
0.68 0.07 0.24
Matches are distributed among these distances:
9 2 0.03
10 6 0.08
11 6 0.08
12 7 0.10
13 16 0.22
14 14 0.19
15 16 0.22
16 6 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (13 bp):
ATATAATAATAAA
Found at i:57777 original size:18 final size:17
Alignment explanation
Indices: 57756--57798 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
57746 ATATATACAT
*
57756 ATAATAATAATAACTTGA
1 ATAATAATAATAA-ATGA
*
57774 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
57791 ATAA-AATA
1 ATAATAATA
57799 TCTATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:57805 original size:60 final size:59
Alignment explanation
Indices: 57680--57806 Score: 152
Period size: 62 Copynumber: 2.1 Consensus size: 59
57670 TATTAAAGAA
*
57680 ATATATATATATATATAATAATAAAATATAATAAAAAAATAAATGAAAATAATTTAATATAT
1 ATATATATATACATATAATAATAAAATATAATAAAAAAATAAATG-AAATAA--TAATATAT
*
57742 ATATATATATACATATAATAATAATAACT-TGAATAATAAAAATAAATG-AATAA-AATATCT
1 ATATATATATACATATAATAATAA-AA-TAT-AATAA-AAAAATAAATGAAATAATAATATAT
57802 ATATA
1 ATATA
57807 ATAAATAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
60 11 0.19
62 23 0.39
63 8 0.14
64 6 0.10
65 11 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (59 bp):
ATATATATATACATATAATAATAAAATATAATAAAAAAATAAATGAAATAATAATATAT
Found at i:58190 original size:37 final size:37
Alignment explanation
Indices: 58149--58253 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
58139 GTACTTGTGG
* * * *
58149 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
58186 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
58223 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
58254 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:59100 original size:105 final size:105
Alignment explanation
Indices: 58796--59351 Score: 696
Period size: 105 Copynumber: 5.3 Consensus size: 105
58786 GCATTGTTCC
* ** * *
58796 GAGTCCAATATCC-TCCTTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTATTGAC
1 GAGTCCAATATCCTTCGTT-GTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGAC
* ** * * * *
58859 AACCAGCCATCCCTTCGTTGTGATGTTGAACTTGTGTTGTCTC
63 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
58902 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
58962 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
59002 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
59067 TAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
59107 GAGTCCAATATACTTTGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTATTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
59172 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
59212 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
59277 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59317 GAGTAGCACTATATCC-TCTGTTGTGGAGTTGAAAT
1 GAGT--C-CAATATCCTTC-GTTGTGAAGTTGAAAT
59352 CGCGGATGTT
Statistics
Matches: 396, Mismatches: 43, Indels: 20
0.86 0.09 0.04
Matches are distributed among these distances:
100 79 0.20
101 1 0.00
102 7 0.02
104 5 0.01
105 246 0.62
106 32 0.08
107 6 0.02
108 20 0.05
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:59567 original size:36 final size:36
Alignment explanation
Indices: 59520--59595 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
59510 TGTTTGGAGA
* * *
59520 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
59556 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
59592 GAAA
1 GAAA
59596 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:59829 original size:105 final size:104
Alignment explanation
Indices: 59495--59813 Score: 500
Period size: 105 Copynumber: 3.1 Consensus size: 104
59485 TTCGTTAAAT
* ** *
59495 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
59557 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
59596 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
59661 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGAGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
*
59701 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
59766 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
59805 TGTTTTCAA
1 TGTTTTCAA
59814 GAGAAACTGT
Statistics
Matches: 199, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
101 45 0.23
103 3 0.02
104 53 0.27
105 98 0.49
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:59992 original size:36 final size:36
Alignment explanation
Indices: 59947--60061 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
59937 GGTCTCAAGC
*
59947 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* * ** * **
59983 GAAATAAATCTTCTTTCGAGAAAAACAGTCTCAAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* *
60019 GAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
1 GAGATAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
60055 GAGATAA
1 GAGATAA
60062 TCATCTGCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
36 56 0.95
37 3 0.05
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.28
Consensus pattern (36 bp):
GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
Found at i:60034 original size:72 final size:75
Alignment explanation
Indices: 59900--60061 Score: 217
Period size: 72 Copynumber: 2.2 Consensus size: 75
59890 AAAAAATAGC
* * *
59900 CTTGAGTGAAATGAAATACCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGACAAATCTTGTTTTA
1 CTTGAGTGAAAT-AAATA-CTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAATCATGTTTTA
59965 AGAAAAAC-AAT
64 AGAAAAACAAAT
*
59976 CTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAA
1 CTTGAGTGAAATAAATACTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAA-TCATGTTTTAA
60038 GAAAAACAAAT
65 GAAAAACAAAT
*
60049 -TTGAGTGAGATAA
1 CTTGAGTGAAATAA
60062 TCATCTGCAT
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
72 48 0.61
73 15 0.19
75 4 0.05
76 12 0.15
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (75 bp):
CTTGAGTGAAATAAATACTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAATCATGTTTTAAG
AAAAACAAAT
Found at i:61515 original size:183 final size:183
Alignment explanation
Indices: 61201--61737 Score: 959
Period size: 183 Copynumber: 2.9 Consensus size: 183
61191 ATCAGGTTTA
* *
61201 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
61266 GCAAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
61330 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
*
61384 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
61449 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTTGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
61514 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
61567 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
61632 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* *
61697 TCCTCTATAACCAATTTCTTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
61738 CGGATTTAAT
Statistics
Matches: 340, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
183 339 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
Found at i:65269 original size:19 final size:20
Alignment explanation
Indices: 65241--65278 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65231 TGCAGATGAT
*
65241 GGAAATAAAAT-AAAAGAGA
1 GGAAAAAAAATGAAAAGAGA
65260 GGAAAAAAAATGAAAAGAG
1 GGAAAAAAAATGAAAAGAG
65279 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (20 bp):
GGAAAAAAAATGAAAAGAGA
Found at i:66925 original size:37 final size:37
Alignment explanation
Indices: 66875--66979 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
66865 GTGCTTGTGG
* * * *
66875 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
* * * * *
66912 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
66949 ATCCTATTTTTAGGAGTTTGAATCATAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAG
66980 GACGAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
Found at i:80551 original size:4 final size:4
Alignment explanation
Indices: 80542--80582 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
80532 GATGAGGAAG
80542 GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT G
1 GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT GCGT G
80583 TGAAGATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.51, T:0.24
Consensus pattern (4 bp):
GCGT
Found at i:80658 original size:25 final size:27
Alignment explanation
Indices: 80592--80658 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 27
80582 GTGAAGATTG
*
80592 ATATTTAATATAGAG-A-ATAATATGC
1 ATATTTAATATATAGTATATAATATGC
*
80617 ATATTTAATA-ATA-TATATTATAT-C
1 ATATTTAATATATAGTATATAATATGC
80641 A-ATTTAATATATAGTATA
1 ATATTTAATATATAGTATA
80659 AAAATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 8 0.22
24 8 0.22
25 20 0.56
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (27 bp):
ATATTTAATATATAGTATATAATATGC
Found at i:81033 original size:14 final size:17
Alignment explanation
Indices: 81001--81032 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80991 TAACAAGTAA
81001 AATAAGGACGAAAATAT
1 AATAAGGACGAAAATAT
81018 AATAAGGA-GAAAATA
1 AATAAGGACGAAAATA
81033 ACATGCTGGA
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:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (17 bp):
AATAAGGACGAAAATAT
Found at i:81309 original size:18 final size:18
Alignment explanation
Indices: 81286--81339 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
81276 CTGTAATATT
*
81286 TATGAAGAAATTGGAATC
1 TATGAAGAAATTAGAATC
*
81304 TATGAAGGAATTAGAATC
1 TATGAAGAAATTAGAATC
* *
81322 --TGTAGGAATTAGAATC
1 TATGAAGAAATTAGAATC
81338 TA
1 TA
81340 AATCTGAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 15 0.48
18 16 0.52
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (18 bp):
TATGAAGAAATTAGAATC
Found at i:81989 original size:34 final size:32
Alignment explanation
Indices: 81912--81974 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
81902 TTCAACCTAA
81912 ACCCGACCCGAATATCACACTTAAAAAAACCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCG
*
81944 ACCCGACCCGAATATCA-ATTTTAAAAAAACC
1 ACCCGACCCGAATATCACA-CTTAAAAAAACC
81975 CGATCTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.03
32 28 0.97
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (32 bp):
ACCCGACCCGAATATCACACTTAAAAAAACCG
Found at i:92982 original size:16 final size:17
Alignment explanation
Indices: 92961--92994 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
92951 ACTATTCATA
92961 TGAATAGT-AAATTTTG
1 TGAATAGTAAAATTTTG
92977 TGAATAGTAAAATTTTG
1 TGAATAGTAAAATTTTG
92994 T
1 T
92995 TGGCGATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TGAATAGTAAAATTTTG
Found at i:102967 original size:207 final size:202
Alignment explanation
Indices: 102579--102989 Score: 741
Period size: 207 Copynumber: 2.0 Consensus size: 202
102569 TTGTCACAAA
102579 CAGATCGAGAAACATATTGAATTCAGCATACTTGTTTGACGTAGTGAAAACATTTTCTTTATCAT
1 CAGATCGAGAAACATATTGAATTCAGCATACTTGTTTGACGTAGTGAAAACATTTTCTTTATCAT
*
102644 CACAACTTCGGTTGATATGTCCTTCAATAACATTCTGCAATATACAACCATACGTCAATGTATGC
66 CACAACTTCGGTTGATATGTCCTACAATAACATTCTGCAATATACAACCATACGTCAATGTATGC
*
102709 ATGCATGCATGTATGCCTGTACTATTACATACATACATACGTTACGTACATACATGCACGAAAGC
131 ATGCATGCATGTATGCCTGTACTATTACATACATACATACATTACGTACATACATGCACGAAAGC
102774 ATAACTC
196 ATAACTC
102781 CAGATCGAGAAACATATTGAATTCAGCATACTTGTTTGACGTAGTGAAAACATTTTCTTTATCAT
1 CAGATCGAGAAACATATTGAATTCAGCATACTTGTTTGACGTAGTGAAAACATTTTCTTTATCAT
*
102846 CACAACTTCGGTTGATATGTCCTCCAACAATATAACATTCTGCAATATACAACCGTACGTCAATG
66 CACAACTTCGGTTGATATGTCCT---AC-A-ATAACATTCTGCAATATACAACCATACGTCAATG
*
102911 TATGCATGCATGCATGTATGCTTGTACTATTACATACATACATACATTACGTACATACATGCACG
126 TATGCATGCATGCATGTATGCCTGTACTATTACATACATACATACATTACGTACATACATGCACG
102976 AAAGCATAACTC
191 AAAGCATAACTC
102988 CA
1 CA
102990 TACACACATG
Statistics
Matches: 200, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
202 88 0.44
205 1 0.00
206 1 0.00
207 110 0.55
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (202 bp):
CAGATCGAGAAACATATTGAATTCAGCATACTTGTTTGACGTAGTGAAAACATTTTCTTTATCAT
CACAACTTCGGTTGATATGTCCTACAATAACATTCTGCAATATACAACCATACGTCAATGTATGC
ATGCATGCATGTATGCCTGTACTATTACATACATACATACATTACGTACATACATGCACGAAAGC
ATAACTC
Found at i:104294 original size:220 final size:221
Alignment explanation
Indices: 103909--104350 Score: 796
Period size: 220 Copynumber: 2.0 Consensus size: 221
103899 AATGTGTATG
103909 ACATTCATCAGTACACAGATCATTCTGAATATCAGACTGATTAAAGCTAAAATAGTGAGAACTTA
1 ACATTCATCAGTACACAGATCATTCTGAATATCAGACTGATTAAAGCTAAAATAGTGAGAACTTA
* * * * *
103974 CAGCCAAAAAACTTATGAAAAATTGTCGATCGAGTTTGCTGTCAACATCCGTATTAGTTTTAGCC
66 CAGCCAAAAAACTAATGAAAAATTGTCGATCAAGTTTGCTGTCAACATCAGGATTAGGTTTAGCC
* * *
104039 TTCGTAGCAACAAGAATGCAAACTGCACTGGGACCGGTTACCTCCATCGTGTAGCCATCCTATAT
131 TTCGAAGCAACAAGAATGCAAACTGCACCGGGACCGGTCACCTCCATCGTGTAGCCATCCTATAT
104104 GATTATAATGCAATTACATCCCTCGT
196 GATTATAATGCAATTACATCCCTCGT
104130 ACATTCATCAGTACACAGATCATTCTGAATATCAGACTGATTAAAGCTAAAATAGTGAGAACTTA
1 ACATTCATCAGTACACAGATCATTCTGAATATCAGACTGATTAAAGCTAAAATAGTGAGAACTTA
104195 CAGCC-AAAAACTAATGAAAAATTGTCGATCAAGTTTGCTGTCAACATCAGGATTAGGTTTAGCC
66 CAGCCAAAAAACTAATGAAAAATTGTCGATCAAGTTTGCTGTCAACATCAGGATTAGGTTTAGCC
104259 TTCGAAGCAACAAGAATGCAAACTGCACCGGGACCGGTCACCTCCATCGTGTAGCCATCCTATAT
131 TTCGAAGCAACAAGAATGCAAACTGCACCGGGACCGGTCACCTCCATCGTGTAGCCATCCTATAT
*
104324 GATTATAATGCACTTACATCCCTCGT
196 GATTATAATGCAATTACATCCCTCGT
104350 A
1 A
104351 TAGTTACGGT
Statistics
Matches: 212, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
220 142 0.67
221 70 0.33
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (221 bp):
ACATTCATCAGTACACAGATCATTCTGAATATCAGACTGATTAAAGCTAAAATAGTGAGAACTTA
CAGCCAAAAAACTAATGAAAAATTGTCGATCAAGTTTGCTGTCAACATCAGGATTAGGTTTAGCC
TTCGAAGCAACAAGAATGCAAACTGCACCGGGACCGGTCACCTCCATCGTGTAGCCATCCTATAT
GATTATAATGCAATTACATCCCTCGT
Found at i:105755 original size:16 final size:16
Alignment explanation
Indices: 105728--105767 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
105718 AAAAAAAGCG
105728 AAGATAAATAAATAAAT
1 AAGAT-AATAAATAAAT
*
105745 AAGATAATAAATTAAT
1 AAGATAATAAATAAAT
*
105761 AAAATAA
1 AAGATAA
105768 AAACAAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (16 bp):
AAGATAATAAATAAAT
Found at i:106008 original size:20 final size:20
Alignment explanation
Indices: 105985--106029 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
105975 CCGAAAATAG
105985 AAAAAGGGATACGA-ATTTAA
1 AAAAAGGGATAC-ATATTTAA
*
106005 AAAAA-GGATACATATTTGA
1 AAAAAGGGATACATATTTAA
106024 AAAAAG
1 AAAAAG
106030 AATAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAAAGGGATACATATTTAA
Found at i:106306 original size:5 final size:5
Alignment explanation
Indices: 106293--106390 Score: 51
Period size: 5 Copynumber: 18.8 Consensus size: 5
106283 ATATAAAAAG
* * *
106293 AATAGA AATAA AATATA AATAA AAGAA AATAA TAGTAA TAT-A AAT-A
1 AATA-A AATAA AATA-A AATAA AATAA AATAA -AATAA AATAA AATAA
* *
106339 AATAA AATATTA AGA-AA AATATA CATATA AATAA AATAA AA-CA AATAA
1 AATAA AATA--A A-ATAA AATA-A AATA-A AATAA AATAA AATAA AATAA
106387 AATA
1 AATA
106391 GATGAAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
4 11 0.15
5 36 0.49
6 22 0.30
7 3 0.04
8 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:106327 original size:30 final size:29
Alignment explanation
Indices: 106288--106345 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
106278 AACGTATATA
106288 AAAAGAATAGAAATAAAATATAAATAAAAG
1 AAAAGAATAGAAATAAAA-ATAAATAAAAG
* * *
106318 AAAATAATAGTAATATAAATAAATAAAA
1 AAAAGAATAGAAATAAAAATAAATAAAA
106346 TATTAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (29 bp):
AAAAGAATAGAAATAAAAATAAATAAAAG
Found at i:107503 original size:11 final size:12
Alignment explanation
Indices: 107482--107522 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
107472 TGAAAACATG
107482 AAATAAAATAAA
1 AAATAAAATAAA
107494 AAAT-AAATAAA
1 AAATAAAATAAA
*
107505 TAATAAAATAATA
1 AAATAAAATAA-A
107518 AAATA
1 AAATA
107523 TGTGTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.40
12 10 0.40
13 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:107513 original size:8 final size:8
Alignment explanation
Indices: 107483--107522 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
107473 GAAAACATGA
107483 AATAAAAT
1 AATAAAAT
107491 AA-AAAAT
1 AATAAAAT
107498 AA-ATAAAT
1 AATA-AAAT
107506 AATAAAAT
1 AATAAAAT
107514 AATAAAAT
1 AATAAAAT
107522 A
1 A
107523 TGTGTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 8 0.27
8 21 0.70
9 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:108348 original size:105 final size:105
Alignment explanation
Indices: 108025--108802 Score: 1295
Period size: 105 Copynumber: 7.4 Consensus size: 105
108015 GTATTGTTCC
* * * * * * *
108025 GAGTCCAATATCCTCCGCTGTGAAGTTGAAAACTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTG-AAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACA
* * * * *
108090 ACTAACGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCCG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
108132 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* *** *
108197 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
108238 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
108303 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
108343 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
108408 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
108448 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
108513 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
108553 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
108618 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
108658 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
108723 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
108763 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
108803 GGTAAAACCT
Statistics
Matches: 634, Mismatches: 36, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
105 500 0.79
106 109 0.17
107 25 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:120149 original size:16 final size:16
Alignment explanation
Indices: 120122--120161 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
120112 TAAAAAAGCG
120122 AAGATAAATAAATAAAT
1 AAGAT-AATAAATAAAT
*
120139 AAGATAATAAATTAAT
1 AAGATAATAAATAAAT
*
120155 AAAATAA
1 AAGATAA
120162 AAACAAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (16 bp):
AAGATAATAAATAAAT
Found at i:120397 original size:19 final size:20
Alignment explanation
Indices: 120373--120416 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
120363 CCGAAAATAG
120373 AAAAAGGGATACAAATTT-A
1 AAAAAGGGATACAAATTTGA
*
120392 AAAAA-GGATACAGATTTGA
1 AAAAAGGGATACAAATTTGA
120411 AAAAAG
1 AAAAAG
120417 AATAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAAAGGGATACAAATTTGA
Found at i:120428 original size:19 final size:19
Alignment explanation
Indices: 120387--120428 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
120377 AGGGATACAA
* *
120387 ATTT-AAAAAAGGATACAG
1 ATTTGAAAAAAGAATAAAG
120405 ATTTGAAAAAAGAATAAAG
1 ATTTGAAAAAAGAATAAAG
*
120424 GTTTG
1 ATTTG
120429 GTCAGTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (19 bp):
ATTTGAAAAAAGAATAAAG
Found at i:120712 original size:30 final size:29
Alignment explanation
Indices: 120673--120730 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
120663 AACGTATATA
120673 AAAAGAATAGAAATAAAATATAAATAAAAG
1 AAAAGAATAGAAATAAAA-ATAAATAAAAG
* * *
120703 AAAATAATAGTAATATAAATAAATAAAA
1 AAAAGAATAGAAATAAAAATAAATAAAA
120731 TATTAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (29 bp):
AAAAGAATAGAAATAAAAATAAATAAAAG
Found at i:121903 original size:11 final size:12
Alignment explanation
Indices: 121868--121900 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
121858 GAAAACATGA
121868 AATAAAATAAAT
1 AATAAAATAAAT
121880 AAT-AAATAAAT
1 AATAAAATAAAT
121891 AATAAAATAA
1 AATAAAATAA
121901 TAAAATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAATAAAT
Found at i:130617 original size:41 final size:41
Alignment explanation
Indices: 130572--130792 Score: 300
Period size: 41 Copynumber: 5.4 Consensus size: 41
130562 ATTCGCGTTG
* *
130572 CATTTCGCGTTGCGATAGTTAAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * ** ** * *
130613 CATTTCGCGTTACGAT-TTTCCATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
* **
130654 AAAATCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
130695 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
130736 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
130777 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
130793 TTTCCATTTC
Statistics
Matches: 155, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 15 0.10
41 125 0.81
42 15 0.10
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:130622 original size:20 final size:20
Alignment explanation
Indices: 130597--130812 Score: 180
Period size: 20 Copynumber: 10.6 Consensus size: 20
130587 TAGTTAAAAA
*
130597 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
*
130617 TCGCGTTACGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
130637 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
* ** **
130658 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
130679 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
130699 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
130720 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
130740 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
130761 TCGCGTTGCGGTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
130781 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
130801 TCGCATTGCGAT
1 TCGCGTTGCGAT
130813 AGTCTACAGT
Statistics
Matches: 157, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
20 92 0.59
21 65 0.41
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:130663 original size:21 final size:21
Alignment explanation
Indices: 130637--130770 Score: 164
Period size: 21 Copynumber: 6.5 Consensus size: 21
130627 ATTTTCCATT
130637 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
130658 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
130679 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
130699 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
130720 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
130740 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
130761 TCGCGTTGCG
1 TCGCGTTGCG
130771 GTTTTCCATT
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
20 30 0.33
21 61 0.67
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:130713 original size:62 final size:61
Alignment explanation
Indices: 130572--130731 Score: 248
Period size: 62 Copynumber: 2.6 Consensus size: 61
130562 ATTCGCGTTG
* * ** **
130572 CATTTCGCGTTGCGATAGTTAAAAATCGCGTTGCGATTTTTCATTTCGCGTTACGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTACGATTTTC
*
130633 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-GTTGAAAATCGCGTTACGATTTTC
130695 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
130732 TTTCCATTTC
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 36 0.40
62 55 0.60
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (61 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTACGATTTTC
Found at i:130834 original size:22 final size:22
Alignment explanation
Indices: 130806--130875 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
130796 CCATTTCGCA
130806 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
* * **
130828 TTGCGAT--TTTCCAAAT-TCG
1 TTGCGATAGTCTACAGTTGTCG
130847 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
130869 TTGCGAT
1 TTGCGAT
130876 TTAGTTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
19 10 0.27
20 5 0.14
21 5 0.14
22 17 0.46
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
TTGCGATAGTCTACAGTTGTCG
Found at i:130840 original size:103 final size:103
Alignment explanation
Indices: 130617--130815 Score: 319
Period size: 103 Copynumber: 1.9 Consensus size: 103
130607 ATTTTTCATT
* *
130617 TCGCGTTACGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATCG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCG
*
130682 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
66 CGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
* * * **
130720 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGT-TTTCCATTTCG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCG
130784 CGTTGCGATTTTCCATTTCGCATTGCGATAGT
66 CGTTGCGATTTTCCATTTCGCATTGCGATAGT
130816 CTACAGTTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 37 0.42
103 51 0.58
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (103 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCG
CGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
Found at i:130849 original size:61 final size:60
Alignment explanation
Indices: 130723--130853 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 60
130713 TTGAAAATCG
* * *
130723 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGTTTTCCATTTC
1 CGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
* * *
130783 GCGTTGCGATTTTCCATTTCGCATTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT-
1 -CGTTGCGATTTTCCATTTCGCATTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-AATTC
130845 CGTTGCGAT
1 CGTTGCGAT
130854 AGTCTACAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
61 44 0.72
62 14 0.23
63 3 0.05
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (60 bp):
CGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
Found at i:130861 original size:41 final size:41
Alignment explanation
Indices: 130784--130877 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
130774 TTCCATTTCG
*
130784 CGTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTCG-ATTGCGATAGTCTACAGTTGT
130826 CGTTGCGATTTTCCAAATTCG-TTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AATTCGATTGCGATAGTCTACAGTTGT
130867 CGTTGCGATTT
1 CGTTGCGATTT
130878 AGTTAAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
41 31 0.62
42 14 0.28
43 5 0.10
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTTCCAATTCGATTGCGATAGTCTACAGTTGT
Found at i:130970 original size:6 final size:6
Alignment explanation
Indices: 130959--131044 Score: 172
Period size: 6 Copynumber: 14.3 Consensus size: 6
130949 GACACGTATT
130959 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
131007 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
131045 GAGACGAGAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:136985 original size:22 final size:22
Alignment explanation
Indices: 136960--137001 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
136950 GTTTAACAAT
* *
136960 AATGGACTATGGTTACAACATA
1 AATGGACAACGGTTACAACATA
*
136982 AATGGGCAACGGTTACAACA
1 AATGGACAACGGTTACAACA
137002 ACATAACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (22 bp):
AATGGACAACGGTTACAACATA
Found at i:144866 original size:25 final size:25
Alignment explanation
Indices: 144838--144892 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
144828 TACCTTTTGA
144838 TATATGTG-ATAT-TAATATAAGTAAT
1 TATATG-GAATATGTAATATAAGT-AT
*
144863 TATA-GGAATATGTAATATAAGTGT
1 TATATGGAATATGTAATATAAGTAT
144887 TATATG
1 TATATG
144893 AAATGTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
24 10 0.38
25 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (25 bp):
TATATGGAATATGTAATATAAGTAT
Found at i:145330 original size:31 final size:31
Alignment explanation
Indices: 145249--145351 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 31
145239 GAGGGTTTAA
* * *
145249 CTATGTTCTACGGAACATATGGGCAGAATTAC
1 CTATGTTCTAAGGAACATATGGACAGTA-TAC
* *
145281 CTATG-TCTTTA-GAGACATATGGATAGTATAC
1 CTATGTTC-TAAGGA-ACATATGGACAGTATAC
* *
145312 CTATGTTCTAAGGAACATATGAACAGTTTAC
1 CTATGTTCTAAGGAACATATGGACAGTATAC
*
145343 CTAGGTTCT
1 CTATGTTCT
145352 TCGGGACCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
31 36 0.63
32 21 0.37
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (31 bp):
CTATGTTCTAAGGAACATATGGACAGTATAC
Found at i:146348 original size:17 final size:17
Alignment explanation
Indices: 146295--146366 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
146285 ACACGACCCG
*
146295 TGACTGACCCGACCCAT
1 TGACTAACCCGACCCAT
* * * *
146312 TGACTAAACCAACTCGT
1 TGACTAACCCGACCCAT
146329 TGACTAACCCGACCCAT
1 TGACTAACCCGACCCAT
* *
146346 TGA-TCGATCCGACCCAT
1 TGACT-AACCCGACCCAT
146363 TGAC
1 TGAC
146367 CTGACAGTTG
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
16 1 0.02
17 41 0.98
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (17 bp):
TGACTAACCCGACCCAT
Done.