Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009070.1 Hibiscus syriacus cultivar Beakdansim tig00112498_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: 2268343
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1645001 original size:27 final size:28
Alignment explanation
Indices: 1644944--1645001 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
1644934 CTTCAAATTA
*
1644944 TTTATTTGACCTAATTAAAAAATAACCC
1 TTTATTTGACCTAATTAAAAAATAACAC
*
1644972 TTTATTTGACC-ATTTAAAAAA-AACAAC
1 TTTATTTGACCTAATTAAAAAATAAC-AC
1644999 TTT
1 TTT
1645002 CATGTGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 13 0.48
28 11 0.41
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (28 bp):
TTTATTTGACCTAATTAAAAAATAACAC
Found at i:1645534 original size:13 final size:13
Alignment explanation
Indices: 1645516--1645554 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1645506 TCAAAGGATC
1645516 TAAATTTATAAAT
1 TAAATTTATAAAT
1645529 TAAATTTATAAAT
1 TAAATTTATAAAT
1645542 TAAATTTATAAAT
1 TAAATTTATAAAT
1645555 GACCATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTTATAAAT
Found at i:1654316 original size:30 final size:30
Alignment explanation
Indices: 1654246--1654305 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1654236 CAATTTAAGG
1654246 CAAAATGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
*
1654276 CAAAATGTTTTTGGATTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1654306 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1654411 original size:21 final size:21
Alignment explanation
Indices: 1654385--1654442 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
1654375 AGGGTGTCAA
1654385 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
1654406 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
1654427 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
1654443 TGCACTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:1654526 original size:21 final size:20
Alignment explanation
Indices: 1654500--1654539 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1654490 CAATTAGTGC
*
1654500 ATCGATATATCCTTGCCATGT
1 ATCGATACATCC-TGCCATGT
*
1654521 ATCGATGCATCCTGCCATG
1 ATCGATACATCCTGCCATG
1654540 CATCCATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGATACATCCTGCCATGT
Found at i:1654538 original size:20 final size:21
Alignment explanation
Indices: 1654508--1654551 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1654498 GCATCGATAT
* *
1654508 ATCCTTGCCATGTATCGATGC
1 ATCCTTGCCATGCATCCATGC
1654529 ATCC-TGCCATGCATCCATGC
1 ATCCTTGCCATGCATCCATGC
1654549 ATC
1 ATC
1654552 AAGGCTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (21 bp):
ATCCTTGCCATGCATCCATGC
Found at i:1654955 original size:34 final size:32
Alignment explanation
Indices: 1654916--1654985 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1654906 TTTTGTAAAG
*
1654916 GGGAAAGGTTCTAGCTAATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTAATCCCG-G-AAAAACTA
* *
1654950 GGGAAAGGTTCTAGTTTATCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTAATCCCGGAAAAACTA
1654982 GGGA
1 GGGA
1654986 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTAATCCCGGAAAAACTA
Found at i:1655853 original size:19 final size:20
Alignment explanation
Indices: 1655829--1655876 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1655819 AACGATTTTC
*
1655829 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1655848 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1655868 TTTTGAAAA
1 TTTTGAAAA
1655877 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1657049 original size:21 final size:21
Alignment explanation
Indices: 1657023--1657062 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1657013 CAACAATTGG
1657023 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
1657044 TAACAATTGATATCTTTTT
1 TAACAATTGATATCATTTT
1657063 CATTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:1657243 original size:30 final size:30
Alignment explanation
Indices: 1657172--1657231 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1657162 ACAATTTAAG
1657172 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
1657202 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
1657232 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:1657338 original size:21 final size:21
Alignment explanation
Indices: 1657312--1657366 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
1657302 AGGGTGTCAA
1657312 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
1657333 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
1657354 AGTGCATCCATGC
1 AGTGCATCCATGC
1657367 GCCTGCACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:1657473 original size:20 final size:21
Alignment explanation
Indices: 1657432--1657486 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
1657422 ATGCAATTAG
1657432 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
1657453 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
1657473 TGCATCCATGCATC
1 TGCATCGATGCATC
1657487 AAGGCTGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:1662479 original size:21 final size:21
Alignment explanation
Indices: 1662443--1662524 Score: 128
Period size: 21 Copynumber: 3.9 Consensus size: 21
1662433 TTGGTGCAGA
*
1662443 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-TGTAG
* *
1662465 GGGAACCGATTCCCCCTGTAG
1 GGGAATCGATACCCCCTGTAG
1662486 GGGAATCGATACCCCCTGTAG
1 GGGAATCGATACCCCCTGTAG
1662507 GGGAATCGATACCCCCTG
1 GGGAATCGATACCCCCTG
1662525 GTGTTCTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 41 0.75
22 14 0.25
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.18
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGTAG
Found at i:1662900 original size:10 final size:10
Alignment explanation
Indices: 1662885--1662914 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1662875 AAAACACAAG
1662885 AATTTTCAAA
1 AATTTTCAAA
1662895 AATTTT-AAA
1 AATTTTCAAA
1662904 AATTTTCAAA
1 AATTTTCAAA
1662914 A
1 A
1662915 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTTCAAA
Found at i:1664142 original size:21 final size:20
Alignment explanation
Indices: 1664112--1664151 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
1664102 AGGTTATTAT
1664112 TTTTAATTTAGTTCATAAAATC
1 TTTTAATTTA-TTC-TAAAATC
1664134 TTTT-ATTTATTCTAAAAT
1 TTTTAATTTATTCTAAAAT
1664152 TTATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 5 0.28
22 4 0.22
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTAATTTATTCTAAAATC
Found at i:1682804 original size:3 final size:3
Alignment explanation
Indices: 1682796--1682852 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
1682786 TATTTTTCAT
* *
1682796 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1682844 TTA TTA TTA
1 TTA TTA TTA
1682853 ATGCTGCTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1682863 original size:21 final size:21
Alignment explanation
Indices: 1682820--1682863 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1682810 ATTATTATTA
* * *
1682820 TTATTATTATTATTGTTATTG
1 TTATTATTATTAATGCTACTG
*
1682841 TTATTATTATTAATGCTGCTG
1 TTATTATTATTAATGCTACTG
1682862 TT
1 TT
1682864 GTTGTTGGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (21 bp):
TTATTATTATTAATGCTACTG
Found at i:1685086 original size:19 final size:19
Alignment explanation
Indices: 1685041--1685083 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1685031 ATTCTTTGAC
*
1685041 TCATTTATACTCTCATTAA
1 TCATTTATACTCCCATTAA
1685060 TCATTTATACTCCCATTAA
1 TCATTTATACTCCCATTAA
1685079 T-ATTT
1 TCATTT
1685084 TATCCTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTTATACTCCCATTAA
Found at i:1686054 original size:23 final size:22
Alignment explanation
Indices: 1686028--1686076 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
1686018 TTAATAGAAC
1686028 CATATTTAAAAATTACCTGC-TAT
1 CATATTT-AAAATTA-CTGCATAT
*
1686051 CATA-TTAAAATTATTGCATAT
1 CATATTTAAAATTACTGCATAT
1686072 CATAT
1 CATAT
1686077 GATATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 2 0.09
23 4 0.17
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (22 bp):
CATATTTAAAATTACTGCATAT
Found at i:1687382 original size:13 final size:13
Alignment explanation
Indices: 1687364--1687388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1687354 AAAGGAGGAG
1687364 AAGAAAAAGAAGA
1 AAGAAAAAGAAGA
1687377 AAGAAAAAGAAG
1 AAGAAAAAGAAG
1687389 TGAGGACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAGA
Found at i:1693248 original size:3 final size:3
Alignment explanation
Indices: 1693240--1693268 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1693230 AACTGGTTTG
1693240 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1693269 GGGTAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1694183 original size:2 final size:2
Alignment explanation
Indices: 1694178--1694207 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1694168 ATATGTATTC
1694178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1694208 GCAACAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1701920 original size:38 final size:38
Alignment explanation
Indices: 1701878--1701953 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
1701868 AACAGAATAG
*
1701878 TCATAAAGTAACTCCATTTAAGTAACTGAAGTATAAAT
1 TCATAAAGTAACTCCATTTAAGTAACTGAAGTAGAAAT
1701916 TCATAAAGTAACTCCATTTAAGTAACTGAAGTAGAAAT
1 TCATAAAGTAACTCCATTTAAGTAACTGAAGTAGAAAT
1701954 AATTAACAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (38 bp):
TCATAAAGTAACTCCATTTAAGTAACTGAAGTAGAAAT
Found at i:1707977 original size:22 final size:22
Alignment explanation
Indices: 1707960--1708026 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1707950 CTCGTATAAA
1707960 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1707982 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1708004 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1708026 T
1 T
1708027 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1708296 original size:30 final size:31
Alignment explanation
Indices: 1708246--1708304 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1708236 TAGACATAGT
*
1708246 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
* *
1708276 ATTTACATACTTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
1708305 GAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1708361 original size:29 final size:29
Alignment explanation
Indices: 1708319--1708390 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1708309 TTTTCTGCAT
**
1708319 ATTCATGTCATGTAATACATATAAGATGA
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1708348 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1708377 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1708391 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1708813 original size:67 final size:66
Alignment explanation
Indices: 1708696--1708846 Score: 205
Period size: 67 Copynumber: 2.3 Consensus size: 66
1708686 TTTTTCTCAT
* * *
1708696 GGGGGAATCGGTTCCCCCCCCTGGGGTATCGATTCCCCTTAAGCAATCTGGAATTCATATACGAT
1 GGGGGTATCGGTT-CCCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGAT
1708761 GA
65 GA
* * *
1708763 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCT-AGCATTCTGGAAATCATATTCGT
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCT-TAAGCAATCTGGAAATCATATACGA
1708827 TGA
64 TGA
*
1708830 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1708847 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 8 0.11
67 66 0.88
68 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGATG
A
Found at i:1708856 original size:21 final size:21
Alignment explanation
Indices: 1708826--1708868 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1708816 ATCATATTCG
* *
1708826 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1708847 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1708868 T
1 T
1708869 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1708857 original size:67 final size:66
Alignment explanation
Indices: 1708697--1708868 Score: 188
Period size: 67 Copynumber: 2.6 Consensus size: 66
1708687 TTTTCTCATG
* * *
1708697 GGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTTAAGCAATCTGGAATTCATATACGAT
1 GGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGAT
*
1708761 GAG
64 GAA
* * *
1708764 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCT-AGCATTCTGGAAATCATATTCGTT
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCT-TAAGCAATCTGGAAATCATATACGAT
1708828 GAA
64 GAA
* *
1708831 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1708869 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
65 6 0.07
66 8 0.09
67 77 0.84
68 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGATGA
A
Found at i:1714911 original size:22 final size:22
Alignment explanation
Indices: 1714894--1714960 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1714884 CTCGTATAAA
1714894 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1714916 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1714938 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1714960 T
1 T
1714961 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1715230 original size:30 final size:31
Alignment explanation
Indices: 1715180--1715238 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1715170 TAGACATAGT
*
1715180 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
* *
1715210 ATTTACATACTTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
1715239 GAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1715295 original size:29 final size:29
Alignment explanation
Indices: 1715253--1715324 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1715243 TTTTCTGCAT
**
1715253 ATTCATGTCATGTAATACATATAAGATGA
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1715282 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1715311 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1715325 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1715768 original size:67 final size:66
Alignment explanation
Indices: 1715631--1715802 Score: 197
Period size: 66 Copynumber: 2.6 Consensus size: 66
1715621 TTTTTCTCAT
* * *
1715631 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTTAAGCAATCTGGAATTCATATACGA
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGA
1715695 TGA
64 TGA
* * *
1715698 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCT-AGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCT-TAAGCAATCTGGAAATCATATACGAT
1715762 GA
65 GA
* * *
1715764 AGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1715803 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
65 13 0.14
66 50 0.54
67 29 0.32
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGATG
A
Found at i:1715790 original size:21 final size:21
Alignment explanation
Indices: 1715760--1715802 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1715750 ATCATATTCG
* *
1715760 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1715781 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1715802 T
1 T
1715803 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1718717 original size:23 final size:22
Alignment explanation
Indices: 1718691--1718754 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
1718681 CAGCTCATAT
1718691 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
1718714 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
*
1718737 AATTGTACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
1718755 TATAATAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:1718905 original size:103 final size:103
Alignment explanation
Indices: 1718774--1718987 Score: 392
Period size: 103 Copynumber: 2.1 Consensus size: 103
1718764 GTACATAAGG
* *
1718774 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCAACATATC
1 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCAACAGACC
1718839 TCACACCTATTCCAAAGAATACATATATGTCCCGAAGA
66 TCACACCTATTCCAAAGAATACATATATGTCCCGAAGA
1718877 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCAACAGACC
1 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCAACAGACC
* *
1718942 TCACACCTGTTCCAAAGAATACATATATGTCCCGAAGC
66 TCACACCTATTCCAAAGAATACATATATGTCCCGAAGA
1718980 ACCACATA
1 ACCACATA
1718988 GACCCTCTAC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCAACAGACC
TCACACCTATTCCAAAGAATACATATATGTCCCGAAGA
Found at i:1721334 original size:55 final size:56
Alignment explanation
Indices: 1721227--1721354 Score: 183
Period size: 55 Copynumber: 2.3 Consensus size: 56
1721217 CTGTGATTAT
1721227 CAAGAACAGACACATAC-ACAAACGAATAACTGCATACTTAAAAAAGGAAAAAAAA
1 CAAGAACAGACACATACGACAAACGAATAACTGCATACTTAAAAAAGGAAAAAAAA
* *
1721282 CAAGAACAGACACATACGA-AATTACGAATAACTGTATACTTAGAAAA-G-AAAAAAA
1 CAAGAACAGACACATACGACAA--ACGAATAACTGCATACTTAAAAAAGGAAAAAAAA
*
1721337 CAAGAACAAACACATACG
1 CAAGAACAGACACATACG
1721355 CACGAATTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
55 43 0.64
56 2 0.03
57 22 0.33
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (56 bp):
CAAGAACAGACACATACGACAAACGAATAACTGCATACTTAAAAAAGGAAAAAAAA
Found at i:1721840 original size:16 final size:17
Alignment explanation
Indices: 1721808--1721840 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1721798 ATTATTTAAA
*
1721808 TTAGTATAATGTAAATT
1 TTAGAATAATGTAAATT
1721825 TTAGAATAAT-TAAATT
1 TTAGAATAATGTAAATT
1721841 AGATTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
TTAGAATAATGTAAATT
Found at i:1722564 original size:23 final size:22
Alignment explanation
Indices: 1722538--1722582 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1722528 AATATATGAA
1722538 TAAA-CGCAAACAAGGCATGATAC
1 TAAATCGCAAAC-A-GCATGATAC
*
1722561 TAAATTGCAAACAGCATGATAC
1 TAAATCGCAAACAGCATGATAC
1722583 AGAGAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (22 bp):
TAAATCGCAAACAGCATGATAC
Found at i:1725602 original size:30 final size:29
Alignment explanation
Indices: 1725562--1725638 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
1725552 GTAATTGATT
1725562 TTTTGAAAAATAAATTATTAAAATTTAAA
1 TTTTGAAAAATAAATTATTAAAATTTAAA
* **
1725591 TTATT-ACAAAATAAATTACTGGAATTTAAA
1 TT-TTGA-AAAATAAATTATTAAAATTTAAA
*
1725621 TTTTGAAAAATGAATTAT
1 TTTTGAAAAATAAATTAT
1725639 ATTTCTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (29 bp):
TTTTGAAAAATAAATTATTAAAATTTAAA
Found at i:1725605 original size:15 final size:14
Alignment explanation
Indices: 1725567--1725608 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
1725557 TGATTTTTTG
1725567 AAAAATAAATTATT
1 AAAAATAAATTATT
*
1725581 AAAATTTAAATTATT
1 AAAA-ATAAATTATT
1725596 ACAAAATAAATTA
1 A-AAAATAAATTA
1725609 CTGGAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 17 0.71
16 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAATAAATTATT
Found at i:1725649 original size:19 final size:20
Alignment explanation
Indices: 1725620--1725671 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1725610 TGGAATTTAA
*
1725620 ATTT-TGAAAAATGAATTAT
1 ATTTCTGAAAAATGAATTAC
1725639 ATTTCTGAAAAATGAATTAC
1 ATTTCTGAAAAATGAATTAC
*
1725659 ATTTTTGAAAAAT
1 ATTTCTGAAAAAT
1725672 ATCTGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTTCTGAAAAATGAATTAC
Found at i:1725851 original size:14 final size:13
Alignment explanation
Indices: 1725822--1725860 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1725812 AAACAATTTA
1725822 TTTATTATTAAAT
1 TTTATTATTAAAT
*
1725835 TTTATTTTTATAAT
1 TTTATTATTA-AAT
*
1725849 TTTATTAATAAA
1 TTTATTATTAAA
1725861 AATATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTATTAAAT
Found at i:1726015 original size:25 final size:25
Alignment explanation
Indices: 1725982--1726042 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
1725972 ATATCTTTAC
1725982 TAAAA-TATTATT-TAAATATATAAA
1 TAAAATTATTATTATAAA-ATATAAA
*
1726006 TAAAATTATTCATTATTAAATATAAA
1 TAAAATTATT-ATTATAAAATATAAA
1726032 -AAAATTATTAT
1 TAAAATTATTAT
1726043 ATATTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 10 0.30
27 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAATTATTATTATAAAATATAAA
Found at i:1726026 original size:28 final size:28
Alignment explanation
Indices: 1725986--1726088 Score: 99
Period size: 28 Copynumber: 3.6 Consensus size: 28
1725976 CTTTACTAAA
1725986 ATATTATTTAAATATATAAATAAA-ATTAT
1 ATATTA-TTAAATATA-AAATAAATATTAT
1726015 -TCATTATTAAATATAAAA-AAATTATTAT
1 AT-ATTATTAAATATAAAATAAA-TATTAT
1726043 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATAT-AAAATA-AATAT-TAT
1726072 ATATTATTATAATATAA
1 ATATTATTA-AATATAA
1726089 TTGATTATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.05
27 5 0.08
28 28 0.44
29 19 0.30
30 7 0.11
31 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATTATTAAATATAAAATAAATATTAT
Found at i:1726047 original size:25 final size:26
Alignment explanation
Indices: 1725999--1726048 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
1725989 TTATTTAAAT
1725999 ATATAAATAAAATTATTCATTATTAA
1 ATATAAATAAAATTATTCATTATTAA
1726025 ATATAAA-AAAATTATT-ATATATTA
1 ATATAAATAAAATTATTCAT-TATTA
1726049 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATAAATAAAATTATTCATTATTAA
Found at i:1726068 original size:24 final size:27
Alignment explanation
Indices: 1726017--1726073 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
1726007 AAAATTATTC
*
1726017 ATTATTAAATATAAAAAAATTATTATAT
1 ATTATTAAATAT-AAAAAATTATAATAT
1726045 ATTATTAAA-AT-AAAAA-TATAATAT
1 ATTATTAAATATAAAAAATTATAATAT
*
1726069 CTTAT
1 ATTAT
1726074 ATTATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.41
25 5 0.19
27 2 0.07
28 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTATTAAATATAAAAAATTATAATAT
Found at i:1726089 original size:23 final size:24
Alignment explanation
Indices: 1726059--1726146 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 24
1726049 TTAAAATAAA
*
1726059 AATA-TAATATCTTATATTATTAT
1 AATATTAATATATTATATTATTAT
*
1726082 AATA-TAAT-TGATTATTTTA-TAT
1 AATATTAATAT-ATTATATTATTAT
*
1726104 AATATTAAAATATTATATTATTAT
1 AATATTAATATATTATATTATTAT
*
1726128 AAATATTAATA-AATATATT
1 -AATATTAATATATTATATT
1726147 TTAGATATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 8 0.15
23 26 0.48
24 11 0.20
25 9 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
AATATTAATATATTATATTATTAT
Found at i:1726110 original size:15 final size:16
Alignment explanation
Indices: 1726072--1726129 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 16
1726062 ATAATATCTT
1726072 ATATTATTATAATATA
1 ATATTATTATAATATA
*
1726088 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
1726105 ATATTA--A-AATATT
1 ATATTATTATAATATA
1726118 ATATTATTATAA
1 ATATTATTATAA
1726130 ATATTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 10 0.30
15 5 0.15
16 4 0.12
17 8 0.24
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:1726121 original size:18 final size:19
Alignment explanation
Indices: 1726098--1726139 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
1726088 ATTGATTATT
1726098 TTATATAATATTA-AAATA
1 TTATATAATATTATAAATA
1726116 TTATAT--TATTATAAATA
1 TTATATAATATTATAAATA
1726133 TTA-ATAA
1 TTATATAA
1726140 ATATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.33
17 8 0.38
18 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATATAATATTATAAATA
Found at i:1726141 original size:10 final size:9
Alignment explanation
Indices: 1726098--1726143 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 9
1726088 ATTGATTATT
1726098 TTATATAATA
1 TTATA-AATA
1726108 TTA-AAATA
1 TTATAAATA
*
1726116 TTAT-ATTA
1 TTATAAATA
1726124 TTATAAATA
1 TTATAAATA
1726133 TTAATAAATA
1 TT-ATAAATA
1726143 T
1 T
1726144 ATTTTAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 14 0.45
9 6 0.19
10 11 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTATAAATA
Found at i:1726802 original size:28 final size:28
Alignment explanation
Indices: 1726743--1726795 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
1726733 ATATATATCG
1726743 TTCTTCTTAAAATTTTATAAATTTGTAC
1 TTCTTCTTAAAATTTTATAAATTTGTAC
1726771 TTCTT-TTAAAATTTTATAAATTTGT
1 TTCTTCTTAAAATTTTATAAATTTGT
1726796 TCCTTCTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (28 bp):
TTCTTCTTAAAATTTTATAAATTTGTAC
Found at i:1729643 original size:26 final size:27
Alignment explanation
Indices: 1729616--1729667 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1729606 ATTTATGTTT
* *
1729616 GGTAAAATTTCAAAAATACTCTTATTG
1 GGTAAAATTACAAAAATACCCTTATTG
1729643 GGTAAAATTACAAAAATACCCTTAT
1 GGTAAAATTACAAAAATACCCTTAT
1729668 AAAAAGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (27 bp):
GGTAAAATTACAAAAATACCCTTATTG
Found at i:1732856 original size:2 final size:2
Alignment explanation
Indices: 1732805--1732836 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1732795 TCATTCAAAA
1732805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1732837 TATTAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1736468 original size:55 final size:55
Alignment explanation
Indices: 1736352--1736572 Score: 320
Period size: 55 Copynumber: 4.0 Consensus size: 55
1736342 GTAGTGCCTA
*
1736352 TACGG-TAGTTCATCAACTCATGATGAATTCTGTGG-GTTGCACACATAGTGTTTG
1 TACGGTTA-TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTTTG
*
1736406 TACGGTTATTCATCAACTCATGATGAATTATGTGGATTTGCACACATAGTGTTTG
1 TACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTTTG
* * * * *
1736461 TACGGTTATTCATCAACTTATGATGAATTCCGTGGATTTGTACATATAGTGCTTG
1 TACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTTTG
* * * *
1736516 TACAGTTATTCATCAACTCATGATGAATTTTATGGATTTGCACACATAGTGTCTG
1 TACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTTTG
1736571 TA
1 TA
1736573 GTACACATAG
Statistics
Matches: 148, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
54 31 0.21
55 117 0.79
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (55 bp):
TACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTTTG
Found at i:1737000 original size:19 final size:19
Alignment explanation
Indices: 1736976--1737022 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
1736966 TTCCTCACAG
1736976 TATCGATACCCCCTATCGA
1 TATCGATACCCCCTATCGA
1736995 TATCGATACCCCCTATCGA
1 TATCGATACCCCCTATCGA
1737014 TATCGATAC
1 TATCGATAC
1737023 TGCTTGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.28
Consensus pattern (19 bp):
TATCGATACCCCCTATCGA
Found at i:1738579 original size:22 final size:22
Alignment explanation
Indices: 1738562--1738628 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1738552 CTCGTATAAA
1738562 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1738584 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1738606 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1738628 T
1 T
1738629 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1738898 original size:30 final size:31
Alignment explanation
Indices: 1738848--1738906 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1738838 TAGACATAGT
*
1738848 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
* *
1738878 ATTTACATACTTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
1738907 GAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1738963 original size:29 final size:29
Alignment explanation
Indices: 1738921--1738992 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1738911 TTTTCTGCAT
**
1738921 ATTCATGTCATGTAATACATATAAGATGA
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1738950 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1738979 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1738993 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1739434 original size:67 final size:66
Alignment explanation
Indices: 1739297--1739468 Score: 204
Period size: 66 Copynumber: 2.6 Consensus size: 66
1739287 TTTTTCTCAT
* * *
1739297 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGA
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGA
1739361 TGA
64 TGA
* * * *
1739364 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
1739429 A
66 A
* * *
1739430 AGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1739469 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 13 0.14
66 51 0.55
67 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:1739456 original size:21 final size:21
Alignment explanation
Indices: 1739426--1739468 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1739416 ATCATATTCG
* *
1739426 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1739447 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1739468 T
1 T
1739469 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1745512 original size:22 final size:22
Alignment explanation
Indices: 1745495--1745561 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1745485 CTCGTATAAA
1745495 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1745517 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1745539 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1745561 T
1 T
1745562 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1745831 original size:30 final size:31
Alignment explanation
Indices: 1745781--1745839 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1745771 TAGACATAGT
*
1745781 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
* *
1745811 ATTTACATACTTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
1745840 GAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1745896 original size:29 final size:29
Alignment explanation
Indices: 1745854--1745925 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1745844 TTTTCTGCAT
**
1745854 ATTCATGTCATGTAATACATATAAGATGA
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1745883 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1745912 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1745926 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1746367 original size:67 final size:66
Alignment explanation
Indices: 1746230--1746401 Score: 204
Period size: 66 Copynumber: 2.6 Consensus size: 66
1746220 TTTTTCTCAT
* * *
1746230 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGA
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGA
1746294 TGA
64 TGA
* * * *
1746297 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
1746362 A
66 A
* * *
1746363 AGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1746402 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 13 0.14
66 51 0.55
67 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:1746389 original size:21 final size:21
Alignment explanation
Indices: 1746359--1746401 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1746349 ATCATATTCG
* *
1746359 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1746380 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1746401 T
1 T
1746402 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1747678 original size:13 final size:13
Alignment explanation
Indices: 1747650--1747683 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1747640 TTTATTTTTA
*
1747650 AAAATTAAATTAAT
1 AAAATT-AAGTAAT
1747664 AAAATTAAGTAAT
1 AAAATTAAGTAAT
1747677 AAAATTA
1 AAAATTA
1747684 TTCAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
AAAATTAAGTAAT
Found at i:1754072 original size:2 final size:2
Alignment explanation
Indices: 1754065--1754089 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1754055 TGTAAATAGT
1754065 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1754090 TTGCTGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1754450 original size:21 final size:22
Alignment explanation
Indices: 1754426--1754466 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1754416 CTTTGTCACA
*
1754426 TTAAATTTATTT-ATTTAAATT
1 TTAAAATTATTTCATTTAAATT
1754447 TTAAAATTATTTCATTTAAA
1 TTAAAATTATTTCATTTAAA
1754467 ATATCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAAATTATTTCATTTAAATT
Found at i:1759869 original size:3 final size:3
Alignment explanation
Indices: 1759861--1759886 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1759851 AAATCCACTC
1759861 TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TG
1759887 CTGCTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:1764118 original size:31 final size:31
Alignment explanation
Indices: 1764082--1764176 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
1764072 TTTTTCTTAT
1764082 ACACCTAAAAATGTAATGTTATAAACATTAAG
1 ACACCTAAAAATGTAAT-TTATAAACATTAAG
* * * *
1764114 -CACCT--AGAT-TAATTAATAAATAGTTTAG
1 ACACCTAAAAATGTAATTTATAAACA-TTAAG
*
1764142 ACACCTAAAAATGTAATATTAGAAACATTAA-
1 ACACCTAAAAATGTAAT-TTATAAACATTAAG
1764173 ACAC
1 ACAC
1764177 TTAACCGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
27 7 0.15
28 8 0.17
29 8 0.17
31 12 0.25
32 7 0.15
33 6 0.12
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.28
Consensus pattern (31 bp):
ACACCTAAAAATGTAATTTATAAACATTAAG
Found at i:1773787 original size:17 final size:16
Alignment explanation
Indices: 1773752--1773786 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1773742 ATTTTTACAT
*
1773752 TATAAAATTAAATTTA
1 TATAAAATAAAATTTA
1773768 TATAAAATAAAATTT-
1 TATAAAATAAAATTTA
1773783 TATA
1 TATA
1773787 TTATTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAAATAAAATTTA
Found at i:1774982 original size:3 final size:3
Alignment explanation
Indices: 1774974--1775025 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
1774964 TCTAATTTTA
*
1774974 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT AATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT
1775020 ATT ATT
1 ATT ATT
1775026 TTTGCAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 40 0.91
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1776836 original size:19 final size:19
Alignment explanation
Indices: 1776795--1776837 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1776785 ATTCCTTTTG
* **
1776795 TATGTACTTATTTTTATGT
1 TATGTACTTATTTATATCA
*
1776814 TATGTATTTATTTATATCA
1 TATGTACTTATTTATATCA
1776833 TATGT
1 TATGT
1776838 GAATTAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (19 bp):
TATGTACTTATTTATATCA
Found at i:1781843 original size:11 final size:11
Alignment explanation
Indices: 1781815--1781852 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
1781805 AAGAGCAAAG
1781815 AGAAAAATCAA
1 AGAAAAATCAA
1781826 AGCAAAAATCAA
1 AG-AAAAATCAA
*
1781838 AGAAAAAGCAA
1 AGAAAAATCAA
1781849 AGAA
1 AGAA
1781853 CAAAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:1783023 original size:16 final size:15
Alignment explanation
Indices: 1783004--1783055 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
1782994 AGATTGAGAA
1783004 ACATACATCAACTCAT
1 ACATACATCAA-TCAT
1783020 ACATACAT--AT-AT
1 ACATACATCAATCAT
1783032 ACATACATCAATTCAT
1 ACATACATCAA-TCAT
1783048 ACATACAT
1 ACATACAT
1783056 ATATACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.31
13 1 0.03
14 2 0.06
15 1 0.03
16 18 0.56
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (15 bp):
ACATACATCAATCAT
Found at i:1783024 original size:4 final size:4
Alignment explanation
Indices: 1783017--1783089 Score: 73
Period size: 4 Copynumber: 19.0 Consensus size: 4
1783007 TACATCAACT
* * *
1783017 CATA CATA CATA TATA CATA CAT- CAATT CATA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA C-ATA CATA CATA CATA CATA CATA
*
1783065 TATA C--A CATA CATA CATA -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
1783090 AAATTTGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 2 0.04
3 4 0.07
4 50 0.88
5 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (4 bp):
CATA
Found at i:1783725 original size:105 final size:102
Alignment explanation
Indices: 1783538--1783776 Score: 286
Period size: 105 Copynumber: 2.3 Consensus size: 102
1783528 TGAGAATTTT
** * *
1783538 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
* *
1783603 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATGAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
1783643 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCAC-
* *
1783708 TT-AAACAAAGTGGATCTCACTTGAGATCGTTTTCTCA
65 TTAAAACAAAATGAATCTCACTTGAGATCGTTTTCTCA
* *
1783745 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTC
1783777 TATAAAAACA
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
101 2 0.02
102 29 0.25
103 4 0.03
104 4 0.03
105 76 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
TAAAACAAAATGAATCTCACTTGAGATCGTTTTCTCA
Found at i:1783784 original size:36 final size:35
Alignment explanation
Indices: 1783744--1783841 Score: 101
Period size: 36 Copynumber: 2.8 Consensus size: 35
1783734 TCGTTTTCTC
*
1783744 AAAAACAAACTTT-GTCTCGCTTGAGACAATTTCTAT
1 AAAAACAAA-TTTCGTCTCGCTTGAGACAATATCT-T
* ** *
1783780 AAAAACAAATTTGGTCTCATTTGAGACTATATCTT
1 AAAAACAAATTTCGTCTCGCTTGAGACAATATCTT
* *
1783815 -AAAGCAAATTTCATCTCGCTTGAGACA
1 AAAAACAAATTTCGTCTCGCTTGAGACA
1783842 TCATTTTCTC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
34 21 0.41
35 4 0.08
36 26 0.51
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (35 bp):
AAAAACAAATTTCGTCTCGCTTGAGACAATATCTT
Found at i:1784127 original size:29 final size:29
Alignment explanation
Indices: 1784080--1784169 Score: 139
Period size: 29 Copynumber: 3.2 Consensus size: 29
1784070 ACAGTTTCTC
1784080 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
1784108 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
1784137 TTGAATAAATATCTTTGAG-TTGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
1784165 TTGAA
1 TTGAA
1784170 AAATCTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (29 bp):
TTGAATAAAAATCTTTGAGTTTGTTCCTT
Found at i:1784286 original size:1 final size:1
Alignment explanation
Indices: 1784280--1784306 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1784270 ACAATTTTGT
1784280 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1784307 TTTGAGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1784402 original size:67 final size:66
Alignment explanation
Indices: 1784327--1784521 Score: 256
Period size: 65 Copynumber: 3.0 Consensus size: 66
1784317 TTTCTTTTCG
*
1784327 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGAA
1784392 A
66 A
*
1784393 CAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA-TTT-TATCTCTTAAGATAATTTCTTTTGA
1 -AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGA
1784456 AA
65 AA
* * * * * *
1784458 AAAAATCTTTGAATCTGTTTCTCTT--AAA-ATGAATTTTGTATCTCTTGAGACAGTTTCTCTTG
1 AAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTATCTCTTAAGATAGTTTCTTTTG
1784520 AA
64 AA
1784522 GTAAATCTTT
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 23 0.20
65 49 0.43
66 3 0.03
67 34 0.30
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (66 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGAA
A
Found at i:1785166 original size:40 final size:40
Alignment explanation
Indices: 1785108--1785516 Score: 184
Period size: 40 Copynumber: 9.7 Consensus size: 40
1785098 CCAGCCGTCC
* * *
1785108 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGAACTCT
* ** * *
1785148 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCCAG---ACCAGAAC-TCT
* * *
1785191 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--CAGA---CCAGAACTCT
* ** * * *
1785237 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGAACTCT
* * *
1785277 TCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCC-CAG---ACCAGAAC-TCT
* * * *
1785320 TCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--CAGA---CCAGAACTCT
* * * *
1785366 TCATCACGTATGAGCCGTGTCTTTCTCC-GACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTC-ATCCCCAGACCAGAACTCT
* *
1785406 TCATCACGTATGAGCCGTGTCATCCACC-GACCA-AATCTCC
1 TCATCACGTAGGAGCCGTGTCATCC-CCAGACCAGAA-CTCT
* * * *
1785446 TCATCACGTAGGAACTGTGTCA-CCCTTAGACGACCCGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCCC---CA-GACCAGAACTCT
* * *
1785489 TCATCACGTATGAGCAGTGTCGTCCCCA
1 TCATCACGTAGGAGCCGTGTCATCCCCA
1785517 ACAACCAACA
Statistics
Matches: 280, Mismatches: 56, Indels: 65
0.70 0.14 0.16
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 113 0.40
41 1 0.00
42 2 0.01
43 86 0.31
44 7 0.03
45 2 0.01
46 58 0.21
47 4 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGAACTCT
Found at i:1785244 original size:46 final size:46
Alignment explanation
Indices: 1785138--1785385 Score: 191
Period size: 46 Copynumber: 5.7 Consensus size: 46
1785128 CATCCCCAGA
* * * * **
1785138 CCAGAGCTCTTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* *
1785181 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGAAC-TCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* * * *
1785227 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC--T-GA---
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* * **
1785267 CCAGATCTCCTCATCACGTAGGAGCCGTG---TCACCCTTAGATAA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* * *
1785310 CCAG-CCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
1 CCAGAAC-TCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* *
1785356 CCAGAACTCTTCATCACGTATGAGCCGTGT
1 CCAGAACTCCTCATCACGTAGGAGCCGTGT
1785386 CTTTCTCCGA
Statistics
Matches: 161, Mismatches: 28, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
37 4 0.02
39 1 0.01
40 28 0.17
42 2 0.01
43 52 0.32
44 1 0.01
45 3 0.02
46 68 0.42
47 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (46 bp):
CCAGAACTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
Found at i:1785257 original size:89 final size:83
Alignment explanation
Indices: 1785098--1785258 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
1785088 CTAAAGATGG
* *
1785098 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCTTCATCACGTAGGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
1785163 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* *
1785181 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
*
1785246 ATGAGCCGTGTCA
60 AGGAGCCGTGTCA
1785259 TCAGCTGACC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 32 0.48
84 2 0.03
86 3 0.04
89 30 0.45
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
CGTGTCAACCATAGATAA
Found at i:1785322 original size:129 final size:128
Alignment explanation
Indices: 1785108--1785427 Score: 489
Period size: 129 Copynumber: 2.5 Consensus size: 128
1785098 CCAGCCGTCC
* * * *
1785108 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCAT-CCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
*
1785173 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
65 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
* * * *
1785237 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
*
1785302 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
65 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
* *
1785366 TCATCACGTATGAGCCGTGTCTTTCTCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCA
1 TCATCACGTATGAGCCGTGTC-ATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCA
1785428 TCCACCGACC
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
128 1 0.01
129 170 0.98
130 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (128 bp):
TCATCACGTATGAGCCGTGTCATCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCA
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
Found at i:1785683 original size:3 final size:3
Alignment explanation
Indices: 1785675--1785726 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
1785665 TCTAATTTTA
*
1785675 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT AATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT
1785721 ATT ATT
1 ATT ATT
1785727 TTTGCAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 40 0.91
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1787537 original size:19 final size:19
Alignment explanation
Indices: 1787496--1787538 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1787486 ATTCCTTTTG
* **
1787496 TATGTACTTATTTTTATGT
1 TATGTACTTATTTATATCA
*
1787515 TATGTATTTATTTATATCA
1 TATGTACTTATTTATATCA
1787534 TATGT
1 TATGT
1787539 GAATTAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (19 bp):
TATGTACTTATTTATATCA
Found at i:1789536 original size:2 final size:2
Alignment explanation
Indices: 1789529--1789555 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1789519 CAAATGAAAC
1789529 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1789556 TAAGATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1791392 original size:24 final size:24
Alignment explanation
Indices: 1791352--1791426 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
1791342 GATTGTGTTA
*
1791352 AACATAAATGAATGAACATAAACG
1 AACATAAATGAACGAACATAAACG
*
1791376 AACAT-AATCGAACGAACATAATCG
1 AACATAAAT-GAACGAACATAAACG
* * *
1791400 AACGA-ACATAAACGAACATAACCG
1 AAC-ATAAATGAACGAACATAAACG
1791424 AAC
1 AAC
1791427 GTTCACGAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.07
24 37 0.86
25 3 0.07
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:1791407 original size:38 final size:38
Alignment explanation
Indices: 1791352--1791427 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
1791342 GATTGTGTTA
* *
1791352 AACATAAATGAATGAACATAAACGAACATAATCGAACG
1 AACATAAATGAACGAACATAAACGAACATAACCGAACG
1791390 AACAT-AATCGAACGAACATAAACGAACATAACCGAACG
1 AACATAAAT-GAACGAACATAAACGAACATAACCGAACG
1791428 TTCACGAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.09
38 32 0.91
ACGTcount: A:0.54, C:0.20, G:0.13, T:0.13
Consensus pattern (38 bp):
AACATAAATGAACGAACATAAACGAACATAACCGAACG
Found at i:1791427 original size:14 final size:14
Alignment explanation
Indices: 1791372--1791416 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
1791362 AATGAACATA
1791372 AACGAACATAATCG
1 AACGAACATAATCG
1791386 AACGAACATAATCG
1 AACGAACATAATCG
*
1791400 AACGAACATAAACG
1 AACGAACATAATCG
1791414 AAC
1 AAC
1791417 ATAACCGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.53, C:0.22, G:0.13, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:1791437 original size:24 final size:24
Alignment explanation
Indices: 1791384--1791437 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1791374 CGAACATAAT
*
1791384 CGAACGAACATAATCGAACGAACA
1 CGAACGAACATAACCGAACGAACA
** **
1791408 TAAACGAACATAACCGAACGTTCA
1 CGAACGAACATAACCGAACGAACA
1791432 CGAACG
1 CGAACG
1791438 TAAATGAACG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.26, G:0.17, T:0.11
Consensus pattern (24 bp):
CGAACGAACATAACCGAACGAACA
Found at i:1793128 original size:27 final size:26
Alignment explanation
Indices: 1793097--1793156 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
1793087 GATAAAATAA
* *
1793097 TTATATGATGTGTTTAAAAAATTATTC
1 TTATACGATGTG-TCAAAAAATTATTC
* * *
1793124 TTATACGTTTTGTCAAAAAATTATTT
1 TTATACGATGTGTCAAAAAATTATTC
1793150 TTATACG
1 TTATACG
1793157 TTATTATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (26 bp):
TTATACGATGTGTCAAAAAATTATTC
Found at i:1793420 original size:22 final size:22
Alignment explanation
Indices: 1793392--1793466 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
1793382 TTTCATTTCG
1793392 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
1793414 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
1793433 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
1793455 TGTTGCGATAGT
1 CGTTGCGATAGT
1793467 TAAAAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 10 0.24
20 5 0.12
21 5 0.12
22 21 0.51
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:1793456 original size:19 final size:20
Alignment explanation
Indices: 1793392--1793456 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
1793382 TTTCATTTCG
1793392 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAG-T-T
** * *
1793414 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAGTT
1793433 CGTTGCGATAGTCTACAGTT
1 CGTTGCGATAGTCTACAGTT
1793453 -GTTG
1 CGTTG
1793457 TTGCGATAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 17 0.50
20 4 0.12
21 1 0.03
22 12 0.35
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCTACAGTT
Found at i:1794202 original size:22 final size:22
Alignment explanation
Indices: 1794174--1794226 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
1794164 AATTTGGAAA
1794174 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1794196 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1794218 ATCGCAACG
1 ATCGCAACG
1794227 CGAAATGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1794243 original size:20 final size:20
Alignment explanation
Indices: 1794218--1794310 Score: 123
Period size: 20 Copynumber: 4.6 Consensus size: 20
1794208 ACTGTAGACT
1794218 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1794238 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1794258 ATCGCAACGCGATTTTTAACT
1 ATCGCAACGCGAAATGGAA-A
*
1794279 ACCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1794299 ATCGCAACGCGA
1 ATCGCAACGCGA
1794311 TTTCCAACTA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1794292 original size:41 final size:41
Alignment explanation
Indices: 1794240--1794335 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
1794230 AATGGAAAAT
**
1794240 CGCAACGCGAAATGGAAAATCGCAACGCGATTTTTAACTAC
1 CGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTAC
*
1794281 CGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTAT
1 CGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTAC
*
1794322 CGCAATGCGAAATG
1 CGCAACGCGAAATG
1794336 CAACGCGAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
CGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTAC
Found at i:1794325 original size:21 final size:21
Alignment explanation
Indices: 1794258--1794331 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
1794248 GAAATGGAAA
**
1794258 ATCGCAACGCGATTTTTAACT
1 ATCGCAACGCGATTTCCAACT
* ** ** *
1794279 ACCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTCCAACT
1794299 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGATTTCCAACT
*
1794320 ATCGCAATGCGA
1 ATCGCAACGCGA
1794332 AATGCAACGC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTCCAACT
Found at i:1794539 original size:29 final size:29
Alignment explanation
Indices: 1794483--1794539 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
1794473 TCTCATAACT
* **
1794483 AAATCTCAAAATTTAAATATTTTTTGAAC
1 AAATCTCAAAATTTAAATATATAATGAAC
1794512 AAATCTC-AAATTTAAATATAATAATGAA
1 AAATCTCAAAATTTAAATAT-ATAATGAA
1794540 GTTAAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATCTCAAAATTTAAATATATAATGAAC
Found at i:1802146 original size:2 final size:2
Alignment explanation
Indices: 1802141--1802183 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1802131 TCAAGAAAAC
1802141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1802182 TA
1 TA
1802184 GGAAGATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1803095 original size:15 final size:15
Alignment explanation
Indices: 1803075--1803105 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1803065 GAGTGATGAC
1803075 GCGAAACAAGGCAGA
1 GCGAAACAAGGCAGA
1803090 GCGAAACAAGGCAGA
1 GCGAAACAAGGCAGA
1803105 G
1 G
1803106 GTTGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.35, T:0.00
Consensus pattern (15 bp):
GCGAAACAAGGCAGA
Found at i:1809944 original size:12 final size:12
Alignment explanation
Indices: 1809927--1809952 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1809917 TTATACTTAT
1809927 TTTTCTATTTAA
1 TTTTCTATTTAA
1809939 TTTTCTATTTAA
1 TTTTCTATTTAA
1809951 TT
1 TT
1809953 ATTTAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCTATTTAA
Found at i:1810156 original size:27 final size:27
Alignment explanation
Indices: 1810113--1810167 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
1810103 TTATTTTAGG
* *
1810113 AAACCCCAAATATTTTTAAAATTTCAA
1 AAACCCCAAATACTTTTAAAATTCCAA
1810140 AAACACCCAAA-ACTTTTAAAATTCCAA
1 AAAC-CCCAAATACTTTTAAAATTCCAA
1810167 A
1 A
1810168 TCTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (27 bp):
AAACCCCAAATACTTTTAAAATTCCAA
Found at i:1810874 original size:16 final size:16
Alignment explanation
Indices: 1810853--1810883 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1810843 AAATGGAGTG
1810853 TTTTTTTTAAATTTTA
1 TTTTTTTTAAATTTTA
1810869 TTTTTTTTAAATTTT
1 TTTTTTTTAAATTTT
1810884 GAATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAAATTTTA
Found at i:1812395 original size:20 final size:19
Alignment explanation
Indices: 1812372--1812418 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1812362 CGATATACCA
1812372 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1812392 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
*
1812412 AGTAAAA
1 GGTAAAA
1812419 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1812514 original size:181 final size:182
Alignment explanation
Indices: 1812160--1812632 Score: 668
Period size: 181 Copynumber: 2.6 Consensus size: 182
1812150 GATCCAAATT
* * *
1812160 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTA-TGAAAATGAT
* * * * *
1812224 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
1812289 CGTGAATTTAAAAGAGAAGCAATTTTAAGTCCTATAAAGTGTCGATACTTTTA
130 CGTAAATTTAAAAGAGAAGCAATTTTAAGGCCTATAAAGTGTCGATACTTTAA
* * *
1812342 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGATA
* * *
1812407 AAACCAGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
1812471 GTAAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAATGTGTCGATACTTTAA
131 GTAAATTTAAAAGAGAAGCAATTTTAAG-GCCTATAAAGTGTCGATACTTTAA
* *
1812523 AAAAATATATCGAT-CAACAACGATATAACAGGTAAAAATATGATAAAA-CATGTATCAAAATGA
1 AAAAATGTATCGATCCAA-AACGATATAACAGGTAAAAATATGATAAAACCA-GTATGAAAATGA
**
1812586 TAAAACCGGTAAAATAATACCGGATATATTGAAAGTGTCGATACTTT
64 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1812633 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
180 6 0.02
181 158 0.61
182 96 0.37
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTAAATTTAAAAGAGAAGCAATTTTAAGGCCTATAAAGTGTCGATACTTTAA
Found at i:1812572 original size:20 final size:19
Alignment explanation
Indices: 1812544--1812599 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1812534 GATCAACAAC
*
1812544 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
* *
1812564 GATAAAACATGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
1812584 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
1812600 TAATACCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:1814839 original size:21 final size:21
Alignment explanation
Indices: 1814813--1814876 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
1814803 AAGACAATCA
*
1814813 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1814834 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1814855 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1814876 A
1 A
1814877 AGCATAAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1814953 original size:33 final size:33
Alignment explanation
Indices: 1814911--1814976 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1814901 AAATAGATGG
*
1814911 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1814944 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1814977 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1816794 original size:19 final size:19
Alignment explanation
Indices: 1816770--1816818 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1816760 AATGTAGGGT
1816770 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1816789 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1816808 TAATTTTGTAT
1 TAATTTTGTAT
1816819 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1817462 original size:200 final size:200
Alignment explanation
Indices: 1816953--1818479 Score: 2631
Period size: 200 Copynumber: 7.7 Consensus size: 200
1816943 GTGCAACCAT
1816953 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1817018 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
*
1817083 TGTGTCGATATTTTTTGTCCAGAATGAATGGAAAACAGGGGTGCAACCATAAAGTGTCGATCCAT
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACA-GGGTGCAACCATAAAGTGTCGATCCAT
1817148 ATATAA
195 ATATAA
1817154 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* *
1817219 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTTGTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
*
1817284 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACTGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1817349 TATAA
196 TATAA
1817354 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
1817419 CCGGTACAAGTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* *
1817484 TGTGTCGAAATTTTTGGTCCAAAATGAATGGAAAACAGGG-GCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1817548 TATAA
196 TATAA
1817553 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* *
1817618 TCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTTGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* *
1817683 TGTGTCGATATTTTTAGTCCATAATGAATGGAAAACAGGGGTGCAACCATAAAGTGTCGATCCAT
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACA-GGGTGCAACCATAAAGTGTCGATCCAT
1817748 ATATAA
195 ATATAA
1817754 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1817819 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
1817884 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGG-GCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1817948 TATAA
196 TATAA
*
1817953 AAAGTTTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
1818018 CCAGTACAAGTATACCGGTTTTAT--GAG---A-G----AAT-A--TGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* * *
1818070 TGTGTCGATATTTTTAGTCCTGAATGAATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1818135 TATAA
196 TATAA
*
1818140 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAACTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
1818205 CCGGTACAAGTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* * *
1818270 TGTGTCGATATTTGTGGTCTAGAATGAATTGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
*
1818335 TATAG
196 TATAA
*
1818340 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * * * *
1818405 CCGGTACAAGTATACCGATTTTATGAGAGAAT-TGGTATATAAT-ATGTATCGACACTGTTTAAT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-
1818468 GTTT-TGTCGATA
128 GTTTGTGTCGATA
1818480 CTATTTTAAA
Statistics
Matches: 1263, Mismatches: 44, Indels: 39
0.94 0.03 0.03
Matches are distributed among these distances:
186 56 0.04
187 114 0.09
188 1 0.00
189 6 0.00
192 1 0.00
193 2 0.00
194 1 0.00
197 6 0.00
198 1 0.00
199 307 0.24
200 406 0.32
201 362 0.29
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:1819956 original size:6 final size:6
Alignment explanation
Indices: 1819945--1820008 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
1819935 CAAGCGGTCA
* * * * *
1819945 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
1819993 CTGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGA
1820009 TGACGACGAC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:1819967 original size:12 final size:12
Alignment explanation
Indices: 1819945--1820008 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
1819935 CAAGCGGTCA
*
1819945 ATGAAGATGAAG
1 ATGACGATGAAG
*
1819957 CTGACGATGAAG
1 ATGACGATGAAG
*
1819969 ATGACGATGATG
1 ATGACGATGAAG
1819981 ATGACGATGAAG
1 ATGACGATGAAG
*
1819993 CTGACGATGAAG
1 ATGACGATGAAG
1820005 ATGA
1 ATGA
1820009 TGACGACGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1819982 original size:3 final size:3
Alignment explanation
Indices: 1819962--1820033 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
1819952 TGAAGCTGAC
* * * * * * *
1819962 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
1820010 GAC GAC GAC GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
1820034 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (3 bp):
GAT
Found at i:1820016 original size:18 final size:19
Alignment explanation
Indices: 1819945--1820017 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 19
1819935 CAAGCGGTCA
1819945 ATGAAGATGAAG-CTGACG
1 ATGAAGATGAAGACTGACG
* *
1819963 ATGAAGATGACGA-TGATG
1 ATGAAGATGAAGACTGACG
*
1819981 ATGACGATGAAG-CTGACG
1 ATGAAGATGAAGACTGACG
*
1819999 ATGAAGATGATGAC-GACG
1 ATGAAGATGAAGACTGACG
1820017 A
1 A
1820018 CGATGATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 44 0.98
19 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.18
Consensus pattern (19 bp):
ATGAAGATGAAGACTGACG
Found at i:1821576 original size:183 final size:183
Alignment explanation
Indices: 1821236--1822186 Score: 1726
Period size: 183 Copynumber: 5.2 Consensus size: 183
1821226 CAAAGTTTTC
* * * *
1821236 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCATAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * *
1821301 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
1821364 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1821420 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
1821485 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATATATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
1821550 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1821603 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1821668 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
1821733 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGTTATACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1821786 ACACTTTCTAATATTGTGTAGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1821851 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
1821916 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1821969 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1822034 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
1822099 AACCGGTATAAATATACCGGTTTTTTGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1822152 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCA
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCA
1822187 AAAAGTGTCG
Statistics
Matches: 743, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 668 0.90
184 72 0.10
186 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1821909 original size:366 final size:366
Alignment explanation
Indices: 1821236--1822696 Score: 2242
Period size: 366 Copynumber: 4.1 Consensus size: 366
1821226 CAAAGTTTTC
* * * *
1821236 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCATAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * *
1821301 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
1821364 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCT
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCT
*
1821429 AATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCATTTAAAAAAGTG
193 AATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTG
*
1821494 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATATATAATTTTGTAATATAACCGGTAT
258 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
1821559 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
323 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1821603 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1821668 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
1821733 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGTTATACAACCTATATCGACACTTTCTAAT
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT
*
1821798 ATTGTGTAGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
196 ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
*
1821863 ACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAA
261 ACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
1821928 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
326 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1821969 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1822034 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
1822099 AACCGGTATAAATATACCGGTTTTTTGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT
* **
1822164 ATTGTGTCGGTACTTTATGTCC----------AAAAA-GTGTCG--A-CATTTACATATCG-GAA
196 ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTA-AAAAAGTG--
* * * * * * * ** * * ** *
1822214 CCCAGATTTATA-AT-GTAA--TAGA-TAATTTTGTAATACA-ACTGGTATAA-ATATACCGGT-
258 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA-ACCGGTA
1822271 -------------TTTATGAGCGAATAGGTCTACAACCTATATCG
322 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1822303 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1822368 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
1822433 AACCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACCTATATCAACACTTTCTAAT
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT
* *
1822498 ATTATGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTTAAAAAGTGTCG
196 ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
*
1822563 ACATTTATACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
261 ACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
1822628 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
326 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1822669 ACACTTTCTAATATTGTATCGGTACTTT
1 ACACTTTCTAATATTGTGTCGGTACTTT
1822697 TAAGTAACGC
Statistics
Matches: 992, Mismatches: 60, Indels: 85
0.87 0.05 0.07
Matches are distributed among these distances:
334 244 0.25
344 5 0.01
345 6 0.01
346 9 0.01
347 9 0.01
348 20 0.02
349 11 0.01
350 6 0.01
351 11 0.01
352 22 0.02
353 9 0.01
354 8 0.01
355 6 0.01
356 5 0.01
366 546 0.55
367 72 0.07
369 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (366 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT
ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
ACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1822309 original size:151 final size:151
Alignment explanation
Indices: 1822035--1822337 Score: 570
Period size: 151 Copynumber: 2.0 Consensus size: 151
1822025 ATACCATTTA
*
1822035 AAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATACA
*
1822100 ACCGGTATAAATATACCGGTTTTTTGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
1822165 TTGTGTCGGTACTTTATGTCC
131 TTGTGTCGGTACTTTATGTCC
*
1822186 AAAAAGTGTCGACATTTACATATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATACA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATACA
*
1822251 ACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
1822316 TTGTGTCGGTACTTTATGTCC
131 TTGTGTCGGTACTTTATGTCC
1822337 A
1 A
1822338 GATTGGAAGA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 148 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (151 bp):
AAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATACA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
TTGTGTCGGTACTTTATGTCC
Done.