Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold438
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: 1141244
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
File 6 of 7
Found at i:903138 original size:21 final size:21
Alignment explanation
Indices: 903114--903159 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
903104 GAGATTTAAG
903114 CAAAA-ACCAAGAAAAAAAAT
1 CAAAACACCAAGAAAAAAAAT
*
903134 ACAAAACACTAAGAAAAAAAAT
1 -CAAAACACCAAGAAAAAAAAT
903156 CAAA
1 CAAA
903160 TTTCCACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.74, C:0.15, G:0.04, T:0.07
Consensus pattern (21 bp):
CAAAACACCAAGAAAAAAAAT
Found at i:906361 original size:20 final size:20
Alignment explanation
Indices: 906338--906411 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
906328 ACAATTCAAA
906338 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
906358 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
906379 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
906399 GTATCGATACATG
1 GTATCGATACATG
906412 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:906382 original size:21 final size:21
Alignment explanation
Indices: 906356--906431 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
906346 ACATGTTGCA
906356 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
906377 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
906397 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
906418 ATGTATCGATACAT
1 ATGTATCGATACAT
906432 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:906389 original size:41 final size:41
Alignment explanation
Indices: 906338--906431 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
906328 ACAATTCAAA
906338 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
906379 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
906420 GTATCGATACAT
1 GTATCGATACAT
906432 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:906488 original size:13 final size:13
Alignment explanation
Indices: 906470--906495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
906460 TACAGCAAGT
906470 ATGTATCGATACA
1 ATGTATCGATACA
906483 ATGTATCGATACA
1 ATGTATCGATACA
906496 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:907017 original size:34 final size:35
Alignment explanation
Indices: 906954--907020 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
906944 CTAAGTGATT
906954 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
906990 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
907021 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:908694 original size:84 final size:84
Alignment explanation
Indices: 908534--908694 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
908524 ACTCAAAGAA
* * * *
908534 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
908599 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
908618 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
908679 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
908695 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:910163 original size:13 final size:13
Alignment explanation
Indices: 910145--910169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
910135 TTTTCCAGAT
910145 TGTATCGATACAA
1 TGTATCGATACAA
910158 TGTATCGATACA
1 TGTATCGATACA
910170 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:911328 original size:96 final size:96
Alignment explanation
Indices: 911164--911355 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
911154 AATTTTTGAT
911164 ATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAA
1 ATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAA
911229 ATTGCTACAATTATTTTATTAAGGGGGAGAA
66 ATTGCTACAATTATTTTATTAAGGGGGAGAA
911260 ATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAA
1 ATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAA
911325 ATTGCTACAATTATTTTATTAAGGGGGAGAA
66 ATTGCTACAATTATTTTATTAAGGGGGAGAA
911356 TGTACAAATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (96 bp):
ATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAA
ATTGCTACAATTATTTTATTAAGGGGGAGAA
Found at i:911351 original size:49 final size:49
Alignment explanation
Indices: 911202--911354 Score: 129
Period size: 49 Copynumber: 3.2 Consensus size: 49
911192 ATTAATAAAC
911202 GGGGGAGATAAAGGGGAGAATGCGTAAATTGCTACAATTATTTTATTAA
1 GGGGGAGATAAAGGGGAGAATGCGTAAATTGCTACAATTATTTTATTAA
* * * * ** ** * * *
911251 GGGGGAG--AAA--TGA-ATTACTTGATTAAGGGGGAGAATTA-TTAATAAA
1 GGGGGAGATAAAGGGGAGAATGC--G-TAAATTGCTACAATTATTTTATTAA
911297 CGGGGGAGATAAAGGGGAGAATGCGTAAATTGCTACAATTATTTTATTAA
1 -GGGGGAGATAAAGGGGAGAATGCGTAAATTGCTACAATTATTTTATTAA
911347 GGGGGAGA
1 GGGGGAGA
911355 ATGTACAAAT
Statistics
Matches: 72, Mismatches: 22, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
44 3 0.04
45 2 0.03
46 7 0.10
47 20 0.28
49 28 0.39
50 7 0.10
51 2 0.03
52 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.26
Consensus pattern (49 bp):
GGGGGAGATAAAGGGGAGAATGCGTAAATTGCTACAATTATTTTATTAA
Found at i:911986 original size:20 final size:20
Alignment explanation
Indices: 911963--912036 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
911953 ACAATTCAAA
911963 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
911983 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
912004 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
912024 GTATCGATACATG
1 GTATCGATACATG
912037 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:912007 original size:21 final size:21
Alignment explanation
Indices: 911981--912056 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
911971 ACATGTTGCA
911981 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
912002 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
912022 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
912043 ATGTATCGATACAT
1 ATGTATCGATACAT
912057 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:912014 original size:41 final size:41
Alignment explanation
Indices: 911963--912056 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
911953 ACAATTCAAA
911963 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
912004 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
912045 GTATCGATACAT
1 GTATCGATACAT
912057 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:912113 original size:13 final size:13
Alignment explanation
Indices: 912095--912120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
912085 TACAGCAAGT
912095 ATGTATCGATACA
1 ATGTATCGATACA
912108 ATGTATCGATACA
1 ATGTATCGATACA
912121 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912642 original size:34 final size:35
Alignment explanation
Indices: 912579--912645 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
912569 CTAAGTGATT
912579 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
912615 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
912646 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:913927 original size:3 final size:3
Alignment explanation
Indices: 913913--913952 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
913903 ACCATCAATA
*
913913 ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
913953 AGTTGACTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:917550 original size:44 final size:44
Alignment explanation
Indices: 917483--917570 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
917473 GATACTCCCA
*
917483 ACCAAGGATTGTGGTACCTTAAAGAATCCTCCCTAGCCTTACAT
1 ACCAAGGATTGTGGTACCCTAAAGAATCCTCCCTAGCCTTACAT
*
917527 ACCAAGGATTGTGGTACCCTAAAGAATCCTTCCTAGCCTTACAT
1 ACCAAGGATTGTGGTACCCTAAAGAATCCTCCCTAGCCTTACAT
917571 GCTTACTCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
ACCAAGGATTGTGGTACCCTAAAGAATCCTCCCTAGCCTTACAT
Found at i:918991 original size:13 final size:13
Alignment explanation
Indices: 918973--918999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
918963 ACATTATGCT
918973 TTGTATCGATACA
1 TTGTATCGATACA
918986 TTGTATCGATACA
1 TTGTATCGATACA
918999 T
1 T
919000 AGACAGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:921637 original size:13 final size:13
Alignment explanation
Indices: 921619--921644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
921609 TACAGCAAGT
921619 ATGTATCGATACA
1 ATGTATCGATACA
921632 ATGTATCGATACA
1 ATGTATCGATACA
921645 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:923896 original size:21 final size:21
Alignment explanation
Indices: 923863--923907 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
923853 TTGCAAGTTG
*
923863 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
923885 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
923905 AAA
1 AAA
923908 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:925731 original size:15 final size:15
Alignment explanation
Indices: 925711--925741 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
925701 TAAAAATGTC
*
925711 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
925726 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
925741 C
1 C
925742 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:927834 original size:20 final size:21
Alignment explanation
Indices: 927755--927833 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
927745 AATGTCCAAA
*
927755 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
927775 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
927800 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
927820 TTGTATCGATACAT
1 ATGTATCGATACAT
927834 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:927838 original size:13 final size:13
Alignment explanation
Indices: 927820--927858 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
927810 ACATTTTTCT
927820 TTGTATCGATACA
1 TTGTATCGATACA
927833 TTGTATCGATACA
1 TTGTATCGATACA
*
927846 CTGTATCGATACA
1 TTGTATCGATACA
927859 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:929694 original size:32 final size:32
Alignment explanation
Indices: 929653--929718 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
929643 CAAATAAATT
*
929653 TTTGTTATGAATTACTTGATTAAGGGGGAGAA
1 TTTGATATGAATTACTTGATTAAGGGGGAGAA
929685 TTTGATATGAATTACTTGATTAAGGGGGAGAA
1 TTTGATATGAATTACTTGATTAAGGGGGAGAA
929717 TT
1 TT
929719 ATTAATAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (32 bp):
TTTGATATGAATTACTTGATTAAGGGGGAGAA
Found at i:930462 original size:13 final size:13
Alignment explanation
Indices: 930444--930469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
930434 TACAGCAAGT
930444 ATGTATCGATACA
1 ATGTATCGATACA
930457 ATGTATCGATACA
1 ATGTATCGATACA
930470 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:935083 original size:30 final size:30
Alignment explanation
Indices: 935037--935098 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
935027 ATTCATGCTT
935037 TGTTGTTGAATGAATTTTG-ATGTTTGTTA
1 TGTTGTTGAATGAATTTTGCATGTTTGTTA
*
935066 TGTTGTATGATTGAATTTTGCATGTTTGTTA
1 TGTTGT-TGAATGAATTTTGCATGTTTGTTA
935097 TG
1 TG
935099 AATTAGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.20
30 12 0.40
31 12 0.40
ACGTcount: A:0.19, C:0.02, G:0.24, T:0.55
Consensus pattern (30 bp):
TGTTGTTGAATGAATTTTGCATGTTTGTTA
Found at i:935187 original size:20 final size:20
Alignment explanation
Indices: 935162--935228 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
935152 ATTTTCCAGA
935162 ATGTATCGATACATAGAGAC
1 ATGTATCGATACATAGAGAC
935182 ATGTATCGATACAT------
1 ATGTATCGATACATAGAGAC
935196 -TGTATCGATACATAGAGAC
1 ATGTATCGATACATAGAGAC
935215 ATGTATCGATACAT
1 ATGTATCGATACAT
935229 TGTATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATAGAGAC
Found at i:935201 original size:13 final size:13
Alignment explanation
Indices: 935183--935243 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
935173 CATAGAGACA
935183 TGTATCGATACAT
1 TGTATCGATACAT
935196 TGTATCGATACA-
1 TGTATCGATACAT
*
935208 --TA--GAGACA-
1 TGTATCGATACAT
935216 TGTATCGATACAT
1 TGTATCGATACAT
935229 TGTATCGATACAT
1 TGTATCGATACAT
935242 TG
1 TG
935244 GGTATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.12
10 4 0.10
12 5 0.12
13 27 0.66
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:935205 original size:33 final size:33
Alignment explanation
Indices: 935163--935241 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
935153 TTTTCCAGAA
935163 TGTATCGATACATAGAGACATGTATCGATACAT
1 TGTATCGATACATAGAGACATGTATCGATACAT
935196 TGTATCGATACATAGAGACATGTATCGATACAT
1 TGTATCGATACATAGAGACATGTATCGATACAT
935229 TGTATCGATACAT
1 TGTATCGATACAT
935242 TGGGTATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATAGAGACATGTATCGATACAT
Found at i:936162 original size:78 final size:78
Alignment explanation
Indices: 936033--936190 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 78
936023 TTACTTCGCC
* * * *
936033 TAAATGTCTCGGTTCGCGAGAACCTCATCCAGGCATTTCTTAGTAATGCCCGTCTAGAGCATAAT
1 TAAATGTCTCGGTTCACAAGAACCTCATCCAGGCATTTCTTAGTAACGCCCGTCTAGAGCATAAC
*
936098 GATAGCAACGAGG
66 GATAACAACGAGG
936111 TAAATGTCTCGGTTCACAAGAACCTCATCCAGGCATTTCTTAGTAACGCCCGTCTAGAGCATAAC
1 TAAATGTCTCGGTTCACAAGAACCTCATCCAGGCATTTCTTAGTAACGCCCGTCTAGAGCATAAC
936176 GATAACAACGAGG
66 GATAACAACGAGG
936189 TA
1 TA
936191 GTGGCTATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (78 bp):
TAAATGTCTCGGTTCACAAGAACCTCATCCAGGCATTTCTTAGTAACGCCCGTCTAGAGCATAAC
GATAACAACGAGG
Found at i:937903 original size:13 final size:13
Alignment explanation
Indices: 937881--937929 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
937871 CATGGGACAA
937881 TGTATCGATACAT
1 TGTATCGATACAT
*
937894 TGTATTGATACA-
1 TGTATCGATACAT
937906 TG-AT-GA-A-AT
1 TGTATCGATACAT
937915 TGTATCGATACAT
1 TGTATCGATACAT
937928 TG
1 TG
937930 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:941636 original size:13 final size:13
Alignment explanation
Indices: 941618--941643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941608 ACATTTGGTC
941618 ATGTATCGATACA
1 ATGTATCGATACA
941631 ATGTATCGATACA
1 ATGTATCGATACA
941644 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:941638 original size:33 final size:32
Alignment explanation
Indices: 941596--941663 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
941586 CGTTACAAGC
941596 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
941629 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
941661 CAA
1 CAA
941664 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:941996 original size:22 final size:22
Alignment explanation
Indices: 941965--942026 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
941955 AATAAAACAC
*
941965 ATTTTTGGTTTTTTTCAAATTA
1 ATTTTCGGTTTTTTTCAAATTA
941987 ATTTTCGGTTTTTTTCAAATTA
1 ATTTTCGGTTTTTTTCAAATTA
*
942009 ATTTTCGGTTTTATTCAA
1 ATTTTCGGTTTTTTTCAA
942027 TCCTTTGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.60
Consensus pattern (22 bp):
ATTTTCGGTTTTTTTCAAATTA
Found at i:950402 original size:13 final size:13
Alignment explanation
Indices: 950384--950409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
950374 ACATTTGGTC
950384 ATGTATCGATACA
1 ATGTATCGATACA
950397 ATGTATCGATACA
1 ATGTATCGATACA
950410 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:950404 original size:33 final size:32
Alignment explanation
Indices: 950362--950429 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
950352 CGTTACAAGC
*
950362 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCAATA
950395 CAATGTATCGATACATCTTGTATGTATCAATA
1 CAATGTATCGATACATCTTGTATGTATCAATA
950427 CAA
1 CAA
950430 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCAATA
Found at i:950501 original size:19 final size:20
Alignment explanation
Indices: 950479--950528 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
950469 ATCTTTGCAA
*
950479 GTATCGATACAGTG-GTCAT
1 GTATCGATACAGTGCATCAT
* *
950498 GTATCGATACTGTGCATTAT
1 GTATCGATACAGTGCATCAT
950518 GTATCGATACA
1 GTATCGATACA
950529 TCTGAAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (20 bp):
GTATCGATACAGTGCATCAT
Found at i:958789 original size:20 final size:20
Alignment explanation
Indices: 958764--958817 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
958754 CTCCCACTGT
*
958764 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
958784 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
958804 TTGTATCGATACAT
1 TTGTATCGATACAT
958818 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:960290 original size:42 final size:43
Alignment explanation
Indices: 960238--960352 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
960228 AGTTCTATAA
*
960238 AAGGAGGGATAATTTGTTAAGGGAGAGTATTAAATATTTTATT
1 AAGGGGGGATAATTTGTTAAGGGAGAGTATTAAATATTTTATT
960281 -AGGGGGGATAATTTGTTAAGGGAGAGTATTAAATATTTTATT
1 AAGGGGGGATAATTTGTTAAGGGAGAGTATTAAATATTTTATT
* * *
960323 AAAGGGGAGAAAAATTTGTTAAGGGGGAGT
1 -AAGGGG-GGATAATTTGTTAAGGGAGAGT
960353 TCTAAATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
42 41 0.63
44 5 0.08
45 19 0.29
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (43 bp):
AAGGGGGGATAATTTGTTAAGGGAGAGTATTAAATATTTTATT
Found at i:961183 original size:43 final size:43
Alignment explanation
Indices: 961128--961228 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
961118 ACATAGTGAA
**
961128 ATGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGC
1 ATGTATCGATACATTGAGCCCAACCACTATAAATTTCAAATGC
961171 ATGTATCGATACATTGAGCCCAACCACTATAAATTTCAAATGC
1 ATGTATCGATACATTGAGCCCAACCACTATAAATTTCAAATGC
961214 ATGTATCGATACATT
1 ATGTATCGATACATT
961229 ATGGAAAGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (43 bp):
ATGTATCGATACATTGAGCCCAACCACTATAAATTTCAAATGC
Found at i:965629 original size:52 final size:52
Alignment explanation
Indices: 965481--965609 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
965471 CGAAATATAA
* *
965481 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
965533 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
965585 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
965610 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:965636 original size:13 final size:13
Alignment explanation
Indices: 965618--965642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
965608 CAAAGATCAG
965618 TGTATCGATACAA
1 TGTATCGATACAA
965631 TGTATCGATACA
1 TGTATCGATACA
965643 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:969502 original size:39 final size:39
Alignment explanation
Indices: 969428--969676 Score: 129
Period size: 39 Copynumber: 5.9 Consensus size: 39
969418 CTTGTGCCAA
* ** *
969428 TGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCT
1 TGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
* * *
969467 TGTGCCAATGTGTTGATCCAAGGCCAGCAACATTGGTCT
1 TGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
* * *
969506 TAAAGACAAAGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCT
1 T---------GTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
* * * * * *
969554 TATGCCAATGTGCTGATTCAAGGCCAGTAGCATTGGTCT
1 TGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
* * **
969593 TAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGTAATGTTGGGCT
1 T---------GTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
* * *
969641 TGTGCCAATGTGCTGATTCAAGGCCAACAACATTGG
1 TGTGCCAATATGCTGATCCAAGGCCAGCAACATTGG
969677 TCTTAAAGAC
Statistics
Matches: 161, Mismatches: 31, Indels: 36
0.71 0.14 0.16
Matches are distributed among these distances:
39 95 0.59
48 66 0.41
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
TGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGGCT
Found at i:969539 original size:48 final size:48
Alignment explanation
Indices: 969468--969712 Score: 202
Period size: 48 Copynumber: 5.5 Consensus size: 48
969458 TATTGGGCTT
* * *
969468 GTGCCAATGTGTTGATCCAAGGCCAGCAACATTGGTCTTAAAGACAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
* * *
969516 GTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCTT--------A
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
* * * *
969556 -TGCCAATGTGCTGATTCAAGGCCAGTAGCATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
* ** *
969603 GTGCCAATATGCTGATTCAAGGCCAGTAATGTTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
* * *
969642 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
*
969690 GTGCCAATATGCTAATTCAAGGC
1 GTGCCAATATGCTGATTCAAGGC
969713 TAGTGATATT
Statistics
Matches: 153, Mismatches: 26, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
39 65 0.42
40 1 0.01
48 87 0.57
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAA
Found at i:969771 original size:87 final size:87
Alignment explanation
Indices: 969429--969740 Score: 498
Period size: 87 Copynumber: 3.6 Consensus size: 87
969419 TTGTGCCAAT
* * * *
969429 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTGTGCCAATGTGTTGATCCAAGGCCAG
1 GTGCCAATATGCTAATTCAAGGCCAGTAATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
*
969494 CAACATTGGTCTTAAAGACAAA
66 CAACATTGGTCTTAAAGACAAG
* *
969516 GTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAG
1 GTGCCAATATGCTAATTCAAGGCCAGTAATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
* *
969581 TAGCATTGGTCTTAAAGACAAG
66 CAACATTGGTCTTAAAGACAAG
* * *
969603 GTGCCAATATGCTGATTCAAGGCCAGTAATGTTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAA
1 GTGCCAATATGCTAATTCAAGGCCAGTAATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
969668 CAACATTGGTCTTAAAGACAAG
66 CAACATTGGTCTTAAAGACAAG
* *
969690 GTGCCAATATGCTAATTCAAGGCTAGTGATATTGGGCTTGTGCCAATGTGC
1 GTGCCAATATGCTAATTCAAGGCCAGTAATATTGGGCTTGTGCCAATGTGC
969741 GAATTCATGG
Statistics
Matches: 205, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 205 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
GTGCCAATATGCTAATTCAAGGCCAGTAATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
CAACATTGGTCTTAAAGACAAG
Found at i:969811 original size:34 final size:34
Alignment explanation
Indices: 969771--970162 Score: 335
Period size: 34 Copynumber: 11.8 Consensus size: 34
969761 TTGACTTAAA
* *
969771 GGTGCCACGGAGTTGTGGACCT-ACAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
** * *
969804 GGATGCCACAAAGGTT-TGGGCTTAAAAGGGAAAAG
1 GG-TGCCACGGA-GTTGTGGACTTAAAAGGAAAAAG
* *
969839 GGTGCCACGGAGTCGTGGACTTAAAAAG-AAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
969871 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAG
* ** **
969906 AGTGCCATAGAGTTGTGGACTTAAAAGGATGAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
969940 AGTGCCACGGAATTGTGGACTTAAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
969973 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** * *
970007 AGTGCCTTGGAGTTGTCGACTT-------TAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
970034 GCTGCCACAGAGTTGTGGACTTAAAAGAAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** * *
970068 AGTGCCACAAAGTTGTGGGCTTAAAAGGAACAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
970101 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
* *
970135 AGTGCCACAGAGTTGTGGACTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGG
970163 GTGCCACAGA
Statistics
Matches: 288, Mismatches: 55, Indels: 32
0.77 0.15 0.09
Matches are distributed among these distances:
27 20 0.07
32 25 0.09
33 62 0.22
34 141 0.49
35 40 0.14
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
Found at i:969927 original size:67 final size:66
Alignment explanation
Indices: 969824--970377 Score: 342
Period size: 67 Copynumber: 8.5 Consensus size: 66
969814 AAGGTTTGGG
* * * *
969824 CTTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAG-GTGCCATGGAGTTGTG
1 CTTAAAA-GGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGGAGTTGTG
969888 GA
65 GA
* * * * *
969890 CTTAAAAGGAAAAAAAAGTGCCATAGAGTTGTGGACTTAAAAGGATGAAGAGTGCCACGGAATTG
1 CTTAAAAGG--AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGA-AAAGAGTGCCACGGAGTTG
969955 TGGA
63 TGGA
* * * ** *
969959 CTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCTTGGAGTTGTC
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG-AAAAGAGTGCCACGGAGTTGTG
970024 GA
65 GA
* * * **
970026 CTTTAAA-G-----GCTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTG
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA-AGAAAAGAGTGCCACGGAGTTGTG
*
970085 GG
65 GA
* * * * *
970087 CTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACAGAGTTGTG
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAGAGTGCCACGGAGTTGTG
970152 GA
65 GA
* * * *
970154 CTTAAAA-G-----GGTGCCACAGAGTTATGGACTTTGAAAAGAAAA-AGGTGCCACTGAGTCGT
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAGA-GTGCCACGGAGTTGT
970212 GGA
64 GGA
* * * * * ** * * *
970215 CTT---TGGGATAAGATGCCACTGAGTCATGGACTTTGAAGAA-AAAAGA-TGCCACTGAGTCGT
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAAGAAAAGAGTGCCACGGAGTTGT
*
970275 AGA
64 GGA
** * * * * * * * * *
970278 CTT-TGA-G-AAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAATGCTACAGAGTTATG
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG-AAAAGAGTGCCACGGAGTTGTG
970340 GA
65 GA
* * **
970342 CTTAAAAGGAAAAAGATGCCACGGAGTCATGGACTT
1 CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
970378 TGAAAAGAGA
Statistics
Matches: 392, Mismatches: 66, Indels: 59
0.76 0.13 0.11
Matches are distributed among these distances:
59 1 0.00
60 1 0.00
61 99 0.25
62 3 0.01
63 46 0.12
64 40 0.10
65 7 0.02
66 10 0.03
67 151 0.39
68 10 0.03
69 24 0.06
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (66 bp):
CTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGGAGTTGTGG
A
Found at i:969945 original size:101 final size:101
Alignment explanation
Indices: 969768--970034 Score: 308
Period size: 101 Copynumber: 2.6 Consensus size: 101
969758 TATTTGACTT
* * ** * * * *
969768 AAAGGTGCCACGGAGTTGTGGACCT-ACAGGAAAAAGGGATGCCACAAAGGTT-TGGGCTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAG-TGCCATAGA-GTTGTCGACTTAAAA
* * *
969831 GGGA-AAAGGGTGCCACGGAGTCGTGGACTTAAAAAG-A
64 -GGATGAAGAGTGCCACGGAATCGTGGACTTAAAAAGAA
* *
969868 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAAAAGTGCCATAGAGTTGTGGACTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAAAGTGCCATAGAGTTGTCGACTTAAAAG
*
969933 GATGAAGAGTGCCACGGAATTGTGGACTTAAAAAGAA
65 GATGAAGAGTGCCACGGAATCGTGGACTTAAAAAGAA
* * * *
969970 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCTTGGAGTTGTCGACTTTAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCATAGAGTTGTCGACTTAAAAGG
970035 CTGCCACAGA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
100 29 0.20
101 78 0.54
102 37 0.26
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.19
Consensus pattern (101 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCATAGAGTTGTCGACTTAAAAGG
ATGAAGAGTGCCACGGAATCGTGGACTTAAAAAGAA
Found at i:970060 original size:128 final size:128
Alignment explanation
Indices: 969763--970377 Score: 479
Period size: 128 Copynumber: 4.8 Consensus size: 128
969753 AGCGATATTT
* * * * * *
969763 GACTT-AAA-GGTGCCACGGAGTTGTGGACCT-ACAGGAAAAAGGGATGCCACAAAGGTT-TGGG
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAG-TGCCACAAA-GTTGTGGA
* *
969824 CTTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAG-GTGCCATGGAGTTGT
64 CTTAAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCATGGAGTTGT
969887 G
128 G
* * ** *
969888 GACTTAAAAGGAAAAAAAAGTGCCATAGAGTTGTGGACTTAAAAGGATGAAGAGTGCCACGGAA-
1 GACTTAAAAGG--------GTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCAC-AAAG
* * *
969952 TTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCTTGG
57 TTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCATGG
*
970017 AGTTGTC
122 AGTTGTG
* * *
970024 GACTTTAAAGGCTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTGGGCT
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTGGACT
* * **
970089 TAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-AGTGCCACAGAGTTGTG
66 TAAAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGAGTGCCATGGAGTTGTG
* ** *
970152 GACTTAAAAGGGTGCCACAGAGTTATGGACTTTGAAAAG-AAAAAG-GTGCCACTGAGTCGTGGA
1 GACTTAAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAAAAGAGTGCCACAAAGTTGTGGA
* * * * * ** ** *
970215 CTT---TGGGATAAGATGCCACTGAGTCATGGACTT-TGAAGAAAAA-AGATGCCACT-GAGTCG
64 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAG-TGCCA-TGGAGTTG
*
970274 TA
127 TG
* * * * * * * * *
970276 GACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAATGCTACAGAGTTATGG
1 GAC-TT-AAAAG-GGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTGG
* **
970341 ACTTAAAAGGAAAAAGATGCCACGGAGTCATGGACTT
63 ACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
970378 TGAAAAGAGA
Statistics
Matches: 396, Mismatches: 65, Indels: 53
0.77 0.13 0.10
Matches are distributed among these distances:
123 10 0.03
124 16 0.04
125 32 0.08
126 15 0.04
127 35 0.09
128 130 0.33
129 20 0.05
130 31 0.08
134 33 0.08
135 39 0.10
136 35 0.09
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (128 bp):
GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTGGACT
TAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCATGGAGTTGTG
Found at i:970190 original size:61 final size:60
Alignment explanation
Indices: 969968--970350 Score: 261
Period size: 61 Copynumber: 6.1 Consensus size: 60
969958 ACTTAAAAAG
* * *** *
969968 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCTTGGAGTTGTCGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GAAAAAGAGTGCCACAGAGTTGTGGACTT
* * * *
970029 TAAAGGCTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-AAAAAGAGTGCCACAGAGTTGTGGACTT
* *
970090 AAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-AGTGCCACAGAGTTGTGGA
1 AAAA-G-----GGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAAAGAGTGCCACAGAGTTGTGGA
970154 CTT
58 CTT
* * *
970157 AAAAGGGTGCCACAGAGTTATGGACTTTGAAAAGAAAAAG-GTGCCACTGAGTCGTGGACTTT
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAAAGAGTGCCACAGAGTTGTGGAC-TT
* * * ** ** * * *
970219 GGGATAA-GATGCCACTGAGTCATGGACTTTGAAGAAAAA-AGATGCCACTGAGTCGTAGACTTT
1 ---AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGAG-TGCCACAGAGTTGTGGAC-TT
* * * * * * *
970282 GAGAAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAATGCTACAGAGTTATGGACTT
1 -AAAAG-GGTGCCACAGAGTTGTGGACTTAAAA-GAAAAAGAGTGCCACAGAGTTGTGGACTT
970345 AAAAGG
1 AAAAGG
970351 AAAAAGATGC
Statistics
Matches: 262, Mismatches: 40, Indels: 40
0.77 0.12 0.12
Matches are distributed among these distances:
60 1 0.00
61 104 0.40
62 16 0.06
63 47 0.18
64 36 0.14
65 4 0.02
66 1 0.00
67 41 0.16
68 7 0.03
69 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:970201 original size:34 final size:34
Alignment explanation
Indices: 970164--970442 Score: 202
Period size: 30 Copynumber: 8.6 Consensus size: 34
970154 CTTAAAAGGG
* * *
970164 TGCCACAGAGTTATGGACTTTGAAAAGAAAAAGG
1 TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
* * *
970198 TGCCACTGAGTCGTGGACTTTG----GGATAAGA
1 TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
*
970228 TGCCACTGAGTCATGGACTTTGAAGA-AAAAAGA
1 TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
* * *
970261 TGCCACTGAGTCGTAGACTTTG---AG-AAGAGA
1 TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
*
970291 TGCCACTGAGTCGTGGAC-TT-AAAAGGAAAAAGAA
1 TGCCACTGAGTCATGGACTTTGAAAA-GAAAAAG-A
* * *
970325 TGCTACAGAGTTATGGAC-TT-AAAAGGAAAAAGA
1 TGCCACTGAGTCATGGACTTTGAAAA-GAAAAAGA
*
970358 TGCCACGGAGTCATGGACTTTGAAAAG----AGA
1 TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
* *
970388 TTGCCACTGGGTCATGGACTTTG--CAG-AAAAGA
1 -TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
* *
970420 TTGCCACTAAGTCGTGGACTTTG
1 -TGCCACTGAGTCATGGACTTTG
970443 GGAAAAGACG
Statistics
Matches: 201, Mismatches: 27, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
29 4 0.02
30 52 0.26
31 21 0.10
32 24 0.12
33 45 0.22
34 51 0.25
35 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (34 bp):
TGCCACTGAGTCATGGACTTTGAAAAGAAAAAGA
Found at i:970234 original size:30 final size:30
Alignment explanation
Indices: 970192--970534 Score: 249
Period size: 30 Copynumber: 10.9 Consensus size: 30
970182 TTTGAAAAGA
*
970192 AAAAGGTGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
970222 ATAAGATGCCACTGAGTCATGGACTTTGAAGAA
1 AAAAGATGCCACTGAGTCGTGGACTTTG--G-G
* *
970255 AAAAGATGCCACTGAGTCGTAGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
970285 AAGAGATGCCACTGAGTCGTGGACTTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTT---TGGG
* * ** * *
970318 AAAAGAATGCTACAGAGTTATGGACTTAAAAGGA
1 AAAAG-ATGCCACTGAGTCGTGGACTT---TGGG
* * *
970352 AAAAGATGCCACGGAGTCATGGACTTT-GA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
970381 AAAGAGATTGCCACTGGGTCATGGACTTTGCAG
1 AAA-AGA-TGCCACTGAGTCGTGGACTTTG-GG
*
970414 AAAAGATTGCCACTAAGTCGTGGACTTTGGG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGGG
* *
970445 AAAAGACGCCACT-ATGTCGTGGACTTTGAG
1 AAAAGATGCCACTGA-GTCGTGGACTTTGGG
* * * *
970475 AAGAGATTGCCACAGAGTTGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGGG
* *
970506 AAGAGGTTGCCACTGAGTCGTGGACTTTG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG
970535 AGAAGAGAGA
Statistics
Matches: 256, Mismatches: 42, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
29 6 0.02
30 77 0.30
31 67 0.26
32 26 0.10
33 51 0.20
34 29 0.11
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGG
Found at i:970272 original size:63 final size:61
Alignment explanation
Indices: 970128--970538 Score: 284
Period size: 63 Copynumber: 6.6 Consensus size: 61
970118 GGCTTTAAAA
* * * * *
970128 AGAAAAAAG-TGCCACAGAGTTGTGGAC-TT-A-AAAGGGTGCCACAGAGTTATGGACTTTG
1 AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAA-GATGCCACTGAGTCATGGACTTTG
* * *
970186 AAAAGAAAAAGGTGCCACTGAGTCGTGGACTTTGGGATAAGATGCCACTGAGTCATGGACTTTG
1 -AGA-AAAAAGATGCCACTGAGTCGTGGACTTTGAGA-AAGATGCCACTGAGTCATGGACTTTG
* * **
970250 AAGAAAAAAGATGCCACTGAGTCGTAGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTAAA
1 -AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAA-AGATGCCACTGAGTCATGGACTT-TG
* * * ** * * *
970314 AGGAAAAAGAATGCTACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTCATGGACTTT
1 AGAAAAAAG-ATGCCACTGAGTCGTGGACTT----TGAGAAAGATGCCACTGAGTCATGGACTTT
970379 -
61 G
* * * * *
970379 -GAAAAGAGATTGCCACTGGGTCATGGACTTTGCAGAAAAGATTGCCACTAAGTCGTGGACTTTG
1 AGAAAAAAGA-TGCCACTGAGTCGTGGACTTTG-AG-AAAGA-TGCCACTGAGTCATGGACTTTG
* * * **
970443 -G-GAAAAGACGCCACT-ATGTCGTGGACTTTGAGAAGAGATTGCCACAGAGTTGTGGACTTTG
1 AGAAAAAAGATGCCACTGA-GTCGTGGACTTTGAGAA-AGA-TGCCACTGAGTCATGGACTTTG
* * *
970504 AG-AAGAGGTTGCCACTGAGTCGTGGACTTTGAGAA
1 AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAA
970539 GAGAGAATTG
Statistics
Matches: 281, Mismatches: 49, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
59 2 0.01
60 9 0.03
61 42 0.15
62 53 0.19
63 84 0.30
64 64 0.23
65 2 0.01
67 21 0.07
68 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (61 bp):
AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAGATGCCACTGAGTCATGGACTTTG
Found at i:970402 original size:31 final size:31
Alignment explanation
Indices: 970350--970542 Score: 191
Period size: 31 Copynumber: 6.3 Consensus size: 31
970340 GACTTAAAAG
* *
970350 GAAAA-AGA-TGCCACGGAGTCATGGACTTT
1 GAAAAGAGATTGCCACTGAGTCGTGGACTTT
* *
970379 GAAAAGAGATTGCCACTGGGTCATGGACTTT
1 GAAAAGAGATTGCCACTGAGTCGTGGACTTT
*
970410 GCAGAAA-AGATTGCCACTAAGTCGTGGACTTT
1 G-A-AAAGAGATTGCCACTGAGTCGTGGACTTT
* *
970442 GGGAAA-AGA-CGCCACT-ATGTCGTGGACTTT
1 -GAAAAGAGATTGCCACTGA-GTCGTGGACTTT
* * *
970472 GAGAAGAGATTGCCACAGAGTTGTGGACTTT
1 GAAAAGAGATTGCCACTGAGTCGTGGACTTT
* *
970503 GAGAAGAGGTTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGATTGCCACTGAGTCGTGGACTTT
*
970534 GAGAAGAGA
1 GAAAAGAGA
970543 GAATTGAAGA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.06
30 24 0.17
31 78 0.56
32 24 0.17
33 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (31 bp):
GAAAAGAGATTGCCACTGAGTCGTGGACTTT
Found at i:970466 original size:160 final size:160
Alignment explanation
Indices: 970168--970470 Score: 409
Period size: 160 Copynumber: 1.9 Consensus size: 160
970158 AAAGGGTGCC
* * * * *
970168 ACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACTGAGTCGTGGACTTTGGGATAAGATGCCA
1 ACAGAGTTATGGACTTTGAAAAGAAAAAGATGCCACGGAGTCATGGACTTTGGAAAAAGATGCCA
* * *
970233 CTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTAGACTTTGAGAAGAGATGCCACT
66 CTGAGTCATGGACTTTGAAG-AAAAAGATGCCACTAAGTCGTAGACTTTGAGAAAAGACGCCACT
970298 GAGTCGTGGACTTAAAAGGAAAAAGAATGCT
130 GAGTCGTGGACTTAAAAGGAAAAAGAATGCT
970329 ACAGAGTTATGGAC-TT-AAAAGGAAAAAGATGCCACGGAGTCATGGACTTT-GAAAAGAGATTG
1 ACAGAGTTATGGACTTTGAAAA-GAAAAAGATGCCACGGAGTCATGGACTTTGGAAAA-AGA-TG
* * * *
970391 CCACTGGGTCATGGACTTTGCAG-AAAAGATTGCCACTAAGTCGTGGACTTTGGGAAAAGACGCC
63 CCACTGAGTCATGGACTTTGAAGAAAAAGA-TGCCACTAAGTCGTAGACTTTGAGAAAAGACGCC
970455 ACT-ATGTCGTGGACTT
127 ACTGA-GTCGTGGACTT
970471 TGAGAAGAGA
Statistics
Matches: 125, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
159 14 0.11
160 74 0.59
161 37 0.30
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (160 bp):
ACAGAGTTATGGACTTTGAAAAGAAAAAGATGCCACGGAGTCATGGACTTTGGAAAAAGATGCCA
CTGAGTCATGGACTTTGAAGAAAAAGATGCCACTAAGTCGTAGACTTTGAGAAAAGACGCCACTG
AGTCGTGGACTTAAAAGGAAAAAGAATGCT
Found at i:971571 original size:20 final size:20
Alignment explanation
Indices: 971534--971570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
971524 CTCACCGAGA
*
971534 TTTTCTGTTTTGTTTTTTCT
1 TTTTCTCTTTTGTTTTTTCT
971554 TTTTCTCTTTT-TTTTTT
1 TTTTCTCTTTTGTTTTTT
971571 TTGTGTTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTCTCTTTTGTTTTTTCT
Found at i:978887 original size:19 final size:20
Alignment explanation
Indices: 978863--978916 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
978853 TATCGAAACA
978863 TTGTATCGATACAACACT-T
1 TTGTATCGATACAACACTGT
**
978882 TTGTATCGATACATTTACTGT
1 TTGTATCGATACA-ACACTGT
978903 TTGTATCGATACAA
1 TTGTATCGATACAA
978917 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACAACACTGT
Found at i:981626 original size:17 final size:17
Alignment explanation
Indices: 981606--981643 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
981596 AACAAAAATG
*
981606 AAAAAAATCAAAAAACA
1 AAAAAAAACAAAAAACA
981623 AAAAAAAACAAAAAACA
1 AAAAAAAACAAAAAACA
981640 AAAA
1 AAAA
981644 GAAGGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAAAACAAAAAACA
Found at i:982706 original size:30 final size:31
Alignment explanation
Indices: 982636--982718 Score: 123
Period size: 32 Copynumber: 2.7 Consensus size: 31
982626 ATAAAGCAAC
* **
982636 CTTTTTCAAAGTCCATGACTCAGTGGTATCT
1 CTTTTTCAAAGTCCATGACTTAGTGACATCT
982667 CTTTCTTCAAAGTCCATGACTTAGTGACATCT
1 CTTT-TTCAAAGTCCATGACTTAGTGACATCT
982699 -TTTTTCAAAGTCCATGACTT
1 CTTTTTCAAAGTCCATGACTT
982719 GGTAGCACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 17 0.35
31 7 0.15
32 24 0.50
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (31 bp):
CTTTTTCAAAGTCCATGACTTAGTGACATCT
Found at i:982842 original size:62 final size:62
Alignment explanation
Indices: 982767--983193 Score: 531
Period size: 62 Copynumber: 7.0 Consensus size: 62
982757 AGTCCCCCTT
* * * * *
982767 TTTTTAAAGCCCACATGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGAAGGATGCCTTTCTC
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* * * * *
982829 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTTAAAGAGCAGGACACTTTTTTC
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* * * *
982891 -TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACTTTTTTC
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* * * *
982952 TTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTC
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* ** * *
983014 TTTTTAAAGCCCACACGAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGATGCCTTTTTC
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* * **
983076 -TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCGCAAAGAATAGGACGCC--TTT-
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* * * * *
983134 TTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCTTCAAAGTGTAGGATGCCTTTT
1 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
983194 GACACCTTTA
Statistics
Matches: 321, Mismatches: 40, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
59 51 0.16
61 108 0.34
62 162 0.50
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (62 bp):
TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
Found at i:982923 original size:123 final size:122
Alignment explanation
Indices: 982768--983193 Score: 552
Period size: 123 Copynumber: 3.5 Consensus size: 122
982758 GTCCCCCTTT
* * * *
982768 TTTTAAAGCCCACATGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGAAGGATGCCTTTCTCTTTT
1 TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT
*
982833 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTTAAAGAGCAGGACACTTTTTTC
66 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACAC-TTTTTC
* * ** *
982891 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACTTTTTTCTTTT
1 TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT
* * *
982956 TAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTC
66 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACA-CTTTTTC
* ** *
983014 TTTTTAAAGCCCACACGAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGATGCCTTTTTC-TT
1 -TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTT
* * ** * *
983078 TTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT-TCGCAAAGAATAGGACGCCTTTT-
65 TTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCT-TCAAAGAGCAGGACACTTTTTC
* * * *
983135 TTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCTTCAAAGTGTAGGATGCCTTTT
1 TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
983194 GACACCTTTA
Statistics
Matches: 263, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
120 53 0.20
122 5 0.02
123 152 0.58
124 53 0.20
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (122 bp):
TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT
TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACACTTTTTC
Found at i:983079 original size:185 final size:182
Alignment explanation
Indices: 982765--983177 Score: 558
Period size: 185 Copynumber: 2.3 Consensus size: 182
982755 TAAGTCCCCC
* **
982765 TTTTTTTAAAGCCCACATGAGTTGGT-AGCACCTTTTAGTCCTCAAAGAGAAGGATGCCTTTCTC
1 TTTTTTTAAAGCCCACATGAGTTGGTGA-CACCTTTTAGTCCTCAAAAAGAAGGACACCTTTCTC
* ** * *
982829 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTTAAAGAGCAGGACACTTTTTTCTTT
65 TTTTTAAAGCCCACACAAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGACACCTTTTTCTTT
** * *
982894 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACTTTT
130 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCGCAAAGAACAGGACAC--CT
** * *
982949 TTCTTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTC
1 TT-TTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAAAGAAGGACACCTTTCTC
* **
983014 TTTTTAAAGCCCACACGAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGATGCCTTTTTCTTT
65 TTTTTAAAGCCCACACAAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGACACCTTTTTCTTT
* * * *
983079 TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCGCAAAGAATAGGACGCCT
130 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCGCAAAGAACAGGACACCT
* *
983132 TTTTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCTTCAAA
1 TTTTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAA
983178 GTGTAGGATG
Statistics
Matches: 200, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
182 40 0.20
183 3 0.01
184 2 0.01
185 154 0.77
186 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (182 bp):
TTTTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAAAGAAGGACACCTTTCTCT
TTTTAAAGCCCACACAAGTTCGTGGCACCTGCTAGTCTTCAAAGAGCAGGACACCTTTTTCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCGCAAAGAACAGGACACCT
Found at i:983207 original size:35 final size:36
Alignment explanation
Indices: 983160--983228 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
983150 GAGTTGGTGG
* *
983160 CACCTTTTAGTCTTCAAAGTGTAGGATGCCTTTTGA
1 CACCTTTTAGTCTTCAAAGAGTAGGATACCTTTTGA
983196 CACC-TTTAGTCTTCAAAGAGTAGGATACCTTTT
1 CACCTTTTAGTCTTCAAAGAGTAGGATACCTTTT
983229 CCTTTCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (36 bp):
CACCTTTTAGTCTTCAAAGAGTAGGATACCTTTTGA
Found at i:983221 original size:155 final size:157
Alignment explanation
Indices: 983047--983335 Score: 447
Period size: 155 Copynumber: 1.9 Consensus size: 157
983037 TGGCACCTGC
* * * *
983047 TAGTCTTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
1 TAGTCTTCAAAGAGCAGGATACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * * *
983112 TCGCAAAGAATAGGACGCC-TTT-TTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCTTC
66 CCGCAAAGAATAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
983175 AAAGTGTAGGATGCCTTTTGACACCTT
131 AAAGTGTAGGATGCCTTTTGACACCTT
* * *
983202 TAGTCTTCAAAGAGTAGGATACCTTTTCCTTTCAAAGCCTACTCAAGTTGGTGGCACCTTTTAGT
1 TAGTCTTCAAAGAGCAGGATACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* *
983267 CCTCAAAGAGTAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
66 CCGCAAAGAATAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
983332 AAAG
131 AAAG
983336 AGCAGGCATT
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 73 0.61
156 3 0.03
157 43 0.36
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (157 bp):
TAGTCTTCAAAGAGCAGGATACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
CCGCAAAGAATAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
AAAGTGTAGGATGCCTTTTGACACCTT
Found at i:983260 original size:60 final size:60
Alignment explanation
Indices: 983196--984431 Score: 819
Period size: 60 Copynumber: 20.4 Consensus size: 60
983186 TGCCTTTTGA
* * * *
983196 CACC-TTTAGTCTTCAAAGAGTAGGATACCTTTTCCTTTCAAAGCCTACTCAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAGCC-ACACAAGTTGGTGG
* *
983256 CACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* * *
983317 CACCTTTTAGTCCTCAAAGAGCAGGCAT--TTTTTCTTTTTAAAGTCCACACAAGTTAGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGG-ATACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* * * * * *
983377 CACCTCTTACTCCTTAAAGAGTAGG--ACGCTTTCCTTTTCAAAGCC-CATATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATAC-CTTTTCTTTTTAAAGCCACACA--AGTTGGTGG
** * * * * ** * * *
983437 CATTTTTTAGTCCTCAAAAAGCAAGACATTTTTTCTTTTTAAAAGCTACACGATTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTT-AAAGCCACACAAGTTGGTGG
* * * * * * *
983498 CACCTTTTAGGCCCCAAAGAGCAGGAT-GCTTTCCTTTTTAAAGGCCACACGAGTTAGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAA-GCCACACAAGTTGGTGG
* ** * *
983558 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTAG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACC-TTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* **
983620 CACCTTTTAGTCCTCAAAGAGCAGG--ACGC-TTTCTTTTTTAAAGGCCACATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATAC-CTTTTC-TTTTTAAA-GCCACACAAGTTGGTGG
* * * * ** * *
983680 TAACTTTTAGTCCTCAAAGATTAGG--ACGC-TTTCTTTTTTAAAGTCTACATGAGTCGATGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATAC-CTTTTC-TTTTTAAAG-CCACACAAGTTGGTGG
* * * * ** * *
983740 TACCTTTTAGTCCTCAATGAGCAGGACATTTTTTCTTTTTCAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* * * *
983801 CACCTTTTAGTCCTCAAAGAGAAAG-TCACCTTTTTCCTTTTAAATCC-CACAAGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGAT-ACC-TTTTCTTTTTAAAGCCACAC-A-AGTTGGTGG
* * * *
983863 CACCTTTTAGT-CTGCAAAAAGCA--AAACGC-TTTCTTTTTTAAAGCCCAAACAAGTTGGTGG
1 CACCTTTTAGTCCT-CAAAGAGTAGGATAC-CTTTTC-TTTTTAAAG-CCACACAAGTTGGTGG
* ** * ** *
983923 CACTTTTTAGTCCTCAAAGAACATGACGCC-TTT-TTCTTAAAGCCTACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAGCC-ACACAAGTTGGTGG
* * * * * * * **
983982 CAACTTTTACTCCTCGAAGAGAAAGATGCCTTTTTCTTTTTAAAGCCTAGATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACC-TTTTCTTTTTAAAGCC-ACACAAGTTGGTGG
* * * * **
984044 CACTTTTTAGTCCTCAAAGAGCAAGACATTTTTTCTTTTTAAAGCC-CACATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAGCCACACA--AGTTGGTGG
* * * * * * *
984105 C-TCTTTTTGTCCTCAAAGAGCAAGAT-GCTCTTTCTTTTTAAAGTCCACACGAGTTGGTAG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCT-TTTCTTTTTAAAG-CCACACAAGTTGGTGG
* * * * *
984165 TACCTTTTAGTCCTGAAAGAGCAGGACA-CTTTCCTTTTTAAAGCCTACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAGCC-ACACAAGTTGGTGG
* * * *
984225 CA-CTATTTAG-CCTACAAGGAGCAGGACA-CTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACCT-TTTAGTCCT-CAAAGAGTAGGATACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* ** * ** * *
984285 CA-CTATTTAGTCCT-AAAAAACATGACGCCTTTTCTTTTTAAAGCCCACACGATTTGGTGG
1 CACCT-TTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGG
* * * *
984345 CACCTTTTAGTCCTCAAAGAGCATG--ACATTTTCTTTTTTAAAGCC-CACATGAGTTGGTGA
1 CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTC-TTTTTAAAGCCACACA--AGTTGGTGG
*
984405 CACCTTTTAGTCCTCAAAGAGCAGGAT
1 CACCTTTTAGTCCTCAAAGAGTAGGAT
984432 GCACTCCATT
Statistics
Matches: 953, Mismatches: 163, Indels: 118
0.77 0.13 0.10
Matches are distributed among these distances:
58 8 0.01
59 82 0.09
60 473 0.50
61 235 0.25
62 153 0.16
63 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (60 bp):
CACCTTTTAGTCCTCAAAGAGTAGGATACCTTTTCTTTTTAAAGCCACACAAGTTGGTGG
Found at i:983434 original size:181 final size:182
Alignment explanation
Indices: 983196--984429 Score: 1173
Period size: 181 Copynumber: 6.8 Consensus size: 182
983186 TGCCTTTTGA
* * ** * * * * *
983196 CACC-TTTAGTCTTCAAAGAGTAGGATACCTTTTCCTTTCAAAGCCTACTCAAGTTGGTGGCACC
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
* *
983260 TTTTAGTCCTCAAAGAGTAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
66 TTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
* * *
983325 AGTCCTCAAAGAGCAGGCATTTTTTCTTTTTAAAGTCCACACAAGTTAGTGG
131 AGTCCTCAAAGAGCAGGCATCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * * * **
983377 CACCTCTTACTCCTTAAAGAGTAGGACG-CTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCATT
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
* ** * *
983441 TTTTAGTCCTCAAAAAGCAAGACATTTTTTCTTTTTAAAAG-CTACACGATTTGGTGGCACCTTT
66 TTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTT-AAAGCCCACACGAGTTGGTGGCACCTTT
* * * * * *
983505 TAGGCCCCAAAGAGCAGG-ATGCTTTCCTTTTTAAAGGCCACACGAGTTAGTGG
130 TAGTCCTCAAAGAGCAGGCAT-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
*
983558 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTAGCAC
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * * *
983623 CTTTTAGTCCTCAAAGAGCAGGAC-GC-TTTCTTTTTTAAAGGCCACATGAGTTGGTGGTAACTT
65 CTTTTAGTCCTCAAAGAGCAAGACACCTTTTC-TTTTTAAAGCCCACACGAGTTGGTGGCACCTT
** * * * ** * *
983686 TTAGTCCTCAAAGATTAGG-A-CGCTTTCTTTTTTAAAGTCTACATGAGTCGATGG
129 TTAGTCCTCAAAGAGCAGGCATC-TTTTC-TTTTTAAAGCCCACACAAGTTGGTGG
* * *** *
983740 TACCTTTTAGTCCTCAATGAGCAGGACATTTTTTCTTTTTCAAGCCCACACGAGTTGGTGGCACC
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * * *
983805 TTTTAGTCCTCAAAGAGAAAGTCACCTTTTTCCTTTTAAATCCCACAAGAGTTGGTGGCACCTTT
66 TTTTAGTCCTCAAAGAGCAAGACACC-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* * * * *
983870 TAGT-CTGCAAAAAGCA--AAACGCTTTCTTTTTTAAAGCCCAAACAAGTTGGTGG
130 TAGTCCT-CAAAGAGCAGGCATC-TTTTC-TTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * *
983923 CACTTTTTAGTCCTCAAAGAACATGACGCC-TTT-TTCTTAAAGCCTACACAAGTTGGTGGCAAC
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * ** * * * *
983986 TTTTACTCCTCGAAGAGAAAGATGCCTTTTTCTTTTTAAAGCCTAGATGAGTTGGTGGCACTTTT
66 TTTTAGTCCTCAAAGAGCAAGACACC-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* * **
984051 TAGTCCTCAAAGAGCAAGACATTTTTTCTTTTTAAAGCCCACATGAGTTGGTGG
130 TAGTCCTCAAAGAGC-AGGCATCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * *
984105 C-TCTTTTTGTCCTCAAAGAGCAAGATG-CTCTTTCTTTTTAAAGTCCACACGAGTTGGTAGTAC
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCT-TTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * *
984168 CTTTTAGTCCTGAAAGAGCAGGACA-CTTTCCTTTTTAAAGCCTACACAAGTTGGTGGCA-CTAT
65 CTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT-T
* *
984231 TTAG-CCTACAAGGAGCAGGACA-CTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
129 TTAGTCCT-CAAAGAGCAGG-CATCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
* * * *
984285 CA-CTATTTAGTCCT-AAAAAACATGACGCCTTTTCTTTTTAAAGCCCACACGATTTGGTGGCAC
1 CACCT-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
984348 CTTTTAGTCCTCAAAGAGCATGACA--TTTTCTTTTTTAAAGCCCACATGAGTTGGTGACACCTT
65 CTTTTAGTCCTCAAAGAGCAAGACACCTTTTC-TTTTTAAAGCCCACACGAGTTGGTGGCACCTT
984411 TTAGTCCTCAAAGAGCAGG
129 TTAGTCCTCAAAGAGCAGG
984430 ATGCACTCCA
Statistics
Matches: 855, Mismatches: 167, Indels: 63
0.79 0.15 0.06
Matches are distributed among these distances:
179 4 0.00
180 141 0.16
181 383 0.45
182 143 0.17
183 179 0.21
184 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (182 bp):
CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
TTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
AGTCCTCAAAGAGCAGGCATCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
Found at i:983695 original size:243 final size:241
Alignment explanation
Indices: 983200--984430 Score: 1239
Period size: 243 Copynumber: 5.1 Consensus size: 241
983190 TTTTGACACC
* * * * * * *
983200 TTTAGTCTTCAAAGAGTAGGATACCTTTTCCTTTCAAAGCCTACTCAAGTTGGTGGCACCTTTTA
1 TTTAGTCCTCAAAGAGCAGGACA-TTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTA
* **
983265 GTCCTCAAAGAGTAGGACACCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
65 GTCCTCAAAGAGCAGGA-TGCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
* ** * * * * * *
983330 TCAAAGAGC-AGGCATTTTTTCTTTTTAAAGTCCACACAAGTTAGTGGCACCTCTTACTCCTTAA
129 TCAAAGAGCAAGACCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAA
* * * * * **
983394 AGAGTAGGACGCTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCATTT
194 AGAGCAAGACGCTTTCTTTTTTAAAGCCCACATGAGTTGGTGGCAACT
* * * *
983442 TTTAGTCCTCAAAAAGCAAGACATTTTTTCTTTTTAAAAG-CTACACGATTTGGTGGCACCTTTT
1 TTTAGTCCTCAAAGAGCAGGACA-TTTTTCTTTTT-AAAGCCTACACAAGTTGGTGGCACCTTTT
* * * * *
983506 AGGCCCCAAAGAGCAGGATGCTTTCCTTTTTAAAGGCCACACGAGTTAGTGGCACCTTTTAGTCC
64 AGTCCTCAAAGAGCAGGATGCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
* *
983571 TCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTAGCACCTTTTAGTCCTCA
129 TCAAAGAGCAAGAC-CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCA
* * *
983636 AAGAGCAGGACGCTTTCTTTTTTAAAGGCCACATGAGTTGGTGGTAACT
193 AAGAGCAAGACGCTTTCTTTTTTAAAGCCCACATGAGTTGGTGGCAACT
** ** * ** * * *
983685 TTTAGTCCTCAAAGATTAGGAC-GCTTTCTTTTTTAAAGTCTACATGAGTCGATGGTACCTTTTA
1 TTTAGTCCTCAAAGAGCAGGACATTTTTC-TTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTA
* * *
983749 GTCCTCAATGAGCAGGACAT-TTTTTCTTTTTCAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
65 GTCCTCAAAGAGCAGG--ATGCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
* * * * *
983813 CTCAAAGAGAAAGTCACCTTTTTCCTTTTAAATCCCACAAGAGTTGGTGGCACCTTTTAGT-CTG
128 CTCAAAGAGCAAGAC-CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT-
* * * **
983877 CAAAAAGCAAAACGCTTTCTTTTTTAAAGCCCAAACAAGTTGGTGGC-ACTT
191 CAAAGAGCAAGACGCTTTCTTTTTTAAAGCCCACATGAGTTGGTGGCAAC-T
* * *** * * *
983928 TTTAGTCCTCAAAGAACATGACGCCTTT-TTCTTAAAGCCTACACAAGTTGGTGGCAACTTTTAC
1 TTTAGTCCTCAAAGAGCAGGACATTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAG
* * * * * * *
983992 TCCTCGAAGAGAAAGATGCCTTTTTCTTTTTAAAGCCTAGATGAGTTGGTGGCACTTTTTAGTCC
66 TCCTCAAAGAGCAGGATG-C-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
** * * *
984057 TCAAAGAGCAAGACATTTTTTCTTTTTAAAGCCCACATGAGTTGGTGGC-TCTTTTTGTCCTCAA
129 TCAAAGAGCAAGACCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAA
* * * * * *
984121 AGAGCAAGATGCTCTT-TCTTTTTAAAGTCCACACGAGTTGGTAGTACCT
194 AGAGCAAGACGCT-TTCT-TTTTTAAAGCCCACATGAGTTGGTGGCAACT
* * *
984170 TTTAGTCCTGAAAGAGCAGGACACTTTCCTTTTTAAAGCCTACACAAGTTGGTGGCA-CTATTTA
1 TTTAGTCCTCAAAGAGCAGGACATTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCT-TTTA
* ** * *
984234 G-CCTACAAGGAGCAGGACACTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTATTTAGTC
65 GTCCT-CAAAGAGCAGGATGCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT-TTTAGTC
* * * *
984297 CT-AAAAAACATGACGCC-TTTTCTTTTTAAAGCCCACACGATTTGGTGGCACCTTTTAGTCCTC
128 CTCAAAGAGCAAGAC-CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
* ** * *
984360 AAAGAGCATGACATTTTCTTTTTTAAAGCCCACATGAGTTGGTGACACCT
192 AAAGAGCAAGACGCTTTCTTTTTTAAAGCCCACATGAGTTGGTGGCAACT
984410 TTTAGTCCTCAAAGAGCAGGA
1 TTTAGTCCTCAAAGAGCAGGA
984431 TGCACTCCAT
Statistics
Matches: 811, Mismatches: 154, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
240 90 0.11
241 140 0.17
242 229 0.28
243 346 0.43
244 6 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (241 bp):
TTTAGTCCTCAAAGAGCAGGACATTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAG
TCCTCAAAGAGCAGGATGCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
AAAGAGCAAGACCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAG
AGCAAGACGCTTTCTTTTTTAAAGCCCACATGAGTTGGTGGCAACT
Found at i:984468 original size:42 final size:42
Alignment explanation
Indices: 984410--984627 Score: 240
Period size: 42 Copynumber: 5.1 Consensus size: 42
984400 GGTGACACCT
* **
984410 TTTAGTCCTCAAAGAGCAGGATGCACTCCATTTCCTTTTTTCC
1 TTTA-TCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCC
* * **
984453 TTTATCCTTAAAGAGCAAGACATACTTTATTTCCTTTTTTTCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTTCC-TTTTTTCC
* * *
984496 TTTATCGTCAAAGAGGAGGACGCACTTTATTTCCTTTTCTCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCC
* * * * *
984538 TTTGTCCTTAAAGAGTAGGATGCACTTCATTTCCTTCTTTTCCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTTCCTT-TTTT-CC
984582 TTTATCCTCAAAGAGCAAGG-CGCACTTTATTTCCTTTATTTCC
1 TTTATCCTCAAAGAGC-AGGACGCACTTTATTTCCTTT-TTTCC
984625 TTT
1 TTT
984628 GTTCTTGAAG
Statistics
Matches: 144, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 60 0.42
43 49 0.34
44 32 0.22
45 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTATCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCC
Found at i:984570 original size:85 final size:85
Alignment explanation
Indices: 984410--984670 Score: 276
Period size: 85 Copynumber: 3.0 Consensus size: 85
984400 GGTGACACCT
* * ** * * * **
984410 TTTAGTCCTCAAAGAGCAGGATGCACTCCATTTCCTTTTTTCCTTTATCCTTAAAGAGCAAGACA
1 TTTA-TCCTCAAAGAGAAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTTAAAGAGTAGGATG
*
984475 TACTTTATTTCCTTTTTTTCC
65 CACTTTATTTCCTTTTTTTCC
* * *
984496 TTTATCGTCAAAGAGGAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTTAAAGAGTAGGATGC
1 TTTATCCTCAAAGAGAAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTTAAAGAGTAGGATGC
* *
984561 ACTTCATTTCCTTCTTTTCCC
66 ACTTTATTTCCTT-TTTTTCC
* *
984582 TTTATCCTCAAAGAGCAAGG-CGCACTTTATTTCCTTTATTTCCTTTGTTCTTGAAGAGT-GGAA
1 TTTATCCTCAAAGAG-AAGGACGCACTTTATTTCCTTT-TTTCCTTTGTCCTTAAAGAGTAGG-A
* *
984645 TGCA-TTTGTTTCTCCTTTTTTCC
63 TGCACTTTATTTC-CTTTTTTTCC
984668 TTT
1 TTT
984671 TTCATTGAAG
Statistics
Matches: 147, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
85 61 0.41
86 58 0.39
87 28 0.19
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (85 bp):
TTTATCCTCAAAGAGAAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTTAAAGAGTAGGATGC
ACTTTATTTCCTTTTTTTCC
Found at i:985514 original size:22 final size:21
Alignment explanation
Indices: 985486--985537 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
985476 TAGATGCATT
985486 GATACATTCTTTTAATTATATC
1 GATACATT-TTTTAATTATATC
* *
985508 GATACA-TTTTTCATTGTATC
1 GATACATTTTTTAATTATATC
985528 GATACATTTT
1 GATACATTTT
985538 GGGTTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 17 0.63
21 4 0.15
22 6 0.22
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (21 bp):
GATACATTTTTTAATTATATC
Found at i:986145 original size:54 final size:52
Alignment explanation
Indices: 986065--986174 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 52
986055 CTTTCATCTT
*
986065 CATCACCATGAGCCTCTGTTCTTACATTCCTTGCTCATTCCT-TCCATATTCA
1 CATCACCATGAGCCACTGTTCTTACATTCCTTGCTCATT-CTGTCCATATTCA
986117 CATCACCATGATAGCCACTGTTCTTACATTCCTTGCTCATTCTGTCCATATTCA
1 CATCACCATG--AGCCACTGTTCTTACATTCCTTGCTCATTCTGTCCATATTCA
986171 CATC
1 CATC
986175 TTCACCTCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
52 10 0.19
53 2 0.04
54 42 0.78
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (52 bp):
CATCACCATGAGCCACTGTTCTTACATTCCTTGCTCATTCTGTCCATATTCA
Found at i:987848 original size:78 final size:79
Alignment explanation
Indices: 987549--988086 Score: 460
Period size: 79 Copynumber: 6.8 Consensus size: 79
987539 TTTTATCTCA
* ** * ***
987549 GGGATACTTCAACCCCAGTTTTATTTCTAAAACACTGATTTTTTGCCATCAGGGATACTCCAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAACC
** *
987614 TTGTTATTTTCGAG
66 CCGTTATTTTTGAG
* * * * * * **
987628 GGGAGACTCTAACTCTGGTTTTATTTCTAAAACATCGATTTTCCACCATCGGGGACACTAGAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAACC
*
987693 CCATTATTTTTGAG
66 CCGTTATTTTTGAG
* * * *
987707 GGAATACTCTAA-CCTCGGCTTTATTT-TCAAAACACCTATTTTCCACCATC-GAGGATACTCCA
1 GGGATACTCCAACCCT-GGTTTTATTTCT-AAAACACCGATTTTCCACCATCAG-GGATACTCCA
*
987769 ACCCCGTTATTTTTTAG
63 ACCCCGTTATTTTTGAG
* *
987786 GGGATACTCCAACCCTGGTTTT-TTTCTAAAACACCGATTTTTCATCATCAGGGATACTCCAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAACC
* *** *
987850 CTGTTA-TTCCAAA
66 CCGTTATTTTTGAG
* * *
987863 GGGATACTCCAA-CCTCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
1 GGGATACTCCAACCCT-GGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAAC
* * *
987927 CTCATTATTTCTGAG
65 CCCGTTATTTTTGAG
* * * * * * *
987942 GGGATACTCCAACTCTGGTTTTATTTCTAAAACACCAATTTTCTACCGTCCGGGATATTCTAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAACC
* * *
988007 TCGTTATTTTCGAA
66 CCGTTATTTTTGAG
* * *** * * * ** *
988021 AGGATACTTCAACCCCAATTTTCTTTCTAAAATA-TGAATTTTAAACCATCAGGGGTACTCCAAC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCG-ATTTTCCACCATCAGGGATACTCCAAC
988085 CC
65 CC
988087 TATTTTCACT
Statistics
Matches: 367, Mismatches: 81, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
76 3 0.01
77 20 0.05
78 85 0.23
79 254 0.69
80 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCCAACC
CCGTTATTTTTGAG
Found at i:987919 original size:156 final size:157
Alignment explanation
Indices: 987548--987984 Score: 502
Period size: 156 Copynumber: 2.8 Consensus size: 157
987538 TTTTTATCTC
* * ** *** *
987548 AGGGATACTTCAACC-CCAGTTTTATTTCTAAAACACTGATTTTTTGCCATCAGGGATACTCCAA
1 AGGGATACTCCAACCTCGA-TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAA
* * * * *
987612 CCTTGTTATTTTCGAGGGGAGACTCTAACTCTGGTTTTATTTCTAAAACATCGATTTTCCACCAT
65 CCTCGTTATTTTTGAGGGGATACTCCAACTCTGGTTTTATTTCTAAAACACCGATTTTCCACCAT
* * ****
987677 CGGGGACACTAGAACCCCATTATTTTTG
130 CAGGGACACTACAACCCCATTATTCCAA
* ** * *
987705 AGGGAATACTCTAACCTCGGCTTTATTT-TCAAAACACCTATTTTCCACCATCGAGGATACTCCA
1 AGGG-ATACTCCAACCTCGATTTTATTTCT-AAAACACCAATTTTCCACCATCGGGGATACTCCA
* * * * *
987769 ACCCCGTTATTTTTTAGGGGATACTCCAACCCTGGTTTT-TTTCTAAAACACCGATTTTTCATCA
64 ACCTCGTTATTTTTGAGGGGATACTCCAACTCTGGTTTTATTTCTAAAACACCGATTTTCCACCA
* * **
987833 TCAGGGATACTCCAACCCTGTTATTCCAA
129 TCAGGGACACTACAACCCCATTATTCCAA
987862 AGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
1 AGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
* * *
987927 CTCATTATTTCTGAGGGGATACTCCAACTCTGGTTTTATTTCTAAAACACCAATTTTC
66 CTCGTTATTTTTGAGGGGATACTCCAACTCTGGTTTTATTTCTAAAACACCGATTTTC
987985 TACCGTCCGG
Statistics
Matches: 231, Mismatches: 44, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
156 86 0.37
157 69 0.30
158 75 0.32
159 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (157 bp):
AGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
CTCGTTATTTTTGAGGGGATACTCCAACTCTGGTTTTATTTCTAAAACACCGATTTTCCACCATC
AGGGACACTACAACCCCATTATTCCAA
Found at i:988014 original size:235 final size:237
Alignment explanation
Indices: 987549--988087 Score: 606
Period size: 235 Copynumber: 2.3 Consensus size: 237
987539 TTTTATCTCA
* * **
987549 GGGATACTTCAACCCCAGTTTTATTTCTAAAACACTGATTTTTTGCCATCAGGGATACTCCAACC
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACC
* * * * * * * *
987614 TTGTTATTTTCGAGGGGAGACTCTAACTCTGGTTTTATTTCTAAAACATCGATTTTCCACCATCG
66 CTGTTATTTCCAAAGGGAGACTCCAACTCTGATTTTATTTCTAAAACACCAATTTTCCACCATCG
* * * *
987679 GGGACACTAGAACCCCATTATTTTTGAGGGAATACTCTAACCTCGGCTTTATTTTCAAAACACCT
131 GGGACACTACAACCCCATTATTTCTGAGGGAATACTCCAACCTCGGCTTTATTTTCAAAACACCA
987744 ATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTTTAG
196 ATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTTTAG
** *
987786 GGGATACTCCAACCCTGGTTTT-TTTCTAAAACACCGATTTTTCATCATCAGGGATACTCCAACC
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACC
*
987850 CTGTTA-TTCCAAAGGGATACTCCAAC-CTCGATTTTATTTCTAAAACACCAATTTTCCACCATC
66 CTGTTATTTCCAAAGGGAGACTCCAACTCT-GATTTTATTTCTAAAACACCAATTTTCCACCATC
* * * * *
987913 GGGGATACTCCAACCTCATTATTTCTGAGGGGATACTCCAA-CTCTGGTTTTA-TTTCTAAAACA
130 GGGGACACTACAACCCCATTATTTCTGAGGGAATACTCCAACCTC-GGCTTTATTTTC-AAAACA
* * * * * ** *
987976 CCAATTTTCTACCGTCCG-GGATATTCTAACCTCGTTATTTTCGAA
193 CCAATTTTCCACCAT-CGAGGATACTCCAACCCCGTTATTTTTTAG
* * * * * * ** *
988021 AGGATACTTCAACCCCAATTTTCTTTCTAAAATA-TGAATTTTAAACCATCAGGGGTACTCCAAC
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACACCG-ATTTTTCACCATCAGGGATACTCCAAC
988085 CCT
65 CCT
988088 ATTTTCACTT
Statistics
Matches: 252, Mismatches: 44, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
234 9 0.04
235 143 0.57
236 81 0.32
237 19 0.08
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (237 bp):
GGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACC
CTGTTATTTCCAAAGGGAGACTCCAACTCTGATTTTATTTCTAAAACACCAATTTTCCACCATCG
GGGACACTACAACCCCATTATTTCTGAGGGAATACTCCAACCTCGGCTTTATTTTCAAAACACCA
ATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTTTAG
Found at i:989433 original size:20 final size:20
Alignment explanation
Indices: 989410--989534 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
989400 AAGCACCCAG
*
989410 ATGTATCGATACTTTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
989430 ATGTATCGAAACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
989450 ATGTATCAATACCTTCTTCA
1 ATGTATCGATACATTTTTCA
*
989470 ATGTATCGAAACATTCTATCTTTTTACCCA
1 ATGTATCG----ATAC-A--TTTTT---CA
989500 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
989521 ATGTATCGATACAT
1 ATGTATCGATACAT
989535 CTAGTTAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
20 49 0.64
21 2 0.03
24 8 0.10
26 1 0.01
27 7 0.09
30 2 0.03
31 8 0.10
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1003441 original size:7 final size:7
Alignment explanation
Indices: 1003429--1003472 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
1003419 TTCATGCCCA
1003429 AAAAAAT
1 AAAAAAT
1003436 AAAAAAT
1 AAAAAAT
*
1003443 AAAAATAGA
1 AAAAA-A-T
1003452 AAAAAAT
1 AAAAAAT
1003459 AAAAAAAT
1 -AAAAAAT
1003467 AAAAAA
1 AAAAAA
1003473 AACCAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 18 0.56
8 9 0.28
9 5 0.16
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:1003441 original size:8 final size:8
Alignment explanation
Indices: 1003428--1003473 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
1003418 CTTCATGCCC
1003428 AAAAAAAT
1 AAAAAAAT
1003436 -AAAAAAT
1 AAAAAAAT
* *
1003443 AAAAATAG
1 AAAAAAAT
1003451 AAAAAAAT
1 AAAAAAAT
1003459 AAAAAAAT
1 AAAAAAAT
1003467 AAAAAAA
1 AAAAAAA
1003474 ACCAAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1003463 original size:29 final size:27
Alignment explanation
Indices: 1003429--1003497 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
1003419 TTCATGCCCA
*
1003429 AAAAAATAAAAAATAAAAATAGAAAAAAAT
1 AAAAAA-AAAAAA-AAACA-AGAAAAAAAT
1003459 AAAAAAATAAAAAAAACCAAGAAAAAAAT
1 AAAAAAA-AAAAAAAA-CAAGAAAAAAAT
*
1003488 AACAAAAAAA
1 AAAAAAAAAA
1003498 TCGAAAGGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.09
29 20 0.57
30 12 0.34
ACGTcount: A:0.84, C:0.04, G:0.03, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAAAAAAACAAGAAAAAAAT
Found at i:1004748 original size:28 final size:28
Alignment explanation
Indices: 1004716--1006182 Score: 1318
Period size: 28 Copynumber: 50.9 Consensus size: 28
1004706 TGTTCATCTC
1004716 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1004744 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
1004773 TTCAAAGCCCACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1004801 TTCAAAGCCCACAGGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1004830 TTCAAATCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1004858 TTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
1004887 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
1004915 TTCAAGGCCTACACGAGTCGGGGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
*
1004947 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
1004975 TTCAAAGCCCATGAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * ***
1005003 TTCAAAGTGCACAAGTCGGTGGCAATTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCT
* * *
1005033 TTCAAAGCCCACAAGTAAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1005061 TGCAAAGCCAATGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1005089 TTCAAAGCCCACGAGTCAGTGTCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005117 TTCAAAGCCCATAAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005145 TTCCAAAGCCTACAAGTAAGTGGAACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
1005174 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
1005203 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
1005231 TTCATTGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
1005263 TTCGAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
1005291 TTCAAAGCCCATGAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** ***
1005319 TTCAAAGCCCACAAGTTGGTGGCAATTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCT
* *
1005349 TTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005377 TTCCAAAGCCTACAAGTAAGTAGCACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
*
1005406 TTCAAAGCCCATAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
*
1005435 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
1005463 TTCAAAGCCCATGAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ***
1005491 TTCAAAGCCCACAAGTCGGTGGCAATTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCT
*
1005521 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** *
1005549 TGCAAAGCCCATGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005577 TTCAAAGCCCACGAGCCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005605 TTTAAAGCCCACAAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1005633 TTCCAAAGCCTACAAGTTAGTGGCACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005662 TTGAAAGCCCACAAGTCAATGGCACCGTT
1 TTCAAAGCCCACAAGTCAGTGGCACC-CT
* **
1005691 TTCAAAGCCCACAAGTTAGTGGCATCTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
1005720 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
1005752 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * ***
1005780 TTCAAAGCGCATGAGTTAGTATAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * ***
1005808 TTCAAAGGCCACAAGTC-GATGGAAATTTTT
1 TTCAAAGCCCACAAGTCAG-TGG-CA-CCCT
*
1005838 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1005866 TGCAGAGCCCATGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1005894 TTCAAAGCCCACGAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1005922 TTCAAAGCCCATAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1005950 TTCCAGAGCCTACAAGTCTTTGGCACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
*
1005979 TTCAAAGCCCACAAGTCAGTTGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
1006008 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1006036 TTCAAGGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1006064 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
1006093 TTCAAAGGCCAC-AGGCTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* *
1006123 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
*
1006155 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
1006183 TTTTTTTTAA
Statistics
Matches: 1170, Mismatches: 228, Indels: 80
0.79 0.15 0.05
Matches are distributed among these distances:
27 1 0.00
28 614 0.52
29 312 0.27
30 149 0.13
31 15 0.01
32 76 0.06
33 3 0.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1004780 original size:57 final size:57
Alignment explanation
Indices: 1004716--1006182 Score: 1343
Period size: 57 Copynumber: 25.5 Consensus size: 57
1004706 TGTTCATCTC
* *
1004716 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
1004773 TTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACAGGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
1004830 TTCAAATCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC-T
* * * * * * *
1004887 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAGGCCTACACGAGTCGGGGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC--CACAAGTCAGTGGC-ACTCCT
* ** * *
1004947 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGTTAGTGGAAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * *** * *
1005003 TTCAAAGTGCACAAGTCGGTGGCAATTTTTTTCAAAGCCCACAAGTAAATGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * ** * *
1005061 TGCAAAGCCAATGAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGTCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * * *
1005117 TTCAAAGCCCATAAGTTAGTGGCACTCTTTCCAAAGCCTACAAGTAAGTGGAAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACTCCT
*
1005174 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * * *
1005231 TTCATTGCCCACATGAGTCGGTGGCAACTCTTTTCGAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * * ** * **
1005291 TTCAAAGCCCATGAGTTAGTGGAACCCTTTCAAAGCCCACAAGTTGGTGGCAATTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCT
* * * * *
1005349 TTCAAAGCCCACAAGTTAGTGGCACTCTTTCCAAAGCCTACAAGTAAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACTCCT
*
1005406 TTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * * * * **
1005463 TTCAAAGCCCATGAGTTAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAATTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCT
* * ** *
1005521 TTCAAAGCCCACAAGTCAGTGGCATCCTTGCAAAGCCCATGAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
1005577 TTCAAAGCCCACGAGCCAGTGGCACTCTTTTAAAGCCCACAAGTTAGTGGCACT-CT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
1005633 TTCCAAAGCCTACAAGTTAGTGGCACCCTTTGAAAGCCCACAAGTCAATGGCAC-CGTT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-CT
* ** * *
1005691 TTCAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCCT
* * ** * ***
1005752 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCGCATGAGTTAGTATAAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * ***
1005808 TTCAAAGGCCACAAGTC-GATGGAAATTTTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAG-TGG-CA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * ** * *
1005866 TGCAGAGCCCATGAGTCAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCACT-CT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * **
1005922 TTCAAAGCCCATAAGTCAGTGGCACTCTTTCCAGAGCCTACAAGTCTTTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACTCCT
* *
1005979 TTCAAAGCCCACAAGTCAGTTGCACCCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
1006036 TTCAAGGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * * *
1006093 TTCAAAGGCCAC-AGGCTAGTGGTAACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCCT
*
1006155 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
1006183 TTTTTTTTAA
Statistics
Matches: 1143, Mismatches: 215, Indels: 99
0.78 0.15 0.07
Matches are distributed among these distances:
55 1 0.00
56 267 0.23
57 465 0.41
58 198 0.17
59 46 0.04
60 97 0.08
61 41 0.04
62 15 0.01
63 3 0.00
64 8 0.01
65 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
Found at i:1005760 original size:317 final size:315
Alignment explanation
Indices: 1004716--1006184 Score: 1574
Period size: 317 Copynumber: 4.6 Consensus size: 315
1004706 TGTTCATCTC
* * *
1004716 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * * * * *
1004781 CCACAAGTCAGTGGCACCCATTCAAAGCCCACAGGTCAGTGGCACTCTTTTCAAATCCTACAAGT
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGT
* * ** *
1004846 CAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC-ACCCTTTTCAAAGCCCACAAGTCAGTGGC
129 TAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
* * * * * * *
1004910 ATCTTTTCAAGGCCTACACGAGTCGGGGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
194 ATCCTTGCAAAGCC-ACATGAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * ***
1004975 TTCAAAGCCCATGAGTTAGTGGAACCCTTTCAAAGTGC-ACAAGTCGGTGGCAATTTTT
258 TTCAAAGCCCATAAGTTAGTGGAACCCTTTCAAAG-CCTACAAGTTGGTGGCAATCCCT
* * * * **
1005033 TTCAAAGCCCACAAGTAAATGGCATCC-TTGCAAAGCCAATGAGTCAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * *
1005097 CCACGAGTCAGTGTCACCCTTTCAAAGCCCATAAGTTAGTGGCA-CTCTTTCCAAAGCCTACAAG
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTT-CAAAGCCCACGAG
* * *
1005161 TAAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTTCAAAGCCCACAAGTCAGTGG
128 TTAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGG
* * ** * * *
1005225 CATCTTTTCATTGCCCACATGAGTCGGTGGCAACTCTTTTCGAAGCCCACAAGTCAGTGGCATCC
193 CATCCTTGCAAAG-CCACATGAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * ***
1005290 TTTCAAAGCCCATGAGTTAGTGGAACCCTTTCAAAGCCCACAAGTTGGTGGCAATTTTT
257 TTTCAAAGCCCATAAGTTAGTGGAACCCTTTCAAAGCCTACAAGTTGGTGGCAATCCCT
* * * * *
1005349 TTCAAAGCCCACAAGTTAGTGGCACTCTTTCCAAAGCCTACAAGTAAGTAGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1005414 CCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGT
65 CCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGT
* *
1005479 TAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAATTTTTTTCAAAGCCCACAAGTCAGTGGC
129 TAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
1005544 ATCCTTGCAAAGCC-CATGAGTTAGTGGC-AC-CCTTTCAAAGCCCACGAGCCAGTGGCA-CTCT
194 ATCCTTGCAAAGCCACATGAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATC-CT
* * * * *
1005605 TTTAAAGCCCACAAGTTAGTGGCACTCTTTCCAAAGCCTACAAGTTAGTGGC-A-CCCT
258 TTCAAAGCCCATAAGTTAGTGGAACCCTTT-CAAAGCCTACAAGTTGGTGGCAATCCCT
* * * **
1005662 TTGAAAGCCCACAAGTCAATGGCACCGTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAG
* * * *
1005727 CCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCGCAT
64 CCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
** * * * * *
1005792 GAGTTAGTATAACCCTTTCAAAGGCCACAAGTCGATGGAAATTTTTTTCAAAGCCCACAAGTCAG
125 GAGTTAGTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAG
* * *
1005857 TGGCATCCTTGCAGAGCC-CATGAGTCAGTGGC-AC-CCTTTCAAAGCCCACGAGTTAGTGGCA-
190 TGGCATCCTTGCAAAGCCACATGAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
1005918 CTCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTCCAGAGCCTACAAGTCT-TTGGC-A-CCCT
255 C-CTTTCAAAGCCCATAAGTTAGTGGAACCCTTT-CAAAGCCTACAAGT-TGGTGGCAATCCCT
* * * *
1005979 TTCAAAGCCCACAAGTCAGTTGCACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAGGC
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1006044 CCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGGCCAC-AGG
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGA-G
* *
1006108 CTAGTGGTAACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGT
128 TTAGTGG-AAC-CCTTTCAAAG-CC-CACAAGTCGGTGGCAACTCTTTTCAAAG-CC-CACAAGT
*
1006173 TAGTGGCA-CCTT
187 CAGTGGCATCCTT
1006185 TTTTTTAAAA
Statistics
Matches: 1006, Mismatches: 118, Indels: 55
0.85 0.10 0.05
Matches are distributed among these distances:
312 27 0.03
313 65 0.06
314 77 0.08
315 35 0.03
316 291 0.29
317 423 0.42
318 73 0.07
319 15 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (315 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTA
GTGGAACCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAT
CCTTGCAAAGCCACATGAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
AAAGCCCATAAGTTAGTGGAACCCTTTCAAAGCCTACAAGTTGGTGGCAATCCCT
Found at i:1006898 original size:20 final size:20
Alignment explanation
Indices: 1006875--1006949 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1006865 AAATACCCAG
1006875 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1006895 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1006915 ATGTATCGATACCTTCTTCA
1 ATGTATCGATACATTTTTCA
*
1006935 ACGTATCGATACATT
1 ATGTATCGATACATT
1006950 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1009458 original size:139 final size:139
Alignment explanation
Indices: 1009208--1009484 Score: 509
Period size: 139 Copynumber: 2.0 Consensus size: 139
1009198 ACTTGCCAAG
*
1009208 ATCATTCTTAATTTTACCTAAATTATCATTGTCGGGGACACTCCAACCCCATTTCTCCGAGAGGA
1 ATCATTCTTAATTTTACCTAAATTATCATTGTCGGGGACACTCCAACCCCATTCCTCCGAGAGGA
* *
1009273 TACTCTAACCCCATTTTTCAATCAAAAATTGAATCATTTTCTCTCTCCCAAATTTTGAGTCATGT
66 TACTCCAACCCCATTTTTCAATCAAAAATTGAATCATTTTCTCTCTCCCAAATTTCGAGTCATGT
1009338 TTGTCCTGA
131 TTGTCCTGA
*
1009347 ATCATTCTTAATTTTACCTAAATTATCATTGTCGGGGACACTCCAACCCCATTCCTCCGAGGGGA
1 ATCATTCTTAATTTTACCTAAATTATCATTGTCGGGGACACTCCAACCCCATTCCTCCGAGAGGA
*
1009412 TACTCCAATCCCATTTTTCAATCAAAAATTGAATCATTTTCTCTCTCCCAAATTTCGAGTCATGT
66 TACTCCAACCCCATTTTTCAATCAAAAATTGAATCATTTTCTCTCTCCCAAATTTCGAGTCATGT
1009477 TTGTCCTG
131 TTGTCCTG
1009485 GAACTTCACT
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 133 1.00
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (139 bp):
ATCATTCTTAATTTTACCTAAATTATCATTGTCGGGGACACTCCAACCCCATTCCTCCGAGAGGA
TACTCCAACCCCATTTTTCAATCAAAAATTGAATCATTTTCTCTCTCCCAAATTTCGAGTCATGT
TTGTCCTGA
Found at i:1013030 original size:14 final size:13
Alignment explanation
Indices: 1013007--1013040 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1012997 CATGGATTTT
1013007 AAAAAAAGAAACA
1 AAAAAAAGAAACA
*
1013020 AAAAGAAAGAAAGA
1 AAAA-AAAGAAACA
1013034 AAAAAAA
1 AAAAAAA
1013041 ATTCATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAACA
Found at i:1014595 original size:20 final size:20
Alignment explanation
Indices: 1014529--1014617 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
1014519 TGATGCTTGT
* *
1014529 ATTTGTATCATTTCACATGC
1 ATTTGCATCATTTAACATGC
**
1014549 ATTTGCATTCAAATAACATTGGC
1 ATTTGCA-TCATTTAACA-T-GC
*
1014572 ATTTGCATCATTTAATATGC
1 ATTTGCATCATTTAACATGC
* *
1014592 ATTTGCATCATTTCATATGC
1 ATTTGCATCATTTAACATGC
1014612 ATTTGC
1 ATTTGC
1014618 CATTTTACTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 33 0.57
21 8 0.14
22 8 0.14
23 9 0.16
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (20 bp):
ATTTGCATCATTTAACATGC
Found at i:1015753 original size:48 final size:47
Alignment explanation
Indices: 1015689--1015877 Score: 225
Period size: 48 Copynumber: 4.0 Consensus size: 47
1015679 ATTGTATCTA
* *
1015689 GTCAAACTCAAGTCTTCCCTTGTTTGACTGTATTGGTGTTAGGGTCTG
1 GTCAAACTCAAATCTTCCCTCGTTTGACTGTATTGGTGTTAGGG-CTG
* * * * *
1015737 GTCAAACTTAAATCTTCCTTCGTTTGATTGTATTAGTGTTAGGGCCTA
1 GTCAAACTCAAATCTTCCCTCGTTTGACTGTATTGGTGTTAGGG-CTG
* *
1015785 GTCAAACTCAAATCTTCTCTCATTTGACTGTATTGGTGTTAGGGCTTG
1 GTCAAACTCAAATCTTCCCTCGTTTGACTGTATTGGTGTTAGGGC-TG
*** * *
1015833 GTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTGTTAGGGC
1 GTCAAACTCAAATCTTCCCTCGTTTGACTGTATTGGTGTTAGGGC
1015878 CTATTTAAAC
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
47 1 0.01
48 117 0.99
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (47 bp):
GTCAAACTCAAATCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCTG
Found at i:1015801 original size:96 final size:96
Alignment explanation
Indices: 1015686--1015889 Score: 259
Period size: 96 Copynumber: 2.1 Consensus size: 96
1015676 TTAATTGTAT
* **
1015686 CTAGTCAAACTCAAGTCTTCCCTTGTTTGACTGTATTGGTGTTAGGG-TCTGGTCAAACT-TAAA
1 CTAGTCAAACTCAAATCTTCCCTCATTTGACTGTATTGGTGTTAGGGCT-TGGTCAAACTCT-AA
* * * *
1015749 TCTTCCTTCGTTTGATTGTATTAGTGTTAGGGC
64 TCATCCCTCGTTTAACTGTATTAGTGTTAGGGC
* **
1015782 CTAGTCAAACTCAAATCTTCTCTCATTTGACTGTATTGGTGTTAGGGCTTGGTCAAACTCTTTTC
1 CTAGTCAAACTCAAATCTTCCCTCATTTGACTGTATTGGTGTTAGGGCTTGGTCAAACTCTAATC
*
1015847 ATCCCTCGTTTAACTGTATTGGTGTTAGGGC
66 ATCCCTCGTTTAACTGTATTAGTGTTAGGGC
* *
1015878 CTATTTAAACTC
1 CTAGTCAAACTC
1015890 TTCTCATTCC
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
96 91 0.98
97 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (96 bp):
CTAGTCAAACTCAAATCTTCCCTCATTTGACTGTATTGGTGTTAGGGCTTGGTCAAACTCTAATC
ATCCCTCGTTTAACTGTATTAGTGTTAGGGC
Found at i:1015888 original size:48 final size:48
Alignment explanation
Indices: 1015686--1015907 Score: 198
Period size: 48 Copynumber: 4.6 Consensus size: 48
1015676 TTAATTGTAT
* * * *
1015686 CTAGTCAAACTC-AAGTCTTCCCTTGTTTGACTGTATTGGTGTTAGGGT
1 CTAGTCAAACTCTTA-TCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * * * * *
1015734 CTGGTCAAACT-TAAATCTTCCTTCGTTTGATTGTATTAGTGTTAGGGC
1 CTAGTCAAACTCT-TATCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
** * * *
1015782 CTAGTCAAACTCAAATCTTCTCTCATTTGACTGTATTGGTGTTAGGGC
1 CTAGTCAAACTCTTATCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * * *
1015830 TTGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTGTTAGGGC
1 CTAGTCAAACTCTTATCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * * *
1015878 CTATTTAAACTCTTCTCATTCCT-GTTTGAC
1 CTAGTCAAACTCTTATCATCCCTCGTTTGAC
1015908 ATATGGTTAC
Statistics
Matches: 142, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
47 6 0.04
48 134 0.94
49 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (48 bp):
CTAGTCAAACTCTTATCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
Found at i:1015958 original size:44 final size:44
Alignment explanation
Indices: 1015902--1016443 Score: 316
Period size: 44 Copynumber: 12.4 Consensus size: 44
1015892 CTCATTCCTG
*
1015902 TTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
*** * * * ** *
1015946 TTTGATAAATGGTTACTACCTTGGT-AAATT-TGCCTC-TTTTTA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTTTGA
* *
1015988 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
* * * * * * **
1016032 TTTGACATATGGTTACCACCCTGGTTA-AATCTGCCTCCCTCCTG-
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCT--TTTCATTTTGA
* * * * * *
1016076 TCTGACGTATGGTTGCCACCTTGGTAAAATTCTTTTTATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
* * * *
1016120 TTTGATGTATGGTTACCACCTTGGTCAAATT-TGCCTT-ATTTCTG-
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCT--TTTCATTT-TGA
* * * * * *
1016164 TCTAACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
* * * *
1016208 TTTGATGTATGGTTACCACCCTAGTTAGATTCTTTTCATTCTGA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
* * * * * **
1016252 TTTGATGTATGGTTACCACCCTGGTCA-AATCTGCCTCCCTCCT-A
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCT--TTTCATTTTGA
* * ** **
1016296 TCTAACGCCTGGTTACCACCCTGGTCAGATTCTTTTCATTCCGA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
* * * * ** * **
1016340 TTTGATGTATAGTTACCACCCTGGTTAAATT-TGCCTC-CTTCCA
1 TTTGACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTTTGA
* * **
1016383 CTCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCGGA
1 -TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
1016428 TTTGACGTATGGTTAC
1 TTTGACGTATGGTTAC
1016444 TATAGACACC
Statistics
Matches: 371, Mismatches: 105, Indels: 44
0.71 0.20 0.08
Matches are distributed among these distances:
42 25 0.07
43 35 0.09
44 285 0.77
45 26 0.07
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGA
Found at i:1016120 original size:88 final size:87
Alignment explanation
Indices: 1015896--1016234 Score: 374
Period size: 88 Copynumber: 3.9 Consensus size: 87
1015886 ACTCTTCTCA
* * *
1015896 TTCCTGTTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATAAATGGTTA
1 TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATATATGGTTA
* *
1015961 CTACCTTGG-TAAATTTGCCTC
66 CCACCCTGGTTAAATTTGCCTC
** * * * * *
1015982 TTTTTATTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGATTTGACATATGGTTA
1 TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATATATGGTTA
*
1016047 CCACCCTGGTTAAATCTGCCTCC
66 CCACCCTGGTTAAATTTGCCT-C
* * * * * * * * *
1016070 CTCCTGTCTGACGTATGGTTGCCACCTTGGTAAAATTCTTTTTATTTTGATTTGATGTATGGTTA
1 TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATATATGGTTA
* * *
1016135 CCACCTTGGTCAAATTTGCCTTA
66 CCACCCTGGTTAAATTTGCC-TC
* * * * *
1016158 TTTCTGTCTAACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTA
1 TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATATATGGTTA
*
1016223 CCACCCTAGTTA
66 CCACCCTGGTTA
1016235 GATTCTTTTC
Statistics
Matches: 206, Mismatches: 44, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
86 64 0.31
87 10 0.05
88 131 0.64
89 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (87 bp):
TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATATATGGTTA
CCACCCTGGTTAAATTTGCCTC
Found at i:1016218 original size:132 final size:132
Alignment explanation
Indices: 1015906--1016370 Score: 431
Period size: 132 Copynumber: 3.5 Consensus size: 132
1015896 TTCCTGTTTG
* ** * *
1015906 ACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATAAATGGTTACTACCTTGGT
1 ACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGT
* * * * * * **
1015971 AAATTTGC-CTCT-TTTT-ATTTGACGTATGGTTACCACCCTAGTCAGATTT-TTTTCATTT-TG
66 AAAATT-CTTTTTATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTT-ATTTCTG
* *
1016031 ATTTG
129 -TCTA
* * * * * * * * * *
1016036 ACATATGGTTACCACCCTGGTTA-AATCTGCCTCCCTCCTG-TCTGACGTATGGTTGCCACCTTG
1 ACATATGGTTACCACCCTGGTCAGATTCT--TTTCATTCTGATTTGATGTATGGTTACCACCCTG
*
1016099 GTAAAATTCTTTTTATTTTGATTTGATGTATGGTTACCACCTTGGTCAAATTTGCCTTATTTCTG
64 GTAAAATTCTTTTTATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTTATTTCTG
1016164 TCTA
129 TCTA
* * *
1016168 ACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTACCACCCTAGT
1 ACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGT
* * * * * *** * *
1016233 TAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGTCAAATCTGCCTCCCTCCTATC
66 AAAATTCTTTTTATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTTATTTCTGTC
1016298 TA
131 TA
*** * *
1016300 ACGCCTGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATAGTTACCACCCTGGT
1 ACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGT
*
1016365 TAAATT
66 AAAATT
1016371 TGCCTCCTTC
Statistics
Matches: 269, Mismatches: 57, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
129 5 0.02
130 48 0.18
131 14 0.05
132 194 0.72
133 8 0.03
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (132 bp):
ACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGT
AAAATTCTTTTTATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTTATTTCTGTC
TA
Found at i:1016263 original size:88 final size:89
Alignment explanation
Indices: 1015893--1016443 Score: 351
Period size: 88 Copynumber: 6.3 Consensus size: 89
1015883 TAAACTCTTC
* * ***
1015893 TCATTCCTG-TTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATAAATG
1 TCATT-CTGATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATG
* * * *
1015957 GTTACTACCTTGGT-AAATT-TGCC
65 GTTACCACCCTGGTCAGATTCTGCT
* * * * * *
1015980 TC-TTTTTATTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGATTTGACATATGG
1 TCATTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGG
* *
1016044 TTACCACCCTGGTTA-AATCTGCCT
66 TTACCACCCTGGTCAGATTCTG-CT
* * * * * * * * * * *
1016068 CCCTCCTG-TCTGACGTATGGTTGCCACCTTGGTAAAATTCTTTTTATTTTGATTTGATGTATGG
1 TCATTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGG
* *
1016132 TTACCACCTTGGTCAAATT-TGCCT
66 TTACCACCCTGGTCAGATTCTG-CT
* * * * * *
1016156 T-ATTTCTG-TCTAACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGATGTATG
1 TCA-TTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATG
* * *
1016219 GTTACCACCCTAGTTAGATTCT-TT
65 GTTACCACCCTGGTCAGATTCTGCT
* * * * * * * * **
1016243 TCATTCTGATTTGATGTATGGTTACCACCCTGGTCA-AATCTGCCTCCCTCCT-ATCTAACGCCT
1 TCATTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCT--TTTCATTCTGATTTGACGTAT
*
1016306 GGTTACCACCCTGGTCAGATTCT-TT
64 GGTTACCACCCTGGTCAGATTCTGCT
* * * * * ** * * *
1016331 TCATTCCGATTTGATGTATAGTTACCACCCTGGTTAAATT-TGCCTCCTTC-CACTCTGACGTAT
1 TCATTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTCTGA-TTTGACGTAT
* *
1016394 GGTTACCACCTTGGTCAGATTCT-TT
64 GGTTACCACCCTGGTCAGATTCTGCT
*
1016419 TCATTCGGATTTGACGTATGGTTAC
1 TCATTCTGATTTGACGTATGGTTAC
1016444 TATAGACACC
Statistics
Matches: 371, Mismatches: 78, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
85 1 0.00
86 66 0.18
87 22 0.06
88 270 0.73
89 12 0.03
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (89 bp):
TCATTCTGATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGG
TTACCACCCTGGTCAGATTCTGCT
Found at i:1016441 original size:132 final size:133
Alignment explanation
Indices: 1015893--1016443 Score: 401
Period size: 132 Copynumber: 4.2 Consensus size: 133
1015883 TAAACTCTTC
** **
1015893 TCATTCCTG-TTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATAAATG
1 TCATT-CTGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATG
* * ** *
1015957 GTTACTACCTTGG-TAAATT-TGCCTCTTTTTATTTGACGTATGGTTACCACCCTAGTCAGATT-
65 GTTACCACCCTGGTTAAATTCTGCCTCTTTCGATTTGACGTATGGTTACCACCCTGGTCAGATTC
**
1016019 TTTT
130 TGCT
* * * ** ** * *
1016023 TCATTTTGATTTGACATATGGTTACCACCCTGGTTA-AATCTGCCTCCCTCCTG-TCTGACGTAT
1 TCATTCTGATTTGACATATGGTTACCACCCTGGTCAGATTCT-TTTCATTCC-GATTTGATGTAT
* * * *** * * * * *
1016086 GGTTGCCACCTTGGTAAAATTCTTTTTATTTTGATTTGATGTATGGTTACCACCTTGGTCAAATT
64 GGTTACCACCCTGGTTAAATTCTGCCTCTTTCGATTTGACGTATGGTTACCACCCTGGTCAGATT
1016151 -TGCCT
129 CTG-CT
* * * **
1016156 T-ATTTCTG-TCTAACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGATGTATG
1 TCA-TTCTGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATG
* * ** * * *
1016219 GTTACCACCCTAGTTAGATTCT-TTTCATTCTGATTTGATGTATGGTTACCACCCTGGTCA-AAT
65 GTTACCACCCTGGTTAAATTCTGCCTCTTTC-GATTTGACGTATGGTTACCACCCTGGTCAGATT
1016282 CTGCCT
129 CTG-CT
* * * * * *** *
1016288 CCCTCCT-ATCTAACGCCTGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATAG
1 TCATTCTGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGG
* * * *
1016352 TTACCACCCTGGTTAAATT-TGCCTCCTTCCACTCTGACGTATGGTTACCACCTTGGTCAGATTC
66 TTACCACCCTGGTTAAATTCTGCCTCTTTCGA-TTTGACGTATGGTTACCACCCTGGTCAGATTC
*
1016416 T-TT
130 TGCT
* *
1016419 TCATTCGGATTTGACGTATGGTTAC
1 TCATTCTGATTTGACATATGGTTAC
1016444 TATAGACACC
Statistics
Matches: 324, Mismatches: 80, Indels: 32
0.74 0.18 0.07
Matches are distributed among these distances:
129 6 0.02
130 52 0.16
131 19 0.06
132 233 0.72
133 14 0.04
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (133 bp):
TCATTCTGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGG
TTACCACCCTGGTTAAATTCTGCCTCTTTCGATTTGACGTATGGTTACCACCCTGGTCAGATTCT
GCT
Found at i:1016871 original size:20 final size:22
Alignment explanation
Indices: 1016822--1016876 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
1016812 CATAAGTAAA
1016822 TATATCGATACATGCTTACAAT
1 TATATCGATACATGCTTACAAT
1016844 TATATCGATACAT-CTCT-C-AT
1 TATATCGATACATGCT-TACAAT
*
1016864 TCTATCGATACAT
1 TATATCGATACAT
1016877 TCTAGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.45
21 3 0.10
22 14 0.45
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (22 bp):
TATATCGATACATGCTTACAAT
Found at i:1018507 original size:22 final size:21
Alignment explanation
Indices: 1018462--1018516 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
1018452 TCTCATGAGT
*
1018462 TTAAAAA-TTATTTTAAAATA
1 TTAAAAATTTTTTTTAAAATA
*
1018482 TTAAATGATTTTTTTTCAAAAT-
1 TTAAA-AATTTTTTTT-AAAATA
1018504 TTAAAAATTTTTT
1 TTAAAAATTTTTT
1018517 CCTTGGGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.17
21 8 0.28
22 11 0.38
23 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAAAATTTTTTTTAAAATA
Found at i:1019268 original size:79 final size:78
Alignment explanation
Indices: 1019179--1019763 Score: 742
Period size: 79 Copynumber: 7.4 Consensus size: 78
1019169 TATATTGATT
* * * *
1019179 TTTTTGTTTCCAAAATATCAATTTTTTACCATCAGGGATATTCAAACCCCGTTA-TTTCTGAGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTC-GAGGG
1019243 GATACTCCAACCCCA
64 GATACTCCAACCCCA
* * * * * *
1019258 TTTTTATTTCCAAAATATCAATTTTTTACCATCGGGGATAATTCAACCCCATTGTCTTCGAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTCGAGGGG
1019323 ATACTCCAACCCCA
65 ATACTCCAACCCCA
* * * *
1019337 TTTTTATTTTCAAAATA-AAGATTTTTCACCATCGGCGATACTCTAACCCCGTTATTTTCAAGGG
1 TTTTTATTTCCAAAATATCA-ATTTTTCACCATCGG-GATACTCCAACCCCGTTATTTTCGAGGG
*
1019401 GATACTCCAACCCTA
64 GATACTCCAACCCCA
* * *
1019416 TTTTTATTTCCAAAATATCAATTTGTCACTATCGGGGATACTCCAACCCCGTTATTTTCAAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTCGAGGGG
*
1019481 ATACTCCAACCCTA
65 ATACTCCAACCCCA
* * * *
1019495 TTTTTATTTCCAAAATATCGATTTGTCACCATCGGGGATACTCTAACCCCAGTTATTTTCAAGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATC-GGGATACTCCAACCCC-GTTATTTTCGAGGG
*
1019560 GATACTCCAACCCTA
64 GATACTCCAACCCCA
* ** * *
1019575 TTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACACCAACCTTGTTATTTTGGAAGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATCG-GGATACTCCAACCCCGTTATTTTCGAGGGG
* *
1019640 ATAGTCTAACCCCA
65 ATACTCCAACCCCA
* *
1019654 TTTTTATTTCCAAAATATCAATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATCGG-GATACTCCAACCCCGTTATTTTCGAGGGG
*
1019719 ATACTCCAACCTCA
65 ATACTCCAACCCCA
**
1019733 TTTTTATTTCCAAAATATTGATTTTTCACCA
1 TTTTTATTTCCAAAATATCAATTTTTCACCA
1019764 ATGGAGATTT
Statistics
Matches: 449, Mismatches: 49, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
78 4 0.01
79 368 0.82
80 77 0.17
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (78 bp):
TTTTTATTTCCAAAATATCAATTTTTCACCATCGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCCA
Found at i:1019480 original size:158 final size:157
Alignment explanation
Indices: 1019179--1020093 Score: 828
Period size: 158 Copynumber: 5.7 Consensus size: 157
1019169 TATATTGATT
* * * * * *
1019179 TTTTTGTTTCCAAAATATCA-ATTTTTTACCATCAGGGATATTCAAACCCCGTTA-TTTCTGAGG
1 TTTTTATTTTCAAAATAT-AGATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTC-AAGG
* * * *
1019242 GGATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTTACCATCGGGGATAATTCAACCC
63 GGATACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCC
* * * *
1019307 CATTGTCTTCGAGGGGATACTCCAACCCCA
128 CGTTATTTTCAAGGGGATACTCCAACCCCA
* *
1019337 TTTTTATTTTCAAAATAAAGATTTTTCACCATCGGCGATACTCTAACCCCGTTATTTTCAAGGGG
1 TTTTTATTTTCAAAATATAGATTTTTCACCATCGG-GATACTCCAACCCCGTTATTTTCAAGGGG
* *
1019402 ATACTCCAACCCTATTTTTATTTCCAAAATATCAATTTGTCACTATCGGGGATACTCCAACCCCG
65 ATACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCG
*
1019467 TTATTTTCAAGGGGATACTCCAACCCTA
130 TTATTTTCAAGGGGATACTCCAACCCCA
* * * *
1019495 TTTTTATTTCCAAAATATCGATTTGTCACCATCGGGGATACTCTAACCCCAGTTATTTTCAAGGG
1 TTTTTATTTTCAAAATATAGATTTTTCACCATC-GGGATACTCCAACCCC-GTTATTTTCAAGGG
* * **
1019560 GATACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACACCAACCTT
64 GATACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCC
* * *
1019625 GTTATTTTGGAA-GGGATAGTCTAACCCCA
129 GTTATTTT-CAAGGGGATACTCCAACCCCA
* * * *
1019654 TTTTTATTTCCAAAATATCA-ATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCGAGGG
1 TTTTTATTTTCAAAATAT-AGATTTTTCACCATCGG-GATACTCCAACCCCGTTATTTTCAAGGG
1019718 GATACTCCAA-CCTCATTTTTATTTCCAAAATATTGATTTTTCACCAATGGAGATTTTTCACCAT
64 GATACTCCAACCCT-ATTTTTATTTCC-AAA-A-T-A----T---C-----A-ATTTTTCACCAT
* * * *
1019782 CAGGGATACTTCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTA
111 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCA
* * * *
1019829 GTTTTATTATCAAAATATCGATTTTTCACCATCGGGATACTCCAACCCCGTTATTTTCATGGGGA
1 TTTTTATTTTCAAAATATAGATTTTTCACCATCGGGATACTCCAACCCCGTTATTTTCAAGGGGA
** * * * ** * *
1019894 TACTCCAACCCTGGTTTTATTTCTAAACTATTAGATTCCTCAAC-TCGGGGATACTCTAACCCCG
66 TACTCCAACCCTATTTTTATTTCCAAAATATCA-ATTTTTCACCATCGGGGATACTCCAACCCCG
* *
1019958 TTATTTCTGAAGGGG-TACT-CTACCCCGA
130 TTATTT-TCAAGGGGATACTCCAACCCC-A
* *** ** * *
1019986 -TTTTA-TTTCTAAAATATTAAAATTTTT--GTTTCTGATATACTCCAATCCCATTATTTTCAAG
1 TTTTTATTTTC-AAAATA-T-AGATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTCAAG
* * * * *
1020047 GGGATACTTCAATCTTATTTTTATTTTCCAAAGTATTAAATTTTTCA
62 GGGATACTCCAACCCTATTTTTA-TTTCCAAAATA-TCAATTTTTCA
1020094 TCGAGGTATG
Statistics
Matches: 629, Mismatches: 91, Indels: 74
0.79 0.11 0.09
Matches are distributed among these distances:
155 3 0.00
156 18 0.03
157 75 0.12
158 247 0.39
159 147 0.23
160 3 0.00
161 1 0.00
162 1 0.00
166 2 0.00
169 1 0.00
170 1 0.00
171 1 0.00
173 3 0.00
174 46 0.07
175 80 0.13
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (157 bp):
TTTTTATTTTCAAAATATAGATTTTTCACCATCGGGATACTCCAACCCCGTTATTTTCAAGGGGA
TACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGT
TATTTTCAAGGGGATACTCCAACCCCA
Found at i:1019676 original size:238 final size:237
Alignment explanation
Indices: 1019179--1020002 Score: 817
Period size: 238 Copynumber: 3.4 Consensus size: 237
1019169 TATATTGATT
* * * * *
1019179 TTTTTGTTTCCAAAATATCAATTTTTTACCATCAGGGATATTCAAACCCCGTTA-TTTCTGAGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGG
* * *
1019243 GATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTTACCATCGGGGATAATTCAACCCC
65 GATACTCCAACCCTATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATAATTCAACCCC
* * *
1019308 ATTGTCTTCGAGGGGATACTCCAACCCCATTTTTATTTTCAAAATAAAGATTTTTCACCATCGGC
130 ATTATCTTCAAGGGGATACTCCAACCCCATTTTTATTTCCAAAATAAAGATTTTTCACCATCGGC
* * *
1019373 GATACTCTAACCCCGTTATTTTCAAGGGGATACTCCAACCCTA
195 GATACACCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCA
* * *
1019416 TTTTTATTTCCAAAATATCAATTTGTCACTATCGGGGATACTCCAACCCCGTTATTTTCAAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
1019481 ATACTCCAACCCTATTTTTATTTCCAAAATATCGATTTGTCACCATCGGGGAT-ACTCTAACCCC
66 ATACTCCAACCCTATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATAATTC-AACCCC
* * *
1019545 AGTTATTTTCAAGGGGATACTCCAACCCTATTTTTATTTCCAAAATATCA-ATTTTTCACCATCG
130 A-TTATCTTCAAGGGGATACTCCAACCCCATTTTTATTTCCAAAATA-AAGATTTTTCACCATCG
** * * *
1019609 AG-GATACACCAACCTTGTTATTTTGGAA-GGGATAGTCTAACCCCA
193 -GCGATACACCAACCCCGTTATTTT-CAAGGGGATACTCCAACCCCA
* * *
1019654 TTTTTATTTCCAAAATATCAATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
1019719 ATACTCCAA-CCTCATTTTTATTTCCAAAATATTGATTTTTCACCAATGGAGATTTTTCACCATC
66 ATACTCCAACCCT-ATTTTTATTTCC-AAA-A-T-A----T---C------GATTTTTCACCATC
* * ** * * * *
1019783 AGGGATACTTCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTAGTTTTATTAT-CAAAATAT
113 GGGGATAATTCAACCCCATTATCTTCAAGGGGATACTCCAACCCCATTTTTATT-TCCAAAATAA
* * * **
1019847 CGATTTTTCACCATCGG-GATACTCCAACCCCGTTATTTTCATGGGGATACTCCAACCCTG
177 AGATTTTTCACCATCGGCGATACACCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCA
* * * * ** * *
1019907 GTTTTATTTCTAAACTATTAGATTCCTCAAC-TCGGGGATACTCTAACCCCGTTA-TTTCTGAAG
1 TTTTTATTTCCAAAATATCA-ATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-G-AG
* * * *
1019970 GGG-TACTCTACCCCGA-TTTTATTTCTAAAATAT
63 GGGATACTCCAACCCTATTTTTATTTCCAAAATAT
1020003 TAAAATTTTT
Statistics
Matches: 489, Mismatches: 66, Indels: 57
0.80 0.11 0.09
Matches are distributed among these distances:
236 3 0.01
237 111 0.23
238 170 0.35
239 7 0.01
240 1 0.00
241 1 0.00
242 1 0.00
244 1 0.00
246 1 0.00
248 1 0.00
249 2 0.00
250 1 0.00
251 3 0.01
252 14 0.03
253 76 0.16
254 70 0.14
255 24 0.05
256 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (237 bp):
TTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
ATACTCCAACCCTATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATAATTCAACCCCA
TTATCTTCAAGGGGATACTCCAACCCCATTTTTATTTCCAAAATAAAGATTTTTCACCATCGGCG
ATACACCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCA
Found at i:1019843 original size:96 final size:96
Alignment explanation
Indices: 1019674--1019859 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
1019664 CAAAATATCA
* *
1019674 ATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCTCATTTTTA
1 ATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCAAGGGGATACTCCAACCTCAGTTTTA
*
1019739 TTTCCAAAATATTGATTTTTCACCAATGGAG
66 TTTCCAAAATATCGATTTTTCACCAATGGAG
* *
1019770 ATTTTTCACCATCAGG-GATACTTCAACC-CTGTTATTTTCAAGGGGATACTCCAACC-CTAGTT
1 ATTTTTCACCATC-GGAGAAACTCCAACCTC-GTTATTTTCAAGGGGATACTCCAACCTC-AGTT
1019832 TTATTAT-CAAAATATCGATTTTTCACCA
63 TTATT-TCCAAAATATCGATTTTTCACCA
1019860 TCGGGATACT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
95 2 0.02
96 76 0.94
97 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (96 bp):
ATTTTTCACCATCGGAGAAACTCCAACCTCGTTATTTTCAAGGGGATACTCCAACCTCAGTTTTA
TTTCCAAAATATCGATTTTTCACCAATGGAG
Found at i:1019875 original size:78 final size:79
Alignment explanation
Indices: 1019769--1020002 Score: 255
Period size: 78 Copynumber: 3.0 Consensus size: 79
1019759 CACCAATGGA
* *
1019769 GATTTTTCACCATCAGGGATACTTCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTAGTTTT
1 GATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCTAGTTTT
1019834 ATTATCAAAATATC
66 ATTATCAAAATATC
* *
1019848 GATTTTTCACCATC-GGGATACTCCAACCCCGTTATTTTCATGGGGATACTCCAACCCTGGTTTT
1 GATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCTAGTTTT
* *
1019912 ATT-TCTAAACTATTA
66 ATTATC-AAAATA-TC
** * * * * * * *
1019927 GATTCCTCAAC-TCGGGGATACTCTAACCCCGTTATTTCTGAAGGGG-TACTCTACCCCGA-TTT
1 GATTTTTCACCATCAGGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCTAGTTT
1019989 TATT-TCTAAAATAT
65 TATTATC-AAAATAT
1020003 TAAAATTTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
77 3 0.02
78 71 0.53
79 54 0.40
80 6 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCTAGTTTT
ATTATCAAAATATC
Found at i:1021135 original size:44 final size:44
Alignment explanation
Indices: 1021065--1021441 Score: 243
Period size: 44 Copynumber: 8.6 Consensus size: 44
1021055 ATCTACCTCC
*
1021065 TTCCTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCA
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCA
* * * ** *
1021109 TTCCAATTTGATGTATGGTTAACACCC-AGGTCAAA-TCTACCTCT
1 TTCCTATTTGACGTATGGTTACCACCCTA-GTCAAATTCT-TTTCA
* * * * *
1021153 TTCCTATCTAACGTATAGTTACCACCCTCGTCAAATTCTTTTTA
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCA
** * * ** *
1021197 TTCAGATTTGACGTATAGTTACCACCCTGGTCAAATT-TGCCTCT
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCT-TTTCA
* * * *
1021241 TTCTTATTTGACGTATGGTTACCACCCTGGTTAGATTCTTTTCA
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCA
* * * * *
1021285 TT-CTGATTTGATGTATGCTCACCACCCTGGTTAAATTTGCCTATTT--
1 TTCCT-ATTTGACGTATGGTTACCACCCTAGTCAAA-TT--CT-TTTCA
* * * *
1021331 TT--TGTCTGACGTATGGTTACCACCCTGGTCGAATTCTTTTCA
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCA
* * * * **
1021373 TTTCGATTTGATGTATGGTTACCACCCTGGTCAAA-TCTGCCTC-
1 TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCT-TTTCA
* *
1021416 TTCCTTTTTGACGTATGGTTGCCACC
1 TTCCTATTTGACGTATGGTTACCACC
1021442 TTGGAAAAAC
Statistics
Matches: 258, Mismatches: 59, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.01
41 2 0.01
42 2 0.01
43 32 0.12
44 205 0.79
45 7 0.03
46 2 0.01
47 2 0.01
48 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (44 bp):
TTCCTATTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCA
Found at i:1021206 original size:88 final size:88
Alignment explanation
Indices: 1021047--1021441 Score: 454
Period size: 88 Copynumber: 4.5 Consensus size: 88
1021037 AGTTGCTAAT
* * * * * *
1021047 CTGGTTAAATCTACCTCCTTCCTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTC
1 CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATT-
*
1021112 CA-ATTTGATGTATGGTTAACACC
65 CAGATTTGATGTATGGTTACCACC
* * * * * *
1021135 CAGGTCAAATCTACCTCTTTCCTATCTAACGTATAGTTACCACCCTCGTCAAATTCTTTTTATTC
1 CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTC
* *
1021200 AGATTTGACGTATAGTTACCACC
66 AGATTTGATGTATGGTTACCACC
* * * * *
1021223 CTGGTCAAATTTGCCTCTTTCTTATTTGACGTATGGTTACCACCCTGGTTAGATTCTTTTCATTC
1 CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTC
* * *
1021288 TGATTTGATGTATGCTCACCACC
66 AGATTTGATGTATGGTTACCACC
* * * ** * *
1021311 CTGGTTAAATTTGCCTATTTTTTGTCTGACGTATGGTTACCACCCTGGTCGAATTCTTTTCATTT
1 CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCA-TT
1021376 C-GATTTGATGTATGGTTACCACC
65 CAGATTTGATGTATGGTTACCACC
* * *
1021399 CTGGTCAAATCTGCCTC-TTCCTTTTTGACGTATGGTTGCCACC
1 CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACC
1021442 TTGGAAAAAC
Statistics
Matches: 259, Mismatches: 46, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
87 23 0.09
88 233 0.90
89 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (88 bp):
CTGGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTC
AGATTTGATGTATGGTTACCACC
Found at i:1021368 original size:176 final size:176
Alignment explanation
Indices: 1021047--1021441 Score: 506
Period size: 176 Copynumber: 2.2 Consensus size: 176
1021037 AGTTGCTAAT
* * * *
1021047 CTGGTTAAATCTACCTCCTTCCTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTC
1 CTGGTCAAATCTGCCTCTTTCTTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTC
* * *
1021112 CAATTTGATGTATGGTTAACACCCAGGTCAAATCTACCTCTTTCCTATCTAACGTATAGTTACCA
66 CAATTTGATGTATGCTCAACACCCAGGTCAAATCTACCTATTTCCTATCTAACGTATAGTTACCA
*
1021177 CCCTCGTCAAATTCTTTTTA-TTCAGATTTGACGTATAGTTACCACC
131 CCCTCGTCAAATTCTTTTCATTTC-GATTTGACGTATAGTTACCACC
* * *
1021223 CTGGTCAAATTTGCCTCTTTCTTATTTGACGTATGGTTACCACCCTGGTTAGATTCTTTTCATTC
1 CTGGTCAAATCTGCCTCTTTCTTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTC
** * * * * * ** * * *
1021288 TGATTTGATGTATGCTCACCACCCTGGTTAAATTTGCCTATTTTTTGTCTGACGTATGGTTACCA
66 CAATTTGATGTATGCTCAACACCCAGGTCAAATCTACCTATTTCCTATCTAACGTATAGTTACCA
* * * *
1021353 CCCTGGTCGAATTCTTTTCATTTCGATTTGATGTATGGTTACCACC
131 CCCTCGTCAAATTCTTTTCATTTCGATTTGACGTATAGTTACCACC
* *
1021399 CTGGTCAAATCTGCCTCTTCCTT-TTTGACGTATGGTTGCCACC
1 CTGGTCAAATCTGCCTCTTTCTTATTTGACGTATGGTTACCACC
1021442 TTGGAAAAAC
Statistics
Matches: 188, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
175 19 0.10
176 166 0.88
177 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (176 bp):
CTGGTCAAATCTGCCTCTTTCTTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTC
CAATTTGATGTATGCTCAACACCCAGGTCAAATCTACCTATTTCCTATCTAACGTATAGTTACCA
CCCTCGTCAAATTCTTTTCATTTCGATTTGACGTATAGTTACCACC
Found at i:1021714 original size:42 final size:42
Alignment explanation
Indices: 1021521--1021738 Score: 181
Period size: 42 Copynumber: 5.2 Consensus size: 42
1021511 TTATCTGATA
* * *
1021521 TCTTTGATCTTTTATCTGCCCGTCTGCTCAGACCTGGGAGACT
1 TCTTT-ATCTTTTATCTGCCCGTCAGCTTAGACCTGAGAGACT
* * * *
1021564 TCTTTTTATTTTACCTGCCCGTTAGCTTAGA-CTCGAGAGACT
1 TCTTTATCTTTTATCTGCCCGTCAGCTTAGACCT-GAGAGACT
* * * *
1021606 TCTTTATCTTTTGTTTGCCTGTC-GACTTAGACCTGGGAGACT
1 TCTTTATCTTTTATCTGCCCGTCAG-CTTAGACCTGAGAGACT
* * * * *
1021648 TCTTTATCATTTGTTTACCCGTCAGCTTAGACTTGAGAGACT
1 TCTTTATCTTTTATCTGCCCGTCAGCTTAGACCTGAGAGACT
* ** * * *
1021690 TCTCTATCTTTTATCTGCTTGTCAGCTCA-AACTAAGAAGACT
1 TCTTTATCTTTTATCTGCCCGTCAGCTTAGACCTGAG-AGACT
1021732 TCTTTAT
1 TCTTTAT
1021739 TTGTCTCTCC
Statistics
Matches: 138, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
41 7 0.05
42 123 0.89
43 8 0.06
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (42 bp):
TCTTTATCTTTTATCTGCCCGTCAGCTTAGACCTGAGAGACT
Found at i:1022709 original size:165 final size:164
Alignment explanation
Indices: 1022373--1022733 Score: 381
Period size: 165 Copynumber: 2.2 Consensus size: 164
1022363 TCCTGAATTT
* * *
1022373 TAATTTTTAAAACTCATCAAATATTGTTATTTATTTCAAATTAAATCAATTTTAAAAATTTATTC
1 TAATTTTTAAAATTCATCAAATATTGTTATTTATTTCAAAGTAAATCAATTTTAAAAATTCATTC
* * * * * **
1022438 ATTTTCATGAGTTTTGAATTTTTCCCTTAAAATTTTCCTATTTTCGAAAAGTGGAGTTTTCTGCT
66 ATTTCCATAAGTTTTGAATTTTTCCCTTAAAATTTT-CTATTTTCAAAAAATCGAGTTTTCTAAT
* * * *
1022503 CCATAAATTTTTTGGGGGGTATTTTTCTTAGTTTT
130 CCATAAATTTTTTGGGGAGTATCTTTCTTAGCTTA
* * * * *
1022538 TAATTTTGAAAATTCATCAAATATTATTATTTATTTCATAGTAAATTAGTTTTCAAAAATTCATT
1 TAATTTTTAAAATTCATCAAATATTGTTATTTATTTCAAAGTAAATCAATTTT-AAAAATTCATT
* * * * *
1022603 CATTTCCATAAGTTTT-AGATTTTTTCTTTGAAATTTAT-TTTTTCTCAAAAAATCGAGTTTTTT
65 CATTTCCATAAGTTTTGA-ATTTTTCCCTTAAAATTT-TCTATTT-TCAAAAAATCGAGTTTTCT
*
1022666 AATCTATAAATATTTTTGGGGAG-A-CTTTCTT-GACTTA
127 AATCCATAAAT-TTTTTGGGGAGTATCTTTCTTAG-CTTA
* *
1022703 TAATTTTTAAATTTCATCTAATATTGTTATT
1 TAATTTTTAAAATTCATCAAATATTGTTATT
1022734 AAACTCAAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
164 1 0.01
165 86 0.53
166 63 0.39
167 11 0.07
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (164 bp):
TAATTTTTAAAATTCATCAAATATTGTTATTTATTTCAAAGTAAATCAATTTTAAAAATTCATTC
ATTTCCATAAGTTTTGAATTTTTCCCTTAAAATTTTCTATTTTCAAAAAATCGAGTTTTCTAATC
CATAAATTTTTTGGGGAGTATCTTTCTTAGCTTA
Found at i:1029020 original size:61 final size:61
Alignment explanation
Indices: 1028765--1030930 Score: 1872
Period size: 61 Copynumber: 35.1 Consensus size: 61
1028755 AACCTTTTAT
* * **
1028765 CCTTTCAGTCCTCAAAGAGAAGGATGTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
1028826 CCTTTTAGTCCTCGAAGAGCAGGAC-ACTTCATTTCTATTAAAGCCTACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT--TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * ** * *
1028888 TTTTTTAGTCCTTGAAGAGGAGGACACTTCTTTT-CTATTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGC--CTTTTCCT-TTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
1028951 TTTTTTAGTCCTCAAAGAGCAGGACCCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * *
1029012 CCTTTTAGTCCTCGAAGAGTAGGACACTTATTTTCTGTTAAAGCCTACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCT-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * ** * * *
1029074 TTTTTTAGTCCTTGAAGAGGAGGACACTTCTTTT-CTATTTAAAGCCCACACCAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGC--CTTTTCCT-TTTAAAGCCCACACAAGTTGGTGGCA
* ** * *
1029137 TCTTTCAGTCCTCAAAGAATAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * ** *
1029198 TCTTTTAGTCCTCAAAGAGCAAGATGCCTTCTAATTTTAAAGCCAACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * *
1029259 CTTTTCAGTCCTCAAAGAGCAGGATTCCTTTTCCTTTTAAAGCCTACACGAGTTGGTGACA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1029320 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1029381 ACTTTTAGTCCTTGAAA-AGCAGGACACTTCTTTT-CTGTTTAAAGCCCACGCATA-TTGGTGGC
1 CCTTTCAGTCC-TCAAAGAGCAGGACGC--CTTTTCCT-TTTAAAGCCCACACA-AGTTGGTGGC
1029443 A
61 A
* * *
1029444 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1029505 TCTTTCAGTCCTCAAAGAGTAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** ** * *
1029566 CCTTTCAGTCCTCAAAGAGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * *
1029628 ACTTTCAATCCTCAAA-AGGCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCA
1 CCTTTCAGTCCTCAAAGA-GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1029689 CCTTTCAGTCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1029750 TCTTTCAGTCCTCAAAAAGCAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** ** * *
1029811 CCTTTCAGTCCTCAAAGAGCAAGATACCTTTTTCCTTTTAAAAGCCCACATGATTTGGTTGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * * * * * * *
1029874 ACTTTCAATCCTCAAAAAGCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1029935 CCTTTCAGTCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCGCACACAACTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
1029996 TCATTCAGTCCTCAAAAAGCAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** ** * *
1030057 CCTTTCAGTCCTCAAAGAGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * * * * *
1030119 ACTTTCAATCCTTAAAAAGCAAGAGGCCTTTTCCTTTCAAAGCCTATAAAATTTGGTAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1030180 CCTTTCAGTCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * * *
1030241 CCTTTCAGTCCTCATAGAGCAGGACATCTTTTCCTTCTAATGCCCACACGAGTTGGTGGAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** * * *
1030302 CTTTTCAGTCCTCAAATAGTAGGACATCTTTTCTTTTTAAAGCCCATACAAGTTGGTGGCG
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1030363 TCTTTCAATCCTTAAAGAGCAAGG-CGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGC-AGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1030424 TCTTTCAGTCCTCAAAGAGTAGGAAGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
1030485 CC-TTCTAGTCCCCAAAGGGTAGGACACTTCTTTTTTTTTTAAAAAGTAAAGCCCACACAAGCTG
1 CCTTTC-AGTCCTCAAAGAGCAGGACGC--C-TTTTCCTTT------TAAAGCCCACACAAGTTG
1030549 GTGGCA
56 GTGGCA
* ** ** *
1030555 CC-TTCTAGCCCTTGAAGAATAGGACGCCTCTCTCCTTTCCATCATAAAGCCCACACAAGTTGGT
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCCT-TTTCC-TT---T--TAAAGCCCACACAAGTTGGT
1030619 GGCA
58 GGCA
* * * * * * * **
1030623 CCTTTCAGTCCTCGAAGAGCAAGATGTCTTTTACTTTTAAAGCCTACACGAGTTGGCAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * ***
1030684 CCTTTCAGTCCTCAGAGAGTAGGACGTCTTTTCCTTCTAATGCCCACATGGGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * ** *
1030745 CTTTTCAGTCCTCTCACAGCAGGACATCTTTTCTTTTTAAAGCCCACACAAG-TGGTGGC-
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1030804 CCTTTTCAATCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCTACATAAGTTGGTGGCA
1 CC-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1030866 CCTTTCATTCCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1030927 CCTT
1 CCTT
1030931 CTAGTCCCCA
Statistics
Matches: 1726, Mismatches: 332, Indels: 94
0.80 0.15 0.04
Matches are distributed among these distances:
59 1 0.00
60 55 0.03
61 1139 0.66
62 242 0.14
63 180 0.10
64 9 0.01
65 3 0.00
66 2 0.00
67 4 0.00
68 44 0.03
69 5 0.00
70 41 0.02
72 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1029831 original size:491 final size:486
Alignment explanation
Indices: 1028766--1030930 Score: 2017
Period size: 491 Copynumber: 4.4 Consensus size: 486
1028756 ACCTTTTATC
* ***
1028766 CTTTCAGTCCTCAAAGAGAAGGAT-GTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTCAGTCCTCAAAGAGCAGG-TCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * * * ** *
1028830 TTAGTCCTCGAAGAGCAGGACACTTCATTTCTATTAAAGCCTACATAAGTTGGTGGCATTTTTTA
65 TCAGTCCTCAAAGAGCAAGACTCTT--TTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTCA
* * * ** *
1028895 GTCCTTGAAGAGGAGGACACTTCTTTT-CTATTTAAAGCCCACACAAGTTGGTGGCATTTTTTAG
128 ATCCTTGAAAAGCAGGACAC--CTTTTCCT-TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* ** * * * *
1028959 TCCTCAAAGAGCAGGACCCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCT
190 TCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCT
* * * * * * * * * ** * **
1029024 CGAAGAGTAGGACACTTATTTTCTGTTAAAGC-CTACATAAGTTGGTGGCATTTTTTAGTCCTTG
255 CAAAGAGTAAGTCGCCT-TTTCCTTTTGAAGCTC-ACACAAGTTGGTGGCACCTTTCAGTCCTCA
* * * * ** * * * *
1029088 AAGAGGAGGACA-CTTCTTTTCTATTTAAAGCCCACACCAGTTGGTGGCATCTTTCAGTCCTC-A
318 AAGAGCAAGATACCTT-TTTCCT-TTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCCTCAA
* * * * * * * * *
1029151 AAGAATAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCATCTTTTAGTCCTCAAAGA
381 AAGCA-A-GAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGA
* * **
1029216 GCAAGATGCCTTCTAATTTTAAAGC-CAACACAAGTTGGTGGCA
444 GCAAGATGTCTTTTCCTTTTAAAGCGC-ACACAAGTTGGTGGCA
* * * *
1029259 CTTTTCAGTCCTCAAAGAGCAGGAT-TCCTTTTCCTTTTAAAGCCTACACGAGTTGGTGACACCT
1 C-TTTCAGTCCTCAAAGAGCAGG-TCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
1029323 TTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTA
64 TTCAGTCCTCAAAGAGCAAGAC-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTCA
* * *
1029388 GTCCTTGAAAAGCAGGACACTTCTTTT-CTGTTTAAAGCCCACGCATA-TTGGTGGCACCTTTTA
128 ATCCTTGAAAAGCAGGACAC--CTTTTCCT-TTTAAAGCCCACACA-AGTTGGTGGCACCTTTCA
1029451 GTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCC
189 GTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCC
1029516 TCAAAGAGTAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
254 TCAAAGAGTAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
1029581 AGAGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCCTCAAAAG
319 AGAGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCCTCAAAA-
1029646 GCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGAGCAA
383 GCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGAGCAA
1029711 GATGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
448 GATGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
* * * * *
1029750 TCTTTCAGTCCTCAAAAAGCAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTT
1 -CTTTCAGTCCTCAAAGAGCAGGTCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
** * *
1029815 TCAGTCCTCAAAGAGCAAGA-TACCTTTTTCCTTTTAAAAGCCCACATGATTTGGTTGCAACTTT
65 TCAGTCCTCAAAGAGCAAGACT--C-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAACTTT
** * ** * * * * *
1029879 CAATCCTCAAAAAGCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGT
126 CAATCCTTGAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * *
1029944 CCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCGCACACAACTTGGTGGCATCATTCAGTCCTC
191 CCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTC
* *
1030009 AAAAAGCAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
256 AAAGAGTAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
*
1030074 AGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCCTTAAAAAGC
321 AGCAAGATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCC-TCAAAAGC
*
1030139 AAGAGGCCTTTTCCTTTCAAAGCCTATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGAGCAAGA
385 AAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGAGCAAGA
1030204 TGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
450 TGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
* * * * * * * *
1030241 CCTTTCAGTCCTCATAGAGCAGGACATCTTTTCCTTCTAATGCCCACACGAGTTGGTGGAACTTT
1 -CTTTCAGTCCTCAAAGAGCAGGTCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * **
1030306 TCAGTCCTCAAATAGTAGGACATCTTTTCTTTTTAAAGCCCATACAAGTTGGTGGCGTCTTTCAA
65 TCAGTCCTCAAAGAGCAAGAC-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTCAA
* * *
1030371 TCCTT-AAAGAGCAAGG-CGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCATCTTTCAGTC
129 TCCTTGAAA-AGC-AGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * * * * *
1030434 CTCAAAGAGTAGGAAGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTA-CCTTCTAGTCCCC
192 CTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTC-AGTCCTC
* * * * ** * *
1030498 AAAGGGTAGGACACTTCTTTTTTTTTTAAAAAGTAAAGCCCACACAAGCTGGTGGCACC-TTCTA
256 AAAGAGTAAGTCGC--CTTTTCCTTTT-----G--AAGCTCACACAAGTTGGTGGCACCTTTC-A
* ** ** * ** ** ** * * *
1030562 GCCCTTGAAGAATAGGACGCCTCTCTCCTTTCCATCATAAAGCCCACACAAGTTGGTGGCACCTT
311 GTCCTCAAAGAGCAAGA-TAC-CT-T--TTTCC-TTTTAAAGCCCACATGATTTGGTTGCAACTT
* * * * * * * * ** * *
1030627 TCAGTCCTCGAAGAGCAAGATGTCTTTTACTTTTAAAGCCTACACGAGTTGGCAGCACCTTTCAG
370 TCAATCCTC-AAAAGCAAGAGGCCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAG
* * * * * * * ***
1030692 TCCTCAGAGAGTAGGACGTCTTTTCCTTCTAATGCCCACATGGGTTGGTGGCA
434 TCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCGCACACAAGTTGGTGGCA
** * * * *
1030745 CTTTTCAGTCCTCTCACAGCAGGACATCTTTTCTTTTTAAAGCCCACACAAG-TGGTGGC-CCTT
1 C-TTTCAGTCCTCAAAGAGCAGGTCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-T
* * * * * *
1030808 TTCAATCCTCAAAGAGTAGGA-TGCCTTTTCCTTTTAAAGCCTACATAAGTTGGTGGCACCTTTC
64 TTCAGTCCTCAAAGAGCAAGACT--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTC
* * * ** *
1030872 ATTCC-TCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTT
127 AATCCTTGAAA-AGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1030931 CTAGTCCCCA
Statistics
Matches: 1415, Mismatches: 212, Indels: 80
0.83 0.12 0.05
Matches are distributed among these distances:
488 7 0.00
489 131 0.09
490 13 0.01
491 586 0.41
492 72 0.05
493 205 0.14
494 75 0.05
495 3 0.00
496 1 0.00
497 3 0.00
498 34 0.02
499 1 0.00
500 2 0.00
501 2 0.00
502 5 0.00
503 114 0.08
504 161 0.11
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (486 bp):
CTTTCAGTCCTCAAAGAGCAGGTCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAAGACTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTCAATC
CTTGAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGA
GTAAGTCGCCTTTTCCTTTTGAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAA
GATACCTTTTTCCTTTTAAAGCCCACATGATTTGGTTGCAACTTTCAATCCTCAAAAGCAAGAGG
CCTTTTCCTTTCAAAGCCCATAAAATTTGGTAGCACCTTTCAGTCCTCAAAGAGCAAGATGTCTT
TTCCTTTTAAAGCGCACACAAGTTGGTGGCA
Found at i:1032539 original size:149 final size:146
Alignment explanation
Indices: 1032370--1032636 Score: 358
Period size: 149 Copynumber: 1.8 Consensus size: 146
1032360 ACACAAAAAA
*
1032370 GAAAAGTGAACCTACACCTAATACGTA-CCTTCGGCATAGAAGTGACCCT-GTGACAAATTAGGA
1 GAAAAGTGAACCTACACCTAATACATACCCTT-GGCATAGAAGTGA-CCTGGTGACAAATTAGGA
* * * * * *
1032433 CTTGGTTCAAAAAAAATTATGAAAGTGCCTCTATGGGTATACCTTTGACATTAAAGTATCTGAGT
64 CATGGTTC--AAAAAATTATGAAAATGCCCCTAAGGG-ATACCTTCGACATAAAAGTATCTGAGT
1032498 AACCATAAAAGACTTAAAAGG
126 AACCATAAAAGACTTAAAAGG
** *
1032519 GAAAAGTGAACCTATGCCTAATACATACCCTTGGCATAGAAGTGACTTGGTGACAAATTAGGACA
1 GAAAAGTGAACCTACACCTAATACATACCCTTGGCATAGAAGTGACCTGGTGACAAATTAGGACA
* **
1032584 TGGTTCTAGGAATTATGAAAATGCCCCTAAGGGATACCTTCGACATAAAAGTA
66 TGGTTCAAAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACATAAAAGTA
1032637 CCCAGCACCC
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
146 18 0.17
147 21 0.20
148 2 0.02
149 58 0.56
150 4 0.04
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (146 bp):
GAAAAGTGAACCTACACCTAATACATACCCTTGGCATAGAAGTGACCTGGTGACAAATTAGGACA
TGGTTCAAAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACATAAAAGTATCTGAGTAACCA
TAAAAGACTTAAAAGG
Found at i:1032814 original size:144 final size:144
Alignment explanation
Indices: 1032650--1033168 Score: 740
Period size: 144 Copynumber: 3.6 Consensus size: 144
1032640 AGCACCCTAA
* *
1032650 AGGACTTGAAATAGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAGAGTGACAA
1 AGGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
*
1032715 CCTAGGACTCGTTTCTAGAAAATTTATGAAAAATGCCCATAGTGGATACCTTTGACGTAGAAGCA
66 CCTAGGACTCGTTTCTAGAAAAATTATGAAAAATGCCCATAGTGGATACCTTTGACGTAGAAGCA
1032780 CTCGGTACCTTTAG
131 CTCGGTACCTTTAG
*
1032794 AGGACTTGAAATGGGTTGAAATGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
1 AGGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
*
1032859 CCTAGGACTCGTTTCTAGAAAAATTATGAAAAATGCCCATAGTGGATACTTTTGACGTAGAAGCA
66 CCTAGGACTCGTTTCTAGAAAAATTATGAAAAATGCCCATAGTGGATACCTTTGACGTAGAAGCA
*
1032924 CTCGGTACCTTTAA
131 CTCGGTACCTTTAG
* * * * *
1032938 AGGACTTGAAATGGGTTG-AAATAGTCAATCTATCCTACGTGCACCTTCGGCATAAGAGTGGCAA
1 AGGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
* * * * *
1033002 CCCAGGACTCGATTT-TAAAAAAATTA-CAAAAATGCCTCATAG-GGCATACCTTCGATGTAGAA
66 CCTAGGACTCG-TTTCTAGAAAAATTATGAAAAATGCC-CATAGTGG-ATACCTTTGACGTAGAA
* * *
1033064 GTACTTGGTACCTCTAG
128 GCACTCGGTACCTTTAG
* * * * **
1033081 AAGACTTGAAATGGGTTGAAAAGTGTGAATCTATCTTATGCACACCTTTGGCATAAAAGTGACAA
1 AGGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
* *
1033146 CCTAGGACTAGATTCTAGAAAAA
66 CCTAGGACTCGTTTCTAGAAAAA
1033169 AATTACCTAG
Statistics
Matches: 333, Mismatches: 37, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
142 11 0.03
143 111 0.33
144 211 0.63
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (144 bp):
AGGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAAAGTGACAA
CCTAGGACTCGTTTCTAGAAAAATTATGAAAAATGCCCATAGTGGATACCTTTGACGTAGAAGCA
CTCGGTACCTTTAG
Found at i:1032992 original size:287 final size:288
Alignment explanation
Indices: 1032647--1033168 Score: 782
Period size: 287 Copynumber: 1.8 Consensus size: 288
1032637 CCCAGCACCC
* *
1032647 TAAAGGACTTGAAATAGGTTGAAAAGAGTGAATCTATCCTACGTGCACCTTTGGCATAAGAGTGA
1 TAAAGGACTTGAAATAGGTTGAAAAGAGTCAATCTATCCTACGTGCACCTTCGGCATAAGAGTGA
* * * * *
1032712 CAACCTAGGACTCG-TTTCTAGAAAATTTATGAAAAATGCC-CATAGTGG-ATACCTTTGACGTA
66 CAACCCAGGACTCGATTT-TAAAAAAATTA-CAAAAATGCCTCATAG-GGCATACCTTCGACGTA
* * * **
1032774 GAAGCACTCGGTACCTTTAGAGGACTTGAAATGGGTTGAAATGAGTGAATCTATCCTACGTGCAC
128 GAAGCACTCGGTACCTCTAGAAGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGCACAC
* *
1032839 CTTTGGCATAAAAGTGACAACCTAGGACTCGTTTCTAGAAAAATTATGAAAAATGCCCATAGTGG
193 CTTTGGCATAAAAGTGACAACCTAGGACTAGATTCTAGAAAAATTATGAAAAATGCCCATAGTGG
1032904 ATACTTTTGACGTAGAAGCACTCGGTACCTT
258 ATACTTTTGACGTAGAAGCACTCGGTACCTT
* * *
1032935 TAAAGGACTTGAAATGGGTTG-AAATAGTCAATCTATCCTACGTGCACCTTCGGCATAAGAGTGG
1 TAAAGGACTTGAAATAGGTTGAAAAGAGTCAATCTATCCTACGTGCACCTTCGGCATAAGAGTGA
*
1032999 CAACCCAGGACTCGATTTTAAAAAAATTACAAAAATGCCTCATAGGGCATACCTTCGATGTAGAA
66 CAACCCAGGACTCGATTTTAAAAAAATTACAAAAATGCCTCATAGGGCATACCTTCGACGTAGAA
* * * * *
1033064 GTACTTGGTACCTCTAGAAGACTTGAAATGGGTTGAAAAGTGTGAATCTATCTTATGCACACCTT
131 GCACTCGGTACCTCTAGAAGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGCACACCTT
1033129 TGGCATAAAAGTGACAACCTAGGACTAGATTCTAGAAAAA
196 TGGCATAAAAGTGACAACCTAGGACTAGATTCTAGAAAAA
1033169 AATTACCTAG
Statistics
Matches: 208, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
286 11 0.05
287 174 0.84
288 23 0.11
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (288 bp):
TAAAGGACTTGAAATAGGTTGAAAAGAGTCAATCTATCCTACGTGCACCTTCGGCATAAGAGTGA
CAACCCAGGACTCGATTTTAAAAAAATTACAAAAATGCCTCATAGGGCATACCTTCGACGTAGAA
GCACTCGGTACCTCTAGAAGACTTGAAATGGGTTGAAAAGAGTGAATCTATCCTACGCACACCTT
TGGCATAAAAGTGACAACCTAGGACTAGATTCTAGAAAAATTATGAAAAATGCCCATAGTGGATA
CTTTTGACGTAGAAGCACTCGGTACCTT
Found at i:1034297 original size:15 final size:15
Alignment explanation
Indices: 1034277--1034308 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1034267 TCATTCCCAA
1034277 TAGATTTGAAAATTT
1 TAGATTTGAAAATTT
1034292 TAGATTTGAAAATTT
1 TAGATTTGAAAATTT
1034307 TA
1 TA
1034309 CCAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
TAGATTTGAAAATTT
Found at i:1036541 original size:20 final size:20
Alignment explanation
Indices: 1036516--1036574 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
1036506 AAGTGTATTC
*
1036516 TCTAAAGTTTTCATTCGTTA
1 TCTAAAGCTTTCATTCGTTA
1036536 TCTAAAGCTTTCATTCGTTA
1 TCTAAAGCTTTCATTCGTTA
1036556 TCTAAAGCTTTCATTCGTT
1 TCTAAAGCTTTCATTCGTT
1036575 GTCTTTCTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (20 bp):
TCTAAAGCTTTCATTCGTTA
Found at i:1038241 original size:52 final size:52
Alignment explanation
Indices: 1038185--1038285 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
1038175 GCAATATTAG
* * *
1038185 ATTTAAAGATGATGAGGGTGCCAATATGCTGATTCAAGGCCAGGGACATCAA
1 ATTTAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACATCAA
* * *
1038237 ATTTAAAAATGATAAGAGTGCTAATGTGCTGATTCAAGGCCAGTGACAT
1 ATTTAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACAT
1038286 TGGACCTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (52 bp):
ATTTAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACATCAA
Found at i:1038296 original size:52 final size:52
Alignment explanation
Indices: 1038188--1038302 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
1038178 ATATTAGATT
* * * **
1038188 TAAAGATGATGAGGGTGCCAATATGCTGATTCAAGGCCAGGGACATCAAATT
1 TAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACATCAAACC
* * * ***
1038240 TAAAAATGATAAGAGTGCTAATGTGCTGATTCAAGGCCAGTGACATTGGACC
1 TAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACATCAAACC
1038292 TAAAAATGATA
1 TAAAAATGATA
1038303 CCACCAACTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (52 bp):
TAAAAATGATAAGAGTGCCAATATGCTGATTCAAGGCCAGGGACATCAAACC
Found at i:1038693 original size:43 final size:44
Alignment explanation
Indices: 1038644--1038728 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 44
1038634 CTGGGCTTTG
* *
1038644 AAAAGAAAAGAGTGCCACCGACTTGTGTGGGC-TTTGAAAAGAA
1 AAAAGAAAAGAGTGCCACCAACTTGCGTGGGCTTTTGAAAAGAA
* * *
1038687 AAAAGAAAGGGGTGCTACCAACTTGCGTGGGCTTTTGAAAAG
1 AAAAGAAAAGAGTGCCACCAACTTGCGTGGGCTTTTGAAAAG
1038729 GGTTTCCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 27 0.75
44 9 0.25
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.20
Consensus pattern (44 bp):
AAAAGAAAAGAGTGCCACCAACTTGCGTGGGCTTTTGAAAAGAA
Found at i:1038785 original size:36 final size:36
Alignment explanation
Indices: 1038740--1039145 Score: 204
Period size: 36 Copynumber: 10.6 Consensus size: 36
1038730 GTTTCCATTG
* * *
1038740 ACTTGTGTGGGCTTTCAAAAGAAAGGGGTGCCACCA
1 ACTTATGTGGGCTTTAAAAAGAAAGAGGTGCCACCA
*
1038776 ACTTATGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTGCCACCA
1 ACTTATGTGGGCTTT---AA-AAAGAAAG---A-GGTGCCACCA
** * * ***
1038820 ACTTATGTTAGCTTAAAAAGAGAAAAAGGTGCTGTCA
1 ACTTATGTGGGCTTTAAAA-AGAAAGAGGTGCCACCA
*
1038857 ACTTATGGGGGCTTTAAAAAGAAAGAGGTGCCACCA
1 ACTTATGTGGGCTTTAAAAAGAAAGAGGTGCCACCA
* * * *
1038893 ACTTGTGTGGGCTTTGAAAAGGAAAAAGAATAGTGGCACCA
1 ACTTATGTGGGCTTT-AAAA--AGAAAG-A-GGTGCCACCA
* * * *
1038934 ACTTGTGTGGGCTTAAAAAGAGAAAAAGGT-ACAGCCA
1 ACTTATGTGGGCTTTAAAA-AGAAAGAGGTGCCA-CCA
* * ** * *
1038971 GCTTGTGCAGGCTTTAAAAAGAAAAAGGTGACACCA
1 ACTTATGTGGGCTTTAAAAAGAAAGAGGTGCCACCA
* * *
1039007 ACTTGTGTGGGCTTTGAAAAGGAAAAAAGAAAAGGGTACCACCA
1 ACTTATGTGGGCTTT--AAA--AAGAAAG---A-GGTGCCACCA
* * * *
1039051 ACTTCTGT-GGATTTAAAAAGAGAAAAAGGTGCCGCCA
1 ACTTATGTGGGCTTT-AAAA-AGAAAGAGGTGCCACCA
** * * * *
1039088 ACTTATGCAGGCTTTAAAGAGAAAGGGGTGTCACTA
1 ACTTATGTGGGCTTTAAAAAGAAAGAGGTGCCACCA
*
1039124 ACTTGTGTGGGCTTTAAAAAGA
1 ACTTATGTGGGCTTTAAAAAGA
1039146 GGTGTGACAG
Statistics
Matches: 284, Mismatches: 60, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
36 97 0.34
37 66 0.23
38 11 0.04
39 11 0.04
40 20 0.07
41 32 0.11
42 4 0.01
43 6 0.02
44 37 0.13
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (36 bp):
ACTTATGTGGGCTTTAAAAAGAAAGAGGTGCCACCA
Found at i:1038846 original size:44 final size:44
Alignment explanation
Indices: 1038756--1038847 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
1038746 GTGGGCTTTC
* * *
1038756 AAAAGAAAGGGGTGCCACCAACTTATGTGGGCTTTGAAAAGAAA
1 AAAAGAAAAGGGTGCCACCAACTTATGTGAGCTTTAAAAAGAAA
* *
1038800 AAAAGAAAAGGGTGCCACCAACTTATGTTAGC-TTAAAAAGAGA
1 AAAAGAAAAGGGTGCCACCAACTTATGTGAGCTTTAAAAAGAAA
1038843 AAAAG
1 AAAAG
1038848 GTGCTGTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 14 0.33
44 29 0.67
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (44 bp):
AAAAGAAAAGGGTGCCACCAACTTATGTGAGCTTTAAAAAGAAA
Found at i:1038851 original size:37 final size:37
Alignment explanation
Indices: 1038797--1039146 Score: 224
Period size: 37 Copynumber: 9.2 Consensus size: 37
1038787 CTTTGAAAAG
* * * **
1038797 AAAAAAAGAAAAGGGTGCCACCAACTTATGTTAGCTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGCTT
*** * *
1038834 AAAAAGAGAAAAAGGTGCTGTCAACTTATGGGGGCTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGCTT
* *
1038871 TAAAA-AGAAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGC-TT
* *
1038908 GAAAAG-GAAAAAGAATAGTGGCACCAACTTGTGTGGGCTT
1 AAAAAGAGAAAAAG----GTGCCACCAACTTGTGTGGGCTT
* * **
1038948 AAAAAGAGAAAAAGGT-ACAGCCAGCTTGTGCAGGCTT
1 AAAAAGAGAAAAAGGTGCCA-CCAACTTGTGTGGGCTT
* *
1038985 TAAAA-AGAAAAAGGTGACACCAACTTGTGTGGGCTTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGC-TT
* * * * **
1039022 GAAAAGGAAAAAAGAAAAGGGTACCACCAACTTCTGTGGATTT
1 ----A--AAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGCTT
* * **
1039065 AAAAAGAGAAAAAGGTGCCGCCAACTTATGCAGGCTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGCTT
* ** * *
1039102 -TAAAGAGAAAGGGGTGTCACTAACTTGTGTGGGCTTT
1 AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGC-TT
1039139 AAAAAGAG
1 AAAAAGAG
1039147 GTGTGACAGA
Statistics
Matches: 241, Mismatches: 53, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
36 72 0.30
37 99 0.41
38 6 0.02
39 1 0.00
40 7 0.03
41 27 0.11
43 6 0.02
44 23 0.10
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (37 bp):
AAAAAGAGAAAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:1038887 original size:117 final size:117
Alignment explanation
Indices: 1038749--1039145 Score: 505
Period size: 117 Copynumber: 3.4 Consensus size: 117
1038739 GACTTGTGTG
* * *
1038749 GGCTTTCAAAAGAAAGGGGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTG
1 GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTG
* * * **
1038814 CCACCAACTTATGTTAGCTTAAAAAGAGAAAAAGGTGCTGTCAACTTATGGG
66 CCACCAACTTATGTTGGCTTAAAAAGAGAAAAAGGTGCAGCCAACTTATGCA
* *
1038866 GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-GAAAAAGAATA--GTG
1 GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTG
* * * * * *
1038928 GCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAGGTACAGCCAGCTTGTGCA
66 CCACCAACTTATGTTGGCTTAAAAAGAGAAAAAGGTGCAGCCAACTTATGCA
* * * *
1038980 GGCTTTAAAAAGAAAAAGGTGACACCAACTTGTGTGGGCTTTGAAAAGGAAAAAAGAAAAGGGTA
1 GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTG
* * *
1039045 CCACCAACTTCTG-TGGATTTAAAAAGAGAAAAAGGTGCCGCCAACTTATGCA
66 CCACCAACTTATGTTGG-CTTAAAAAGAGAAAAAGGTGCAGCCAACTTATGCA
* * * * *
1039097 GGCTTTAAAGAGAAAGGGGTGTCACTAACTTGTGTGGGCTTTAAAAAGA
1 GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
1039146 GGTGTGACAG
Statistics
Matches: 240, Mismatches: 36, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
114 90 0.38
115 9 0.04
116 11 0.05
117 130 0.54
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (117 bp):
GGCTTTAAAAAGAAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGAAAAGGGTG
CCACCAACTTATGTTGGCTTAAAAAGAGAAAAAGGTGCAGCCAACTTATGCA
Found at i:1039035 original size:44 final size:44
Alignment explanation
Indices: 1038986--1039077 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
1038976 TGCAGGCTTT
* * *
1038986 AAAAAGAAAAAGGTGA-CACCAACTTGTGTGGGCTTTGAAAAG-GA
1 AAAAAGAAAAAGGT-ACCACCAACTTCTGT-GGATTTAAAAAGAGA
*
1039030 AAAAAGAAAAGGGTACCACCAACTTCTGTGGATTTAAAAAGAGA
1 AAAAAGAAAAAGGTACCACCAACTTCTGTGGATTTAAAAAGAGA
1039074 AAAA
1 AAAA
1039078 GGTGCCGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 11 0.26
44 31 0.74
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (44 bp):
AAAAAGAAAAAGGTACCACCAACTTCTGTGGATTTAAAAAGAGA
Done.