Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 24
Found at i:1428512 original size:165 final size:168
Alignment explanation
Indices: 1428281--1428587 Score: 419
Period size: 165 Copynumber: 1.8 Consensus size: 168
1428271 CTTGACACAG
* * *
1428281 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTATCTTAAAATTTTTTGTCTCTCTTGA
1 TTTCTCTTAAAACAAATTTCGTCTCTCTCGAGACATTTTATCTTAAAATTTTTTGTCTCCCTTGA
*
1428346 GACAGTTTCCCTTGAAAC-CAAAATATTTGAATCTATTTCCCTTGAAAC-AAATTTTGTCT-CTC
66 GACAGTTTCCCTTGAAACACAAAATATTTGAATCTATTTCCCTTAAAACAAAATTTTGTCTAC-C
1428408 TTGAGACAGTTTCCCTTTAAACAAAATCTTTTAATTTGT
130 TTGAGACAGTTTCCCTTTAAACAAAATCTTTTAATTTGT
* * *
1428447 TTTC-CTTTAAACACATTTCGTCTCTCTCGAGAC-TGTTTCTCTTGAAAA-TTTTTGTCTCCCTT
1 TTTCTCTTAAAACAAATTTCGTCTCTCTCGAGACAT-TTTATCTT-AAAATTTTTTGTCTCCCTT
* ** * * *
1428509 GAGACGGTTTCTTTTGAAACACAAAATCTTTGAATTTATTTCCCTTAAAACAAAATTTTGTTTAC
64 GAGACAGTTTCCCTTGAAACACAAAATATTTGAATCTATTTCCCTTAAAACAAAATTTTGTCTAC
*
1428574 CTTGAGACCGTTTC
129 CTTGAGACAGTTTC
1428588 TCATGAAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
164 1 0.01
165 62 0.51
166 35 0.29
167 23 0.19
168 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (168 bp):
TTTCTCTTAAAACAAATTTCGTCTCTCTCGAGACATTTTATCTTAAAATTTTTTGTCTCCCTTGA
GACAGTTTCCCTTGAAACACAAAATATTTGAATCTATTTCCCTTAAAACAAAATTTTGTCTACCT
TGAGACAGTTTCCCTTTAAACAAAATCTTTTAATTTGT
Found at i:1430076 original size:3 final size:3
Alignment explanation
Indices: 1430068--1430135 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
1430058 TATTTACTAT
1430068 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1430116 TTA TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TT
1430136 TACTTTACGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1430216 original size:15 final size:15
Alignment explanation
Indices: 1430198--1430263 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
1430188 TATTATATTA
1430198 TTATTTTCATTTCAT
1 TTATTTTCATTTCAT
1430213 TTATTTTC-TTT-A-
1 TTATTTTCATTTCAT
* *
1430225 TTA-TTGCATCTTTATTT
1 TTATTTTCAT-TTCA--T
*
1430242 TTATTTTCATTTCCT
1 TTATTTTCATTTCAT
1430257 TTATTTT
1 TTATTTT
1430264 GTTTATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
11 3 0.08
12 4 0.10
13 3 0.08
14 4 0.10
15 16 0.40
17 5 0.12
18 5 0.12
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.70
Consensus pattern (15 bp):
TTATTTTCATTTCAT
Found at i:1430287 original size:44 final size:44
Alignment explanation
Indices: 1430187--1430286 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
1430177 TTTTACTTAT
* *
1430187 ATATTATATTATTATTTTCATTTCATTTATTTTCTTTATTATTGC
1 ATATT-TATTTTTATTTTCATTTCATTTATTTTCTTTATTATTAC
* * *
1430232 ATCTTTATTTTTATTTTCATTTCCTTTATTTTGTTTA-TATTAC
1 ATATTTATTTTTATTTTCATTTCATTTATTTTCTTTATTATTAC
*
1430275 TTATTTATTTTT
1 ATATTTATTTTT
1430287 TTTCTTATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 15 0.31
44 29 0.60
45 4 0.08
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (44 bp):
ATATTTATTTTTATTTTCATTTCATTTATTTTCTTTATTATTAC
Found at i:1437628 original size:5 final size:5
Alignment explanation
Indices: 1437613--1437645 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1437603 CCACTAACTT
1437613 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1437646 TATATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1437653 original size:15 final size:15
Alignment explanation
Indices: 1437612--1437654 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1437602 ACCACTAACT
1437612 TTTTTATTTATTTTA
1 TTTTTATTTATTTTA
1437627 -TTTTATTTTATTTTA
1 TTTTTA-TTTATTTTA
*
1437642 TTTTTATATATTT
1 TTTTTATTTATTT
1437655 GTTTACATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 15 0.60
16 5 0.20
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:1437787 original size:130 final size:130
Alignment explanation
Indices: 1437544--1437778 Score: 294
Period size: 130 Copynumber: 1.8 Consensus size: 130
1437534 TTATTACTCG
* * **
1437544 ACCTTGTGGTGACCCGATCTAGGGTAAGACCCACATTATTATGGTTTGGACTCTACTAACCACTA
1 ACCTTGAGGTGACCCGATCCAGGGTAAGACCCACATTATTATGGTTCAGACTCTACTAACCACTA
** * * * * * * *
1437609 ACTTTTTTATTTATTTTATTTTATTTTATTTTATTTTTATATATTTGTTTACATTATTCTATTTA
66 ACTTGCTAACTTATTCTAATTTATTATATTTAACTTTTATATATTTGTTTACATTATTCTATTTA
* * *
1437674 ACCTTGAGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCAGTA
1 ACCTTGAGGTGACCCGATCCAGGGTAAGACCCACATTATTATGGTTCAGACTCTACTAACCACTA
1437739 AC-TGCTAACTT-TTCTAATTTATTAATATTCTAACTTTTAT
66 ACTTGCTAACTTATTCTAATTTATT-ATATT-TAACTTTTAT
1437779 TTTATTGTTC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
128 10 0.11
129 9 0.10
130 68 0.78
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (130 bp):
ACCTTGAGGTGACCCGATCCAGGGTAAGACCCACATTATTATGGTTCAGACTCTACTAACCACTA
ACTTGCTAACTTATTCTAATTTATTATATTTAACTTTTATATATTTGTTTACATTATTCTATTTA
Found at i:1437800 original size:24 final size:25
Alignment explanation
Indices: 1437768--1437823 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
1437758 TATTAATATT
1437768 CTAACTTTTA-TTTTATTGTTCATA
1 CTAACTTTTATTTTTATTGTTCATA
*
1437792 CTAACTTTTATTTTTATTGTTCTTA
1 CTAACTTTTATTTTTATTGTTCATA
1437817 CTAACTT
1 CTAACTT
1437824 ACTAACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.23, C:0.14, G:0.04, T:0.59
Consensus pattern (25 bp):
CTAACTTTTATTTTTATTGTTCATA
Found at i:1437853 original size:33 final size:33
Alignment explanation
Indices: 1437790--1437854 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
1437780 TTATTGTTCA
** **
1437790 TACTAACTTTTATTTTTATTGTTCTTACTAACT
1 TACTAACTTTTATTTTTATTGCACAAACTAACT
1437823 TACTAACATTTTA-TTTTATTGCACAAACTAAC
1 TACTAAC-TTTTATTTTTATTGCACAAACTAAC
1437855 CCATAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (33 bp):
TACTAACTTTTATTTTTATTGCACAAACTAACT
Found at i:1440467 original size:14 final size:15
Alignment explanation
Indices: 1440448--1440484 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1440438 CCTTGTTGCA
1440448 TTTGCATCTCACA-T
1 TTTGCATCTCACATT
*
1440462 TTTGCA-CTCCCATT
1 TTTGCATCTCACATT
1440476 TTTGCATCT
1 TTTGCATCT
1440485 TTTCATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 13 0.65
15 2 0.10
ACGTcount: A:0.16, C:0.30, G:0.08, T:0.46
Consensus pattern (15 bp):
TTTGCATCTCACATT
Found at i:1442894 original size:77 final size:75
Alignment explanation
Indices: 1442681--1442907 Score: 269
Period size: 77 Copynumber: 3.0 Consensus size: 75
1442671 TAATACAGAG
* * * **
1442681 GATTTATCTCACTTAAGATTGTTTTTCTTAAAACAGACTTTGTCTAACTTGAGACAG-TTTTACT
1 GATTTATATCACTCAAGATTGTTTTTCTTAAAACA-AATTTGTCTCGCTTGAGACAGTTTTTACT
1442745 CGAAAGAAG-A
65 CGAAAGAAGAA
* * * * * * *
1442755 CATTTCATTTGAGTCAAGATTGTTTTTCTTAAAAGAAGATTTGTCTCGCTTGGGACAATTTTTAC
1 GATTT-ATATCACTCAAGATTGTTTTTCTTAAAACAA-ATTTGTCTCGCTTGAGACAGTTTTTAC
* *
1442820 TCAAAACAAGAA
64 TCGAAAGAAGAA
1442832 GATTTATATCACTCAAGATTGTTTTTCCTTAAAACAATATTTGTCTCGCTTGAGACAGTTTTTAC
1 GATTTATATCACTCAAGATTGTTTTT-CTTAAAACAA-ATTTGTCTCGCTTGAGACAGTTTTTAC
1442897 TCGAAAGAAGA
64 TCGAAAGAAGA
1442908 CATTTCACTC
Statistics
Matches: 125, Mismatches: 23, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
74 5 0.04
75 40 0.32
76 32 0.26
77 48 0.38
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (75 bp):
GATTTATATCACTCAAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTTTACTC
GAAAGAAGAA
Found at i:1442999 original size:39 final size:39
Alignment explanation
Indices: 1442932--1443517 Score: 735
Period size: 39 Copynumber: 15.0 Consensus size: 39
1442922 TTATTTTTAA
* * * *
1442932 AGAAGATTGTATCTCGCTTGAGATAGTTTCCTTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
1442971 AAAAAATTTTGTTTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1443010 AGAAGATTTTGTCTTGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
1443049 AGAAGATTTTATCTCGCTGGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
1443088 AAAATATTTTGTCTTGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1443127 ATAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
1443166 AAAAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * * *
1443205 AAAAGATTTTGTCTCGCTTAAAATAGTTTCCCACGAAAG
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1443244 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAATC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1443283 ATAAGATTTTGTCTCGC-TGAAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTG-AGATAGTTTCCCTCGAAAC
* *
1443322 AGAATATTTTGTCTCGCTTGAGATAGTTTCCCTAGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* ** *
1443361 AGAAGATTTTATCTCGCTTGAGATAGTTTCATTCGAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1443400 AGAAGAGTTTT-TCTCACTTGATATAGTTTCCCTCGAAAC
1 AGAAGA-TTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
1443439 AGAAGATTTTATCTCACTTGAGATAGTTTCCCTCGACAG
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
1443478 AGAAGATTTTATCTCGCTTGAGACAGTTTCCTTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1443517 A
1 A
1443518 AAATATTTAA
Statistics
Matches: 479, Mismatches: 64, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
38 6 0.01
39 467 0.97
40 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (39 bp):
AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:1443619 original size:42 final size:41
Alignment explanation
Indices: 1443572--1443663 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 41
1443562 GAGTAAGTCA
*
1443572 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCATAAATCC
1 TTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG-ATAAATCC
* * *
1443614 TTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCC
1 TTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATAAATCC
1443655 TTCGGGCCA
1 TTCGGGCCA
1443664 ACCATAAGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
TTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATAAATCC
Found at i:1443887 original size:36 final size:34
Alignment explanation
Indices: 1443847--1443956 Score: 82
Period size: 36 Copynumber: 3.1 Consensus size: 34
1443837 GCTTGAGGTT
*
1443847 GTTTCTTCCGAAACAAAGTTTGTCTCTCTTGAGACA
1 GTTTCTT--GAAACAAAGTTTATCTCTCTTGAGACA
** *
1443883 GTTTCACTTGAAATGAATTTTATCTCTCTTGAGACA
1 GTTT--CTTGAAACAAAGTTTATCTCTCTTGAGACA
* *
1443919 GTTTCCCTTGAAAC-TAGTTT-TGTCGT-TTGAGACA
1 GTTT--CTTGAAACAAAGTTTATCTC-TCTTGAGACA
1443953 GTTT
1 GTTT
1443957 TCCCTCGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
34 15 0.24
35 5 0.08
36 39 0.63
38 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (34 bp):
GTTTCTTGAAACAAAGTTTATCTCTCTTGAGACA
Found at i:1443954 original size:34 final size:36
Alignment explanation
Indices: 1443869--1443989 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 36
1443859 ACAAAGTTTG
*
1443869 TCTCTCTTGAGACAGTTTCACTTGAAATGAATTTTA
1 TCTCTCTTGAGACAGTTTCCCTTGAAATGAATTTTA
* *
1443905 TCTCTCTTGAGACAGTTTCCCTTGAAACT-AGTTTTG
1 TCTCTCTTGAGACAGTTTCCCTTGAAA-TGAATTTTA
* * * *
1443941 TC-GT-TTGAGACAGTTTTCCCTCGAAATAAAATTTA
1 TCTCTCTTGAGACAG-TTTCCCTTGAAATGAATTTTA
* *
1443976 TCTCACTCGAGACA
1 TCTCTCTTGAGACA
1443990 CCTTCTCTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
34 10 0.14
35 18 0.26
36 33 0.48
37 8 0.12
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAATGAATTTTA
Found at i:1444605 original size:44 final size:44
Alignment explanation
Indices: 1444433--1444605 Score: 138
Period size: 44 Copynumber: 4.0 Consensus size: 44
1444423 TTGGATCAGT
* ** * *
1444433 ATCAACTTTTTGCTTGATTATATCACAGAATGAGGTAGATCAGC
1 ATCAACTTTTTGCTCGATTCCATCACAGAATGAAGTAGATCAAC
* * * * * *
1444477 AACAACATTATGTTCGATTCCATCACAGAAAG-AGATGGATCAAC
1 ATCAACTTTTTGCTCGATTCCATCACAGAATGAAG-TAGATCAAC
** * * * *
1444521 ATTTA--TTTCGCTCAAATCCATCACAGAAT-AAGTTGAATCAAC
1 ATCAACTTTTTGCTCGATTCCATCACAGAATGAAGTAG-ATCAAC
*
1444563 ATCAACTTTTTGCTCGATTCTATCACAGAATGAAGTAGATCAA
1 ATCAACTTTTTGCTCGATTCCATCACAGAATGAAGTAGATCAA
1444606 TACCGACATC
Statistics
Matches: 95, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 1 0.01
44 58 0.61
45 5 0.05
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (44 bp):
ATCAACTTTTTGCTCGATTCCATCACAGAATGAAGTAGATCAAC
Found at i:1444706 original size:132 final size:132
Alignment explanation
Indices: 1444313--1444856 Score: 587
Period size: 132 Copynumber: 4.1 Consensus size: 132
1444303 CAATAGTTTA
* * * * * ** *
1444313 CTCGAATCTATCACAGAAGGATGTAGATCAACATCAACATCTCGTTCGATTCCATCGTAGAAGGA
1 CTCGATTCTATCACAGAATGAAGTAGATCAACACCAACATCTTGTTCGATTCCATCACAAAAGGA
* ** * * **
1444378 GGTGGATCGACATTTTTATTTTTCTCAAATCCATCGCAAAAGGAGTTGGATCAGTATCAACTTTT
66 GGTGGATCGACATTTTCATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAACATCAACTTTT
1444443 TG
131 TG
* * * * *
1444445 CTTGATTATATCACAGAATGAGGTAGATCAGCAACAACAT-TATGTTCGATTCCATCACAGAAA-
1 CTCGATTCTATCACAGAATGAAGTAGATCAACACCAACATCT-TGTTCGATTCCATCACA-AAAG
* * * ** *
1444508 GAGATGGATCAACA-TTT-ATTTCGCTCAAATCCATCACAGAATAAGTTGAATCAACATCAACTT
64 GAGGTGGATCGACATTTTCATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAACATCAACTT
1444571 TTTG
129 TTTG
* * ** *
1444575 CTCGATTCTATCACAGAATGAAGTAGATCAATACCGACATCTTGTTTAATTTCATCACAAAAGGA
1 CTCGATTCTATCACAGAATGAAGTAGATCAACACCAACATCTTGTTCGATTCCATCACAAAAGGA
*
1444640 GGTGGATCGACATTTTCATTTCACTCAAACCCATCACAGAAGGAGTTGGATCAACATCAACTTTT
66 GGTGGATCGACATTTTCATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAACATCAACTTTT
1444705 TG
131 TG
* * * * * *
1444707 CTTGATTCTATCATAGAA-GGAGATAGATCAGCACCGACATCTTGTTCGATTCCATCATAAAAGG
1 CTCGATTCTATCACAGAATGAAG-TAGATCAACACCAACATCTTGTTCGATTCCATCACAAAAGG
* * * * * * *
1444771 ATGTGGATCTACTTTTTCATTTCACTAAAATCCATCATAGAAGGAGTTGGATCACCATTAACGTT
65 AGGTGGATCGACATTTTCATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAACATCAAC-TT
1444836 TTT-
129 TTTG
* *
1444839 CTCAATTTTATCACAGAA
1 CTCGATTCTATCACAGAA
1444857 GGAAAAGGAG
Statistics
Matches: 344, Mismatches: 60, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
129 3 0.01
130 100 0.29
131 11 0.03
132 223 0.65
133 7 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (132 bp):
CTCGATTCTATCACAGAATGAAGTAGATCAACACCAACATCTTGTTCGATTCCATCACAAAAGGA
GGTGGATCGACATTTTCATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAACATCAACTTTT
TG
Found at i:1445441 original size:13 final size:13
Alignment explanation
Indices: 1445425--1445454 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1445415 AGGTTTTGTA
*
1445425 TGTCAGTTTGGGG
1 TGTCAGTTTAGGG
1445438 TGTCAGTTTAGGG
1 TGTCAGTTTAGGG
1445451 TGTC
1 TGTC
1445455 GGTGTGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (13 bp):
TGTCAGTTTAGGG
Found at i:1446297 original size:24 final size:25
Alignment explanation
Indices: 1446265--1446320 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
1446255 TATTAATATT
*
1446265 CTAAATTTT-CTTTTATTGTTCATA
1 CTAACTTTTACTTTTATTGTTCATA
*
1446289 CTAACTTTTACTTTTATTGTTCTTA
1 CTAACTTTTACTTTTATTGTTCATA
1446314 CTAACTT
1 CTAACTT
1446321 ACTAACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.23, C:0.16, G:0.04, T:0.57
Consensus pattern (25 bp):
CTAACTTTTACTTTTATTGTTCATA
Found at i:1446350 original size:33 final size:33
Alignment explanation
Indices: 1446287--1446351 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
1446277 TTATTGTTCA
** **
1446287 TACTAACTTTTACTTTTATTGTTCTTACTAACT
1 TACTAACTTTTACTTTTATTGCACAAACTAACT
1446320 TACTAACATTTTA-TTTTATTGCACAAACTAAC
1 TACTAAC-TTTTACTTTTATTGCACAAACTAAC
1446352 CCATAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.48
Consensus pattern (33 bp):
TACTAACTTTTACTTTTATTGCACAAACTAACT
Found at i:1446717 original size:38 final size:38
Alignment explanation
Indices: 1446675--1446757 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
1446665 CAATATTTCA
1446675 TTTTTTTTACCTTTCAGCATATTAACATACACTTCATT
1 TTTTTTTTACCTTTCAGCATATTAACATACACTTCATT
*
1446713 TTTTTTTTACCTTTCATCATATTAACATACACTTCATT
1 TTTTTTTTACCTTTCAGCATATTAACATACACTTCATT
*
1446751 TTATTTT
1 TTTTTTT
1446758 AGTCACTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.01, T:0.54
Consensus pattern (38 bp):
TTTTTTTTACCTTTCAGCATATTAACATACACTTCATT
Found at i:1447753 original size:4 final size:4
Alignment explanation
Indices: 1447744--1452940 Score: 8821
Period size: 4 Copynumber: 1334.0 Consensus size: 4
1447734 AAATTTCGAA
1447744 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1447792 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1447840 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1447888 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1447936 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1447984 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448032 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448080 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448126 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448173 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448221 ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448268 ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448315 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448362 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448409 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448457 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448505 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448552 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448599 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448647 ATGT ATGT A-GT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448692 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448738 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448786 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448833 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT AT-T ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448879 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448926 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1448974 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATG- ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449020 ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1449067 ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449115 ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449162 ATGT AT-T ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449207 ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449254 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1449301 ATGT ATGT ATGT CTGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449347 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1449395 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449443 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449489 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT AT-T ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1449535 ATGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449581 ATGT ATGT ATGT AT-T ATGT ATGT ATGT -TGT ATGT ATGT ATGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449626 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449673 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449721 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449766 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449814 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449861 ATGT AT-T ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449906 ATGT ATG- -TGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1449951 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1449999 ATGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450047 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450095 ATGT ATGT A--T ATGT GTGT ATGT ATGT ATGT ATTGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT
1450142 ATGT ATGT ATGT ATGT ATTGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450189 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450237 ATGT ATGT A-GT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450282 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450330 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450377 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450425 ATGT ATGT ATGT ATGTT ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450474 ATGT A-GT ATGT ATG- ATGT ATGT -TG- ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450518 ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450565 ATGT ATGT ATGT ATGT ATGT AATGT ATGT ATGT ATGT ATGT AT-T ATGT
1 ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450613 -TGG ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450658 A-GT ATGT ATGT ATGT A-GT ATGT ATG- ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450703 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450750 ATGT ATGT AGGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450796 AT-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450841 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450888 ATGT ATGTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1450937 ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1450984 -TGT ATGT A-GT ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451029 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451074 ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451121 ATGT A-GT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451167 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451214 ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451260 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451306 ATGT ATGT AT-T ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1451352 ATGT ATGT ATGT ATGT ATGT ATGT AGGT -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451399 ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1451445 ATGT A-GT ATGT ATGT A-GT ATTT ATGT AGGT ATGT ATGT ATGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1451490 AGCGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451539 ATGT AT-T ATGT ATGT A-G- ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451584 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451631 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451679 ATGT ATGT -TGT ATGT ATGT A-GT AT-T ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1451724 ATGT ATGT ATGT ATGT ATGT ATGT ATGAT GTGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT
1451772 ATGT A-GT ATGT ATGT ATGT AGTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT
1451820 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451867 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1451911 A-GT ATGT ATGT CTGT A-GT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1451956 ATGT ATG- -TGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1451999 ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452047 ATGT A-GT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1452092 ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTTGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT
1452140 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT
*
1452188 A-GT ATGT ATTT ATGT AGTGT ATGT ATGT AT-T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1452235 ATGT ATGT AGGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452282 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452329 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1452373 ATGT -TGT ATGT ATGT ATGT AGGT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1452418 ATGT ATGT CTGT AT-T A-GT CTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452464 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452511 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT A-GT ATGTT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT
1452558 ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1452603 ATGT AGTGT ATGT CTGT ATGT AGTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT A-TGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT
1452653 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452698 ATGT ATGT ATGT ATGT ATGT A-GT ATGT -TGT ATGT ATGT -TGT ATGTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T
1452744 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
1452792 ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTG- -TGT GTGT GTGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * *
1452838 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452886 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1452933 ATGT ATGT
1 ATGT ATGT
1452941 CGTGTGTGTG
Statistics
Matches: 4972, Mismatches: 54, Indels: 334
0.93 0.01 0.06
Matches are distributed among these distances:
2 49 0.01
3 305 0.06
4 4561 0.92
5 57 0.01
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1452949 original size:4 final size:4
Alignment explanation
Indices: 1452942--1453090 Score: 231
Period size: 4 Copynumber: 39.0 Consensus size: 4
1452932 TATGTATGTC
1452942 GTGT GTGT GTGT GTGT GTGT GTGT GTGT -TGT GTGT GTGT GTGT GTGT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
1452989 GTGT GTGT GTG- GTGT GTGT -TGT GTGT GTGT GTGT GTGT GTGT GT-T
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
* *
1453034 GTG- GTGT GTGT GTG- GTGT G-GT GTGT GGGT GTGT GTGT GTGT GTAT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
1453079 GTGT GTGT GTGT
1 GTGT GTGT GTGT
1453091 ATGTATGTAT
Statistics
Matches: 134, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
3 21 0.16
4 113 0.84
ACGTcount: A:0.01, C:0.00, G:0.50, T:0.49
Consensus pattern (4 bp):
GTGT
Found at i:1452957 original size:12 final size:12
Alignment explanation
Indices: 1452821--1453090 Score: 320
Period size: 12 Copynumber: 22.9 Consensus size: 12
1452811 TATGTATGTC
1452821 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452833 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452845 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452857 TGTGTGTGTGTG
1 TGTGTGTGTGTG
*
1452869 TGTGTGTGTATG
1 TGTGTGTGTGTG
* * *
1452881 TATGTATGTATG
1 TGTGTGTGTGTG
* * *
1452893 TATGTATGTATG
1 TGTGTGTGTGTG
* * *
1452905 TATGTATGTATG
1 TGTGTGTGTGTG
* * *
1452917 TATGTAGTATGTA
1 TGTGT-GTGTGTG
* *
1452930 TGTATGTATGTCG
1 TGTGTGTGTGT-G
1452943 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452955 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452967 TGT-TGTGTGTG
1 TGTGTGTGTGTG
1452978 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1452990 TGTGTGTGTG-G
1 TGTGTGTGTGTG
1453001 TGTGTGT-TGTG
1 TGTGTGTGTGTG
1453012 TGTGTGTGTGTG
1 TGTGTGTGTGTG
1453024 TGTGTGTGT-TG
1 TGTGTGTGTGTG
1453035 TG-GTGTGTGTG
1 TGTGTGTGTGTG
1453046 TG-GTGTG-GTG
1 TGTGTGTGTGTG
*
1453056 TGTGGGTGTGTG
1 TGTGTGTGTGTG
*
1453068 TGTGTGTGTATG
1 TGTGTGTGTGTG
1453080 TGTGTGTGTGT
1 TGTGTGTGTGT
1453091 ATGTATGTAT
Statistics
Matches: 234, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
10 13 0.06
11 44 0.19
12 162 0.69
13 15 0.06
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.49
Consensus pattern (12 bp):
TGTGTGTGTGTG
Found at i:1453095 original size:4 final size:4
Alignment explanation
Indices: 1453088--1453123 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
1453078 TGTGTGTGTG
1453088 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1453124 CGAAATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:1461933 original size:12 final size:12
Alignment explanation
Indices: 1461916--1461972 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
1461906 ACAAAGATAT
*
1461916 CAGAAATCAGAG
1 CAGAAATCAGAA
1461928 CAGAAATCAGAA
1 CAGAAATCAGAA
* *
1461940 CAAAAATCAGAG
1 CAGAAATCAGAA
1461952 CAGAAATCAGAA
1 CAGAAATCAGAA
*
1461964 TAGAAATCA
1 CAGAAATCA
1461973 AAGAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.11
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:1461951 original size:24 final size:24
Alignment explanation
Indices: 1461919--1461972 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1461909 AAGATATCAG
1461919 AAATCAGAGCAGAAATCAGAACAA
1 AAATCAGAGCAGAAATCAGAACAA
* *
1461943 AAATCAGAGCAGAAATCAGAATAG
1 AAATCAGAGCAGAAATCAGAACAA
1461967 AAATCA
1 AAATCA
1461973 AAGAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (24 bp):
AAATCAGAGCAGAAATCAGAACAA
Found at i:1463762 original size:160 final size:161
Alignment explanation
Indices: 1463498--1463819 Score: 612
Period size: 160 Copynumber: 2.0 Consensus size: 161
1463488 CGGTTAACGA
1463498 AGATCAACAGCTTGGTCCAGGTGGTTCGGCTCGTTTCAGACCGGTCCACCTGGTCAGCATAATCA
1 AGATCAACAGCTTGGTCCAGGTGGTTCGGCTCGTTTCAGACCGGTCCACCTGGTCAGCATAATCA
1463563 TCAGGCTGCCAGACGAGGCCCACGTGTAGGGGGTGGTGCGTATGGAGG-ACGA-CGTTCGTTCAG
66 TCAGGCTGCCAGACGAGGCCCACGTGTAGGGGGTGGTGCGTATGGAGGCACGATCGTTCGTTCAG
1463626 TTTTGAAATTTTCCATATTTGCATATCGTGAC
131 -TTTGAAATTTTCCATATTTGCATATCGTGAC
1463658 AGATCAACAGCTTGGTCCAGGTGGTTCGGCTCGTTTCAGACCGGTCCACCTGGTCAGCATAATCA
1 AGATCAACAGCTTGGTCCAGGTGGTTCGGCTCGTTTCAGACCGGTCCACCTGGTCAGCATAATCA
1463723 TCAGGCTGCCAGACGAGGCCCACGTGTAGGGGGTGGTGCGTATGGAGGCTACGATCGTTCGTTCA
66 TCAGGCTGCCAGACGAGGCCCACGTGTAGGGGGTGGTGCGTATGGAGGC-ACGATCGTTCGTTCA
1463788 GTTTGAAATTTTCCATATTTGCATATCGTGAC
130 GTTTGAAATTTTCCATATTTGCATATCGTGAC
1463820 CTTGGGATTC
Statistics
Matches: 159, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
160 113 0.71
162 35 0.22
163 11 0.07
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.27
Consensus pattern (161 bp):
AGATCAACAGCTTGGTCCAGGTGGTTCGGCTCGTTTCAGACCGGTCCACCTGGTCAGCATAATCA
TCAGGCTGCCAGACGAGGCCCACGTGTAGGGGGTGGTGCGTATGGAGGCACGATCGTTCGTTCAG
TTTGAAATTTTCCATATTTGCATATCGTGAC
Found at i:1465913 original size:12 final size:12
Alignment explanation
Indices: 1465893--1465946 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
1465883 GAGATATCCA
1465893 AAATCAGAACAG
1 AAATCAGAACAG
*
1465905 AAATTAGAACAG
1 AAATCAGAACAG
*
1465917 AAATCAGAGCAG
1 AAATCAGAACAG
1465929 AAATCAGAACAG
1 AAATCAGAACAG
1465941 AAATCA
1 AAATCA
1465947 AAGAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (12 bp):
AAATCAGAACAG
Found at i:1468759 original size:13 final size:13
Alignment explanation
Indices: 1468743--1468768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1468733 AAAACAAATT
1468743 TAATTTTTAAAAG
1 TAATTTTTAAAAG
1468756 TAATTTTTAAAAG
1 TAATTTTTAAAAG
1468769 ATTATCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATTTTTAAAAG
Found at i:1473915 original size:74 final size:74
Alignment explanation
Indices: 1473826--1473978 Score: 306
Period size: 74 Copynumber: 2.1 Consensus size: 74
1473816 AGAACCACTT
1473826 AAATCTTTGTTGAAAAACTCCAAACCACTGTCACTATTTTTATAATTTCGTTTGCCTTACCGCCT
1 AAATCTTTGTTGAAAAACTCCAAACCACTGTCACTATTTTTATAATTTCGTTTGCCTTACCGCCT
1473891 GCACCGCCA
66 GCACCGCCA
1473900 AAATCTTTGTTGAAAAACTCCAAACCACTGTCACTATTTTTATAATTTCGTTTGCCTTACCGCCT
1 AAATCTTTGTTGAAAAACTCCAAACCACTGTCACTATTTTTATAATTTCGTTTGCCTTACCGCCT
1473965 GCACCGCCA
66 GCACCGCCA
1473974 AAATC
1 AAATC
1473979 CCCTCCTCCG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (74 bp):
AAATCTTTGTTGAAAAACTCCAAACCACTGTCACTATTTTTATAATTTCGTTTGCCTTACCGCCT
GCACCGCCA
Found at i:1474318 original size:20 final size:20
Alignment explanation
Indices: 1474269--1474320 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1474259 CCGAACCGAC
**
1474269 CAACCCGATATGAACCAAGT
1 CAACCCGACCTGAACCAAGT
*
1474289 CAACCCGACCTGAACCGAGT
1 CAACCCGACCTGAACCAAGT
1474309 CAACCCGACCTG
1 CAACCCGACCTG
1474321 TAACACCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.38, G:0.17, T:0.12
Consensus pattern (20 bp):
CAACCCGACCTGAACCAAGT
Found at i:1475066 original size:20 final size:22
Alignment explanation
Indices: 1475012--1475067 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
1475002 TATTGTTCTT
1475012 TGTAGTATCGATACCACATGAA
1 TGTAGTATCGATACCACATGAA
*
1475034 TGT-GTATCAATACC-C-T-ACA
1 TGTAGTATCGATACCACATGA-A
1475053 TGTAGTATCGATACC
1 TGTAGTATCGATACC
1475068 TTAGGCAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 11 0.37
21 10 0.33
22 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (22 bp):
TGTAGTATCGATACCACATGAA
Found at i:1483775 original size:46 final size:47
Alignment explanation
Indices: 1483633--1483785 Score: 132
Period size: 47 Copynumber: 3.3 Consensus size: 47
1483623 CTGATTCATC
* * * * * * *
1483633 CTTCACGAAGAGATAGTGGAGTGAATAATCATCTTCCCATATTTGAT
1 CTTCACGAAGAGACAGTGGAGAGAATTATCAACTTTCTAGATTTGAT
* * * * * *
1483680 CTCCGCAAAGAGACAATGGAGAAAATTATCAACTTT-TACAGA-TTCAT
1 CTTCACGAAGAGACAGTGGAGAGAATTATCAACTTTCT--AGATTTGAT
*
1483727 CTTCACGAAGAGACAGTGGAG-GAATTATCACCTTTCTAGATTTGAT
1 CTTCACGAAGAGACAGTGGAGAGAATTATCAACTTTCTAGATTTGAT
*
1483773 CTTCATGAAGAGA
1 CTTCACGAAGAGA
1483786 TGGTGGAGCA
Statistics
Matches: 81, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
45 3 0.04
46 28 0.35
47 48 0.59
48 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (47 bp):
CTTCACGAAGAGACAGTGGAGAGAATTATCAACTTTCTAGATTTGAT
Found at i:1483928 original size:47 final size:47
Alignment explanation
Indices: 1483873--1483989 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
1483863 ATTTGATCTT
* *
1483873 CACAAAGAGATGGTGAAGCAAATCATTAAAATGTCCATATTAATATC
1 CACAAAGAGATGGTGAAGTAAATCATCAAAATGTCCATATTAATATC
* * * * * * *
1483920 CACAAAGAGATGGTGGAGTAGATCATCAAAGTTTCCATATTGATCTT
1 CACAAAGAGATGGTGAAGTAAATCATCAAAATGTCCATATTAATATC
1483967 CACGAAA-AGATGGTGAAGTAAAT
1 CAC-AAAGAGATGGTGAAGTAAAT
1483990 AAAGTTTTAG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 55 0.95
48 3 0.05
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (47 bp):
CACAAAGAGATGGTGAAGTAAATCATCAAAATGTCCATATTAATATC
Found at i:1484007 original size:43 final size:47
Alignment explanation
Indices: 1483959--1484141 Score: 146
Period size: 48 Copynumber: 3.9 Consensus size: 47
1483949 AGTTTCCATA
*
1483959 TTGATCTTCACGAAAAGATGGTGAAG-TAA-A-TAAAG-TTTTAGAT
1 TTGATCTTCACGAAAAGATGGTGAAGCAAACATTAAAGTTTTTAGAT
* * * *
1484002 TTGATCTCCACAAAAATATTGTGAAGCAAATCATTAAAGTTTTTAGAT
1 TTGATCTTCACGAAAAGATGGTGAAGCAAA-CATTAAAGTTTTTAGAT
* * * * *
1484050 TTGAT-TTCCACGAAAATATTGTGCAGCAAATCATTAAGGTTTTCAGAT
1 TTGATCTT-CACGAAAAGATGGTGAAGCAAA-CATTAAAGTTTTTAGAT
* * *
1484098 TTAATCTCCAC-AAAGAGATGGT-AGATCAAATCATTAAAGTTTTT
1 TTGATCTTCACGAAA-AGATGGTGA-AGCAAA-CATTAAAGTTTTT
1484142 CAAATTTTAC
Statistics
Matches: 113, Mismatches: 18, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
43 22 0.19
44 2 0.02
46 1 0.01
47 9 0.08
48 78 0.69
49 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (47 bp):
TTGATCTTCACGAAAAGATGGTGAAGCAAACATTAAAGTTTTTAGAT
Found at i:1484051 original size:48 final size:48
Alignment explanation
Indices: 1483989--1484141 Score: 193
Period size: 48 Copynumber: 3.2 Consensus size: 48
1483979 GTGAAGTAAA
1483989 TAAAG-TTTTAGATTTGATCTCCACAAAAATATTGTGAAGCAAATCAT
1 TAAAGTTTTTAGATTTGATCTCCACAAAAATATTGTGAAGCAAATCAT
* * *
1484036 TAAAGTTTTTAGATTTGATTTCCACGAAAATATTGTGCAGCAAATCAT
1 TAAAGTTTTTAGATTTGATCTCCACAAAAATATTGTGAAGCAAATCAT
* * * * * * *
1484084 TAAGGTTTTCAGATTTAATCTCCACAAAGAGATGGT-AGATCAAATCAT
1 TAAAGTTTTTAGATTTGATCTCCACAAAAATATTGTGA-AGCAAATCAT
1484132 TAAAGTTTTT
1 TAAAGTTTTT
1484142 CAAATTTTAC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 5 0.06
48 84 0.94
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (48 bp):
TAAAGTTTTTAGATTTGATCTCCACAAAAATATTGTGAAGCAAATCAT
Found at i:1484995 original size:8 final size:8
Alignment explanation
Indices: 1484982--1485033 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
1484972 AAGATATATC
1484982 TTTTTATT
1 TTTTTATT
1484990 TTTTTATTT
1 TTTTTA-TT
1484999 TTTTTATT
1 TTTTTATT
*
1485007 TTTATATT
1 TTTTTATT
1485015 TATTTT-TT
1 T-TTTTATT
*
1485023 ATTTTATT
1 TTTTTATT
1485031 TTT
1 TTT
1485034 CTTGTGTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 4 0.11
8 22 0.59
9 11 0.30
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:1484999 original size:6 final size:6
Alignment explanation
Indices: 1484982--1485033 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
1484972 AAGATATATC
*
1484982 TTTTTA TTTTT- TTATTT- TTTTTA TTTTTA TATTTA TTTTT- TATTTTA
1 TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA
1485029 TTTTT
1 TTTTT
1485034 CTTGTGTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 6 0.15
6 33 0.82
7 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:1485004 original size:17 final size:17
Alignment explanation
Indices: 1484982--1485033 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
1484972 AAGATATATC
1484982 TTTTTATTTTTTTATTT
1 TTTTTATTTTTTTATTT
*
1484999 TTTTTATTTTTATATTT
1 TTTTTATTTTTTTATTT
* *
1485016 ATTTT-TTATTTTATTT
1 TTTTTATTTTTTTATTT
1485032 TT
1 TT
1485034 CTTGTGTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTTTATTT
Found at i:1485016 original size:12 final size:12
Alignment explanation
Indices: 1484982--1485033 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
1484972 AAGATATATC
1484982 TTTTTATTTT-T
1 TTTTTATTTTAT
*
1484993 TTATTTTTTTTA-
1 TT-TTTATTTTAT
1485005 TTTTTATATTTAT
1 TTTTTAT-TTTAT
1485018 TTTTTATTTTAT
1 TTTTTATTTTAT
1485030 TTTT
1 TTTT
1485034 CTTGTGTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 6 0.17
12 22 0.63
13 7 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:1490056 original size:77 final size:80
Alignment explanation
Indices: 1489921--1490078 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 80
1489911 GATTAAACTC
* *
1489921 AAGTTTTAGAATAATATTTTAAATATTATATTTATCTTTCTTTTAGGTATTTTAGTTTAAATAGG
1 AAGTTTTAGAATAATATTTTAAATATTATATTTATCATTCGTTTAGGTATTTTAGTTTAAATAGG
1489986 TTT-AGTATTTTAATT
66 TTTAAGT-TTTTAATT
* *
1490001 AAGTTTTAGGATAATA-TTTAAATATT-TATTTATCATT-GTTTAGGTATTTTAGTTTAAATAGT
1 AAGTTTTAGAATAATATTTTAAATATTATATTTATCATTCGTTTAGGTATTTTAGTTTAAATAGG
1490063 TTTAAGTTTTTAATT
66 TTTAAGTTTTTAATT
1490078 A
1 A
1490079 GGATTTAAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
77 35 0.48
78 13 0.18
79 10 0.14
80 15 0.21
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (80 bp):
AAGTTTTAGAATAATATTTTAAATATTATATTTATCATTCGTTTAGGTATTTTAGTTTAAATAGG
TTTAAGTTTTTAATT
Found at i:1490887 original size:19 final size:18
Alignment explanation
Indices: 1490850--1490893 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
1490840 CTTCAAATTA
*
1490850 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
1490868 TTTATTTCAATTCTTATCT
1 TTTATTT-AATTATTATCT
1490887 TTTATTT
1 TTTATTT
1490894 TAAAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:1492427 original size:21 final size:21
Alignment explanation
Indices: 1492388--1492428 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1492378 GCAATTTCAA
**
1492388 AAGAAAAGATGGTTACATCCC
1 AAGAAAAGATCATTACATCCC
*
1492409 AAGAAAAGATCATTGCATCC
1 AAGAAAAGATCATTACATCC
1492429 TAGGAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGAAAAGATCATTACATCCC
Found at i:1496524 original size:15 final size:15
Alignment explanation
Indices: 1496504--1496533 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1496494 GGAGGCCACC
1496504 CATTTCGTTCTATTT
1 CATTTCGTTCTATTT
*
1496519 CATTTCGTTTTATTT
1 CATTTCGTTCTATTT
1496534 TTGTTTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
CATTTCGTTCTATTT
Found at i:1498652 original size:82 final size:82
Alignment explanation
Indices: 1498515--1498686 Score: 292
Period size: 82 Copynumber: 2.1 Consensus size: 82
1498505 GATTAAACTC
1498515 AAGTTTTAGGATAATATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG
1 AAGTTTTAGGATAATATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-
1498580 GTTTT-AGTATTTTAATT
65 GTTTTAAGTATTTTAATT
* *
1498597 AAGTTTTAGGATAATATTTTAAATATTTTATTTTATCTTTGTTTTCGGTATTTTAGTTTAAATAG
1 AAGTTTTAGGATAATATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG
*
1498662 TTTTAAGTGTTTTAATT
66 TTTTAAGTATTTTAATT
*
1498679 AAGATTTA
1 AAGTTTTA
1498687 AGATGTTATT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
81 5 0.06
82 80 0.94
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (82 bp):
AAGTTTTAGGATAATATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG
TTTTAAGTATTTTAATT
Found at i:1499245 original size:19 final size:19
Alignment explanation
Indices: 1499217--1499263 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1499207 CTTTAAATTA
* *
1499217 TTTA-TTTAATTGTTTTCT
1 TTTATTTTAATTCTTATCT
1499235 TTTATTTTAATTCTTATCT
1 TTTATTTTAATTCTTATCT
1499254 TTTATTTTAA
1 TTTATTTTAA
1499264 AAACTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTTTAATTCTTATCT
Found at i:1500447 original size:19 final size:20
Alignment explanation
Indices: 1500408--1500458 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
1500398 CTACGCAAAT
*
1500408 TCGCGTTGCGATAATTGAAA
1 TCGCGTTGCGATAAGTGAAA
1500428 TCGCGTTGCGAT-AGTGAAA
1 TCGCGTTGCGATAAGTGAAA
1500447 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1500459 TTTCCATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
TCGCGTTGCGATAAGTGAAA
Found at i:1500472 original size:20 final size:20
Alignment explanation
Indices: 1500447--1500695 Score: 153
Period size: 20 Copynumber: 12.6 Consensus size: 20
1500437 GATAGTGAAA
*
1500447 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
1500467 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*** * ** **
1500487 TAAAGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAGT
*
1500508 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
1500528 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
1500548 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
1500570 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
* *
1500591 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
1500611 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
**
1500632 T--CGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAGT
*
1500644 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
1500664 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*
1500684 TCACGTTGCGAT
1 TCGCGTTGCGAT
1500696 AGTTGAAAAT
Statistics
Matches: 177, Mismatches: 34, Indels: 36
0.72 0.14 0.15
Matches are distributed among these distances:
12 3 0.02
14 8 0.05
19 17 0.10
20 102 0.58
21 22 0.12
22 25 0.14
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:1500528 original size:61 final size:60
Alignment explanation
Indices: 1500432--1500562 Score: 219
Period size: 61 Copynumber: 2.2 Consensus size: 60
1500422 TTGAAATCGC
1500432 GTTGCGATAG-TGAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTAAA
1 GTTGCGATAGTTGAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTAAA
***
1500491 GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTCGC
1 GTTGCGATAGTTG-AAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTAAA
1500552 GTTGCGATAGT
1 GTTGCGATAGT
1500563 CTACAGTTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 10 0.15
60 2 0.03
61 55 0.82
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (60 bp):
GTTGCGATAGTTGAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTAAA
Found at i:1500536 original size:41 final size:40
Alignment explanation
Indices: 1500405--1500539 Score: 112
Period size: 41 Copynumber: 3.4 Consensus size: 40
1500395 CCACTACGCA
** *
1500405 AATTCGCGTTGCGATAATTGAAATCGCGTTGCGATAGT-G
1 AATTCGCGTTGCGATAATTGAAATCGCGTTGCGATTTTCC
* * * **
1500444 AAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTCC
1 AATTCGCGTTGCGATAATT-GAAATCGCGTTGCGATTTTCC
* *** *
1500484 AGTTAAAGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
1 AATTCGCGTTGCGATAATTG-AAATCGCGTTGCGATTTTCC
*
1500525 ATTTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
1500540 TTTCCAGTTC
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 2 0.03
39 28 0.39
40 10 0.14
41 31 0.44
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
AATTCGCGTTGCGATAATTGAAATCGCGTTGCGATTTTCC
Found at i:1500542 original size:81 final size:79
Alignment explanation
Indices: 1500412--1500559 Score: 215
Period size: 81 Copynumber: 1.8 Consensus size: 79
1500402 GCAAATTCGC
* *
1500412 GTTGCGATAATTGAAATCGCGTTGCGATAGTGAAATCGCGTTGCGATTTTCCATTTCGCGTTGCG
1 GTTGCGATAATTGAAATCGCGTTGCGATAGTCAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCG
1500477 ATTTTCCAGTTAAA
66 ATTTTCCAGTTAAA
* ** **
1500491 GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTCGCGTTG
1 GTTGCGATAATTG-AAATCGCGTTGCGATAGT-CAAATCGCGTTGCGATTTTCCAGTTCGCGTTG
1500556 CGAT
64 CGAT
1500560 AGTCTACAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 12 0.20
80 16 0.27
81 32 0.53
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (79 bp):
GTTGCGATAATTGAAATCGCGTTGCGATAGTCAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCG
ATTTTCCAGTTAAA
Found at i:1500576 original size:22 final size:22
Alignment explanation
Indices: 1500551--1500622 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
1500541 TTCCAGTTCG
1500551 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
1500573 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
1500592 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
1500614 CGTTGCGAT
1 CGTTGCGAT
1500623 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:1500596 original size:19 final size:19
Alignment explanation
Indices: 1500572--1500640 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
1500562 TCTACAGTTG
1500572 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
1500591 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
1500612 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
1500632 TCGTTGCGA
1 TCGTTGCGA
1500641 AAATCGCGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 19 0.49
20 5 0.13
21 5 0.13
22 10 0.26
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:1500606 original size:41 final size:41
Alignment explanation
Indices: 1500531--1500906 Score: 309
Period size: 41 Copynumber: 9.2 Consensus size: 41
1500521 TTCCATTTCG
*
1500531 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
1500573 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
1500614 CGTTGCGATTTTCCAAATTCGTTGCGA-A----A-A-TCG-
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
* * * **
1500647 CGTTGCGATTTTCC-ATTTCGCGTTGCGAT--TTTCCAGTTCA
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
* ** *
1500687 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT-TTTCCAAAT-TCGTTGCGATAGTCTACAGTTGT
* *
1500730 CGTTGCGATTTTCCAAATTTGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
* * * *
1500771 CGTTGCGATTTTCCAAATTCAAAATTTGTTTCGAT--TTTCCATTTCG-
1 CGTTGCGATTTTCCAAATTC-------GTTGCGATAGTCTACAGTT-GT
* * *
1500817 CGTTGCGATTTTCC-ATTTCGCATTGCGATAGTGTACA-ATGT
1 CGTTGCGATTTTCCAAATTCG--TTGCGATAGTCTACAGTTGT
1500858 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1500899 CGTTGCGA
1 CGTTGCGA
1500907 AAGTCTACAG
Statistics
Matches: 269, Mismatches: 35, Indels: 61
0.74 0.10 0.17
Matches are distributed among these distances:
32 3 0.01
33 14 0.05
34 10 0.04
35 1 0.00
36 1 0.00
38 2 0.01
39 1 0.00
40 31 0.12
41 125 0.46
42 31 0.12
43 19 0.07
45 4 0.01
46 20 0.07
48 7 0.03
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:1500660 original size:116 final size:116
Alignment explanation
Indices: 1500528--1500756 Score: 336
Period size: 116 Copynumber: 2.0 Consensus size: 116
1500518 ATTTTCCATT
** * *
1500528 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAAT-
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT--TCTACAGTTCACGTTGCGATAGTTCAAAATC
*
1500591 TCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
64 GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
* * * *
1500644 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTCACGTTGCGATAGTTGAAAATCGC
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTCTACAGTTCACGTTGCGATAGTTCAAAATCGC
*
1500709 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTTGTTGCGA
66 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGA
1500757 TAGTCTACAG
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
114 16 0.16
115 6 0.06
116 79 0.78
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (116 bp):
TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTCTACAGTTCACGTTGCGATAGTTCAAAATCGC
GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
Found at i:1500723 original size:157 final size:150
Alignment explanation
Indices: 1500508--1500848 Score: 495
Period size: 157 Copynumber: 2.2 Consensus size: 150
1500498 TAGTTGAAAA
* * **
1500508 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTCCAGTTCGCGTTGCGATAGTCTACAGTTG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTCTACAGTTG
*
1500572 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTT
66 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAA----TT
1500637 GCGAAAATCGCGTTGCGATTTTCCATT
127 -C-AAAAT-GCGTTGCGATTTTCCATT
* * *
1500664 TCGCGTTGCGATTTTCCAGTTCACGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTCTACAGTTG
*
1500729 TCGTTGCGATTTTCCAAATTTGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCAAA
66 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCAAA
** *
1500794 ATTTGTTTCGATTTTCCATT
131 ATGCGTTGCGATTTTCCATT
*
1500814 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1500849 GTACAATGTC
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
150 47 0.28
151 5 0.03
152 1 0.01
153 2 0.01
156 30 0.18
157 84 0.50
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (150 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTCTACAGTTG
TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCAAA
ATGCGTTGCGATTTTCCATT
Found at i:1500736 original size:22 final size:21
Alignment explanation
Indices: 1500708--1500779 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
1500698 TTGAAAATCG
1500708 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTT-T
** * *
1500730 CGTTGCGATTTTCCA-AATTT
1 CGTTGCGATAGTCTACAGTTT
1500750 -GTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTACAGTT-T
1500771 CGTTGCGAT
1 CGTTGCGAT
1500780 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 4 0.10
22 20 0.51
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTTT
Found at i:1500755 original size:19 final size:21
Alignment explanation
Indices: 1500729--1500789 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
1500719 TCTACAGTTG
1500729 TCGTTGCGATTTTCCAAATT-
1 TCGTTGCGATTTTCCAAATTA
** * *
1500749 T-GTTGCGATAGTCTACAGTTA
1 TCGTTGCGATTTTCCA-AATTA
1500770 TCGTTGCGATTTTCCAAATT
1 TCGTTGCGATTTTCCAAATT
1500790 CAAAATTTGT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
19 11 0.37
20 4 0.13
21 4 0.13
22 11 0.37
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
TCGTTGCGATTTTCCAAATTA
Found at i:1500827 original size:20 final size:20
Alignment explanation
Indices: 1500802--1500845 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1500792 AAATTTGTTT
*
1500802 CGATTTTCCATTTCGCGTTG
1 CGATTTTCCATTTCGCATTG
1500822 CGATTTTCCATTTCGCATTG
1 CGATTTTCCATTTCGCATTG
1500842 CGAT
1 CGAT
1500846 AGTGTACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
CGATTTTCCATTTCGCATTG
Found at i:1500904 original size:22 final size:22
Alignment explanation
Indices: 1500876--1500932 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1500866 TTTTCCAAAT
1500876 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
*
1500898 TCGTTGCGAAAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
1500920 TCGTTGCGATAGT
1 TCGTTGCGATAGT
1500933 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:1500905 original size:150 final size:154
Alignment explanation
Indices: 1500508--1500929 Score: 425
Period size: 150 Copynumber: 2.8 Consensus size: 154
1500498 TAGTTGAAAA
* * * * ** ** **
1500508 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTCCAGTTCGCGTTGCGATAGTCTACAGTTG
1 TCGCGTTGCGATTTTCCAGTTCACATTGCGATAGTTGAAAATCGCGTTGCGATA-TCTACAAATG
**
1500572 TCGTTGCGATTTTCCAAA-TTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGT
65 TCGTTGCGATAGTCCAAATTTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAA-T--T
1500636 TGCGAAAATCGCGTTGCGATTTTCCATT
127 TGCGAAAATCGCGTTGCGATTTTCCATT
* **
1500664 TCGCGTTGCGATTTTCCAGTTCACGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTG
1 TCGCGTTGCGATTTTCCAGTTCACATTGCGATAGTTGAAAATCGCGTTGCGATA-TCTACAAATG
** *
1500729 TCGTTGCGATTTTCCAAATTT-GTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAA-TT-C
65 TCGTTGCGATAGTCCAAATTTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTTGC
** *
1500791 -AAAAT-TTGTTTCGATTTTCCATT
130 GAAAATCGCGTTGCGATTTTCCATT
* * * * *
1500814 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAG-TGTACAAT-GTCGTTGCGAT-TTTCCAAAT
1 TCGCGTTGCGATTTTCCAGTTCACATTGCGATAGTTG-AAAATCG-CGTTGCGATATCTACAAAT
* * *
1500876 -TCGTTGCGATAGTCTACAGTTGTCGTTGCGAAAGTCTACAGTTGTCGTTGCGAT
64 GTCGTTGCGATAGTCCA-AATT-TCGTTGCGATAGTCTACAGTTGTCGTTGCGAT
1500930 AGTTAAAAAA
Statistics
Matches: 234, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
147 13 0.06
148 8 0.03
149 4 0.02
150 87 0.37
151 5 0.02
152 1 0.00
153 2 0.01
156 30 0.13
157 82 0.35
158 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (154 bp):
TCGCGTTGCGATTTTCCAGTTCACATTGCGATAGTTGAAAATCGCGTTGCGATATCTACAAATGT
CGTTGCGATAGTCCAAATTTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTTGCG
AAAATCGCGTTGCGATTTTCCATT
Found at i:1501534 original size:5 final size:5
Alignment explanation
Indices: 1501520--1501569 Score: 70
Period size: 5 Copynumber: 10.6 Consensus size: 5
1501510 CCGTCGCCGC
*
1501520 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CG--T CGTCT CGTCT CGTGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1501567 CGT
1 CGT
1501570 GGTCGTGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
3 3 0.07
4 4 0.10
5 35 0.83
ACGTcount: A:0.00, C:0.38, G:0.24, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:1501576 original size:6 final size:6
Alignment explanation
Indices: 1501561--1501620 Score: 113
Period size: 6 Copynumber: 10.2 Consensus size: 6
1501551 TCGTCTCGTC
1501561 TCGT-G TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1501608 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
1501621 AATACGTGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.07
6 50 0.93
ACGTcount: A:0.00, C:0.17, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1501728 original size:22 final size:22
Alignment explanation
Indices: 1501696--1501789 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
1501686 TTTTTTTTTA
1501696 ACTATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
*
1501718 ACTTTCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
* * *
1501740 ACTATAGCAACG--AA-TTTGG
1 ACTATCGCAACGACAACTGTAG
** *
1501759 AAAATCGCAACGAC-ATTGTAG
1 ACTATCGCAACGACAACTGTAG
1501780 ACTATCGCAA
1 ACTATCGCAA
1501790 TGCGAAATGG
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 12 0.21
20 3 0.05
21 11 0.19
22 31 0.54
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAG
Found at i:1501801 original size:41 final size:41
Alignment explanation
Indices: 1501722--1501852 Score: 153
Period size: 41 Copynumber: 3.2 Consensus size: 41
1501712 CTGTAGACTT
* * *
1501722 TCGCAACGACAACTGTAGACTATAGCAA-CGAATTTGGAAAA
1 TCGCAACGACAATTGTAGACTATCGCAAGCGAA-ATGGAAAA
1501763 TCGCAACGAC-ATTGTAGACTATCGCAATGCGAAATGGAAAA
1 TCGCAACGACAATTGTAGACTATCGCAA-GCGAAATGGAAAA
* *
1501804 TCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATGGAAAA
1 TCGCAACGACAATTGT-AGACTATCGCAA-GCGAAATGGAAAA
1501845 TCGCAACG
1 TCGCAACG
1501853 CGATTTCCAA
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
40 16 0.20
41 60 0.74
42 5 0.06
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (41 bp):
TCGCAACGACAATTGTAGACTATCGCAAGCGAAATGGAAAA
Found at i:1501808 original size:20 final size:20
Alignment explanation
Indices: 1501783--1501855 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1501773 ATTGTAGACT
*
1501783 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1501803 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1501824 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1501844 ATCGCAACGCGA
1 ATCGCAACGCGA
1501856 TTTCCAACTA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1501853 original size:41 final size:41
Alignment explanation
Indices: 1501756--1501880 Score: 191
Period size: 41 Copynumber: 3.0 Consensus size: 41
1501746 GCAACGAATT
* *
1501756 TGGAAAATCGCAACGAC-ATTGT-AGACTATCGCAATGCGAAA
1 TGGAAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAA
1501797 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
*
1501838 TGGAAAATCGCAACGCGATTTCCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1501879 TG
1 TG
1501881 CAACGCGAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.01
41 77 0.97
42 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
Found at i:1501884 original size:21 final size:21
Alignment explanation
Indices: 1501780--1501884 Score: 97
Period size: 21 Copynumber: 5.1 Consensus size: 21
1501770 GACATTGTAG
* *
1501780 ACTATCGCAATGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
1501801 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
1501821 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
1501842 A-AATCGCAACGCGATTTCCA
1 ACTATCGCAACGCGAAATGCA
1501862 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
1501883 AC
1 AC
1501885 GCGAATTTGC
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 29 0.47
21 33 0.53
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:1513200 original size:11 final size:11
Alignment explanation
Indices: 1513184--1513208 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1513174 AAACTTCCCT
1513184 GGCACGGGGAC
1 GGCACGGGGAC
1513195 GGCACGGGGAC
1 GGCACGGGGAC
1513206 GGC
1 GGC
1513209 CAGGATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.56, T:0.00
Consensus pattern (11 bp):
GGCACGGGGAC
Found at i:1513870 original size:29 final size:29
Alignment explanation
Indices: 1513837--1513955 Score: 238
Period size: 29 Copynumber: 4.1 Consensus size: 29
1513827 TCTACAGTGG
1513837 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1513866 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1513895 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1513924 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1513953 CCT
1 CCT
1513956 GTGTGTATTA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.13, C:0.32, G:0.37, T:0.18
Consensus pattern (29 bp):
CCTTGGAGGTCGCCATGGCATCCGGGCGA
Found at i:1514000 original size:18 final size:18
Alignment explanation
Indices: 1513977--1514017 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1513967 AGAATAGGGC
1513977 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
1513995 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
1514013 -ATGCA
1 CATGCA
1514018 TGGGGGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:1514091 original size:15 final size:15
Alignment explanation
Indices: 1514051--1514178 Score: 123
Period size: 15 Copynumber: 8.1 Consensus size: 15
1514041 AACATGGGAC
1514051 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
1514067 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
1514082 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* *
1514097 G-GAGGGATCAACATGGG
1 GTG-GGAAT--GCATGGG
1514114 ATGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
* *
1514131 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
1514146 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
1514163 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
1514178 G
1 G
1514179 GAAGGGATGG
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.01
15 50 0.54
16 10 0.11
17 25 0.27
19 5 0.05
20 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.17
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:1514113 original size:65 final size:65
Alignment explanation
Indices: 1514038--1514163 Score: 218
Period size: 65 Copynumber: 1.9 Consensus size: 65
1514028 GATGCATGCA
1514038 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGG-GTGGGAATGCATGGGGGAGG
1 ATCAACATGGGACGTGGGAATGCAT-GGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGGAGG
1514102 G
65 G
*
1514103 ATCAACATGGGATGTGGGAATGCATGGGGAGGGGATGCATGGGACGTGGGAATGCATGGGG
1 ATCAACATGGGACGTGGGAATGCATGGGGAGGGGATGCATGGGA-GTGGGAATGCATGGGG
1514164 TGGGAATGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
64 18 0.31
65 24 0.41
66 16 0.28
ACGTcount: A:0.24, C:0.10, G:0.50, T:0.17
Consensus pattern (65 bp):
ATCAACATGGGACGTGGGAATGCATGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGGAGGG
Found at i:1514144 original size:32 final size:32
Alignment explanation
Indices: 1514043--1514177 Score: 177
Period size: 32 Copynumber: 4.2 Consensus size: 32
1514033 ATGCAATCAA
1514043 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCAT-GGGGAGGGGATG
*
1514076 CATGGG--GTGGGAATGCATGGGG-GAGGGATCAA
1 CATGGGACGTGGGAATGCATGGGGAG-GGGAT--G
*
1514108 CATGGGATGTGGGAATGCATGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGAGGGGATG
* *
1514140 CATGGGACGTGGGAATGCATGGGGTGGGAATG
1 CATGGGACGTGGGAATGCATGGGGAGGGGATG
1514172 CATGGG
1 CATGGG
1514178 GGAAGGGATG
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.01
30 9 0.10
31 12 0.13
32 41 0.45
33 6 0.07
34 21 0.23
35 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.52, T:0.17
Consensus pattern (32 bp):
CATGGGACGTGGGAATGCATGGGGAGGGGATG
Found at i:1514691 original size:21 final size:21
Alignment explanation
Indices: 1514643--1514691 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1514633 ACTAAAATCT
*
1514643 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTAAGTATA
* *
1514665 AATTATTAGTTTGTAAGTTTA
1 AGTTATTAGTTTGTAAGTATA
1514686 AGTTAT
1 AGTTAT
1514692 ATTATATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
AGTTATTAGTTTGTAAGTATA
Found at i:1514701 original size:28 final size:30
Alignment explanation
Indices: 1514668--1514730 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
1514658 TAGTATAAAT
*
1514668 TATTAGTTTGTAAGTTTAAG-T-TATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
*
1514696 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
1514726 TATTA
1 TATTA
1514731 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (30 bp):
TATTAGTTTATAAGTTTAAGTTATATATTA
Found at i:1515237 original size:15 final size:15
Alignment explanation
Indices: 1515217--1515270 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
1515207 TAATTTCCGT
1515217 TTTAAAAATATTGTG
1 TTTAAAAATATTGTG
*
1515232 TTTAAAATATTAGTGTTG
1 TTTAAAA-A-TATTG-TG
*
1515250 TTTTAAAAATATTTTG
1 -TTTAAAAATATTGTG
1515266 TTTAA
1 TTTAA
1515271 TTTACATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 12 0.38
16 3 0.09
17 7 0.22
18 3 0.09
19 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (15 bp):
TTTAAAAATATTGTG
Found at i:1515556 original size:26 final size:25
Alignment explanation
Indices: 1515527--1515585 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1515517 AAATCATATT
*
1515527 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1515553 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1515579 ATTATTA
1 ATTATTA
1515586 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1515585 original size:58 final size:57
Alignment explanation
Indices: 1515474--1515585 Score: 129
Period size: 58 Copynumber: 1.9 Consensus size: 57
1515464 GTATCAAATC
* * *
1515474 TAAATCATTAAATATTAATAAATAATTATTAGTGATTATGACTAAATCATATTATTAT
1 TAAATCATTAAATATAAATAAATAATTAATAGTAATTAT-ACTAAATCATATTATTAT
* *
1515532 TAAATCATTAAATATCAAATCATTAGATTAATAGTAATTAT-C-AAATCATTATTA
1 TAAATCATTAAATAT-AAATAAATA-ATTAATAGTAATTATACTAAATCA-TATTA
1515586 GGTTTATTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
57 6 0.13
58 21 0.46
59 6 0.13
60 13 0.28
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (57 bp):
TAAATCATTAAATATAAATAAATAATTAATAGTAATTATACTAAATCATATTATTAT
Found at i:1518429 original size:11 final size:11
Alignment explanation
Indices: 1518395--1518654 Score: 77
Period size: 11 Copynumber: 21.5 Consensus size: 11
1518385 ATTTCTATGT
* *
1518395 ATTTATTAATC
1 ATTTAATAATG
1518406 ATTATAA-AATG
1 ATT-TAATAATG
1518417 ATTTAATAATG
1 ATTTAATAATG
1518428 ATTT-A-AAT-
1 ATTTAATAATG
1518436 ATTTAATGATTTGATG
1 ATTTAAT-A----ATG
*
1518452 ATTTAGTAATG
1 ATTTAATAATG
* *
1518463 ATTTGATAATA
1 ATTTAATAATG
1518474 ATCATT-ATAGTATG
1 AT--TTAATA--ATG
*
1518488 ATTTGATAATAATC
1 A-TT--TAATAATG
1518502 ATTATAATAATG
1 ATT-TAATAATG
1518514 ATTTAATAATG
1 ATTTAATAATG
1518525 ATTT-A-AAT-
1 ATTTAATAATG
1518533 ATTTAATGATTTGATG
1 ATTTAAT-A----ATG
*
1518549 ATTTAGTAATG
1 ATTTAATAATG
*
1518560 ATTTGATAATAATC
1 A-TT--TAATAATG
*
1518574 ATTATAGTAATG
1 ATT-TAATAATG
*
1518586 ATTTGATAATAATC
1 A-TT--TAATAATG
1518600 ATTATAATAATG
1 ATT-TAATAATG
*
1518612 ATTTAGTAATAATC
1 A-TT--TAATAATG
*
1518626 ATTATAAAAATG
1 ATT-TAATAATG
1518638 ATTTAATAATG
1 ATTTAATAATG
1518649 ATTTAA
1 ATTTAA
1518655 ATATTTAATG
Statistics
Matches: 193, Mismatches: 23, Indels: 66
0.68 0.08 0.23
Matches are distributed among these distances:
8 8 0.04
9 8 0.04
10 5 0.03
11 61 0.32
12 44 0.23
13 15 0.08
14 29 0.15
15 8 0.04
16 15 0.08
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:1518484 original size:26 final size:26
Alignment explanation
Indices: 1518455--1518730 Score: 212
Period size: 26 Copynumber: 11.2 Consensus size: 26
1518445 TTTGATGATT
1518455 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1518481 TAGT-ATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
1518506 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1518528 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1518552 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1518578 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1518604 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1518630 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1518652 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1518676 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1518702 TAATAATTATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
1518727 TAGT
1 TAGT
1518731 TATTATTTAG
Statistics
Matches: 208, Mismatches: 22, Indels: 41
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.01
20 10 0.05
22 6 0.03
23 22 0.11
24 18 0.09
25 44 0.21
26 94 0.45
27 12 0.06
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1518566 original size:97 final size:98
Alignment explanation
Indices: 1518401--1518621 Score: 419
Period size: 97 Copynumber: 2.3 Consensus size: 98
1518391 ATGTATTTAT
1518401 TAATCATTATAA-AATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1518465 TTGATAATAATCATTATAGT-ATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
1518497 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1518562 TTGATAATAATCATTATAGTAATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
*
1518595 TAATCATTATAATAATGATTTAGTAAT
1 TAATCATTATAATAATGATTTAATAAT
1518622 AATCATTATA
Statistics
Matches: 122, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
96 12 0.10
97 72 0.59
98 38 0.31
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (98 bp):
TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAA
Found at i:1518630 original size:124 final size:123
Alignment explanation
Indices: 1518455--1518722 Score: 466
Period size: 124 Copynumber: 2.2 Consensus size: 123
1518445 TTTGATGATT
* *
1518455 TAGTAATGATTTGATAATAATCATTATAGTATGATTTGATAATAATCATTATAATAATGATTTAA
1 TAGTAATGATTTGATAATAATCATTATAATATGATTTGATAATAATCATTATAAAAATGATTTAA
1518520 TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
66 TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
1518578 TAGTAATGATTTGATAATAATCATTATAATAATGATTT-AGTAATAATCATTATAAAAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAAT-ATGATTTGA-TAATAATCATTATAAAAATGATTT
1518642 AATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
64 AATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
* * *
1518702 TAATAATTATTTTATAATAAT
1 TAGTAATGATTTGATAATAAT
1518723 TATTTAGTTA
Statistics
Matches: 138, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
123 30 0.22
124 108 0.78
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (123 bp):
TAGTAATGATTTGATAATAATCATTATAATATGATTTGATAATAATCATTATAAAAATGATTTAA
TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
Found at i:1518733 original size:17 final size:14
Alignment explanation
Indices: 1518699--1518727 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1518689 ATAATAATCA
1518699 TTATAATAATTATT
1 TTATAATAATTATT
1518713 TTATAATAATTATT
1 TTATAATAATTATT
1518727 T
1 T
1518728 AGTTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATAATTATT
Found at i:1518955 original size:17 final size:17
Alignment explanation
Indices: 1518930--1518962 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1518920 ACTAAATATC
*
1518930 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1518947 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1518963 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1521406 original size:47 final size:47
Alignment explanation
Indices: 1521303--1521393 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
1521293 CAACAAACAA
1521303 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAAC-TAACTATTTAACTAACACAAACTAATTAAATAATTTTTTT
* *
1521351 ATATAACTAACTA-TTAAC-AATACAAACTAATT-AATTATTTTTT
1 ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT
1521394 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 10 0.24
45 13 0.32
46 5 0.12
47 6 0.15
48 7 0.17
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (47 bp):
ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTT
Found at i:1521462 original size:41 final size:40
Alignment explanation
Indices: 1521324--1521462 Score: 111
Period size: 41 Copynumber: 3.3 Consensus size: 40
1521314 CTATTTAACT
* * *
1521324 AACACAAACTAATTAAATAATTTTTTTA-TATAACTAACTATT
1 AACATAAACTAATTAAAT-ATTTTTTAACTAT-A-TAACTATA
*
1521366 AACAATACAAACTAATTAATTATTTTTTAACTATATAACTATCA
1 AAC-AT--AAACTAATTAAATATTTTTTAACTATATAACTAT-A
* * *
1521410 AACATATACTAATTAAATATTTTTTAATTTATGTATACTAT-
1 AACATAAACTAATTAAATATTTTTTAA-CTATATA-ACTATA
*
1521451 AACTTAAACTAA
1 AACATAAACTAA
1521463 CAATCATATA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
41 30 0.38
42 8 0.10
43 15 0.19
44 12 0.15
45 15 0.19
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (40 bp):
AACATAAACTAATTAAATATTTTTTAACTATATAACTATA
Found at i:1521630 original size:4 final size:4
Alignment explanation
Indices: 1521618--1521659 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
1521608 TCCTTTCTCC
**
1521618 CTTT C-TT CTTT CTTT CTTT CCTTT CTCC CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CT
1521660 CGGCTGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:1521651 original size:21 final size:20
Alignment explanation
Indices: 1521617--1521658 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
1521607 TTCCTTTCTC
*
1521617 CCTTTCTTCTTTCTTTCTTT
1 CCTTTCTCCTTTCTTTCTTT
1521637 CCTTTCTCCCTTTCTTTCTTT
1 CCTTTCT-CCTTTCTTTCTTT
1521658 C
1 C
1521659 TCGGCTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
CCTTTCTCCTTTCTTTCTTT
Found at i:1521749 original size:25 final size:25
Alignment explanation
Indices: 1521721--1521772 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1521711 TTTCTTTTAT
*
1521721 AACCGGCTGCCTCAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
*
1521746 AACCGACTGCCTTAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
1521771 AA
1 AA
1521773 TAATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (25 bp):
AACCGACTGCCTCAATTATTTCACC
Found at i:1521920 original size:23 final size:23
Alignment explanation
Indices: 1521893--1521939 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1521883 GAATCTATAT
1521893 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
1521916 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
1521939 G
1 G
1521940 AATGGACGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.26
Consensus pattern (23 bp):
GGCTGCATGTGAATGGATGATGG
Found at i:1521944 original size:13 final size:13
Alignment explanation
Indices: 1521926--1521957 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1521916 GGCTGCATGT
*
1521926 GAATGGATGATGG
1 GAATGGACGATGG
1521939 GAATGGACGATGG
1 GAATGGACGATGG
1521952 GAATGG
1 GAATGG
1521958 CGCCGGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (13 bp):
GAATGGACGATGG
Found at i:1521991 original size:29 final size:29
Alignment explanation
Indices: 1521958--1522066 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
1521948 ATGGGAATGG
*
1521958 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
1521987 CGCCGGGAGTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1522016 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
1522045 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
1522067 CTCTATTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 72 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:1522125 original size:41 final size:41
Alignment explanation
Indices: 1522078--1522209 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
1522068 TCTATTCCAC
1522078 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
** *** * *
1522119 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTAT---TC-CA
1 TGCATGGCCACCTCGCATGGCTCG--C-A-CTC-GTATGGCTCGTA
1522161 CTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 -TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1522203 TGCATGG
1 TGCATGG
1522210 GGAGAACCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 1 0.01
41 29 0.43
42 2 0.03
43 22 0.33
44 1 0.01
45 3 0.04
46 3 0.04
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
Found at i:1522234 original size:35 final size:35
Alignment explanation
Indices: 1522188--1522371 Score: 164
Period size: 35 Copynumber: 5.2 Consensus size: 35
1522178 ATGGCTCGCA
1522188 CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
**
1522223 CTCGTATGGCTCGTATGCATGGGGAGAACC-TCCT
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
* ** *** *
1522257 CTC-TAT---TC-CACTGCATGGCCACCTCGCATGGCTCGCA
1 CTCGTATGGCTCGTA-TGCATGGGGAGAAC-CA----TCG-G
*
1522294 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
*
1522329 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
1522364 CTCGTATG
1 CTCGTATG
1522372 CATGGGGAGA
Statistics
Matches: 118, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
29 1 0.01
30 11 0.09
31 1 0.01
33 3 0.03
34 5 0.04
35 73 0.62
36 4 0.03
37 3 0.03
38 3 0.03
40 2 0.02
41 11 0.09
42 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (35 bp):
CTCGTATGGCTCGTATGCATGGGGAGAACCATCGG
Found at i:1522258 original size:106 final size:106
Alignment explanation
Indices: 1522133--1522359 Score: 427
Period size: 106 Copynumber: 2.1 Consensus size: 106
1522123 TGGGGACCTC
*
1522133 GCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGC
1 GCATGGGGAGAACCACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGC
1522198 TCGTATGCATGGGGAGAACCATCGGCTCGTATGGCTCGTAT
66 TCGTATGCATGGGGAGAACCATCGGCTCGTATGGCTCGTAT
*
1522239 GCATGGGGAGAACCTCCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGC
1 GCATGGGGAGAACCACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGC
*
1522304 TCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
66 TCGTATGCATGGGGAGAACCATCGGCTCGTATGGCTCGTAT
1522345 GCATGGGGAGAACCA
1 GCATGGGGAGAACCA
1522360 TTGGCTCGTA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 117 1.00
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.23
Consensus pattern (106 bp):
GCATGGGGAGAACCACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGC
TCGTATGCATGGGGAGAACCATCGGCTCGTATGGCTCGTAT
Found at i:1522371 original size:26 final size:26
Alignment explanation
Indices: 1522335--1522384 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
1522325 TTGGCTCGTA
1522335 TGGCTCGTATGCATGGGGAGAACCAT
1 TGGCTCGTATGCATGGGGAGAACCAT
1522361 TGGCTCGTATGCATGGGGAGAACC
1 TGGCTCGTATGCATGGGGAGAACC
1522385 GTATGTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (26 bp):
TGGCTCGTATGCATGGGGAGAACCAT
Found at i:1522913 original size:75 final size:75
Alignment explanation
Indices: 1522769--1522963 Score: 237
Period size: 75 Copynumber: 2.6 Consensus size: 75
1522759 CGGCGTTTAA
* * * * *
1522769 TATTTTTCTATACTTAATATTATGGTTTCAGTCTTAAGATTTGACACTTTAATATTATGGTTTAA
1 TATTATTCTAAACTTAATATTATGGTTTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAA
1522834 TTATGGATTT
66 TTATGGATTT
* * * * * * * **
1522844 TATTATTTTAGAGTTAACATTATGGTTTGAATCTTGAGATTTGACATTTTAATATTGTGATTTGC
1 TATTATTCTAAACTTAATATTATGGTTTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAA
1522909 TTATGGATTT
66 TTATGGATTT
* * *
1522919 TATTGTTCTAAACTTAATATTGTGGTTTGAGTCTTGATATTTGAC
1 TATTATTCTAAACTTAATATTATGGTTTGAGTCTTGAGATTTGAC
1522964 TTTATTTATA
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
75 99 1.00
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (75 bp):
TATTATTCTAAACTTAATATTATGGTTTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAA
TTATGGATTT
Found at i:1523007 original size:18 final size:19
Alignment explanation
Indices: 1522965--1523008 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1522955 ATATTTGACT
* *
1522965 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
1522984 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
1523003 TTATTT
1 TTATTT
1523009 TATATGACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:1524293 original size:31 final size:32
Alignment explanation
Indices: 1524219--1524305 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
1524209 AAAAGTTTAG
* * * *
1524219 GTACTAAAATGAAATAAAAATTTAACAAAGGG
1 GTACTAAAATGAAACAAAAAATTAACAAACGA
*
1524251 GTACTAAAATGAAACAAAAAATTAAC-GACGA
1 GTACTAAAATGAAACAAAAAATTAACAAACGA
* *
1524282 GTATTAAAATGACAC-AAAAATTAA
1 GTACTAAAATGAAACAAAAAATTAA
1524306 ACTTTAAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 9 0.19
31 15 0.31
32 24 0.50
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (32 bp):
GTACTAAAATGAAACAAAAAATTAACAAACGA
Found at i:1525725 original size:2 final size:2
Alignment explanation
Indices: 1525718--1525774 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
1525708 ACTAAAATTT
*
1525718 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1525760 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1525775 TTCAACATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1528039 original size:24 final size:23
Alignment explanation
Indices: 1527924--1528052 Score: 156
Period size: 23 Copynumber: 5.7 Consensus size: 23
1527914 ATAAATTGCA
1527924 CCGAAGTG-CCACATA--TTTGTC
1 CCGAAG-GACCACATAGTTTTGTC
**
1527945 CCGAAGGACCACATAGGATTGTC
1 CCGAAGGACCACATAGTTTTGTC
**
1527968 CCGAAGGACCACATAGGATTGTC
1 CCGAAGGACCACATAGTTTTGTC
1527991 CCGAAGGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
* * *
1528014 CCGAATGACCGCATAGTTTTTTTC
1 CCGAAGGACCACATAG-TTTTGTC
1528038 CCGAAGGACCACATA
1 CCGAAGGACCACATA
1528053 AAACCCTCGA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
20 1 0.01
21 13 0.14
23 63 0.66
24 19 0.20
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (23 bp):
CCGAAGGACCACATAGTTTTGTC
Found at i:1534807 original size:23 final size:23
Alignment explanation
Indices: 1534754--1534829 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
1534744 GTGTGACATA
* * *
1534754 TTTGTCTCGAATGACCACACAGG
1 TTTGTCCCGAATGACCACATAGT
* *
1534777 ATTATCCC-AATGGACCACATAGT
1 TTTGTCCCGAAT-GACCACATAGT
1534800 TTTGTCCCGAATGACCACATAGT
1 TTTGTCCCGAATGACCACATAGT
1534823 TTTGTCC
1 TTTGTCC
1534830 GGGAGGACCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.07
23 38 0.86
24 3 0.07
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (23 bp):
TTTGTCCCGAATGACCACATAGT
Found at i:1534838 original size:23 final size:23
Alignment explanation
Indices: 1534788--1534844 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1534778 TTATCCCAAT
1534788 GGACCACATAGTTTTGTCCCGAA
1 GGACCACATAGTTTTGTCCCGAA
* * *
1534811 TGACCACATAGTTTTGTCCGGGA
1 GGACCACATAGTTTTGTCCCGAA
*
1534834 GGACCATATAG
1 GGACCACATAG
1534845 AACCCTCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (23 bp):
GGACCACATAGTTTTGTCCCGAA
Found at i:1574080 original size:30 final size:30
Alignment explanation
Indices: 1574028--1574087 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
1574018 ATACTTTGAA
1574028 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
1574057 TAAATTCAATTCAAGTTCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1574088 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1577298 original size:21 final size:20
Alignment explanation
Indices: 1577255--1577328 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
1577245 GCAGCCTTCG
*
1577255 TGCATAGATGCACAACATGA
1 TGCATCGATGCACAACATGA
*
1577275 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCACAA-CATGA
*
1577296 TGCATCGATGCACAGA-AGGA
1 TGCATCGATGCACA-ACATGA
*
1577316 TTCATCGATGCAC
1 TGCATCGATGCAC
1577329 TAATTGCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 28 0.60
21 18 0.38
22 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAACATGA
Found at i:1577408 original size:42 final size:42
Alignment explanation
Indices: 1577349--1577447 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
1577339 CGGTGTTTGA
*
1577349 GTGCATGGATGCACTGCA-TGATACATCGATGCACTAGT-GCAG
1 GTGCATGGATGCACTGCAGGGATACATCGATGCACT-GTAG-AG
* * *
1577391 GTGCATGGATGCACTGCAGGGATGCATGGATGCACTGTAGGG
1 GTGCATGGATGCACTGCAGGGATACATCGATGCACTGTAGAG
1577433 GTGCATGGATGCACT
1 GTGCATGGATGCACT
1577448 TTGACACCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 36 0.71
43 15 0.29
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
GTGCATGGATGCACTGCAGGGATACATCGATGCACTGTAGAG
Found at i:1577418 original size:21 final size:20
Alignment explanation
Indices: 1577350--1577447 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 20
1577340 GGTGTTTGAG
*
1577350 TGCATGGATGCACTGCATGA
1 TGCATGGATGCACTGCAGGA
* *
1577370 TACATCGATGCACTAGTGCAGG-
1 TGCATGGATGCAC---TGCAGGA
1577392 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCA-GGA
* *
1577413 TGCATGGATGCACTGTAGGGG
1 TGCATGGATGCACTGCA-GGA
1577434 TGCATGGATGCACT
1 TGCATGGATGCACT
1577448 TTGACACCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 33 0.50
22 11 0.17
23 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (20 bp):
TGCATGGATGCACTGCAGGA
Found at i:1577548 original size:29 final size:29
Alignment explanation
Indices: 1577527--1577584 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
1577517 AAACTTTGAA
1577527 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
1577556 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
1577585 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:1577574 original size:30 final size:30
Alignment explanation
Indices: 1577527--1577585 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
1577517 AAACTTTGAA
1577527 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
1577556 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
1577586 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1581443 original size:52 final size:52
Alignment explanation
Indices: 1581365--1581474 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
1581355 TTGACCAGAA
*
1581365 ATCTGTGCATAAGCCACAGTTGGATGAATATATTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAGCCACAGTTGGATGAATATATTGTCAAATGTTTTACAAAC
* *
1581417 ATCTGTGTAGAAGCCACAGTTGGATGAATGTATTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAGCCACAGTTGGATGAATATATTGTCAAATGTTTTACAAAC
1581469 ATCTGT
1 ATCTGT
1581475 TCATAAACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (52 bp):
ATCTGTGCAGAAGCCACAGTTGGATGAATATATTGTCAAATGTTTTACAAAC
Found at i:1581524 original size:54 final size:54
Alignment explanation
Indices: 1581388--1581576 Score: 175
Period size: 54 Copynumber: 3.5 Consensus size: 54
1581378 CCACAGTTGG
* * * * * ****
1581388 ATGAATATATTGTCAAATGTTTTACAAACATCTGTGTAGAAGCCACA-G-TTGG
1 ATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAAA
* ** * *
1581440 ATGAATGTATTGTCAAATGTTTTACAAACATCTGTTCATAAACCATAGGAAAAA
1 ATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAAA
** * * **
1581494 ATGAATGTGTTGTCAAATGTTTTATGAACATCTGGGCAGAAGCCACGGGAAAGG
1 ATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAAA
*
1581548 ATGAATGTGTTGTCAAATGTTCTACAAAC
1 ATGAATGTGTTGTCAAATGTTTTACAAAC
1581577 CAGTGATTAT
Statistics
Matches: 111, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
52 41 0.37
53 1 0.01
54 69 0.62
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (54 bp):
ATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAAA
Found at i:1581985 original size:20 final size:22
Alignment explanation
Indices: 1581940--1581996 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
1581930 ACATCTACAT
1581940 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1581962 TCTTCAAAGATTATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
1581984 TTTTTAAAGATGA
1 TCTTCAAAGATGA
1581997 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1582735 original size:45 final size:45
Alignment explanation
Indices: 1582666--1582880 Score: 259
Period size: 45 Copynumber: 4.8 Consensus size: 45
1582656 CTATTTCCCA
* *
1582666 CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCTTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCATTCGGGT
* * *
1582711 CATATGTAAGCCATTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCATTCGGGT
* *
1582756 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACATTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCATTCGGGT
* * * * * *
1582801 CATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCATTCGGGT
** * * * *
1582846 CATCCATAAGACCTACAGTGCAAGATGTTTACAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1582881 AACGCCTTCG
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCATTCGGGT
Found at i:1582824 original size:90 final size:90
Alignment explanation
Indices: 1582666--1582881 Score: 290
Period size: 90 Copynumber: 2.4 Consensus size: 90
1582656 CTATTTCCCA
* * * *
1582666 CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCTTTCGGGTCATATGTAAGCCATTCAGTG
1 CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGTCATATGTAAGCCATACAATG
* *
1582731 CATGATGTTTTCAAAGCCTTCGGGT
66 CATGATGTTTTCAAAACCTTCGCGT
* * *
1582756 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACATTCGGGTCATCTGTAAGACC-TACAAT
1 CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGTCATATGTAAG-CCATACAAT
1582820 GCATGATGTTTTCAAAACCTTCGCGT
65 GCATGATGTTTTCAAAACCTTCGCGT
* * * * *
1582846 CATCCATAAGACCTACAGTGCAAGATGTTTACAAAA
1 CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1582882 ACGCCTTCGG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
90 107 0.98
91 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (90 bp):
CATCCGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGTCATATGTAAGCCATACAATG
CATGATGTTTTCAAAACCTTCGCGT
Found at i:1582953 original size:45 final size:45
Alignment explanation
Indices: 1582900--1583048 Score: 199
Period size: 45 Copynumber: 3.3 Consensus size: 45
1582890 GGGAGCTTTT
* *
1582900 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1582945 TGATGTTTTCAAATCCTTCGGGTCATCTGTAAGCCCTTCAGAGCC
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** * *
1582990 TGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1583035 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1583049 AAGCCTTCGG
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1582995 original size:122 final size:122
Alignment explanation
Indices: 1582778--1583003 Score: 308
Period size: 122 Copynumber: 1.9 Consensus size: 122
1582768 CTTCAGTGTA
1582778 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
*
1582843 CGTCATCCATAAGACCTACAGTGCAAGATGTTTACAAAAACGCCTTCGGGAGCTTTT
66 CGTCATCCATAAGACCTACAGAGCAAGATGTTTACAAAAACGCCTTCGGGAGCTTTT
* * * * * * *
1582900 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
* ** * * ** *
1582965 GGTCATCTGTAAGCCCTTCAGAGCCTGATGTTTTCAAAA
66 CGTCATCCATAAGACCTACAGAGCAAGATGTTTACAAAA
1583004 CCTTCGGGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
122 88 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (122 bp):
TGATGTTTTCAAAACATTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
CGTCATCCATAAGACCTACAGAGCAAGATGTTTACAAAAACGCCTTCGGGAGCTTTT
Found at i:1583009 original size:167 final size:168
Alignment explanation
Indices: 1582733--1583215 Score: 718
Period size: 167 Copynumber: 2.9 Consensus size: 168
1582723 ATTCAGTGCA
* *
1582733 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACATTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
1582798 GGTCATCTGTAAGACCTACA-ATGCATGATGTTTTCAAAACCTTCGCGTCATCCATAAGACCTAC
66 GGTCATCTGTAAGCCCTTCAGA-GCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAC
* *
1582862 AGTGCAAGATGTTTACAAAAACGCCTTCGGGAGC-TTTT
130 AGTGCAAGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTT
* *
1582900 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* *
1582965 GGTCATCTGTAAGCCCTTCAGAGCCTGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
*
1583030 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTT
131 GTGCAAGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTT
* * * * *
1583068 TGATATTTTCAAAGCCTTCGGGTTATCTGCAAGCCCTTCAGTTCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * * ** *
1583133 AGTCATCTGTAATCCCTTCAGTGCATGATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTACA
66 GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
*
1583198 GTGCATGATGTTTTCAAA
131 GTGCAAGATGTTTTCAAA
1583216 GCCTTCGGGT
Statistics
Matches: 286, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
167 149 0.52
168 137 0.48
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (168 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
GTGCAAGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTT
Found at i:1583124 original size:45 final size:45
Alignment explanation
Indices: 1583068--1583305 Score: 359
Period size: 45 Copynumber: 5.3 Consensus size: 45
1583058 GGAGCTTTTT
* * * *
1583068 TGATATTTTCAAAGCCTTCGGGTTATCTGCAAGCCCTTCAGTTCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1583113 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAATCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1583158 TGATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1583203 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1583248 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1583293 GGATGTTTTCAAA
1 TGATGTTTTCAAA
1583306 AAGCCTTTAG
Statistics
Matches: 174, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Done.