Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 22
Found at i:877960 original size:13 final size:13
Alignment explanation
Indices: 877942--877966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
877932 GTGAATTATG
877942 TCTCAAAGTTGTC
1 TCTCAAAGTTGTC
877955 TCTCAAAGTTGT
1 TCTCAAAGTTGT
877967 TTCAAGTTGT
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TCTCAAAGTTGTC
Found at i:878343 original size:91 final size:91
Alignment explanation
Indices: 878188--878460 Score: 476
Period size: 91 Copynumber: 3.0 Consensus size: 91
878178 TTTTCCAACA
*
878188 AACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
878253 GAGAAGAACTTGTTCAACCTTTGCTC
66 GAGAAGAACTTGTTCAACCTTTGCTC
*
878279 AACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
878344 GAGAAGAACTTGTTCAACC-TTGCCTC
66 GAGAAGAACTTGTTCAACCTTTG-CTC
* *
878370 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCGTCCAACGAGGGAGAAAAAGTTCATAAT
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
* *
878435 GAGAAGAACTTGTTTAACCTTAGCTC
66 GAGAAGAACTTGTTCAACCTTTGCTC
878461 GATTCATCGC
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
90 3 0.02
91 168 0.97
92 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (91 bp):
AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTGCTC
Found at i:879367 original size:13 final size:14
Alignment explanation
Indices: 879349--879377 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
879339 AAGGTAATTT
879349 TTTAAAG-AATTAA
1 TTTAAAGAAATTAA
879362 TTTAAAGAAATTAA
1 TTTAAAGAAATTAA
879376 TT
1 TT
879378 ATTGGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTAAAGAAATTAA
Found at i:889325 original size:24 final size:24
Alignment explanation
Indices: 889298--889398 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
889288 ATTTTCGATT
* *
889298 TGAATTTTGTTATGATACCTGACC
1 TGAATTCTGATATGATACCTGACC
* * *
889322 TGAATTCTGATCTTATA-CTGACA
1 TGAATTCTGATATGATACCTGACC
* * *
889345 TGGATTCTCATATGATACATGACC
1 TGAATTCTGATATGATACCTGACC
* *
889369 TGGATTCTGATATGATACTTGACC
1 TGAATTCTGATATGATACCTGACC
889393 TGAATT
1 TGAATT
889399 ATATTTTGAT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.29
24 44 0.71
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATATGATACCTGACC
Found at i:892357 original size:11 final size:11
Alignment explanation
Indices: 892341--892388 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
892331 CAATTCTATT
892341 ATTAATTTAAA
1 ATTAATTTAAA
892352 ATTAA-TT-AA
1 ATTAATTTAAA
892361 ATTAATTTATATA
1 ATTAATTTA-A-A
*
892374 ATTATTTTAAA
1 ATTAATTTAAA
892385 ATTA
1 ATTA
892389 TAATATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 7 0.22
10 4 0.12
11 10 0.31
12 2 0.06
13 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTAATTTAAA
Found at i:892751 original size:29 final size:29
Alignment explanation
Indices: 892709--892766 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
892699 ATTTCTTTTC
892709 TTGTTTTGGTTCATTACAATGTGGGTATT
1 TTGTTTTGGTTCATTACAATGTGGGTATT
892738 TTGTTTTGGTTCATTACAATGTGGGTATT
1 TTGTTTTGGTTCATTACAATGTGGGTATT
892767 GATTAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.52
Consensus pattern (29 bp):
TTGTTTTGGTTCATTACAATGTGGGTATT
Found at i:893003 original size:15 final size:15
Alignment explanation
Indices: 892980--893016 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
892970 AAGAAGAAAC
*
892980 CTTTCTTTCCGGCAG
1 CTTTGTTTCCGGCAG
*
892995 CTTTGTTTCCGGCGG
1 CTTTGTTTCCGGCAG
893010 CTTTGTT
1 CTTTGTT
893017 CTCGGTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.24, T:0.46
Consensus pattern (15 bp):
CTTTGTTTCCGGCAG
Found at i:895780 original size:28 final size:29
Alignment explanation
Indices: 895749--895814 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
895739 AAAATATTAC
* *
895749 TAAAATTAAAA-TATTAAAGA-TTAGGGAT
1 TAAAATTAAAATTATCAAA-ATTTAGGAAT
*
895777 TAAAATAAAAATTATCAAAATTTAGGAAT
1 TAAAATTAAAATTATCAAAATTTAGGAAT
*
895806 TAAATTTAA
1 TAAAATTAA
895815 TATTTACCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (29 bp):
TAAAATTAAAATTATCAAAATTTAGGAAT
Found at i:896319 original size:3 final size:3
Alignment explanation
Indices: 896311--896354 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
896301 GACGGCGTTT
896311 ATA ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA AT- ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
896354 A
1 A
896355 CGGGACGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.16
3 29 0.78
4 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:896326 original size:11 final size:11
Alignment explanation
Indices: 896310--896354 Score: 81
Period size: 11 Copynumber: 4.0 Consensus size: 11
896300 CGACGGCGTT
896310 TATAATAATAA
1 TATAATAATAA
896321 TATAATAATAA
1 TATAATAATAA
896332 TATAATAATAA
1 TATAATAATAA
896343 TATAAATAATAA
1 TAT-AATAATAA
896355 CGGGACGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 25 0.76
12 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAATAATAA
Found at i:896711 original size:137 final size:137
Alignment explanation
Indices: 896506--897277 Score: 1112
Period size: 137 Copynumber: 5.6 Consensus size: 137
896496 AAACTAGTGT
* *
896506 ATGACATTGTTCCTTCGTGATGATGACGTCTAGCCATCTTTAAAGATATTTGAGATAACTTGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
* * * * * ** * * *
896571 CCTTCGTGATGAGAACATCTGGCTATCTAAGGATGACGATGCTCCTTTATGATAAGGAATTCTAA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
**
896636 TCAATGG
131 TCGGTGG
* **
896643 ATGACATTGTTCCTTCGTGATGATGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACAGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
*
896708 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATAATGCTGCTTCTTCGTGATGAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
896773 TCGGTGG
131 TCGGTGG
* * * *
896780 ATGACATTGTTCCTTCATAATGAGGATGTCTAACCATCTTTAAAGATATTTGAGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
* * * *
896845 CTTTCATGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTTGTGATGAGGAATTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
**
896910 TCAATGG
131 TCGGTGG
* * ** *
896917 ATGACATTGTACCTTCGTGATAAGGACGTCGGGCCATCTTTAAAGATATTTGAGATAACATGATT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
* * *
896982 CCTTCGTGATAAGAACATCTGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
897047 TCGGTGG
131 TCGGTGG
* * *
897054 ATGATATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTAAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
** * *
897119 CCTTCGTGATGAGGATGTCTGGTTATCTAAGGATGATGCTACTTCTTCGTGATAAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
897184 TCGGTGG
131 TCGGTGG
* * * *
897191 ATGATATAGTTCCTTCGTGATGAGGACGTCTGGCCATTTTTAAAGATATTTGAGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
*
897256 CCTTCGTGATGAGGACGTCTGG
66 CCTTCGTGATGAGGACATCTGG
897278 ACATCTTTAA
Statistics
Matches: 566, Mismatches: 69, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 566 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (137 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGCTGCTTCTTCGTGATGAGGAGTTCTGA
TCGGTGG
Found at i:897258 original size:54 final size:54
Alignment explanation
Indices: 897199--897329 Score: 235
Period size: 54 Copynumber: 2.4 Consensus size: 54
897189 GGATGATATA
* * *
897199 GTTCCTTCGTGATGAGGACGTCTGGCCATTTTTAAAGATATTTGAGATAACATG
1 GTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACG
897253 GTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACG
1 GTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACG
897307 GTTCCTTCGTGATGAGGACGTCT
1 GTTCCTTCGTGATGAGGACGTCT
897330 AGTTATCTAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (54 bp):
GTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACG
Found at i:906992 original size:119 final size:121
Alignment explanation
Indices: 906744--907038 Score: 434
Period size: 119 Copynumber: 2.5 Consensus size: 121
906734 TGAACTGCAA
* * * * ** * * *
906744 GCAAATCACTATGG-AATATTTAAAAATAATTGTTTTTTCAAAGTTTCAACTAATAAAGCTCATT
1 GCAAATCTCCATGGAAAT-TTTAAAATTAATTGATTAGTCAAAGTTTCAAATAATCAAGCTAATT
*
906808 TTCTCAAACCCCATGCAATACCCACGAAAAATTTAAAATTCATGCAAAGAATCCCAT
65 TTCTCAAACCCCATGCAATACCCACGAAAAAATTAAAATTCATGCAAAGAATCCCAT
*
906865 GCAAATCTCCATGGAAATTTTAAAATTAATTGATTAGTCAAAGTTTCAAATAATCAGGCTAATTT
1 GCAAATCTCCATGGAAATTTTAAAATTAATTGATTAGTCAAAGTTTCAAATAATCAAGCTAATTT
* *
906930 T-TCAAACCCCATGCAATACCCA-TAAAAAATTAAAATTCATGCAAAGAATCCCCT
66 TCTCAAACCCCATGCAATACCCACGAAAAAATTAAAATTCATGCAAAGAATCCCAT
*
906984 GCAAATCTCCATGGAAATTTTAAAATTAATTGATTAGTCAAAGTTTCAATTAATC
1 GCAAATCTCCATGGAAATTTTAAAATTAATTGATTAGTCAAAGTTTCAAATAATC
907039 TCCACTTCTT
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 83 0.52
120 21 0.13
121 52 0.33
122 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (121 bp):
GCAAATCTCCATGGAAATTTTAAAATTAATTGATTAGTCAAAGTTTCAAATAATCAAGCTAATTT
TCTCAAACCCCATGCAATACCCACGAAAAAATTAAAATTCATGCAAAGAATCCCAT
Found at i:907896 original size:28 final size:29
Alignment explanation
Indices: 907865--907930 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
907855 AAAATATTAC
* *
907865 TAAAATTAAAA-TATTAAAGA-TTAGGGAT
1 TAAAATTAAAATTATCAAA-ATTTAGGAAT
*
907893 TAAAATAAAAATTATCAAAATTTAGGAAT
1 TAAAATTAAAATTATCAAAATTTAGGAAT
*
907922 TAAATTTAA
1 TAAAATTAA
907931 TATTTACCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (29 bp):
TAAAATTAAAATTATCAAAATTTAGGAAT
Found at i:909345 original size:20 final size:20
Alignment explanation
Indices: 909322--909363 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
909312 AAAAAATAAG
* *
909322 AAAATAGAAGAAGTAAAATCA
1 AAAATA-AACAAGGAAAATCA
909343 AAAATAAACAAGGAAAATCA
1 AAAATAAACAAGGAAAATCA
909363 A
1 A
909364 TAAAGCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.69, C:0.07, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAATAAACAAGGAAAATCA
Found at i:910919 original size:20 final size:20
Alignment explanation
Indices: 910894--910933 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
910884 TCGCAAGCTT
910894 TGTTGGGCCA-ATGTAGTTTC
1 TGTTGGGCCACATGTA-TTTC
910914 TGTTGGGCCACATGTATTTC
1 TGTTGGGCCACATGTATTTC
910934 ATTTGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.15, C:0.17, G:0.28, T:0.40
Consensus pattern (20 bp):
TGTTGGGCCACATGTATTTC
Found at i:911712 original size:111 final size:108
Alignment explanation
Indices: 911506--911764 Score: 342
Period size: 111 Copynumber: 2.4 Consensus size: 108
911496 GTATTGTTTT
* **
911506 GAGTCAAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTATTTGTTGAC
1 GAGTCAAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAGAACTGAAAAATTATTTGTTGAC
* * *
911569 AGTTAGCCGCCCCTTTGCCGTGAAGTTGAGCTTGTGCTGTCTC
66 AGTTAGCCGCCCCTTCGCCATGAAGTTGAGCTTGTGCTATCTC
* * * *
911612 GAGTCTAATATCCTTCGCCGTGATGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTT
1 GAGTCAAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAA-G-AACTGAAAAA-TTATTTGTT
* * *
911677 GACAGTTATCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTATCTT
63 GACAGTTAGCCGCCCCTTCGCCATGAAGTTGAGCTTGTGCTATCTC
* *
911723 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
1 GAGTCAAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAA
911765 ACTGGAAAGC
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
106 36 0.27
109 1 0.01
110 8 0.06
111 86 0.66
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (108 bp):
GAGTCAAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAGAACTGAAAAATTATTTGTTGAC
AGTTAGCCGCCCCTTCGCCATGAAGTTGAGCTTGTGCTATCTC
Found at i:913004 original size:15 final size:15
Alignment explanation
Indices: 912959--913004 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
912949 CACTCTAAAC
912959 GTTTTTTCTATTTCTTT
1 GTTTTTTC--TTTCTTT
*
912976 -TTTTTCCTTT-TTT
1 GTTTTTTCTTTCTTT
912989 GTTTTTTCTTTCTTT
1 GTTTTTTCTTTCTTT
913004 G
1 G
913005 ACTTAAGACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 12 0.48
15 4 0.16
16 6 0.24
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (15 bp):
GTTTTTTCTTTCTTT
Found at i:916659 original size:14 final size:14
Alignment explanation
Indices: 916640--916667 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
916630 ATGGAAAGGG
916640 AAAAAAAGCATCTT
1 AAAAAAAGCATCTT
916654 AAAAAAAGCATCTT
1 AAAAAAAGCATCTT
916668 TTATTGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAAAAAGCATCTT
Found at i:920090 original size:27 final size:25
Alignment explanation
Indices: 920060--920110 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
920050 ACGAATGTAA
*
920060 AAACATGGAAAATATACAATAAAAAAC
1 AAACAT-G-AAATATAAAATAAAAAAC
*
920087 AAACATGAAATATAAAATACAAAA
1 AAACATGAAATATAAAATAAAAAA
920111 TATGCAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 1 0.05
27 6 0.27
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.16
Consensus pattern (25 bp):
AAACATGAAATATAAAATAAAAAAC
Found at i:926331 original size:30 final size:30
Alignment explanation
Indices: 926292--926368 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
926282 ACTAAACCCG
**
926292 TCCCCGTCCCCGTTTAACATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACAATTTT
* * *
926322 TCTCTGTCCCCGTTTAGCATAAACAATTTT
1 TCCCCGTCCCCGTTTAACATAAACAATTTT
*
926352 TCCCCATCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
926369 TTCAGTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACAATTTT
Found at i:933228 original size:161 final size:161
Alignment explanation
Indices: 932952--933271 Score: 487
Period size: 161 Copynumber: 2.0 Consensus size: 161
932942 TTCATTTTAG
*
932952 TTTTATTTCCTCCAACTTCTATTTATTTAATGAGTAAACTATCACAATGCCACTTTTATTTTTAT
1 TTTTATTTCCTCCAACTTCTATTTATTTAATGAGTAAACTATCACAATGCCACTTTTATTTTTAA
* * * * *
933017 TTTATCTTATTTTGATCATTAAAATTAGAAATGTTATGTTTCAGTCACTTATATTATCAAATTGT
66 TATATATTATTTTGATCATTAAAATTAAAAATGTTATGTGTCAGTCACTTATATCATCAAATTGT
933082 TACAATTTCATCACCCAGGCGATAATTATAC
131 TACAATTTCATCACCCAGGCGATAATTATAC
* ** * **
933113 TTTTATTTTCTCCGTCTTCTATTTATTTAATGAGTAAACTATCACCATGTTACTTTTATTTTTAA
1 TTTTATTTCCTCCAACTTCTATTTATTTAATGAGTAAACTATCACAATGCCACTTTTATTTTTAA
* ** *
933178 TATATATTATTTTGATCATTAAAATTAAAAATGTTATGTGTCATTCACTTATATCATTGATTTGT
66 TATATATTATTTTGATCATTAAAATTAAAAATGTTATGTGTCAGTCACTTATATCATCAAATTGT
*
933243 TACAATTTCATCACCTAGGCGATAATTAT
131 TACAATTTCATCACCCAGGCGATAATTAT
933272 TCTTACTTTG
Statistics
Matches: 142, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
161 142 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.47
Consensus pattern (161 bp):
TTTTATTTCCTCCAACTTCTATTTATTTAATGAGTAAACTATCACAATGCCACTTTTATTTTTAA
TATATATTATTTTGATCATTAAAATTAAAAATGTTATGTGTCAGTCACTTATATCATCAAATTGT
TACAATTTCATCACCCAGGCGATAATTATAC
Found at i:936346 original size:21 final size:21
Alignment explanation
Indices: 936316--936356 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
936306 ATATATTTTT
936316 TATTTTTTTTAAA-AATTAAA
1 TATTTTTTTTAAACAATTAAA
936336 TATTATTTTTTAAACAATTAA
1 TATT-TTTTTTAAACAATTAA
936357 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTTTTTAAACAATTAAA
Found at i:936807 original size:29 final size:29
Alignment explanation
Indices: 936769--936841 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 29
936759 AACGACCTAT
936769 TTAGGTCGCCATGCAAG-CTGCGCCATTG
1 TTAGGTCGCCATGCAAGTCTGCGCCATTG
*
936797 TTGAGGTCGCCATGCAAGTTGTGCGCCATTG
1 TT-AGGTCGCCATGCAAG-TCTGCGCCATTG
936828 TT-GGTCGCCATGCA
1 TTAGGTCGCCATGCA
936842 TGCCATGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 2 0.05
29 27 0.66
31 12 0.29
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.27
Consensus pattern (29 bp):
TTAGGTCGCCATGCAAGTCTGCGCCATTG
Found at i:938112 original size:25 final size:26
Alignment explanation
Indices: 938059--938121 Score: 110
Period size: 25 Copynumber: 2.5 Consensus size: 26
938049 GGCAACAACC
*
938059 AAAATATTTTAAGGTTTAGGGTTTAT
1 AAAATATTTTAGGGTTTAGGGTTTAT
938085 AAAATATTTTAGGGTTTA-GGTTTAT
1 AAAATATTTTAGGGTTTAGGGTTTAT
938110 AAAATATTTTAG
1 AAAATATTTTAG
938122 TAAGTTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (26 bp):
AAAATATTTTAGGGTTTAGGGTTTAT
Found at i:938179 original size:21 final size:20
Alignment explanation
Indices: 938140--938220 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
938130 ACCCTAAACC
*
938140 CTAAATACTAAATACTAAATA
1 CTAAATACTAAA-CCTAAATA
*
938161 CTAAATACTAAACCTTAAATC
1 CTAAATACTAAACC-TAAATA
* *
938182 CTAAATCCTAAGCCTAAATA
1 CTAAATACTAAACCTAAATA
*
938202 TTAAA-ACCTAAACCCTAAA
1 CTAAATA-CTAAA-CCTAAA
938221 ATATTTTTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 14 0.29
21 35 0.71
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (20 bp):
CTAAATACTAAACCTAAATA
Found at i:938214 original size:6 final size:7
Alignment explanation
Indices: 938132--938220 Score: 65
Period size: 7 Copynumber: 12.9 Consensus size: 7
938122 TAAGTTTAAC
*
938132 CCTAAAC
1 CCTAAAT
938139 CCTAAAT
1 CCTAAAT
*
938146 ACTAAAT
1 CCTAAAT
*
938153 ACTAAAT
1 CCTAAAT
*
938160 ACTAAAT
1 CCTAAAT
*
938167 ACTAAA-
1 CCTAAAT
938173 CCTTAAAT
1 CC-TAAAT
938181 CCTAAAT
1 CCTAAAT
*
938188 CCT-AAG
1 CCTAAAT
938194 CCTAAAT
1 CCTAAAT
** *
938201 ATTAAAA
1 CCTAAAT
*
938208 CCTAAAC
1 CCTAAAT
938215 CCTAAA
1 CCTAAA
938221 ATATTTTTGC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
6 6 0.09
7 60 0.88
8 2 0.03
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (7 bp):
CCTAAAT
Found at i:938964 original size:31 final size:31
Alignment explanation
Indices: 938928--938989 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
938918 GCATAGCGAC
* * * *
938928 CAACAATGGCGCACAGCTTTCTTGGCGACCT
1 CAACAAGGGCGCACAACTTGCATGGCGACCT
938959 CAACAAGGGCGCACAACTTGCATGGCGACCT
1 CAACAAGGGCGCACAACTTGCATGGCGACCT
938990 AAATAGGTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (31 bp):
CAACAAGGGCGCACAACTTGCATGGCGACCT
Found at i:940134 original size:13 final size:14
Alignment explanation
Indices: 940116--940147 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
940106 ATTTATAAAA
940116 AAAATAATATT-TT
1 AAAATAATATTATT
940129 AAAAT-ATATTATT
1 AAAATAATATTATT
940142 AAAATA
1 AAAATA
940148 CAATAGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:940494 original size:25 final size:26
Alignment explanation
Indices: 940441--940503 Score: 110
Period size: 25 Copynumber: 2.5 Consensus size: 26
940431 GGCAACAACC
*
940441 AAAATATTTTAAGGTTTAGGGTTTAT
1 AAAATATTTTAGGGTTTAGGGTTTAT
940467 AAAATATTTTAGGGTTTA-GGTTTAT
1 AAAATATTTTAGGGTTTAGGGTTTAT
940492 AAAATATTTTAG
1 AAAATATTTTAG
940504 TAAGTTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (26 bp):
AAAATATTTTAGGGTTTAGGGTTTAT
Found at i:940589 original size:6 final size:7
Alignment explanation
Indices: 940514--940595 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
940504 TAAGTTTAAC
*
940514 CCTAAAC
1 CCTAAAT
940521 CCTAAAT
1 CCTAAAT
*
940528 ACTAAAT
1 CCTAAAT
*
940535 ACTAAAT
1 CCTAAAT
*
940542 ACTAAA-
1 CCTAAAT
940548 CCTTAAAT
1 CC-TAAAT
940556 CCTAAAT
1 CCTAAAT
*
940563 CCT-AAG
1 CCTAAAT
940569 CCTAAAT
1 CCTAAAT
** *
940576 ATTAAAA
1 CCTAAAT
*
940583 CCTAAAC
1 CCTAAAT
940590 CCTAAA
1 CCTAAA
940596 ATATTTTTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
6 6 0.10
7 53 0.87
8 2 0.03
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (7 bp):
CCTAAAT
Found at i:941339 original size:31 final size:31
Alignment explanation
Indices: 941303--941364 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
941293 GCATAGCGAC
* * * *
941303 CAACAATGGCGCACAGCTTTCTTGGCGACCT
1 CAACAAGGGCGCACAACTTGCATGGCGACCT
941334 CAACAAGGGCGCACAACTTGCATGGCGACCT
1 CAACAAGGGCGCACAACTTGCATGGCGACCT
941365 AAATAGGTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (31 bp):
CAACAAGGGCGCACAACTTGCATGGCGACCT
Found at i:943035 original size:7 final size:7
Alignment explanation
Indices: 943023--943056 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
943013 ACCATACCCA
943023 TTGACCG
1 TTGACCG
943030 TTGACCG
1 TTGACCG
943037 TTGACCGG
1 TTGACC-G
943045 TCTGACCG
1 T-TGACCG
943053 TTGA
1 TTGA
943057 TTTTGACCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.64
8 4 0.16
9 5 0.20
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
TTGACCG
Found at i:943052 original size:16 final size:14
Alignment explanation
Indices: 943023--943056 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
943013 ACCATACCCA
943023 TTGACCGTTGACCG
1 TTGACCGTTGACCG
943037 TTGACCGGTCTGACCG
1 TTGACC-GT-TGACCG
943053 TTGA
1 TTGA
943057 TTTTGACCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 2 0.11
16 10 0.56
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (14 bp):
TTGACCGTTGACCG
Found at i:943065 original size:22 final size:22
Alignment explanation
Indices: 943037--943078 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
943027 CCGTTGACCG
943037 TTGACCGGTCTGACCGTTGATT
1 TTGACCGGTCTGACCGTTGATT
*
943059 TTGACCGGTCTTACCGTTGA
1 TTGACCGGTCTGACCGTTGA
943079 CCATTGACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (22 bp):
TTGACCGGTCTGACCGTTGATT
Found at i:947672 original size:21 final size:21
Alignment explanation
Indices: 947648--947687 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
947638 GGGCTTGATA
*
947648 GTATTGATACTAATGTTCACG
1 GTATCGATACTAATGTTCACG
*
947669 GTATCGATACTACTGTTCA
1 GTATCGATACTAATGTTCA
947688 GTATCGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
GTATCGATACTAATGTTCACG
Found at i:947693 original size:19 final size:19
Alignment explanation
Indices: 947647--947693 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
947637 TGGGCTTGAT
*
947647 AGTATTGATACTAATGTTC
1 AGTATCGATACTAATGTTC
*
947666 ACGGTATCGATACTACTGTTC
1 A--GTATCGATACTAATGTTC
947687 AGTATCG
1 AGTATCG
947694 GTAGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (19 bp):
AGTATCGATACTAATGTTC
Found at i:951651 original size:30 final size:30
Alignment explanation
Indices: 951617--951676 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
951607 CATCACTTGG
*
951617 TAGTTATGTATAATTGAGCTTCACAAAGCT
1 TAGTTATGTATAACTGAGCTTCACAAAGCT
* * *
951647 TAGTTCTGTATTACTGAGCTTCTCAAAGCT
1 TAGTTATGTATAACTGAGCTTCACAAAGCT
951677 CACTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (30 bp):
TAGTTATGTATAACTGAGCTTCACAAAGCT
Found at i:954477 original size:58 final size:58
Alignment explanation
Indices: 954387--954502 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
954377 TGACCTTTAT
* *
954387 TTTTTCGGAATAAATTCGATTAAAAATAAGGAAATTGAAACTTTGATGGCTGTAGATG
1 TTTTTCGGAATAAATCCGATTAAAAATAAGGAAATTGAAACGTTGATGGCTGTAGATG
*
954445 TTTTTCGGAATAAATCCGATTAAAAATAAGGAAATTGAAACGTTGATGTCTGTAGATG
1 TTTTTCGGAATAAATCCGATTAAAAATAAGGAAATTGAAACGTTGATGGCTGTAGATG
954503 GTAATCGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (58 bp):
TTTTTCGGAATAAATCCGATTAAAAATAAGGAAATTGAAACGTTGATGGCTGTAGATG
Found at i:954665 original size:40 final size:41
Alignment explanation
Indices: 954606--954691 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 41
954596 ACTCTTGAAT
954606 ATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTC
1 ATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTC
* * *
954647 -TAAAATTGACTTCCATTCTATCGAACATGTTTTGAAGTTC
1 ATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTC
954687 ATAAA
1 ATAAA
954692 TTAGAGATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (41 bp):
ATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTC
Found at i:954964 original size:19 final size:19
Alignment explanation
Indices: 954936--954972 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
954926 TATTTATTTT
954936 AAATTATTTTAT-TTTAAG
1 AAATTATTTTATATTTAAG
954954 AAATTATTTTTATATTTAA
1 AAATTA-TTTTATATTTAA
954973 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTATTTTATATTTAAG
Found at i:955252 original size:39 final size:39
Alignment explanation
Indices: 955196--955280 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
955186 TCTTGAATAT
* *
955196 AAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTC
1 AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTC
* *
955235 AAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTC
1 AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTC
955274 ATAAATT
1 A-AAATT
955281 AGAGATTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.88
40 5 0.12
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (39 bp):
AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTC
Found at i:955551 original size:19 final size:19
Alignment explanation
Indices: 955523--955559 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
955513 TATTTATTTT
955523 AAATTATTTTAT-TTTAAG
1 AAATTATTTTATATTTAAG
955541 AAATTATTTTTATATTTAA
1 AAATTA-TTTTATATTTAA
955560 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTATTTTATATTTAAG
Found at i:955692 original size:587 final size:588
Alignment explanation
Indices: 954579--956343 Score: 3462
Period size: 587 Copynumber: 3.0 Consensus size: 588
954569 ATAGTCGGTC
954579 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
1 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
* *
954644 TTCTAAAATTGACTTCCATTCTATCGAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
66 TTCAAAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
954709 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
131 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
954774 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
196 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
954839 GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
261 GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
954904 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
326 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
954969 TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAAAGTAATTTATAGTGACTAAAA
391 TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAAAGTAATTTATAGTGACTAAAA
955034 CATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAATGA
456 CATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAATGA
955099 GTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAATTG
521 GTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAATTG
955164 CTA
586 CTA
955167 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
1 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
955232 TTC-AAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
66 TTCAAAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
955296 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
131 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
955361 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
196 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
955426 GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
261 GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
955491 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
326 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
955556 TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAAAGTAATTTATAGTGACTAAAA
391 TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAAAGTAATTTATAGTGACTAAAA
955621 CATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAATGA
456 CATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAATGA
955686 GTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAATTG
521 GTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAATTG
955751 CTA
586 CTA
955754 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
1 GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
955819 TTCAAAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
66 TTCAAAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
955884 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
131 CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
955949 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
196 TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
*
956014 GGATTTTGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
261 GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
956079 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
326 TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
956144 TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAATAAAGTAATTTATAGTGACTA
391 TTAATAATAATAATAAAATATTACATCAT--A-AATAATAATAATAAAGTAATTTATAGTGACTA
956209 AAACATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATT-AAAAAAAATTAAAAATTAAA
453 AAACATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAA
956273 TGAGTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAA
518 TGAGTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAA
956338 TTGCTA
583 TTGCTA
956344 TTATAGGTAT
Statistics
Matches: 1171, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
587 586 0.50
588 417 0.36
590 92 0.08
591 76 0.06
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (588 bp):
GTTTCGTTTCTGTATCGACTCTTGAATATAAAATCGACTTCAATTCTATCGAACATGTTCTGAAG
TTCAAAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCATAAATTAGAGATTGAAATGTT
CTGAAGTGTTTCGTCTTGAGCAGATTTTATGGGTCGTTTCGTATCGACTCTTGAGTCTAAAACCG
TTTTCCATTCTATCGAACATGTTCTGAACTCTATAAATTGAAAAATCCGAAAACCAAACGATTAC
GGATTTCGAAAGCCGACAATGATAGATGGTTACGAGAACAGATAGATATATTTTTTTAAATTTAA
TAATAATAAAATTTTATTTTATTATTTATTTTAAATTATTTTATTTTAAGAAATTATTTTTATAT
TTAATAATAATAATAAAATATTACATCATAAATAATAATAATAAAGTAATTTATAGTGACTAAAA
CATGATAAATTTAAATAATTTAAAATTCTAGTGAGTAAATTAAAAAAAAATTAAAAATTAAATGA
GTAAAATGGAAGAGTAAAATAGGTGATAAAATAAATGAATGAATATAAAGTTCAATGATGAATTG
CTA
Found at i:955840 original size:40 final size:40
Alignment explanation
Indices: 955783--955868 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
955773 TCTTGAATAT
* *
955783 AAAATCGACTTCAATTCTATCGAACATGTTCTGAAGTTCA
1 AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTCA
* *
955823 AAAATTGACTTCCATTCTATCAAACATGTTTTGAAGTTCA
1 AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTCA
*
955863 TAAATT
1 AAAATT
955869 AGAGATTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (40 bp):
AAAATTGACTTCAATTCTATCAAACATGTTCTGAAGTTCA
Found at i:956139 original size:19 final size:19
Alignment explanation
Indices: 956111--956147 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
956101 TATTTATTTT
956111 AAATTATTTTAT-TTTAAG
1 AAATTATTTTATATTTAAG
956129 AAATTATTTTTATATTTAA
1 AAATTA-TTTTATATTTAA
956148 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTATTTTATATTTAAG
Found at i:956396 original size:19 final size:19
Alignment explanation
Indices: 956372--956411 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
956362 TATGCATGTA
956372 AGCTGAGTAAGCAGCAGTT
1 AGCTGAGTAAGCAGCAGTT
*
956391 AGCTGAGTCAGCAGCAGTT
1 AGCTGAGTAAGCAGCAGTT
956410 AG
1 AG
956412 GAGTTTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (19 bp):
AGCTGAGTAAGCAGCAGTT
Found at i:957474 original size:29 final size:29
Alignment explanation
Indices: 957436--957526 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
957426 GGCGTGGGCG
*
957436 AACTAGGTTGCAGTGTCAGCCCTGTGGCG
1 AACTAGGTTGCAGTGTCAGCCCTGTGGCA
957465 AACTAGGTTGCAGTGTCAGCCCTGTGGCA
1 AACTAGGTTGCAGTGTCAGCCCTGTGGCA
957494 AACTAGGTTGCAGTGTCAGCCCTGTGGCA
1 AACTAGGTTGCAGTGTCAGCCCTGTGGCA
957523 AACT
1 AACT
957527 TGGCCACCTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (29 bp):
AACTAGGTTGCAGTGTCAGCCCTGTGGCA
Found at i:961090 original size:19 final size:19
Alignment explanation
Indices: 961054--961093 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
961044 TATGCATGTA
* *
961054 AGCTGAGTAAGTAGCAGTT
1 AGCTGAGTAAGCAACAGTT
*
961073 AGCTGAGTCAGCAACAGTT
1 AGCTGAGTAAGCAACAGTT
961092 AG
1 AG
961094 GAGTTTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (19 bp):
AGCTGAGTAAGCAACAGTT
Found at i:963162 original size:3 final size:3
Alignment explanation
Indices: 963149--963196 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
963139 TCACCGGATA
963149 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
963195 AT
1 AT
963197 CTAATTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:963220 original size:19 final size:19
Alignment explanation
Indices: 963198--963241 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
963188 TATTATTATC
963198 TAATTATAATATTAAATTT
1 TAATTATAATATTAAATTT
* * *
963217 TAATTTTAATGTTTAATTT
1 TAATTATAATATTAAATTT
963236 T-ATTAT
1 TAATTAT
963242 TATTATTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTATAATATTAAATTT
Found at i:963758 original size:13 final size:14
Alignment explanation
Indices: 963740--963769 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
963730 AAGGTAAAAC
963740 TTTCTTTTTTT-AT
1 TTTCTTTTTTTAAT
963753 TTTCTTTTTTTAAT
1 TTTCTTTTTTTAAT
963767 TTT
1 TTT
963770 GAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTTTAAT
Found at i:965296 original size:16 final size:17
Alignment explanation
Indices: 965266--965298 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
965256 AAACCGATCC
965266 AAAAAACCGATAACCGA
1 AAAAAACCGATAACCGA
*
965283 AAAAAACTGA-AACCGA
1 AAAAAACCGATAACCGA
965299 TTTAGTGTGT
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:0.61, C:0.21, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAACCGATAACCGA
Found at i:969128 original size:20 final size:19
Alignment explanation
Indices: 969078--969156 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 19
969068 AAATGTTAGA
969078 CAAAAAAAATAAGAATAAA-
1 CAAAAAAAATAA-AATAAAT
*
969097 -AAAATGATAATAACAATAAAT
1 CAAAA--AAAATAA-AATAAAT
*
969118 CAAAGAAAATAAAATAAAT
1 CAAAAAAAATAAAATAAAT
969137 CAATAAAAAATAAAAGTAAA
1 CAA-AAAAAATAAAA-TAAA
969157 AATAAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
18 4 0.08
19 10 0.20
20 28 0.57
21 4 0.08
22 3 0.06
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (19 bp):
CAAAAAAAATAAAATAAAT
Found at i:969898 original size:3 final size:3
Alignment explanation
Indices: 969879--969940 Score: 74
Period size: 3 Copynumber: 20.3 Consensus size: 3
969869 TGTAGGGCCT
*
969879 ATA AAA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A
969925 ATA TATA AT- ATA ATA A
1 ATA -ATA ATA ATA ATA A
969941 AATGTTTTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:970457 original size:83 final size:83
Alignment explanation
Indices: 970306--970633 Score: 431
Period size: 83 Copynumber: 3.9 Consensus size: 83
970296 GGTCTTTGGT
* * * * * * *
970306 AGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGCTGAGTGGAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAA
970371 CTCGAAGGTCTTTGTTGAC
65 CTCGAAGGTCTTTGTTGAC
* * *
970390 AGATAACCCTTCTACCCTTGATTTATACTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
970455 TCGAAGGTCTTTTGTTGGC
66 TCGAAGGTC-TTTGTTGAC
* * * * * * **
970474 AAATAACCCTTCTTGCCTTGAGTTATGTTGTAAATGATATGCCTTGGAGATGAGCGTAATAAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
970539 TCGAAGGTCTTCGTTGAT
66 TCGAAGGTCTTTGTTGAC
**
970557 AGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
970622 TCGAAGGTCTTT
66 TCGAAGGTCTTT
970634 TGTGTTTCAA
Statistics
Matches: 207, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
83 105 0.51
84 102 0.49
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (83 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGTTGAC
Found at i:970565 original size:167 final size:168
Alignment explanation
Indices: 970312--970636 Score: 481
Period size: 167 Copynumber: 1.9 Consensus size: 168
970302 TGGTAGATAG
* * * * * **
970312 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGCTGAGTGGAGTCGAACTCGAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGATGCCTTGGAGATGAGCGGAATAAAACTCGAA
* * **
970377 GGTCTTTGTTGACAGATAACCCTTCTACCCTTGATTTATACTGTAAATGATGTGCCTTGGAGCTG
66 GGTCTTCGTTGACAGATAACCCTTCTACCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTG
970442 AGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAA
131 AGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAA
* * * *
970480 CCCTTCTTGCCTTGAGTTATGTTGTAAATGAT-ATGCCTTGGAGATGAGCGTAATAAAACTCGAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGATGCCTTGGAGATGAGCGGAATAAAACTCGAA
* * *
970544 GGTCTTCGTTGATAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTG
66 GGTCTTCGTTGACAGATAACCCTTCTACCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTG
970609 AGCGTAGTCGAACTCGAAGGTCTTTTGT
131 AGCGTAGTCGAACTCGAAGGTCTTTTGT
970637 GTTTCAAGAG
Statistics
Matches: 139, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
167 110 0.79
168 29 0.21
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (168 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGATGCCTTGGAGATGAGCGGAATAAAACTCGAA
GGTCTTCGTTGACAGATAACCCTTCTACCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTG
AGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAA
Found at i:970736 original size:69 final size:66
Alignment explanation
Indices: 970625--970751 Score: 193
Period size: 69 Copynumber: 1.9 Consensus size: 66
970615 GTCGAACTCG
*
970625 AAGGTCTTTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTTGTGTTTCAAGAGAAATGAT
1 AAGGTCTTTTATGTTTCAAGAGAAACATTTTCAAAGG---TTTTTTGTGTTTCAAGAGAAATGAT
970690 TTCA
63 TTCA
*
970694 AAGGTTTTTTATGTTTCAAGAGAAACGA-TTTCAAAGGTTTTTTGTGTTTCAAGAGAAA
1 AAGGTCTTTTATGTTTCAAGAGAAAC-ATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAA
970752 CTGTCTCCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
66 21 0.38
69 33 0.60
70 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (66 bp):
AAGGTCTTTTATGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAATGATTTC
A
Found at i:970752 original size:33 final size:33
Alignment explanation
Indices: 970625--970752 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
970615 GTCGAACTCG
*
970625 AAGGTCTTTTGTGTTTCAAGAGAAAC-ATTTTCA
1 AAGGTTTTTTGTGTTTCAAGAGAAACGA-TTTCA
*
970658 AAGGTTTTTTTTTGTGTTTCAAGAGAAATGATTTCA
1 AAGG---TTTTTTGTGTTTCAAGAGAAACGATTTCA
*
970694 AAGGTTTTTTATGTTTCAAGAGAAACGATTTCA
1 AAGGTTTTTTGTGTTTCAAGAGAAACGATTTCA
970727 AAGGTTTTTTGTGTTTCAAGAGAAAC
1 AAGGTTTTTTGTGTTTCAAGAGAAAC
970753 TGTCTCCAAG
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
33 56 0.65
36 29 0.34
37 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (33 bp):
AAGGTTTTTTGTGTTTCAAGAGAAACGATTTCA
Found at i:970785 original size:37 final size:37
Alignment explanation
Indices: 970738--971056 Score: 213
Period size: 36 Copynumber: 9.1 Consensus size: 37
970728 AGGTTTTTTG
*
970738 TGTTTCAAGAGAAACTGTCTCCAAG-GAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCT-CAAGAGAGACAAAATTT
* *
970775 TGTTTCAAGAGAAACATAT-TCAA-AG-G------TTGG
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT-T
*
970805 TATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT
*
970843 T-TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
970878 TGTTTCAAGAGAAACTGTATTAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
970915 AGTTCCAA-AAAAACTGTCTCAATG-GAGATAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAA-GAGAGACAAAATTT
* *
970950 TGTTTCAAG-GAAAACATAT-T-TA-A-AG-----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTT
* * *
970979 TGTTTTAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
971015 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
971052 TGTTT
1 TGTTT
971057 TGAGTAAATT
Statistics
Matches: 226, Mismatches: 24, Indels: 64
0.72 0.08 0.20
Matches are distributed among these distances:
28 4 0.02
29 19 0.08
30 20 0.09
31 3 0.01
32 3 0.01
33 2 0.01
35 13 0.06
36 91 0.40
37 66 0.29
38 3 0.01
39 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:970848 original size:67 final size:68
Alignment explanation
Indices: 970705--970856 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 68
970695 AGGTTTTTTA
* * *
970705 TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAAGGAGGCAA
1 TGTTTCAAGAGAAACGATTTCAAAGG--TTTGGTATTTCAAGAGAAACTGTCTCCAAGGAGACAA
970770 AATTT
64 AATTT
970775 TGTTTCAAGAGAAAC-ATATTCAAAGG-TTGGTATTTCAAGAGAAACTGTCT-CAAGAGAGACAA
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTTGGTATTTCAAGAGAAACTGTCTCCAAG-GAGACAA
970837 AACTTT
64 AA-TTT
*
970843 T-TTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
970857 TGTCTCAAGA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 4 0.05
67 42 0.56
68 4 0.05
69 2 0.03
70 23 0.31
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (68 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTTGGTATTTCAAGAGAAACTGTCTCCAAGGAGACAAAA
TTT
Found at i:970892 original size:36 final size:36
Alignment explanation
Indices: 970807--971056 Score: 225
Period size: 36 Copynumber: 7.1 Consensus size: 36
970797 AAGGTTGGTA
*
970807 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
*
970844 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
970880 TTTCAAGAGAAACTGTATTAAGAGAGACAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
* * *
970917 TTCCAA-AAAAACTGTCTCAATG-GAGATAAAATTTG
1 TTTCAAGAGAAACTGTCTCAA-GAGAGACAAAATTTG
* * *
970952 TTTCAAG-GAAAACATAT-T-TA-A-AG----ATTTTG
1 TTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTTG
* * *
970981 TTTTAAGGGAAACTATCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
971017 TTTAAAGGGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
971054 TTT
1 TTT
971057 TGAGTAAATT
Statistics
Matches: 175, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.02
29 16 0.09
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 9 0.05
36 91 0.52
37 49 0.28
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:971391 original size:43 final size:43
Alignment explanation
Indices: 971344--971468 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
971334 ATCTAAATTT
* * * *
971344 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTAGATGTATG
1 GGCACGATATCCTTCGTCGTGGAGTTAAAATCGTGGATGTATG
* *
971387 GGCACGATAT-CTTCCGTCGTGGAGTTAAAATCGTGGATTTGTG
1 GGCACGATATCCTT-CGTCGTGGAGTTAAAATCGTGGATGTATG
* *
971430 GGTACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATG
1 GGCACGATATCCTTCGTCGTGGAGTTAAAATCGTGGATG
971469 GCCCTTTCGT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
GGCACGATATCCTTCGTCGTGGAGTTAAAATCGTGGATGTATG
Found at i:972990 original size:95 final size:94
Alignment explanation
Indices: 972743--973003 Score: 299
Period size: 95 Copynumber: 2.7 Consensus size: 94
972733 GGCTAGCTGA
* *
972743 ATCCATAAAGCCGAGGCATTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTGTATAG-AT
1 ATCCATAAAGCCG-GGAATTTAACCAATTGCTCTAGAGGGACAACTCAA-A-C-TT-TATTGTAT
*
972807 ATTATAATCACCTTTATCAGGCTAGCCGAATATT
61 ATTATAATCACCTTTATAAGGCTAGCCGAATATT
* *
972841 ATCCATAAAGCCGGGGAATTTAACCAATTGCTCTAGAAGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCC-GGGAATTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATATTA
* * * *
972906 TAATCGCCTTTATAAGGCTAGCTGATTCTT
65 TAATCACCTTTATAAGGCTAGCCGAATATT
** * * ** *
972936 ATCCATAAAGCCAGGGTGTTTAACCAATTTCTCTAGAGGGATAGTTCAAACTTTATTTTATATAT
1 ATCCATAAAGCC-GGGAATTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATAT-T
973001 ATA
64 ATA
973004 TAATTATAAT
Statistics
Matches: 141, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
94 4 0.03
95 86 0.61
96 5 0.04
98 45 0.32
99 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (94 bp):
ATCCATAAAGCCGGGAATTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATATTAT
AATCACCTTTATAAGGCTAGCCGAATATT
Found at i:974557 original size:16 final size:16
Alignment explanation
Indices: 974531--974573 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
974521 TGACGTAAAT
974531 GATAA-AAAAATGCAA
1 GATAACAAAAATGCAA
974546 GATAACAAAAATGCAA
1 GATAACAAAAATGCAA
974562 GATAACAAAAAT
1 GATAACAAAAAT
974574 AAAAAGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.14
Consensus pattern (16 bp):
GATAACAAAAATGCAA
Found at i:974643 original size:16 final size:18
Alignment explanation
Indices: 974617--974650 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
974607 AAAAATAAAA
974617 AAATCCTA-CCCCACATG
1 AAATCCTACCCCCACATG
974634 AAAT-CTACCCCCACATG
1 AAATCCTACCCCCACATG
974651 CTTATTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (18 bp):
AAATCCTACCCCCACATG
Found at i:975548 original size:28 final size:28
Alignment explanation
Indices: 975517--975572 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
975507 ATGATAATAA
*
975517 CAATAAATCAAAG-AAAAA-AACAATAAAT
1 CAATAAA-AAAAGTAAAAATAA-AATAAAT
975545 CAATAAAAAAAGTAAAAATAAAATAAAT
1 CAATAAAAAAAGTAAAAATAAAATAAAT
975573 AAAACAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 19 0.76
29 2 0.08
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (28 bp):
CAATAAAAAAAGTAAAAATAAAATAAAT
Found at i:975566 original size:15 final size:15
Alignment explanation
Indices: 975493--975591 Score: 53
Period size: 17 Copynumber: 6.3 Consensus size: 15
975483 GACAAAAAAC
*
975493 ATAAGAATAAAA-AA
1 ATAAAAATAAAATAA
* *
975507 ATGATAATAACAATAA
1 ATAAAAATAA-AATAA
975523 ATCAAAGAA-AAAA-ACA
1 AT-AAA-AATAAAATA-A
975539 ATAAATCAATAAAA-AA
1 ATAAA--AATAAAATAA
975555 AGTAAAAATAAAATAA
1 A-TAAAAATAAAATAA
*
975571 ATAAAACAAAATAATAA
1 ATAAAA-ATAA-AATAA
975588 ATAA
1 ATAA
975592 CCTAGAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
14 8 0.12
15 18 0.26
16 19 0.28
17 21 0.31
18 2 0.03
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (15 bp):
ATAAAAATAAAATAA
Found at i:975581 original size:20 final size:19
Alignment explanation
Indices: 975515--975591 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
975505 AAATGATAAT
*
975515 AACAATAAATCAAAGAAAAA
1 AACAATAAAT-AAATAAAAA
*
975535 AACAATAAATCAATAAAAA
1 AACAATAAATAAATAAAAA
*
975554 AAGTAA-AAATAAAATAAATAA
1 AA-CAATAAAT-AAATAAA-AA
*
975575 AACAAAATAATAAATAA
1 AACAATA-AATAAATAA
975592 CCTAGAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.28
20 20 0.43
21 11 0.23
22 3 0.06
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (19 bp):
AACAATAAATAAATAAAAA
Found at i:975581 original size:28 final size:27
Alignment explanation
Indices: 975526--975581 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
975516 ACAATAAATC
*
975526 AAAGAAAAAAACAATAAATCAATAAAA
1 AAAGAAAAAAACAATAAATCAAAAAAA
*
975553 AAAGTAAAAATAA-AATAAAT-AAAACAA
1 AAAG-AAAAA-AACAATAAATCAAAAAAA
975580 AA
1 AA
975582 TAATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 11 0.44
28 12 0.48
29 2 0.08
ACGTcount: A:0.79, C:0.05, G:0.04, T:0.12
Consensus pattern (27 bp):
AAAGAAAAAAACAATAAATCAAAAAAA
Found at i:976300 original size:3 final size:3
Alignment explanation
Indices: 976286--976350 Score: 73
Period size: 3 Copynumber: 21.3 Consensus size: 3
976276 GGCCTGCAAA
976286 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT
976333 ATAT AAT -AT AAT AA- AAT A
1 A-AT AAT AAT AAT AAT AAT A
976351 TTTTTGTAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.11
3 37 0.65
4 14 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:981135 original size:30 final size:30
Alignment explanation
Indices: 981069--981164 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
981059 TAATTAGCAC
* * *
981069 AAAAAATAATTA-ATTAATA-AATTTAAAT
1 AAAAAATAATTATATAAATATTATTTTAAT
*
981097 AAATAATAATTATATAAATATTATTTTAAT
1 AAAAAATAATTATATAAATATTATTTTAAT
* * *
981127 AAAAAATAA-TATTTATATAATTATATTAAT
1 AAAAAATAATTATATAAAT-ATTATTTTAAT
*
981157 ATAAAATA
1 AAAAAATA
981165 TAATAACTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 11 0.20
29 13 0.23
30 32 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAAATAATTATATAAATATTATTTTAAT
Found at i:987640 original size:2 final size:2
Alignment explanation
Indices: 987629--987672 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
987619 TTTTAAATTA
*
987629 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
987670 AT A
1 AT A
987673 CTTTTAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:994780 original size:3 final size:3
Alignment explanation
Indices: 994756--994841 Score: 104
Period size: 3 Copynumber: 29.0 Consensus size: 3
994746 CATCCATTTG
* * * *
994756 TTA TCA TTA TTA GTA TTG TTA TTA TTA TT- TTA TTTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
994801 TTA TTA TT- TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
994842 AAAAAATACT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.06
3 63 0.90
4 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1007840 original size:26 final size:24
Alignment explanation
Indices: 1007811--1007889 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
1007801 GCTTGAAGAA
1007811 GAAACAAATGATGAAAAAAAATGAAT
1 GAAA-AAATGATGAAAAAAAAT-AAT
*
1007837 GAAAAAAATGATGAAATAAAA-AAT
1 G-AAAAAATGATGAAAAAAAATAAT
1007861 GAAAAAA--ATGAAAAAAAATATAT
1 GAAAAAATGATGAAAAAAAATA-AT
1007884 AGAAAA
1 -GAAAA
1007890 TGAGAGTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.21
22 1 0.02
23 8 0.17
24 9 0.19
26 16 0.34
27 3 0.06
ACGTcount: A:0.71, C:0.01, G:0.13, T:0.15
Consensus pattern (24 bp):
GAAAAAATGATGAAAAAAAATAAT
Found at i:1007841 original size:12 final size:13
Alignment explanation
Indices: 1007811--1007872 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
1007801 GCTTGAAGAA
*
1007811 GAAACAAATG-AT
1 GAAAAAAATGAAT
1007823 GAAAAAAAATGAAT
1 G-AAAAAAATGAAT
1007837 GAAAAAAATG-AT
1 GAAAAAAATGAAT
1007849 GAAATAAAA--AAT
1 GAAA-AAAATGAAT
1007861 GAAAAAAATGAA
1 GAAAAAAATGAA
1007873 AAAAAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
11 4 0.09
12 13 0.30
13 23 0.53
14 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (13 bp):
GAAAAAAATGAAT
Found at i:1007878 original size:12 final size:12
Alignment explanation
Indices: 1007821--1007868 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1007811 GAAACAAATG
1007821 ATGAAAAAAAATGA
1 ATGAAAAAAAA--A
**
1007835 ATGAAAAAAATG
1 ATGAAAAAAAAA
*
1007847 ATGAAATAAAAA
1 ATGAAAAAAAAA
1007859 ATGAAAAAAA
1 ATGAAAAAAA
1007869 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 18 0.64
14 10 0.36
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (12 bp):
ATGAAAAAAAAA
Found at i:1007888 original size:24 final size:22
Alignment explanation
Indices: 1007821--1007889 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 22
1007811 GAAACAAATG
1007821 ATGAAAAAAAATGAATGAAAAAA
1 ATGAAAAAAAAT-AATGAAAAAA
1007844 ATGATGAAATAAAA-AATGAAAAAA
1 ATGA--AAA-AAAATAATGAAAAAA
1007868 ATGAAAAAAAATATATAGAAAA
1 ATGAAAAAAAATA-AT-GAAAA
1007890 TGAGAGTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.10
22 4 0.10
23 6 0.15
24 19 0.47
25 3 0.08
26 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (22 bp):
ATGAAAAAAAATAATGAAAAAA
Found at i:1009616 original size:113 final size:113
Alignment explanation
Indices: 1009418--1009980 Score: 1054
Period size: 113 Copynumber: 5.0 Consensus size: 113
1009408 TTTAGCAAAA
1009418 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
1 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
1009483 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
* *
1009531 GCTTGAATTCATCATTTGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTTATCT
1 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
*
1009596 GAAGAAGGAAGAAGAAGTTCATAATGAGAATAACTTGTTTAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
1009644 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
1 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
1009709 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
*
1009757 GCTTGAATTCATCATTCGATGGATCAATTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
1 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
*
1009822 GAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
*
1009870 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCGTCT
1 GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
* *
1009935 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
1009981 AATTTGATTC
Statistics
Matches: 437, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 437 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
GCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTT
Found at i:1010228 original size:3 final size:3
Alignment explanation
Indices: 1010222--1010300 Score: 92
Period size: 3 Copynumber: 26.7 Consensus size: 3
1010212 ATTTGTTGTC
* *
1010222 ATT ATT ATT ATT ATT GTT ATT ATT ATT -TT ATTT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
*
1010267 ATT ATT -TT ATTT ATT ACT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
1010301 AATAATAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
2 6 0.09
3 53 0.82
4 6 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1010265 original size:24 final size:24
Alignment explanation
Indices: 1010229--1010300 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
1010219 GTCATTATTA
* *
1010229 TTATTATTGTTATTATTATTTTAT
1 TTATTACTATTATTATTATTTTAT
1010253 TTATTACTATTATTATTATTTTAT
1 TTATTACTATTATTATTATTTTAT
1010277 TTATTACTATTATTATTATTTTAT
1 TTATTACTATTATTATTATTTTAT
1010301 AATAATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (24 bp):
TTATTACTATTATTATTATTTTAT
Found at i:1010305 original size:3 final size:3
Alignment explanation
Indices: 1010299--1010330 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
1010289 TTATTATTTT
1010299 ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
1010331 AAAATTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1014848 original size:35 final size:35
Alignment explanation
Indices: 1014785--1014928 Score: 189
Period size: 35 Copynumber: 4.1 Consensus size: 35
1014775 AAGGTGAATA
* *
1014785 AAGTAGAACAGAAGGAAGCGTCGCACTTTCGATTC
1 AAGTCGAACAGAAGGAAGCATCGCACTTTCGATTC
* * *
1014820 AATTCGAACGGAAGGAAGCATCGTACTTTCGATTC
1 AAGTCGAACAGAAGGAAGCATCGCACTTTCGATTC
* *
1014855 AAGTCGAACAGAAGGAGGCATCACACTTTCGATTC
1 AAGTCGAACAGAAGGAAGCATCGCACTTTCGATTC
* ** *
1014890 AAGTCAAATGGAAGGAAGCATCGCACTTTCAATTC
1 AAGTCGAACAGAAGGAAGCATCGCACTTTCGATTC
1014925 AAGT
1 AAGT
1014929 AGAATGAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (35 bp):
AAGTCGAACAGAAGGAAGCATCGCACTTTCGATTC
Found at i:1014940 original size:70 final size:70
Alignment explanation
Indices: 1014785--1014932 Score: 215
Period size: 70 Copynumber: 2.1 Consensus size: 70
1014775 AAGGTGAATA
* * * * * *
1014785 AAGTAGAACAGAAGGAAGCGTCGCACTTTCGATTCAATTCGAACGGAAGGAAGCATCGTACTTTC
1 AAGTAGAACAGAAGGAGGCATCACACTTTCGATTCAAGTCAAACGGAAGGAAGCATCGCACTTTC
*
1014850 GATTC
66 AATTC
* *
1014855 AAGTCGAACAGAAGGAGGCATCACACTTTCGATTCAAGTCAAATGGAAGGAAGCATCGCACTTTC
1 AAGTAGAACAGAAGGAGGCATCACACTTTCGATTCAAGTCAAACGGAAGGAAGCATCGCACTTTC
1014920 AATTC
66 AATTC
1014925 AAGTAGAA
1 AAGTAGAA
1014933 TGAAAGGAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (70 bp):
AAGTAGAACAGAAGGAGGCATCACACTTTCGATTCAAGTCAAACGGAAGGAAGCATCGCACTTTC
AATTC
Found at i:1016027 original size:3 final size:3
Alignment explanation
Indices: 1016021--1016109 Score: 144
Period size: 3 Copynumber: 30.0 Consensus size: 3
1016011 TTTATCCATT
* *
1016021 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1016069 TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1016110 AATATATTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1017490 original size:20 final size:21
Alignment explanation
Indices: 1017444--1017490 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1017434 CCACTTTTAA
1017444 ATATATTATTCTAATTGTATT
1 ATATATTATTCTAATTGTATT
* *
1017465 -TTTATTATTTTAATTGT-TT
1 ATATATTATTCTAATTGTATT
1017484 ATATATT
1 ATATATT
1017491 TAAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
ATATATTATTCTAATTGTATT
Found at i:1018256 original size:18 final size:17
Alignment explanation
Indices: 1018233--1018282 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
1018223 TCAAATTTTT
1018233 TTTTTATTTTATTTATTA
1 TTTTTATTTTATTTA-TA
**
1018251 TTTTTATAATATTTATA
1 TTTTTATTTTATTTATA
1018268 TGTTTTATTTTATTT
1 T-TTTTATTTTATTT
1018283 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTATTTATA
Found at i:1024444 original size:20 final size:21
Alignment explanation
Indices: 1024421--1024467 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1024411 AAATTATTTA
1024421 AATATATAA-ACAATTAAAAT
1 AATATATAATACAATTAAAAT
* *
1024441 AATA-AAAATACAATTAGAAT
1 AATATATAATACAATTAAAAT
1024461 AATATAT
1 AATATAT
1024468 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AATATATAATACAATTAAAAT
Found at i:1025804 original size:3 final size:3
Alignment explanation
Indices: 1025796--1025884 Score: 144
Period size: 3 Copynumber: 30.0 Consensus size: 3
1025786 TTAATATATT
*
1025796 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1025843 TAA TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1025885 AATGGATAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1026453 original size:113 final size:113
Alignment explanation
Indices: 1026139--1026930 Score: 1070
Period size: 113 Copynumber: 6.8 Consensus size: 113
1026129 TCTTGATGAG
* *
1026139 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCT
* * * ** *
1026203 GGTAATGTTGATCCATTAAACGATGAATTCAAGCAAAAGGTTGAACAAA
65 GGAAAAGATGATCCACCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1026252 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTCT
* * *
1026317 CTGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
63 CTGGAAAAGATGATCCACCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1026368 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
1026433 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCACCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1026481 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
1026546 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCACCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1026594 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
1026659 GAAACA-ATGATCCATCAATTTGATGAATTTAAGCAAAAGGTTGAACAAG
66 GAAA-AGATGATCCACCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAA
1026708 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TT-
* * * *
1026773 CTCT-GAAAATGAATGATCCATCAATTTGATGAATTTAAGCAAAAGGTTGAACAAG
61 CTCTGGAAAA-G-ATGATCCACCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAA
1026828 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TT-
* *
1026893 CTCT-GAAAATGAATGATCCATCAATTTGATGAATTCAA
61 CTCTGGAAAA-G-ATGATCCACCAA-ATGATGAATTCAA
1026931 ATCTTTGCTA
Statistics
Matches: 636, Mismatches: 29, Indels: 21
0.93 0.04 0.03
Matches are distributed among these distances:
113 299 0.47
114 62 0.10
115 1 0.00
116 98 0.15
117 21 0.03
118 6 0.01
119 4 0.01
120 145 0.23
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCACCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:1027621 original size:54 final size:53
Alignment explanation
Indices: 1027539--1027652 Score: 151
Period size: 54 Copynumber: 2.2 Consensus size: 53
1027529 TTCTAAACTC
* * *
1027539 AATGCT-TGATTCTGTCTAATCAGATCAGATATCTCAAAAAAAACACTTCCAGAA
1 AATGCTATGATTCTGTCCAACCAGATCAGATAACTC--AAAAAACACTTCCAGAA
*
1027593 AATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
1 AATGCTATGATTCTGTCCAACCAGATCAGATAACTCAAAAAACACTTCCAGAA
*
1027645 GATGCTAT
1 AATGCTAT
1027653 TGGCAAATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 23 0.43
54 29 0.54
55 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (53 bp):
AATGCTATGATTCTGTCCAACCAGATCAGATAACTCAAAAAACACTTCCAGAA
Found at i:1027760 original size:50 final size:50
Alignment explanation
Indices: 1027696--1027836 Score: 282
Period size: 50 Copynumber: 2.8 Consensus size: 50
1027686 TCTGTTAAAC
1027696 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAAT
1027746 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAAT
1027796 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1027837 GGCAAATTCA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (50 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAAT
Found at i:1027924 original size:52 final size:51
Alignment explanation
Indices: 1027867--1028020 Score: 249
Period size: 52 Copynumber: 3.0 Consensus size: 51
1027857 TCACTGATTG
1027867 GTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTT-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
1027919 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-
1 GTTCTGT-TAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
1027970 -TTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGT-TAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1028021 TGGCAAATTC
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
50 48 0.49
52 49 0.51
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (51 bp):
GTTCTGTTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
Found at i:1027955 original size:185 final size:186
Alignment explanation
Indices: 1027540--1028240 Score: 1164
Period size: 185 Copynumber: 3.8 Consensus size: 186
1027530 TCTAAACTCA
* * * *
1027540 ATGCT-TGATTCTGTCTAATCAGATCAGATATCTCAAAAAAAACACTTCCAGAAAATGCTATGTT
1 ATGCTATG-TTCTGTCCAATCAGATCAGATAACTC--AAAGAACACTTCCAGAAGATGCTA-GTT
* *
1027604 CTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
62 CTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
*
1027669 TAAATTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
127 CAAATTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
1027729 ATGCTA--TTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TTCTGT
1 ATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAGTTCTGT
1027791 CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAA
66 CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAA
1027856 TTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
131 TTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
1027912 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TTCTGT
1 ATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAGTTCTGT
1027976 CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAA
66 CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAA
1028041 TTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
131 TTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* * *
1028097 ATGCTATGTTATGAT-CAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTAT
1 ATGCTATGTTCTG-TCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-GTTCT
* *
1028161 GATC-AAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCATCTTCC
64 G-TCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCC
1028225 AAATTCACTGATTGGT
128 AAATTCACTGATTGGT
1028241 CTAAGATATC
Statistics
Matches: 492, Mismatches: 13, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
183 130 0.26
185 251 0.51
186 1 0.00
187 103 0.21
188 2 0.00
189 5 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (186 bp):
ATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAGTTCTGT
CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAA
TTCACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:1027995 original size:50 final size:50
Alignment explanation
Indices: 1027876--1028021 Score: 256
Period size: 50 Copynumber: 2.9 Consensus size: 50
1027866 GGTTCTGTTA
1027876 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA--TTCTGTCC
*
1027928 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCC
*
1027978 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1028022 GGCAAATTCA
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 50 0.54
52 42 0.46
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.23
Consensus pattern (50 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCC
Found at i:1028125 original size:52 final size:52
Alignment explanation
Indices: 1028064--1028207 Score: 288
Period size: 52 Copynumber: 2.8 Consensus size: 52
1028054 TCTGTTAAAC
1028064 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAA
1028116 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAA
1028168 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1028208 TGGAAAATTC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (52 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCAAA
Found at i:1031368 original size:33 final size:33
Alignment explanation
Indices: 1031326--1031496 Score: 182
Period size: 33 Copynumber: 5.0 Consensus size: 33
1031316 TAATTTAAAC
*
1031326 ACTATCATACTAACATTTTATTTTATTGTTCAT
1 ACTAACATACTAACATTTTATTTTATTGTTCAT
* *
1031359 ACTAACATACTAACAATTTAATTTATTGTTCAT
1 ACTAACATACTAACATTTTATTTTATTGTTCAT
* *
1031392 ATTAACATACTAATATTTTATTTTATTGTTCAT
1 ACTAACATACTAACATTTTATTTTATTGTTCAT
* * *
1031425 ATTAACTTACTAATATACTAACTTTTATTTTATTGTTTAT
1 ACTAAC--A-TACTA-AC--A-TTTTATTTTATTGTTCAT
*
1031465 ACTAACTTACTAACATTTTA-TTTATTTGTTCA
1 ACTAACATACTAACATTTTATTTTA-TTGTTCA
1031497 AGCTAACCCG
Statistics
Matches: 116, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
32 4 0.03
33 76 0.66
34 1 0.01
35 1 0.01
36 6 0.05
37 5 0.04
39 1 0.01
40 22 0.19
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (33 bp):
ACTAACATACTAACATTTTATTTTATTGTTCAT
Found at i:1031454 original size:40 final size:41
Alignment explanation
Indices: 1031398--1031477 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
1031388 TCATATTAAC
*
1031398 ATACTAATATTTTATTTTATTGTTCATATTAACTTACTAAT
1 ATACTAATATTTTATTTTATTGTTCATACTAACTTACTAAT
* *
1031439 ATACTAA-CTTTTATTTTATTGTTTATACTAACTTACTAA
1 ATACTAATATTTTATTTTATTGTTCATACTAACTTACTAA
1031478 CATTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 29 0.81
41 7 0.19
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (41 bp):
ATACTAATATTTTATTTTATTGTTCATACTAACTTACTAAT
Found at i:1031476 original size:73 final size:74
Alignment explanation
Indices: 1031358--1031496 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 74
1031348 TTATTGTTCA
* *
1031358 TACTAACATACTAACAATTTAATTTATTGTTCATATTAACATACTAATATTTTATTT-TATTGTT
1 TACTAACATACTAACAATTTAATTTATTGTTCATACTAACATACTAACATTTTATTTAT-TTGTT
1031422 CATATTAACT
65 CATATTAACT
* * * * *
1031432 TACTAATATACTAAC-TTTTATTTTATTGTTTATACTAACTTACTAACATTTTATTTATTTGTTC
1 TACTAACATACTAACAATTTAATTTATTGTTCATACTAACATACTAACATTTTATTTATTTGTTC
1031496 A
66 A
1031497 AGCTAACCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 42 0.74
74 15 0.26
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.51
Consensus pattern (74 bp):
TACTAACATACTAACAATTTAATTTATTGTTCATACTAACATACTAACATTTTATTTATTTGTTC
ATATTAACT
Found at i:1031503 original size:33 final size:32
Alignment explanation
Indices: 1031432--1031496 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
1031422 CATATTAACT
*
1031432 TACTAA-TATACTAACTTTTATTTTATTGTTTA
1 TACTAACT-TACTAACTTTTATTTTATTGTTCA
1031464 TACTAACTTACTAACATTTTA-TTTATTTGTTCA
1 TACTAACTTACTAAC-TTTTATTTTA-TTGTTCA
1031497 AGCTAACCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (32 bp):
TACTAACTTACTAACTTTTATTTTATTGTTCA
Found at i:1031754 original size:29 final size:29
Alignment explanation
Indices: 1031688--1031754 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
1031678 TATTTAGTAT
**
1031688 TTATTTTTATGTCCCTTTAATTTCCTGCA
1 TTATTTTTATGTCCCTTTAATTTCCAACA
*
1031717 TTTTATTTTA-GT-CCTTTAATATTCCAACA
1 TTAT-TTTTATGTCCCTTTAAT-TTCCAACA
1031746 CTTATTTTT
1 -TTATTTTT
1031755 CTATGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
28 8 0.26
29 15 0.48
30 8 0.26
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.57
Consensus pattern (29 bp):
TTATTTTTATGTCCCTTTAATTTCCAACA
Found at i:1041972 original size:42 final size:42
Alignment explanation
Indices: 1041924--1043074 Score: 1141
Period size: 42 Copynumber: 26.9 Consensus size: 42
1041914 GAAGCTTCAA
* * **
1041924 CTTGACTTTCTCGTAAAGAGAAGTCAATCTTTCAATGTCGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * * *
1041966 TTTGACTTCCTCATCAAGAGGATTCAATCTTTCAACGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
1042008 CTTGACTTTCTTGTGAAGAGAAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * *
1042050 CTTGAC-TCTTTCTTGAAGAAAAGTCAATCTTTCAGTGTTATT
1 CTTGACTTC-CTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * * * *
1042092 ATTGACTCCCTCATGAAGAGGAGTGAATCATTAAATGTTAATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTT-ATT
** * *
1042135 -TTGACCCCCTCCTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * *
1042176 ATTGACTTCCTCGTGAAGAGAAATCAATCTTTCAGTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * *
1042218 CTTAACTCCCTCATGAAGAGGAGTCAATCTTTCAACGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * *
1042260 CTTGACTTCCTAGTGAAAAGAAGTCAATCTTTCAATATTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
1042302 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
1042344 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
1042386 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAGTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * *
1042428 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
1042470 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
1042512 CTTGACTTCCTCGTGAAGAGAAGTTAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * *
1042554 CTTGACTCCCTCGTGAAGAAAAGTCAATCTTTTAATGTTGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * *
1042596 TTTGACTCCCTTGTAAATATG-AGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTCAATGTTATT
** * * * *
1042638 CTTGACTTTATTGTGAAGAGAAGTCAATATTTCAGTATTATCAT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTAT--T
* * *
1042682 CCTTGACTTCCTCGTGAAGAGAAGTTAA-CTGTTCAGTACTCTCATT
1 -CTTGACTTCCTCGTGAAGAGAAGTCAATCT-TTCA--A-TGTTATT
* *
1042728 CTTGACATT-CTCGTGAAGAGAATTCAATCTTTCAGTATTGTCATT
1 CTTGAC-TTCCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTTATT
* * * *
1042773 CTTGACTTCCTC-TAAATAGAAGTTAATCTTTCAGTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * *
1042814 CTTGACTCCCTCGTAAAGAGGAGTCGATCTATCAATGTTA-T
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * * *
1042855 CTTTAACTTCCTCATGAAGATAATTCAATCTTTCAGTATTGTCATC
1 C-TTGACTTCCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTTATT
*
1042901 CTTGACTTCCTCGTGAAGAGAAGTCAAT-TGTTCAATATTTTCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCT-TTC-A-ATGTT-ATT
* *
1042946 CTTGACTTCCTCGTGAAGAGAAGTCAATCGTTCAATATTCTCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAAT-GT-T-ATT
* * * *
1042991 TTTGACCTT-CTCGTGAAGAGAAGTCGATATTTCAGTATTGTCATT
1 CTTGA-CTTCCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTTATT
* * *
1043036 CTTGACTTACTCGTGGAGAGAATTCAATCTTTCAATGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTT
1043075 GTCTTCAATC
Statistics
Matches: 921, Mismatches: 155, Indels: 66
0.81 0.14 0.06
Matches are distributed among these distances:
41 24 0.03
42 647 0.70
43 7 0.01
44 31 0.03
45 195 0.21
46 10 0.01
47 2 0.00
48 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (42 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
Found at i:1045076 original size:40 final size:41
Alignment explanation
Indices: 1045006--1045095 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 41
1044996 TTATTGTTCA
1045006 TACTAACATACTAATATTTTATTTTATTGTTCATACTAACT
1 TACTAACATACTAATATTTTATTTTATTGTTCATACTAACT
* * * *
1045047 TACTAATATACTAA-CTTTTATTTTCTTGTTTATACTAACT
1 TACTAACATACTAATATTTTATTTTATTGTTCATACTAACT
1045087 TACTAACAT
1 TACTAACAT
1045096 TTTATTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 31 0.70
41 13 0.30
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (41 bp):
TACTAACATACTAATATTTTATTTTATTGTTCATACTAACT
Found at i:1045118 original size:33 final size:33
Alignment explanation
Indices: 1044904--1045111 Score: 274
Period size: 33 Copynumber: 6.1 Consensus size: 33
1044894 TTAACCACTA
1044904 TCATACTAACATACTAACATTTTATTTTATTGT
1 TCATACTAACATACTAACATTTTATTTTATTGT
*
1044937 TCATACTAACATACTAACATTTTATTTTGTTGT
1 TCATACTAACATACTAACATTTTATTTTATTGT
*
1044970 TCGTACTAACATACTAACATTTTATTTTATTGT
1 TCATACTAACATACTAACATTTTATTTTATTGT
*
1045003 TCATACTAACATACTAATATTTTATTTTATTGT
1 TCATACTAACATACTAACATTTTATTTTATTGT
* *
1045036 TCATACTAACTTACTAATATACTAACTTTTATTTTCTTGT
1 TCATACTAAC--A-TACTA-AC--A-TTTTATTTTATTGT
* *
1045076 TTATACTAACTTACTAACATTTTA-TTTATTTGT
1 TCATACTAACATACTAACATTTTATTTTA-TTGT
1045109 TCA
1 TCA
1045112 AGCTAACCCG
Statistics
Matches: 154, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
32 3 0.02
33 115 0.75
34 1 0.01
35 1 0.01
36 6 0.04
37 5 0.03
39 1 0.01
40 22 0.14
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (33 bp):
TCATACTAACATACTAACATTTTATTTTATTGT
Found at i:1049698 original size:13 final size:14
Alignment explanation
Indices: 1049680--1049709 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1049670 ATGGGCAAAT
1049680 TTTGAAAA-CAATG
1 TTTGAAAATCAATG
1049693 TTTGAAAATCAATG
1 TTTGAAAATCAATG
1049707 TTT
1 TTT
1049710 AGTTTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (14 bp):
TTTGAAAATCAATG
Found at i:1056783 original size:30 final size:30
Alignment explanation
Indices: 1056733--1056828 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
1056723 ACTTTAGTCG
** *
1056733 AATTTAAGGGCTAAACTGATAATTTATCTA
1 AATTTAAGGATTAAATTGATAATTTATCTA
* * *
1056763 AATTTAGGGGTTAAGTTGAT-ATCTTATCTA
1 AATTTAAGGATTAAATTGATAAT-TTATCTA
*
1056793 AAGTTTAAGGATTAAATT-ATTATTTTATCTA
1 AA-TTTAAGGATTAAATTGA-TAATTTATCTA
1056824 AATTT
1 AATTT
1056829 TAAGAGATCA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 2 0.04
30 29 0.54
31 22 0.41
32 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (30 bp):
AATTTAAGGATTAAATTGATAATTTATCTA
Found at i:1056824 original size:31 final size:30
Alignment explanation
Indices: 1056755--1056862 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 30
1056745 AAACTGATAA
* * *
1056755 TTTATCTAAA-TTTAGGGGTTAAGTTGATAT
1 TTTATCTAAAGTTTAAGGATTAAATT-ATAT
*
1056785 CTTATCTAAAGTTTAAGGATTAAATTATTAT
1 TTTATCTAAAGTTTAAGGATTAAATTA-TAT
* * *
1056816 TTTATCTAAATTTTAAGAGATCAAACTAATAT
1 TTTATCTAAAGTTTAAG-GATTAAA-TTATAT
*
1056848 TTTATCTTAAGTTTA
1 TTTATCTAAAGTTTA
1056863 TGGGTTAAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
30 10 0.16
31 30 0.47
32 22 0.34
33 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (30 bp):
TTTATCTAAAGTTTAAGGATTAAATTATAT
Found at i:1056854 original size:32 final size:31
Alignment explanation
Indices: 1056781--1056862 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
1056771 GGTTAAGTTG
* * *
1056781 ATATCTTATCTAAAGTTTAAGGATTAAATTA
1 ATATTTTATCTAAAGTTTAAGGATCAAACTA
* *
1056812 TTATTTTATCTAAATTTTAAGAGATCAAACTA
1 ATATTTTATCTAAAGTTTAAG-GATCAAACTA
*
1056844 ATATTTTATCTTAAGTTTA
1 ATATTTTATCTAAAGTTTA
1056863 TGGGTTAAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 18 0.43
32 24 0.57
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
ATATTTTATCTAAAGTTTAAGGATCAAACTA
Found at i:1057796 original size:2 final size:2
Alignment explanation
Indices: 1057789--1057814 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1057779 GATTCGACAC
1057789 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
1057815 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1058498 original size:3 final size:3
Alignment explanation
Indices: 1058490--1058526 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1058480 CACCATGCTC
* *
1058490 CCT CCT CCT CCT CCT CCT CCT CAT CCT CTT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
1058527 TCTTTCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:1064566 original size:20 final size:19
Alignment explanation
Indices: 1064517--1064567 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1064507 TTAAAAAATG
*
1064517 AACAAAACTAAAGGCAATT
1 AACAAAAATAAAGGCAATT
* * *
1064536 AACAAATATAAAGGGAGTT
1 AACAAAAATAAAGGCAATT
1064555 AATCAAAAATAAA
1 AA-CAAAAATAAA
1064568 TTAAAGATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.18
Consensus pattern (19 bp):
AACAAAAATAAAGGCAATT
Found at i:1065237 original size:62 final size:63
Alignment explanation
Indices: 1065103--1065239 Score: 156
Period size: 62 Copynumber: 2.2 Consensus size: 63
1065093 CAGAATTAAC
* * * * * *
1065103 AGTGACCAAAATAGAAACAAACAAAAGTAGCATATCAAAATTAATGTATATAAAATTCAGATA
1 AGTGACTAAAATACAAACAAACAAAAATAGCATATCAAAATTAATGAAAATAAAATTCAAATA
*
1065166 AGTGACTAAAATACAAACAAA-AAAAATA-CATATCAAAATTGACAT-AAAATAGAATGT-AAAT
1 AGTGACTAAAATACAAACAAACAAAAATAGCATATCAAAATT-A-ATGAAAATAAAAT-TCAAAT
1065227 A
63 A
1065228 AGTGACTAAAAT
1 AGTGACTAAAAT
1065240 GTAAGTGAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 12 0.19
62 30 0.47
63 22 0.34
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (63 bp):
AGTGACTAAAATACAAACAAACAAAAATAGCATATCAAAATTAATGAAAATAAAATTCAAATA
Found at i:1068913 original size:3 final size:3
Alignment explanation
Indices: 1068905--1068935 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1068895 GAATAGGGTT
1068905 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1068936 CTCTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:1072588 original size:3 final size:3
Alignment explanation
Indices: 1072580--1072627 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
1072570 AAATTTGTAT
* * *
1072580 TAA TAA TAA TAA TAA TAA TAA TAA TCA TAC T-A TAG TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
1072625 TAA
1 TAA
1072628 ATATAATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 34 0.92
4 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1073073 original size:91 final size:91
Alignment explanation
Indices: 1072820--1073296 Score: 825
Period size: 90 Copynumber: 5.3 Consensus size: 91
1072810 CATTTTGCCC
* * * *
1072820 GAAGGTCTTATGG-TTGCCTGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1072884 AATCTCATTTGAAAACATCCTGCACT
66 AATCTCATTTGAAAACATCCTGCACT
1072910 GAAGGTCTTACGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
* * *
1072974 GATCTCATTTAAAAATATCCTGCACT
66 AATCTCATTTGAAAACATCCTGCACT
*
1073000 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1073065 AATCTCATTTGAAAATATCCTGCACT
66 AATCTCATTTGAAAACATCCTGCACT
1073091 GAAGGTCTTACGGATGGCCCGAAGGAC-TAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1073155 GATCTCATTTGAAAACATCCTGCACT
66 AATCTCATTTGAAAACATCCTGCACT
*
1073181 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1073246 AATCTCATTTGAAAACATCCTGCACT
66 AATCTCATTTGAAAACATCCTGCACT
*
1073272 GAAGGTCTTACGGATGACCCGAAGG
1 GAAGGTCTTACGGATGGCCCGAAGG
1073297 CTCAGTTTCT
Statistics
Matches: 367, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
90 184 0.50
91 183 0.50
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (91 bp):
GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
AATCTCATTTGAAAACATCCTGCACT
Found at i:1073143 original size:181 final size:181
Alignment explanation
Indices: 1072820--1073296 Score: 875
Period size: 181 Copynumber: 2.6 Consensus size: 181
1072810 CATTTTGCCC
* * *
1072820 GAAGGTCTTATGG-TTGCCTGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1072884 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAG
66 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGGACTAAAAAATCAAG
*
1072949 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTAAAAATATCCTGCACT
131 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTAAAAACATCCTGCACT
1073000 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1073065 AATCTCATTTGAAAATATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGGACTAAAAAATCAAG
66 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGGACTAAAAAATCAAG
*
1073130 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACT
131 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTAAAAACATCCTGCACT
1073181 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1073246 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAGG
66 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGG
1073297 CTCAGTTTCT
Statistics
Matches: 287, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
180 13 0.05
181 274 0.95
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (181 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCGAAGGACTAAAAAATCAAG
AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTAAAAACATCCTGCACT
Found at i:1073325 original size:63 final size:63
Alignment explanation
Indices: 1073226--1073344 Score: 229
Period size: 63 Copynumber: 1.9 Consensus size: 63
1073216 TCAAGAAACC
1073226 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGA
1 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGA
*
1073289 CCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTA
1 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTA
1073345 TGAATTGCCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (63 bp):
CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGA
Found at i:1073356 original size:63 final size:63
Alignment explanation
Indices: 1073226--1073359 Score: 225
Period size: 63 Copynumber: 2.1 Consensus size: 63
1073216 TCAAGAAACC
*
1073226 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGGATGA
1 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGAATGA
* *
1073289 CCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGAATTG-
1 CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGAA-TGA
1073352 CCCGAAGG
1 CCCGAAGG
1073360 ACTTAAAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 65 0.97
64 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (63 bp):
CCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACGAATGA
Found at i:1073460 original size:43 final size:43
Alignment explanation
Indices: 1073387--1073525 Score: 163
Period size: 43 Copynumber: 3.2 Consensus size: 43
1073377 AGTTTCTAAA
* * *
1073387 TTGTCACCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
1 TTGTCATCAAGAAACCCCTACATATCACGATGGTCACTCAAGC
* * ** **
1073430 TTTTTATCAAGAAACCCCTACATATCACGATAATTTCTCAAGC
1 TTGTCATCAAGAAACCCCTACATATCACGATGGTCACTCAAGC
* *
1073473 TTGTCCTCAA-AGAACCCCTACATATCACGATGGTCATTCAAGC
1 TTGTCATCAAGA-AACCCCTACATATCACGATGGTCACTCAAGC
1073516 TTGTCATCAA
1 TTGTCATCAA
1073526 ATTTGTCATC
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.27
Consensus pattern (43 bp):
TTGTCATCAAGAAACCCCTACATATCACGATGGTCACTCAAGC
Found at i:1073531 original size:12 final size:12
Alignment explanation
Indices: 1073516--1073549 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1073506 TCATTCAAGC
1073516 TTGTCATCAAAT
1 TTGTCATCAAAT
1073528 TTGTCATCAAAT
1 TTGTCATCAAAT
1073540 TTGTCATCAA
1 TTGTCATCAA
1073550 GGAACCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (12 bp):
TTGTCATCAAAT
Done.