Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 107 of 770
Found at i:30704110 original size:3 final size:3
Alignment explanation
Indices: 30704102--30704126 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30704092 GTTGAGCAAT
30704102 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
30704127 ATGGACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:30705037 original size:21 final size:21
Alignment explanation
Indices: 30705011--30705052 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30705001 AAAAATGGAA
*
30705011 AGTTAACTAGCCATATCAGCT
1 AGTTAACTAGCCACATCAGCT
* *
30705032 AGTTAATTGGCCACATCAGCT
1 AGTTAACTAGCCACATCAGCT
30705053 GTTCCGTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTTAACTAGCCACATCAGCT
Found at i:30707396 original size:23 final size:24
Alignment explanation
Indices: 30707362--30707425 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
30707352 AATATAAAAC
* * *
30707362 ATAT-ATATAATATGATAGATAAT
1 ATATAATAAAATATAATAAATAAT
**
30707385 ATATAA-AAAATATAATAAATGTT
1 ATATAATAAAATATAATAAATAAT
30707408 ATATAATAAAATATAATA
1 ATATAATAAAATATAATA
30707426 TATGTAGGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (24 bp):
ATATAATAAAATATAATAAATAAT
Found at i:30707398 original size:30 final size:32
Alignment explanation
Indices: 30707353--30707415 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
30707343 ATAATGAGTA
30707353 ATATAAAACATATAT-ATAATATGATAGATAAT
1 ATATAAAACATATATAATAA-ATGATAGATAAT
* *
30707385 ATATAAAA-A-ATATAATAAATGTTATATAAT
1 ATATAAAACATATATAATAAATGATAGATAAT
30707415 A
1 A
30707416 AAATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 15 0.54
31 5 0.18
32 8 0.29
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (32 bp):
ATATAAAACATATATAATAAATGATAGATAAT
Found at i:30707423 original size:24 final size:23
Alignment explanation
Indices: 30707384--30707430 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
30707374 TGATAGATAA
30707384 TATATAAAAAATATAATAAATGT
1 TATATAAAAAATATAATAAATGT
*
30707407 TATATAATAAAATATAATATATGT
1 TATATAA-AAAATATAATAAATGT
30707431 AGGAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TATATAAAAAATATAATAAATGT
Found at i:30707516 original size:21 final size:23
Alignment explanation
Indices: 30707480--30707531 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
30707470 TGGTATTTTT
30707480 AATAATAATAAAT-AAATTATAAA
1 AATAATAATAAATAAAATT-TAAA
30707503 AATAA-AAT-AATAAAATTTAAA
1 AATAATAATAAATAAAATTTAAA
30707524 AATAATAA
1 AATAATAA
30707532 AGAAAGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.44
22 10 0.37
23 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATAAATAAAATTTAAA
Found at i:30709781 original size:205 final size:206
Alignment explanation
Indices: 30709235--30709933 Score: 1026
Period size: 197 Copynumber: 3.4 Consensus size: 206
30709225 AAATTTGCTT
* * *
30709235 CTTCGATTCGTTCTCTGACAATACAGAGATGACACATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
30709300 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * * *
30709365 GGATCTTACTTCAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGCG
131 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCTATTAAAGTG
30709430 GAGATGCCAGA
196 GAGATGCCAGA
30709441 CTTCGATTTG---T-T--C--T-CAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
** * *
30709497 GTGAAAGCCAAATCGGCTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCTAAATCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
30709562 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCTATTAAAGTG
131 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCTATTAAAGTG
30709627 GAGATGCCAGA
196 GAGATGCCAGA
* *
30709638 GTTCGATTTGTTCTCTAACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGT-AACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
30709702 GTGAAAGACAAATCAACTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * * *
30709767 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTGAGATATGCCATGTGTCT-TCCT-TCCATCAAAG
131 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTG-C-TGTGTATCTACTCTCTATTAAAG
*
30709830 TGGAAATGCCAGA
194 TGGAGATGCCAGA
* * *
30709843 CTTCGATTTGTTCTCTGGCAATATAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
30709908 GTGAAAGCCAAATCAGCTATATCTTC
66 GTGAAAGCCAAATCAACTATGTCTTC
30709934 AATCTATTCC
Statistics
Matches: 444, Mismatches: 37, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
197 179 0.40
198 1 0.00
200 2 0.00
201 1 0.00
202 1 0.00
203 2 0.00
205 176 0.40
206 76 0.17
207 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCTATTAAAGTG
GAGATGCCAGA
Found at i:30717661 original size:14 final size:16
Alignment explanation
Indices: 30717626--30717662 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30717616 CAAACGATAT
30717626 GATG-AAATGCCATGA
1 GATGCAAATGCCATGA
30717641 GATGCAAATG-CATGA
1 GATGCAAATGCCATGA
30717656 -ATGCAAA
1 GATGCAAA
30717663 AAGGAGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 9 0.43
16 5 0.24
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (16 bp):
GATGCAAATGCCATGA
Found at i:30721325 original size:29 final size:29
Alignment explanation
Indices: 30721267--30721325 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
30721257 AATACATAAA
* * *
30721267 ATATATATAAAATATATAAAAGAATTAGT
1 ATATATAAAAAATATATAAAAAAATGAGT
30721296 ATATATAAAAAATATA-AAATAAAATGAGT
1 ATATATAAAAAATATATAAA-AAAATGAGT
30721325 A
1 A
30721326 ATTGTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (29 bp):
ATATATAAAAAATATATAAAAAAATGAGT
Found at i:30721798 original size:21 final size:23
Alignment explanation
Indices: 30721762--30721813 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
30721752 TGGTATTTTT
30721762 AATAATAATAAAT-AAATTATAAA
1 AATAATAATAAATAAAATT-TAAA
30721785 AATAA-AAT-AATAAAATTTAAA
1 AATAATAATAAATAAAATTTAAA
30721806 AATAATAA
1 AATAATAA
30721814 AGAAAGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.44
22 10 0.37
23 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATAAATAAAATTTAAA
Found at i:30733894 original size:64 final size:64
Alignment explanation
Indices: 30733821--30734031 Score: 144
Period size: 64 Copynumber: 3.2 Consensus size: 64
30733811 CTGGGCCAGA
*
30733821 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
* * * *** * ** *
30733885 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAATAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAATA---GT
*
30733947 ACTGG-GCA-AG
54 A-TGGCCCATAG
*
30733957 AGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
1 -GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
30734022 GCCCATTTCA
1 GCCCATTTCA
30734032 AAATACATGC
Statistics
Matches: 103, Mismatches: 25, Indels: 38
0.62 0.15 0.23
Matches are distributed among these distances:
63 5 0.05
64 27 0.26
65 7 0.07
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 7 0.07
73 18 0.17
74 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
Found at i:30734033 original size:137 final size:137
Alignment explanation
Indices: 30733787--30734073 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
30733777 CATTGGGCCT
** *
30733787 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
30733852 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
30733917 CATATGC
131 CATATGC
*
30733924 AAGCCCATTTGGGTAATAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
30733989 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
30734054 CATATGC
131 CATATGC
30734061 AAGCCCATTTGGG
1 AAGCCCATTTGGG
30734074 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:30734450 original size:28 final size:29
Alignment explanation
Indices: 30734381--30734450 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
30734371 TAAAACTGTA
30734381 AATTTTCC-ACTTTTAAAGGTATTTCAGT
1 AATTTTCCTACTTTTAAAGGTATTTCAGT
*
30734409 AATTTAT-CTA-TTTTAAGGGT-TTTCA-T
1 AATTT-TCCTACTTTTAAAGGTATTTCAGT
*
30734435 GCATTTTCCTACTTTT
1 -AATTTTCCTACTTTT
30734451 CACGTACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 19 0.54
29 2 0.06
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (29 bp):
AATTTTCCTACTTTTAAAGGTATTTCAGT
Found at i:30735889 original size:26 final size:26
Alignment explanation
Indices: 30735853--30735988 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
30735843 CATGAAATTC
*
30735853 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
30735879 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
30735905 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
30735931 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
30735957 TTATCATGAAACATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
30735983 TTATCA
1 TTATCA
30735989 ATTTGTACCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:30739938 original size:136 final size:136
Alignment explanation
Indices: 30739694--30739978 Score: 536
Period size: 136 Copynumber: 2.1 Consensus size: 136
30739684 CATTGGGCCT
**
30739694 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
30739759 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
30739824 ATATGC
131 ATATGC
30739830 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACT-GGCCTT
30739894 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
30739959 CATATGC
130 CATATGC
30739966 AAGCCCATTTGGG
1 AAGCCCATTTGGG
30739979 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 28 0.19
136 118 0.81
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:30741742 original size:26 final size:26
Alignment explanation
Indices: 30741706--30741841 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
30741696 CATGAAATTC
*
30741706 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
30741732 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
30741758 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
30741784 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
30741810 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
30741836 TTATCA
1 TTATCA
30741842 ATTTGTACCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:30742953 original size:18 final size:18
Alignment explanation
Indices: 30742930--30742972 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30742920 AAATAGAAAG
30742930 TAAAAATTA-AACTAAAAA
1 TAAAAATTATAA-TAAAAA
30742948 TAAAAATTATAATAAAAA
1 TAAAAATTATAATAAAAA
*
30742966 TGAAAAT
1 TAAAAAT
30742973 GACTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAATTATAATAAAAA
Found at i:30744339 original size:29 final size:29
Alignment explanation
Indices: 30744287--30744356 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
30744277 AAACGTACAA
*
30744287 ACATACAAAGTAA-TAATTAAATAATGCATG
1 ACATACAAA--AAGTAATAAAATAATGCATG
*
30744317 ATATACAAAAAGTAATAAAATAATGCATG
1 ACATACAAAAAGTAATAAAATAATGCATG
30744346 ACATACAAAAA
1 ACATACAAAAA
30744357 AGAGTACTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.06
29 26 0.72
30 8 0.22
ACGTcount: A:0.59, C:0.10, G:0.09, T:0.23
Consensus pattern (29 bp):
ACATACAAAAAGTAATAAAATAATGCATG
Found at i:30744992 original size:13 final size:13
Alignment explanation
Indices: 30744974--30745008 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
30744964 CAAGTAAGAT
30744974 ATAATAATATAAA
1 ATAATAATATAAA
*
30744987 ATAATAATGTAAA
1 ATAATAATATAAA
30745000 ATAATAATA
1 ATAATAATA
30745009 ATAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:30745108 original size:2 final size:2
Alignment explanation
Indices: 30745103--30745127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30745093 AGGTAAAAAC
30745103 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30745128 AAAAATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30747174 original size:210 final size:210
Alignment explanation
Indices: 30746728--30747706 Score: 1366
Period size: 210 Copynumber: 4.7 Consensus size: 210
30746718 AAATCTGCTT
* * * * * *
30746728 CTTCAATTTGTTCTTTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCATAAGCTC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * ** * * *
30746793 GTGAAAACTAAATCAGCTATGTCTTCGATTTGCTCCTTG--TAAGCACA-AG-GAT--G--CCGA
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAA-TACAGAGAGATAAGATCTG-
* * * * * *
30746850 ATCATCTTGGATCTTGTTTCAGTC-TAATCGTCTGAAGGTCAGATCTGCTATGTATATG-CTCTC
129 -TCATCTTGGATC-TGCTTCAG-CGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCT-TC
* ** * *
30746913 TATTGAAGTAGAGATGCCAGA
190 CATCAAAGTGGAAATGCCAGA
* *
30746934 CTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTTCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
30746999 ATGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
* * *
30747064 ATCTTAGATCTGGTTCAACGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
30747129 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
* * *
30747144 CTTCAATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
30747209 GTGAAAGCCAAATCAGCTATTTCTTCGATTTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
* * *
30747274 ATCTTGGATCTGCTTCAGCGTAAACATCTAAAGGTGAGATCTACTATGTGTCTGCCTTCTATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
*
30747339 AGTGGAAATGCCAAA
196 AGTGGAAATGCCAGA
*
30747354 CTTCGATTTGTTGTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * *
30747419 GTGAAAGCCAAATCAGCTATATCTTCGATCTACTCCCTGCCGAATATAGAGAGATAAGATCTATC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
* * *
30747484 ATCTTGGATCTGCTTCAGCGTAAAAATCTGAAGGTGAGATCTGCTATGTGTCTACCTCCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
30747549 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
* *
30747564 CTTCGATTTGTTCTCTGACAATACAAAGACGATAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
30747629 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
30747694 ATCTTGGATCTGC
131 ATCTTGGATCTGC
30747707 CCCGATAAAG
Statistics
Matches: 691, Mismatches: 72, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
206 88 0.13
207 3 0.00
208 4 0.01
209 4 0.01
210 576 0.83
211 14 0.02
213 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
AGTGGAAATGCCAGA
Found at i:30755159 original size:83 final size:83
Alignment explanation
Indices: 30755016--30755313 Score: 322
Period size: 82 Copynumber: 3.6 Consensus size: 83
30755006 AGCTGAAGAT
* * * *
30755016 ATCCAAGATGATTTGGCATTTTTGTATCAGGCAGGGAGCAGATCAAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTG--T-AGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCT
30755081 TTCACGTGTTACGTTGAAGCAG
63 TTCACGTG-TACGTTGAAGCAG
30755103 ATCCAAGATGATTTGGCATCTCTGATAGGC-G-GAGCAGATCGAAGACATAGCTGATTTGGCTTT
1 ATCCAAGATGATTTGGCATCTCTG-TAGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTT
*
30755166 CACGTGTACGTTGAAGCAA
65 CACGTGTACGTTGAAGCAG
* * * *
30755185 AT-CAAGATGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAG--ATAACAGATTTGGC-G
1 ATCCAAGATGATTTGGCATCTCTGTA--GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTT
* * **
30755246 TCTC-TATAGCGGCAGAGAGCAG
64 TCACGTGTA-C-GTTGA-AGCAG
* *
30755268 ATCGAAGATGATTTGGCATCTCTGTAGGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTAGGCAGAGAGCAGATCGAAGA
30755314 TGATTTGGCA
Statistics
Matches: 186, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
80 5 0.03
81 24 0.13
82 50 0.27
83 44 0.24
84 35 0.19
85 4 0.02
86 2 0.01
87 22 0.12
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (83 bp):
ATCCAAGATGATTTGGCATCTCTGTAGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTC
ACGTGTACGTTGAAGCAG
Found at i:30755247 original size:44 final size:44
Alignment explanation
Indices: 30755193--30755949 Score: 831
Period size: 44 Copynumber: 17.4 Consensus size: 44
30755183 AAATCAAGAT
*
30755193 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30755237 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755277 GATTTGGCATCTCTGTA--GGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755315 GATTTGGCATCTCTGTAGCAGCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGC-G-GCGGAGAGCAGATCGAAGATAACA
* *
30755361 GATTTGGCATCTATGTAGC-GCGGAGAGCA-ATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755403 GATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAA-A
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30755446 GATTTGGCGT-T-TGTAGCGGTGGAGAG-AGA--G-AGAGTAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA-TAACA
30755485 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30755529 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755573 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755613 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30755657 GATTT-G-GTCTCCTGTAGCGGCGGAGAGCAGATCGAA-ATAACA
1 GATTTGGCGTCT-CTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * **** * ** *
30755699 TATTTGGAGTCTCTTCGGATAATAGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGA
1 GATTTGGCGTCTC-T--G----TAG---CGGCG-GAGAGCAG-ATCGAAGA-----T--AACA
*
30755762 TGATTTGGCATCTCTGTA---GCGGAGAGCAGATCGAAGATAACA
1 -GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30755804 GATTTGGCGTCTCTGTAGCGGCGGAGAG--GATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30755846 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30755890 GATTTGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30755933 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
30755950 TTAGACGGGG
Statistics
Matches: 621, Mismatches: 41, Indels: 103
0.81 0.05 0.13
Matches are distributed among these distances:
37 3 0.00
38 40 0.06
39 11 0.02
40 59 0.10
41 44 0.07
42 112 0.18
43 96 0.15
44 189 0.30
45 3 0.00
46 19 0.03
49 6 0.01
50 6 0.01
51 3 0.00
53 4 0.01
54 3 0.00
55 4 0.01
56 1 0.00
57 2 0.00
61 2 0.00
63 4 0.01
64 10 0.02
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:30755510 original size:210 final size:212
Alignment explanation
Indices: 30755193--30755949 Score: 908
Period size: 210 Copynumber: 3.7 Consensus size: 212
30755183 AAATCAAGAT
* *
30755193 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
30755258 CAGAGAGCAGATCGAAG--A-TGATTTGGCATCTCTGTAGGCGGAGAGCAGATCGAAGAT-GATT
66 CGGAGAGCAGA-CGAAGTAACAGATTTGGCGTCTCTGTAGGCGGAGAGCAGATCGAAGATAGATT
* *
30755319 TGGCATCTCTGTAGCAGCGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTATGTAGCGCGG
130 TGGCGTCTCTGTAGC-G-GCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGCGG
30755384 AGAGCA-ATCGAAGATAACA
193 AGAGCAGATCGAAGATAACA
*
30755403 GATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAA-AGATTTGGCGT-T-TGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
30755465 TGGAGAG-AGA-GAGAGTAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
66 CGGAGAGCAGACGA-AGTAACAGATTTGGCGTCTCTGTA--GGCGGAGAGCAGATCGAAGAT---
* *
30755528 AGATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCG
125 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGC-
30755593 GCGGAGAGCAGATCGAAGAT----
189 GCGGAGAGCAGATCGAAGATAACA
*
30755613 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT-G-GTCTCCTGTAGCG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT-CTGTAGCG
* * *
30755676 GCGGAGAGCAGATCGAAATAACATATTTGGAGTCTCT-T---C-----G--GAT---A-ATAGAT
65 GCGGAGAGCAGA-CGAAGTAACAGATTTGGCGTCTCTGTAGGCGGAGAGCAGATCGAAGATAGAT
* *
30755726 TTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTA--GCGGA
129 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGCGGA
30755785 GAGCAGATCGAAGATAACA
194 GAGCAGATCGAAGATAACA
30755804 GATTTGGCGTCTCTGTAGCGGCGGAGAG--GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
30755867 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGGGAGAGCAGATCGAAGATAAC
66 CGGAGAGCAGA-CGAAG-TAACAGATTTGGCGTCTCTGTAG-GCGGAGAGCAGATCGAAGAT-A-
30755932 GGATTTGGCGTCTCTGTA
126 -GATTTGGCGTCTCTGTA
30755950 TTAGACGGGG
Statistics
Matches: 474, Mismatches: 28, Indels: 90
0.80 0.05 0.15
Matches are distributed among these distances:
187 20 0.04
189 19 0.04
190 43 0.09
191 48 0.10
192 1 0.00
194 38 0.08
197 2 0.00
198 1 0.00
201 4 0.01
203 4 0.01
204 2 0.00
205 2 0.00
206 4 0.01
207 14 0.03
208 19 0.04
209 13 0.03
210 119 0.25
211 6 0.01
212 55 0.12
213 15 0.03
214 43 0.09
215 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (212 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGACGAAGTAACAGATTTGGCGTCTCTGTAGGCGGAGAGCAGATCGAAGATAGATTT
GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGCGGAGA
GCAGATCGAAGATAACA
Found at i:30755888 original size:86 final size:83
Alignment explanation
Indices: 30755716--30755949 Score: 334
Period size: 86 Copynumber: 2.8 Consensus size: 83
30755706 AGTCTCTTCG
* * * *
30755716 GATAATAGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGAT---GATTTGGCATCTCTG
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG-AGATCGAAGATAACGATTTGGCGTCTCTG
30755778 TAGCGGAGAGCAGATCGAA
65 TAGCGGAGAGCAGATCGAA
30755797 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG-GATCGAAGATAACAGATTTGGCGTCTCTG
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGAGATCGAAGATAAC-GATTTGGCGTCTCTG
30755861 TAGCGGCGGAGAGCAGATCGAA
65 TA---GCGGAGAGCAGATCGAA
30755883 GATAACAGATTTGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG-AGATCGAAGATAAC-GATTTGGCGTCTCT
30755947 GTA
64 GTA
30755950 TTAGACGGGG
Statistics
Matches: 139, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
79 10 0.07
81 32 0.23
83 16 0.12
85 6 0.04
86 45 0.32
87 30 0.22
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (83 bp):
GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGAGATCGAAGATAACGATTTGGCGTCTCTGT
AGCGGAGAGCAGATCGAA
Found at i:30755896 original size:233 final size:233
Alignment explanation
Indices: 30755230--30755946 Score: 825
Period size: 233 Copynumber: 3.0 Consensus size: 233
30755220 GCAGATCGAA
* **
30755230 GATAACAGATTTGGCGTCTCTATAGCGGC-AGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGT
1 GATAATAGATTTGGCGTCTCCGTAGCGGCGA-AGAGCAGATCGAAGATAGATTTGGCATCTCTGT
30755293 AGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCAGCGCGGAGAGCAGATCGAA
65 AGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGC-G-GCGGAGAG-AGATCGAA
*
30755354 GATAACAGATTTGGCATCTATGTAGC-GCGGAGAGCA-ATCGAAGATAACAGATTTGGCGTCTCT
127 GAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * **
30755417 GTAGCGGCGGAAAGCAGATCGAAGATAA-AGATTTGGCGTTTGTAGCGGTGGAGAG
188 GTAGCGG-GGAGAGCAGATCGAAGATAACAGATTTGGAG--TCT--C--T---TCG
* * * *
30755472 AGAGAGAGTAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGT
1 -GATA-A-T---AGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGAT---AGATTTGGC
* *
30755537 GTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGCGGAGAGC
57 ATCTCTGTA--GGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAG-
30755602 AGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT-G-GT
119 AGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGT
*
30755665 CTCCTGTAGCGGCGGAGAGCAGATCGAA-ATAACATATTTGGAGTCTCTTCG
184 CT-CTGTAGCGG-GGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTTCG
30755716 GATAATAGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTA
1 GATAATAGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGATAGATTTGGCATCTCTGTA
*
30755780 -GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG-GATCGAAGATA
66 GGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGAGATCGAAGAT-
*
30755843 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
130 ---GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* *
30755908 CGGGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCT
192 CGGGGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCT
30755947 GTATTAGACG
Statistics
Matches: 423, Mismatches: 24, Indels: 63
0.83 0.05 0.12
Matches are distributed among these distances:
229 10 0.02
231 50 0.12
233 63 0.15
234 42 0.10
235 4 0.01
238 39 0.09
241 1 0.00
242 1 0.00
243 6 0.01
244 2 0.00
247 1 0.00
248 38 0.09
249 1 0.00
251 2 0.00
252 41 0.10
253 43 0.10
254 39 0.09
256 20 0.05
257 1 0.00
258 19 0.04
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (233 bp):
GATAATAGATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGATAGATTTGGCATCTCTGTA
GGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGAGATCGAAGATG
ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGG
GAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTTCG
Found at i:30757463 original size:19 final size:19
Alignment explanation
Indices: 30757439--30757476 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30757429 TTGAGATTGC
*
30757439 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
30757458 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
30757477 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:30767398 original size:47 final size:46
Alignment explanation
Indices: 30767347--30767494 Score: 116
Period size: 47 Copynumber: 3.3 Consensus size: 46
30767337 TCAGGCGGGG
30767347 AGCAGATCAAAGACATAGCTGATTTGGCTCTCACGTGTTTACGTTGA
1 AGCAGATC-AAGACATAGCTGATTTGGCTCTCACGTGTTTACGTTGA
* * * *
30767394 AGCAGATC----CA-AGATGATTTGGCATCT--C-TGTATCAGGCG-GGG
1 AGCAGATCAAGACATAGCTGATTTGGC-TCTCACGTGT-TTA--CGTTGA
*
30767435 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATC-AAGACATAGCTGATTTGGCTCTCACGTGTTTACGTTGA
*
30767482 AGCAAATCCAAGA
1 AGCAGAT-CAAGA
30767495 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 10, Indels: 30
0.66 0.09 0.26
Matches are distributed among these distances:
39 3 0.04
40 3 0.04
41 20 0.26
42 7 0.09
46 6 0.08
47 30 0.39
48 4 0.05
49 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (46 bp):
AGCAGATCAAGACATAGCTGATTTGGCTCTCACGTGTTTACGTTGA
Found at i:30767460 original size:88 final size:88
Alignment explanation
Indices: 30767311--30767534 Score: 360
Period size: 88 Copynumber: 2.6 Consensus size: 88
30767301 AGCTGAAGAT
* * *
30767311 ATCCAAGATGATTTGGCATTTTTGTATCAGGCGGGGAGCAGATCAAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
30767376 CTCACGTGTTTACGTTGAAGCAG
66 CTCACGTGTTTACGTTGAAGCAA
30767399 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
30767464 TTCACGTGTTTACGTTGAAGCAA
66 CTCACGTGTTTACGTTGAAGCAA
* * * *
30767487 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
30767535 TAACAGATTT
Statistics
Matches: 127, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
87 18 0.14
88 109 0.86
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
CTCACGTGTTTACGTTGAAGCAA
Found at i:30767550 original size:44 final size:44
Alignment explanation
Indices: 30767496--30768292 Score: 1161
Period size: 44 Copynumber: 18.4 Consensus size: 44
30767486 AATCCAAGAT
*
30767496 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30767540 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30767584 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
30767624 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
30767668 GATTTGGCATCTATGTAGCGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30767712 GATTTGGCGTCTCTGTAGCGGCAGAAAGCAGATCGAAGATAA-A
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
30767755 GATTTGGCGTCTCTATAGCGGCGCAAAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30767799 GATTTGGCGTCTCTGTAG-GGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30767842 GATTTGGTGTCTCTG-AGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30767885 GATTTGGCATCTCTGTAACGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30767925 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
30767969 GATTTGGCATCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30768013 GATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30768057 AATTTGGCGTCTCTGTAGAGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
30768101 GATTTGACGTCTCTGTAGCTGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
30768145 AATTTGGCGTCTCCGTAGCGGTGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30768189 GATTTGGTGT-TCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
30768232 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAA-T
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
30768275 GAATTTGGCGTCTCTGTA
1 G-ATTTGGCGTCTCTGTA
30768293 TTAGACGGGG
Statistics
Matches: 682, Mismatches: 58, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
40 77 0.11
42 2 0.00
43 152 0.22
44 451 0.66
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:30767891 original size:301 final size:304
Alignment explanation
Indices: 30767496--30768273 Score: 1215
Period size: 301 Copynumber: 2.6 Consensus size: 304
30767486 AATCCAAGAT
*
30767496 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
30767561 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATGA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
* *
30767626 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTATGTAGCGGCG
131 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTACGTAGCGGCA
30767691 GAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAA-AGCAGATCGAAGATAA-
196 GAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGATAAC
* * *
30767754 AGATTTGGCGTCTCTATAGCGGCGCAAAGCAGATCGAAGATAGCA
260 AAATTTGGCGTCTCTATAGAGGCGCAAAGCAGATCGAAGATAACA
* *
30767799 GATTTGGCGTCTCTGTAG-GGCGGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTG-AGTGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
30767862 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAACGGCGGAGAGCAGATCGAAGATGA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
* *
30767927 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCGTAGCGGCA
131 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTACGTAGCGGCA
* *
30767992 GAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
196 GAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
* * *
30768057 AATTTGGCGTCTCTGTAGAGGCGGAGAGCAGATCGAAGATAACA
261 AATTTGGCGTCTCTATAGAGGCGCAAAGCAGATCGAAGATAACA
* * * * *
30768101 GATTTGACGTCTCTGTAGCTGTGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCCGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * ** *
30768166 TGGAAAGCAGATCGAAGATAACAGATTTGGTGT-TCTGTAGCGGCGAAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT--
* *
30768230 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAA
129 --GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
30768274 TGAATTTGGC
Statistics
Matches: 434, Mismatches: 33, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
300 3 0.01
301 185 0.43
302 94 0.22
303 80 0.18
304 33 0.08
307 39 0.09
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (304 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTACGTAGCGGCA
GAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
AATTTGGCGTCTCTATAGAGGCGCAAAGCAGATCGAAGATAACA
Found at i:30768607 original size:9 final size:8
Alignment explanation
Indices: 30768583--30768627 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
30768573 AATACAACCC
30768583 AAAAT-AA
1 AAAATAAA
30768590 AAAATAAA
1 AAAATAAA
30768598 AAAATAAA
1 AAAATAAA
30768606 AAAATGAAGA
1 AAAAT-AA-A
*
30768616 AAAAGAAA
1 AAAATAAA
30768624 AAAA
1 AAAA
30768628 ACCTAACCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:30768900 original size:18 final size:18
Alignment explanation
Indices: 30768873--30768910 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30768863 CCTTTGTTCA
30768873 TTTTTCATTTT-TGTTATT
1 TTTTTCATTTTAT-TTATT
*
30768891 TTTTTTATTTTATTTATT
1 TTTTTCATTTTATTTATT
30768909 TT
1 TT
30768911 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTCATTTTATTTATT
Found at i:30768915 original size:2 final size:2
Alignment explanation
Indices: 30768910--30768937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30768900 TTATTTATTT
30768910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30768938 CATAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30769838 original size:19 final size:19
Alignment explanation
Indices: 30769814--30769851 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30769804 TTGAGATTGC
*
30769814 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
30769833 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
30769852 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:30771206 original size:25 final size:25
Alignment explanation
Indices: 30771178--30771228 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30771168 GTACAATGAG
30771178 AAAGGTTTGTGAACTTATAATGCTT
1 AAAGGTTTGTGAACTTATAATGCTT
30771203 AAAGGTTTGTGAACTTATAATGCTT
1 AAAGGTTTGTGAACTTATAATGCTT
30771228 A
1 A
30771229 CTCATAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AAAGGTTTGTGAACTTATAATGCTT
Found at i:30774890 original size:17 final size:17
Alignment explanation
Indices: 30774848--30774893 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
30774838 ATTTACTTTT
30774848 TATATACTAAT-AAATAA
1 TATATA-TAATAAAATAA
30774865 TA-A-ATAATAAAATAA
1 TATATATAATAAAATAA
30774880 TATATATAATAAAA
1 TATATATAATAAAA
30774894 GTAAGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 2 0.08
17 11 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATATATAATAAAATAA
Found at i:30774906 original size:23 final size:24
Alignment explanation
Indices: 30774861--30774906 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
30774851 ATACTAATAA
30774861 ATAATAAATAATAAAATAATATAT
1 ATAATAAATAATAAAATAATATAT
* *
30774885 ATAATAAA-AGTAAGATAATATA
1 ATAATAAATAATAAAATAATATA
30774907 GGGAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAATAAATAATAAAATAATATAT
Found at i:30775080 original size:26 final size:26
Alignment explanation
Indices: 30775051--30775104 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
30775041 TTTAAAATTT
* * *
30775051 TACACAATTAATGAATAATAAAATAA
1 TACACAATTAATAAAAAATAAAAAAA
* *
30775077 TACATAATTTATAAAAAATAAAAAAA
1 TACACAATTAATAAAAAATAAAAAAA
30775103 TA
1 TA
30775105 AAAAATGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (26 bp):
TACACAATTAATAAAAAATAAAAAAA
Found at i:30775160 original size:12 final size:12
Alignment explanation
Indices: 30775143--30775177 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
30775133 AAATATATAG
30775143 TGTATAATAAAA
1 TGTATAATAAAA
*
30775155 TTTATAAATAAAA
1 TGTAT-AATAAAA
30775168 TGTATAATAA
1 TGTATAATAA
30775178 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (12 bp):
TGTATAATAAAA
Found at i:30775193 original size:24 final size:22
Alignment explanation
Indices: 30775160--30775218 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
30775150 TAAAATTTAT
*
30775160 AAATAAAATGTATAATAATAAAA
1 AAATATAATGTATAAT-ATAAAA
*
30775183 ATAATATAATGGATAATATAAAA
1 A-AATATAATGTATAATATAAAA
*
30775206 AAA-ATAATATATA
1 AAATATAATGTATA
30775219 CTATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
23 8 0.26
24 13 0.42
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
AAATATAATGTATAATATAAAA
Found at i:30777112 original size:72 final size:72
Alignment explanation
Indices: 30777007--30777151 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
30776997 GCCTATTGTT
* *
30777007 GGTGACAGTCTGTGGTAAAGGGTACACGACTGAGCGAATAACTTGAGAGTATTTTCAAGAGGCCT
1 GGTGACAGCCTGTGGTAAAGGGTACACGACTGAGCGAATAACTTGAGAGTAATTTCAAGAGGCCT
30777072 TCTAGAA
66 TCTAGAA
* * * * * *
30777079 GGTGCCAGCCTGTGGTAAGGGGTACATGGCTGAGTGAATAACTTGGGAGTAATTTCAAGAGGCCT
1 GGTGACAGCCTGTGGTAAAGGGTACACGACTGAGCGAATAACTTGAGAGTAATTTCAAGAGGCCT
30777144 TCTAGAA
66 TCTAGAA
30777151 G
1 G
30777152 AAGTATGTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (72 bp):
GGTGACAGCCTGTGGTAAAGGGTACACGACTGAGCGAATAACTTGAGAGTAATTTCAAGAGGCCT
TCTAGAA
Found at i:30784487 original size:36 final size:35
Alignment explanation
Indices: 30784447--30784524 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
30784437 ATGGAAATAT
30784447 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
30784483 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
30784519 AATCTT
1 AATCTT
30784525 GAATATATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
33 6 0.16
34 1 0.03
35 2 0.05
36 28 0.74
37 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:30784530 original size:19 final size:19
Alignment explanation
Indices: 30784457--30784524 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
30784447 AATCTTTAAG
30784457 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30784476 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30784495 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30784512 GATATGCAATCTT
1 GATATGCAATCTT
30784525 GAATATATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30787578 original size:10 final size:10
Alignment explanation
Indices: 30787563--30787611 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
30787553 ATCGATACAT
30787563 TTTGCATTCA
1 TTTGCATTCA
30787573 TTTGCATCTCA
1 TTTGCAT-TCA
*
30787584 -TAGCATTTCA
1 TTTGCA-TTCA
30787594 -TTGCA-TCA
1 TTTGCATTCA
30787602 TTTGCATTCA
1 TTTGCATTCA
30787612 AAATTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 21 0.64
11 4 0.12
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.45
Consensus pattern (10 bp):
TTTGCATTCA
Found at i:30787670 original size:2 final size:2
Alignment explanation
Indices: 30787663--30787715 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
30787653 AGAAAGAAAA
30787663 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30787705 AG AG AG A- AG AG
1 AG AG AG AG AG AG
30787716 GGTCAAGGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30792194 original size:42 final size:42
Alignment explanation
Indices: 30792109--30792242 Score: 214
Period size: 42 Copynumber: 3.1 Consensus size: 42
30792099 AGCACTCAAT
* *
30792109 ATATAATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGTTGGTA
1 ATAT-ATATATCCGGGTTAAA-TCCCGCAGGCTTAGTGCTGGTA
*
30792153 ATATATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
30792195 ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
*
30792237 CTATAT
1 ATATAT
30792243 CCGGGCTTAA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
42 66 0.77
43 16 0.19
44 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:30792262 original size:40 final size:40
Alignment explanation
Indices: 30792109--30792266 Score: 185
Period size: 42 Copynumber: 3.8 Consensus size: 40
30792099 AGCACTCAAT
* *
30792109 ATATAATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGTTGG
1 ATAT-ATATATCCGGGTTAAA-TCCCGCAGGCTTAGTGCTGG
*
30792151 TAATATATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
1 --ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
30792193 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 --ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
* *
30792235 -TA-CTATATCCGGGCTTAAAGTCTCGCAGGCTT
1 ATATATATATCCGGG-TTAAA-TCCCGCAGGCTT
30792267 TGAGCCAGTG
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
38 10 0.09
39 7 0.07
40 11 0.10
42 59 0.55
43 16 0.15
44 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
ATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
Found at i:30793272 original size:21 final size:21
Alignment explanation
Indices: 30793256--30793302 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
30793246 AAAAAAGGGG
30793256 GAAAAAAG-AAAAGAAAAAGA
1 GAAAAAAGAAAAAGAAAAAGA
30793276 GAAAAAAGAAAAAGAAAAA-A
1 GAAAAAAGAAAAAGAAAAAGA
30793296 GAAAAAA
1 GAAAAAA
30793303 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
GAAAAAAGAAAAAGAAAAAGA
Found at i:30793273 original size:13 final size:13
Alignment explanation
Indices: 30793257--30793303 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
30793247 AAAAAGGGGG
30793257 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
30793270 AAAAGAGAAAA-A
1 AAAAAAGAAAAGA
30793282 AGAAAAAGAAAAAAGA
1 A-AAAAAG--AAAAGA
30793298 AAAAAA
1 AAAAAA
30793304 TGGAGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
15 9 0.32
16 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:30793280 original size:7 final size:7
Alignment explanation
Indices: 30793256--30793302 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
30793246 AAAAAAGGGG
30793256 GAAAAAA
1 GAAAAAA
30793263 G--AAAA
1 GAAAAAA
30793268 GAAAAAGA
1 GAAAAA-A
30793276 GAAAAAA
1 GAAAAAA
30793283 G-AAAAA
1 GAAAAAA
30793289 GAAAAAA
1 GAAAAAA
30793296 GAAAAAA
1 GAAAAAA
30793303 ATGGAGAGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.14
6 6 0.17
7 18 0.50
8 7 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:30793302 original size:15 final size:15
Alignment explanation
Indices: 30793264--30793303 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
30793254 GGGAAAAAAG
*
30793264 AAAAGAAAAAGAGAA
1 AAAAGAAAAAAAGAA
30793279 AAAAG--AAAAAGAA
1 AAAAGAAAAAAAGAA
30793292 AAAAGAAAAAAA
1 AAAAGAAAAAAA
30793304 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAGAA
Found at i:30794485 original size:88 final size:87
Alignment explanation
Indices: 30794393--30794676 Score: 287
Period size: 88 Copynumber: 3.2 Consensus size: 87
30794383 CGTAGATGAC
* *
30794393 TGATTTGGCATCTCTGTATTCGGCGAAGAGCATATCGAAGACATAGCTGATTTGGCTTCCACATG
1 TGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCAC-TG
30794458 TTTATGTTGAAGCAAGTCTAAGA
65 TTTATGTTGAAGCAAGTCTAAGA
* * * * * *
30794481 TGATTTGGCATTTTTGTATT-GAC-AGAGAGCAGATC-AA-AGATAGCAGATTTGGCAT---CTC
1 TGATTTGGCATCTCTGTATTCGACGA-AGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACTG
* *
30794539 TTTATTGGTAGAGAGC-AGATCAAAAATGA
65 TTTA-T-GTTGA-AGCAAG-TC--TAA-GA
* * *
30794568 CAGATTTGGCATCTCTGTATTCGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTCCACGT
1 -TGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCAC-T
*
30794633 GTTTACGTTGAAGCAAGTCTAAGA
64 GTTTATGTTGAAGCAAGTCTAAGA
30794657 TGATTTGGCATCTCTGTATT
1 TGATTTGGCATCTCTGTATT
30794677 GGCAGAGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
81 5 0.03
82 2 0.01
83 6 0.04
84 5 0.03
85 15 0.10
86 5 0.03
87 13 0.08
88 54 0.35
89 14 0.09
90 4 0.03
91 15 0.10
92 5 0.03
93 6 0.04
94 1 0.01
95 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (87 bp):
TGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACTGT
TTATGTTGAAGCAAGTCTAAGA
Found at i:30794583 original size:176 final size:175
Alignment explanation
Indices: 30794301--30794720 Score: 592
Period size: 176 Copynumber: 2.4 Consensus size: 175
30794291 AAGCAGATCC
* ** **
30794301 AAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAAATAATAGATTTGGTGTCT-TTG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AAAATAGCAGATTTGGCATCTCTT-
* ** * * * *
30794365 TATTGGTAGAGAGTAGATCGTAGATGACTGATTTGGCATCTCTGTATTCGGCGAAGAGCATATCG
64 TATTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCG
*
30794430 AAGACATAGCTGATTTGGCTTCCACATGTTTATGTTGAAGCAAGTCT
129 AAGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCT
* * *
30794477 AAGATGATTTGGCATTTTTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTTT
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAA-ATAGCAGATTTGGCATCTCTTT
* *
30794542 ATTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCGACGGAGAGTAGATCGA
65 ATTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCGA
*
30794607 AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
130 AGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCT
* *
30794653 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT-AAAAAATGACAGATTTGGCATCTCTG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAATA-G-CAGATTTGGCATCTCTT
30794717 TATT
64 TATT
30794721 CGGCGGAGAC
Statistics
Matches: 216, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
174 2 0.01
175 7 0.03
176 205 0.95
177 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (175 bp):
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAATAGCAGATTTGGCATCTCTTTA
TTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCGACGAAGAGCAGATCGAA
GACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCT
Found at i:30794670 original size:132 final size:132
Alignment explanation
Indices: 30794526--30794852 Score: 555
Period size: 132 Copynumber: 2.5 Consensus size: 132
30794516 AAAGATAGCA
* *
30794526 GATTTGGCATCTCTTTATTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCG
**
30794591 ACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 ACGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30794656 AT
131 AT
*
30794658 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCG
*
30794723 GCGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 ACGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30794788 AT
131 AT
* * * * *
30794790 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATT
30794853 GGCAAAGAGG
Statistics
Matches: 183, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 183 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATGACAGATTTGGCATCTCTGTATTCG
ACGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
AT
Found at i:30794841 original size:176 final size:176
Alignment explanation
Indices: 30794658--30795778 Score: 1751
Period size: 176 Copynumber: 6.5 Consensus size: 176
30794648 AGTCTAAGAT
* *
30794658 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
*
30794723 GCGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30794788 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * *
30794834 AATTTGGCGTCTCTGTATTGGCAAAGAGGAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
30794899 GCAGAGAGCAGATCGAAG----A-C--A---------CA--TGTTTATGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
30794946 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
30794992 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
*
30795057 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAGG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30795122 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * * *
30795168 GATTTGGCGTCTCTATATTTGCAGAGAGCAGATCGAAGATGACTGATTTGGAATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
30795233 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACATGTTTATGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30795298 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
30795344 GATTTGGCATCTCTGTATTGGGAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
30795409 GCGGAGAGCTGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACATTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
* * *
30795474 ATGATTTGGCATCTCTCTATTGGCAGAGAGTAGATCGAAGATAGCA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
30795520 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
30795585 GCGGAGAACAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTTCGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
30795650 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * *
30795696 GATTTGACATATCTGTATTGGTAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATT-
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCTGTATTC
* * *
30795759 GTCAGAGAGCATATCGAAGA
65 GGCGGAGAGCAGATCGAAGA
30795779 GCAGAACAAC
Statistics
Matches: 863, Mismatches: 63, Indels: 39
0.89 0.07 0.04
Matches are distributed among these distances:
158 145 0.17
160 2 0.00
162 1 0.00
163 1 0.00
165 1 0.00
169 1 0.00
171 1 0.00
172 1 0.00
174 2 0.00
175 15 0.02
176 691 0.80
177 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (176 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:30795002 original size:44 final size:44
Alignment explanation
Indices: 30794948--30795778 Score: 644
Period size: 44 Copynumber: 18.9 Consensus size: 44
30794938 AGTCTAAGAT
30794948 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
30794992 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* *
30795036 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAGCA
* * * ** * *
30795083 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAGGAT----
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATAGCA
*
30795124 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * *
30795168 GATTTGGCGTCTCTATATTTGCAGAGAGCAGATCGAAGAT-GACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-CA
* * *
30795212 GATTTGGAATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAGCA
* * * ** *
30795259 GATTTGGCTTCCACATGT-TTATGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATAGCA
*
30795300 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* *
30795344 GATTTGGCATCTCTGTATTGGGAGAGAGCAGATCAAAGAT-GACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-CA
* * *
30795388 GATTTGGCATCTCTGTATTCGGCGGAGAGCTGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAGCA
* * * *
30795435 GATTTGGCTTCCACGTGT-TT-ACATTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATTGGCA--GAGAGCAGA-TCGAAGATAGCA
* *
30795476 GATTTGGCATCTCTCTATTGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
*
30795520 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT-GACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-CA
* * * *
30795564 GATTTGGCATCTCTGTATTCAGCGGAGAACAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAGCA
* * * * ** *
30795611 GATTTGGCTTCCACGTGTTTTCGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATTGGCAGAGAGCAGA-TCGAAGATAGCA
*
30795652 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * *
30795696 GATTTGACATATCTGTATTGGTAGAGAGCAGATCGAAGATAGAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
30795740 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
30795779 GCAGAACAAC
Statistics
Matches: 626, Mismatches: 101, Indels: 120
0.74 0.12 0.14
Matches are distributed among these distances:
39 24 0.04
40 56 0.09
41 42 0.07
43 1 0.00
44 303 0.48
45 71 0.11
46 5 0.01
47 82 0.13
48 28 0.04
49 14 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
Found at i:30795347 original size:466 final size:461
Alignment explanation
Indices: 30794452--30795382 Score: 1236
Period size: 466 Copynumber: 2.0 Consensus size: 461
30794442 ATTTGGCTTC
* *
30794452 CACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATTTTTGTATTGACAGAGAGCAGATCA
1 CACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAGCAGATCA
* * *
30794517 AAGATAGCAGATTTGGCATCTCTTTATTGGTAGAGAGCAGATCAAAAATGACAGATTTGGCATCT
66 AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATAACAGATTTGGCATCT
*
30794582 CTGTATTCGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGC
131 CTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGC
*
30794647 AAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATGACAGATTTGGCAT
196 AAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATAACAGATTTGGCAT
* * ** **
30794712 CTCTGTATTCGGCGGAGACCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAA
261 CTCTATATTCGGCAGAGACCAGATCGAAGA-ATAGCTGATTTGGAATCCACGTGTTTACGCGGAA
* *
30794777 GCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGC
325 GCAAGTCGAAGATGATTTGGCATCACTGTATTGGCAGAGAGCAGATCGAAGAT---AAATTTGGC
* * *
30794842 GTCTCTGTATTGGCAAAGAGGAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAG
387 ATCTCTGTATTGGCAAAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATT-GGCAGAGAG
*
30794907 CAGATCGAAGA
451 CAGATCAAAGA
* *
30794918 CACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG
1 CACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAGCAGATCA
* *
30794983 AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCT
66 AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATAACAGATTTGGCATCT
*
30795048 CTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGC
131 CTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGC
* ** * *
30795113 AAGTCTAGGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGT
196 AAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATAACAGATTTGGCAT
* * *
30795178 CTCTATATT-TGCAGAGAGCAGATCGAAG-AT-GACTGATTTGGAAT-CTC-TGTATT-CGGCGG
261 CTCTATATTCGGCAGAGACCAGATCGAAGAATAG-CTGATTTGGAATCCACGTGT-TTAC-GCGG
* * ** *
30795237 AGAGC-AGATCGAAGACATAGCTGATTTGGCTTCCACATGT-TTATGTTGA-AGCA-AGTCTAAG
323 A-AGCAAG-TCGAAG----A--TGATTTGGCAT-CAC-TGTATT-GGCAGAGAGCAGA-TCGAAG
* * *
30795298 AT-GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAT
376 ATAAATTTGGCATCTCTGTATTGGCAAAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTAT
*
30795362 TGGGAGAGAGCAGATCAAAGA
441 TGGCAGAGAGCAGATCAAAGA
30795383 TGACAGATTT
Statistics
Matches: 409, Mismatches: 41, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
461 4 0.01
462 10 0.02
463 20 0.05
465 34 0.08
466 308 0.75
467 1 0.00
469 11 0.03
470 15 0.04
471 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (461 bp):
CACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAGCAGATCA
AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATAACAGATTTGGCATCT
CTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGC
AAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATAAAAAATAACAGATTTGGCAT
CTCTATATTCGGCAGAGACCAGATCGAAGAATAGCTGATTTGGAATCCACGTGTTTACGCGGAAG
CAAGTCGAAGATGATTTGGCATCACTGTATTGGCAGAGAGCAGATCGAAGATAAATTTGGCATCT
CTGTATTGGCAAAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
CAAAGA
Found at i:30795524 original size:642 final size:638
Alignment explanation
Indices: 30794301--30795558 Score: 1691
Period size: 642 Copynumber: 2.0 Consensus size: 638
30794291 AAGCAGATCC
* ** *
30794301 AAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAAATAATAGATTTGGTGTCTTTGT
1 AAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGT
* ** * * *
30794366 ATTGGTAGAGAGTAGATCGTAGATGACTGATTTGGCATCTCTGTATTCGGCGAAGAGCATATCGA
66 ATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTCGGCGAAGAGCAGATCGA
* * *
30794431 AGACATAGCTGATTTGGCTTCCACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATTTTT
131 AGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCT
* * *
30794496 GTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTTTATTGGTAGAGAGCAGATCA
196 GTATTGACAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCA
* *
30794561 AAAATGACAGATTTGGCATCTCTGTATTCGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCT
261 AAAATGACAGATTTGGAATCTCTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
*
30794626 TCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
326 TCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
* *
30794691 AAAAAATGACAGATTTGGCATCTCTGTATTCGGCGGAGACCAGATCGAAGACATAGCTGATTTGG
391 AAAAAATAACAGATTTGGCATCTCTGTATTCGGCGGAGACCAGATCGAAGACATAGCAGATTTGG
* ** * * *
30794756 CTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAG
456 CATCCACGTGTTTACGCGGAAGCAAGACTAAGATGATTTGGCATCACTGTATTGACAGAGAGCAG
* *
30794821 ATCGAAGATAACAAATTTGGCGTCTCTGTATTGGCAAAGAGGAGATCAAAGATGACAGATTTGGC
521 ATCGAAGAT---AAATTTGGCATCTCTCTATTGGCAAAGAGGAGATCAAAGATGACAGATTTGGC
*
30794886 ATCTCTGTATTCGGCAGAGAGCAGATCGAAGACACATGTTTATGTTGAAGCAAGTCT
583 ATCTCTGTATT-GGCAGAGAGCAGATCAAAGACACATGTTTATGTTGAAGCAAGTCT
* * *
30794943 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGT
1 AAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGT
*
30795008 ATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
66 ATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTCGGCGAAGAGCAGATCGA
* *
30795073 AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAGGATGATTTGGCATCTCT
131 AGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCT
* * * * *
30795138 GTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTTGCAGAGAGCAGATCG
196 GTATTGACAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCA
* * *
30795203 AAGATGACTGATTTGGAATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
261 AAAATGACAGATTTGGAATCTCTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
*
30795268 TCCACATGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
326 TCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
** * * *
30795333 CGAAGATAACAGATTTGGCATCTCTGTATT-GG-GAGAGAGCAGATC-AA-AGAT-GACAGATTT
391 AAAAAATAACAGATTTGGCATCTCTGTATTCGGCG-GAGACCAGATCGAAGACATAG-CAGATTT
* * *
30795393 GGCAT-CTC-TGTATT-CGGCGGAGAGCTGATCGAAGAC-ATAGCTGATTTGGCTTCCACGTGT-
454 GGCATCCACGTGT-TTAC-GCGGA-A---G--C-AAGACTA-AGATGATTTGGCAT-CAC-TGTA
* * * * *
30795453 TT-ACATTGA-AGCA-AGTCTAAGAT-GATTTGGCATCTCTCTATTGGCAGAGAGTAGATCGAAG
507 TTGACA--GAGAGCAGA-TCGAAGATAAATTTGGCATCTCTCTATTGGCAAAGAGGAGATCAAAG
30795514 AT-AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
569 ATGA-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
30795559 TGACAGATTT
Statistics
Matches: 540, Mismatches: 58, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
637 4 0.01
638 8 0.01
639 14 0.03
640 3 0.01
641 32 0.06
642 438 0.81
644 2 0.00
645 19 0.04
646 15 0.03
647 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (638 bp):
AAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGT
ATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTCGGCGAAGAGCAGATCGA
AGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCT
GTATTGACAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCA
AAAATGACAGATTTGGAATCTCTGTATTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
TCCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
AAAAAATAACAGATTTGGCATCTCTGTATTCGGCGGAGACCAGATCGAAGACATAGCAGATTTGG
CATCCACGTGTTTACGCGGAAGCAAGACTAAGATGATTTGGCATCACTGTATTGACAGAGAGCAG
ATCGAAGATAAATTTGGCATCTCTCTATTGGCAAAGAGGAGATCAAAGATGACAGATTTGGCATC
TCTGTATTGGCAGAGAGCAGATCAAAGACACATGTTTATGTTGAAGCAAGTCT
Found at i:30795991 original size:44 final size:44
Alignment explanation
Indices: 30795925--30796109 Score: 153
Period size: 44 Copynumber: 4.2 Consensus size: 44
30795915 GATTTTAACA
* *
30795925 TGGCATCCCCGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCAGATT
* * *
30795969 TGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACAGAGCAGATC
1 TGGCATCCCTGTGTTTACAGGGAACAGATTGAAG--ATAGCAGATT
* * * * * **
30796015 TGACATTCCTGTGCTTACAGCGAAGCAGATGGAAGATTTCAGCA--
1 TGGCATCCCTGTGTTTACAGGGAA-CAGATTGAAGATAGCAG-ATT
* **
30796059 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATATTAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCAGATT
30796103 TGGCATC
1 TGGCATC
30796110 TCCATATTCG
Statistics
Matches: 112, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 55 0.49
45 5 0.04
46 29 0.26
47 9 0.08
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGTTTACAGGGAACAGATTGAAGATAGCAGATT
Found at i:30796033 original size:46 final size:45
Alignment explanation
Indices: 30795838--30796050 Score: 141
Period size: 44 Copynumber: 4.7 Consensus size: 45
30795828 GATGATTTGG
* *
30795838 CATTCCTGTGGTTACAGGGAATAGATCGAAGACATAGCAGATCTGA
1 CATTCCTGTGCTTACAGGGAACAGATCGAAGA-ATAGCAGATCTGA
* * *** *
30795884 CGTTCCTGTGCTTACAGTGAAGCAGATC-AATG-ATTTTA-A-CATGG
1 CATTCCTGTGCTTACAGGGAA-CAGATCGAA-GAATAGCAGATC-TGA
* * * * * * *
30795928 CATCCCCGTGTTTATAGGGAACA-AGTTGAAG-ATAGCAGATTTGG
1 CATTCCTGTGCTTACAGGGAACAGA-TCGAAGAATAGCAGATCTGA
* * *
30795972 CATCCCTGTGTTTACAGGGAACAGATCGAAGACAGAGCAGATCTGA
1 CATTCCTGTGCTTACAGGGAACAGATCGAAGA-ATAGCAGATCTGA
* *
30796018 CATTCCTGTGCTTACAGCGAAGCAGATGGAAGA
1 CATTCCTGTGCTTACAGGGAA-CAGATCGAAGA
30796051 TTTCAGCATG
Statistics
Matches: 127, Mismatches: 29, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 8 0.06
44 50 0.39
45 4 0.03
46 48 0.38
47 16 0.13
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (45 bp):
CATTCCTGTGCTTACAGGGAACAGATCGAAGAATAGCAGATCTGA
Found at i:30796073 original size:134 final size:134
Alignment explanation
Indices: 30795831--30796180 Score: 452
Period size: 134 Copynumber: 2.6 Consensus size: 134
30795821 GATCCAAGAT
* * * *
30795831 GATTTGGCATTCCTGTGGTTACAGGGAATAGATCGAAGACATAGCAGATCTGACGTTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
* *
30795896 TACAGTGAAGCAGATCAATGATTTTAACATGGCATCCCCGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCAATGATTTCAACATGGCATCCCCGTGTTTATAGGGAACAAGTTGAAGAT
30795961 AGCA
131 AGCA
*
30795965 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACAGAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
* * *
30796030 TACAGCGAAGCAGATGGAA-GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
66 TACAGCGAAGCAGAT-CAATGATTTCAACATGGCATCCCCGTGTTTATAGGGAACAAGTTGAAGA
**
30796094 TATTA
130 TAGCA
* ** * * ** * *
30796099 GATTTGGCATCTCCATAT-TCGACGGGGAGCAGATTAAAGACATAGCAGATCTGACCTTCATGTG
1 GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTG
* *
30796163 TTTACATCGAAGCAGATC
64 CTTACAGCGAAGCAGATC
30796181 CAAGATGACA
Statistics
Matches: 188, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
134 130 0.69
135 56 0.30
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
TACAGCGAAGCAGATCAATGATTTCAACATGGCATCCCCGTGTTTATAGGGAACAAGTTGAAGAT
AGCA
Found at i:30796255 original size:45 final size:45
Alignment explanation
Indices: 30796173--30796372 Score: 208
Period size: 45 Copynumber: 4.5 Consensus size: 45
30796163 TTTACATCGA
* * *
30796173 AGCAGATCCAAGATGACAGATTTGGCATCTTTGTATTAGACGAGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGAGG
* * * * *
30796218 AGCAAATCGGAGATAACGGATTTGGCATCTCTGTATTAGATGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGAGG
* * ** *
30796263 AGCAGATTGAAGA-AGA-AAATTTGGTGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATA-ACAGATTTGGCATCTCTGTATTAGACGAGG
* *
30796307 AGCGGATCGAAGATAACAGATTTGGCATCTCTGTGTTAGAC-AGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGA-GG
* *
30796352 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
30796373 ATCGCCTTCC
Statistics
Matches: 125, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
44 36 0.29
45 89 0.71
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGAGG
Found at i:30796765 original size:16 final size:17
Alignment explanation
Indices: 30796715--30796765 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
30796705 ATGGAAATAT
*
30796715 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
30796732 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
30796751 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
30796766 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:30796784 original size:22 final size:21
Alignment explanation
Indices: 30796725--30796767 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
30796715 AATCTTTAAG
30796725 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
30796744 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
30796765 GAT
1 GAT
30796768 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:30800191 original size:21 final size:19
Alignment explanation
Indices: 30800161--30800199 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
30800151 ACTCAAATTC
30800161 ATATTAAATAATAGAAAAGAA
1 ATATTAAAT-ATA-AAAAGAA
*
30800182 ATATTTAATATAAAAAGA
1 ATATTAAATATAAAAAGA
30800200 TAACTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
ATATTAAATATAAAAAGAA
Found at i:30802252 original size:24 final size:24
Alignment explanation
Indices: 30802225--30802270 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30802215 AAAATTTAAT
*
30802225 ATTTATGAATATAATATATTTGGC
1 ATTTATGAACATAATATATTTGGC
*
30802249 ATTTATTAACATAATATATTTG
1 ATTTATGAACATAATATATTTG
30802271 ACTTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTATGAACATAATATATTTGGC
Found at i:30802280 original size:24 final size:24
Alignment explanation
Indices: 30802225--30802280 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
30802215 AAAATTTAAT
* * *
30802225 ATTTATGAATATAATATATTTGGC
1 ATTTATTAACATAATATATTTGAC
30802249 ATTTATTAACATAATATATTTGAC
1 ATTTATTAACATAATATATTTGAC
30802273 -TTTGATTA
1 ATTT-ATTA
30802281 GAATTAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTATTAACATAATATATTTGAC
Found at i:30802955 original size:21 final size:21
Alignment explanation
Indices: 30802929--30802970 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30802919 TGCCATAGAG
30802929 GTTCAGTATGATAAGGAAGAT
1 GTTCAGTATGATAAGGAAGAT
30802950 GTTCAGTATGATAAGGAAGAT
1 GTTCAGTATGATAAGGAAGAT
30802971 CTAGGGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
GTTCAGTATGATAAGGAAGAT
Found at i:30805947 original size:26 final size:26
Alignment explanation
Indices: 30805911--30805964 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
30805901 TATGCAGTCA
*
30805911 GTGCAGTTAGCAGATACATGGCGAAT
1 GTGCAGTTAGCAGATACATGGCAAAT
30805937 GTGCAGTTAGCAGATACATGGCAAAT
1 GTGCAGTTAGCAGATACATGGCAAAT
30805963 GT
1 GT
30805965 AACACCCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (26 bp):
GTGCAGTTAGCAGATACATGGCAAAT
Found at i:30809986 original size:24 final size:24
Alignment explanation
Indices: 30809959--30810010 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30809949 TTTCTAGAAG
* **
30809959 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30809983 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30810007 ATTT
1 ATTT
30810011 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30822504 original size:3 final size:3
Alignment explanation
Indices: 30822496--30822559 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
30822486 AATATAACAT
30822496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30822544 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
30822560 CTTTTAACAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30822890 original size:2 final size:2
Alignment explanation
Indices: 30822883--30822915 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30822873 TTTTAAAATA
30822883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30822916 AAATATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30823087 original size:26 final size:27
Alignment explanation
Indices: 30823001--30823111 Score: 80
Period size: 26 Copynumber: 4.4 Consensus size: 27
30822991 TAATAAAATG
30823001 TAATATA-AATATATG-AGAAAA-ATAA
1 TAATATATAATATATGTA-AAAATATAA
* * *
30823026 T-AGATATAATATAAAGT-AACATATAA
1 TAATATATAATAT-ATGTAAAAATATAA
*
30823052 -AACA-AT-ATATATGTAAATAAT-TAA
1 TAATATATAATATATGTAAA-AATATAA
*
30823076 TAA-ATATAATATATGTGAAAATATAA
1 TAATATATAATATATGTAAAAATATAA
30823102 TAATATATAA
1 TAATATATAA
30823112 AAGAGATGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
23 3 0.04
24 14 0.21
25 20 0.30
26 24 0.36
27 6 0.09
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.32
Consensus pattern (27 bp):
TAATATATAATATATGTAAAAATATAA
Found at i:30826553 original size:2 final size:2
Alignment explanation
Indices: 30826546--30826582 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
30826536 TGACATTTAA
*
30826546 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30826583 GAAATTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:30826655 original size:47 final size:43
Alignment explanation
Indices: 30826571--30826668 Score: 187
Period size: 43 Copynumber: 2.3 Consensus size: 43
30826561 TATATATAAA
30826571 TATATATATATAGAAATTGATTCATTTATATGTTTTGTTTGTT
1 TATATATATATAGAAATTGATTCATTTATATGTTTTGTTTGTT
30826614 TATATATATATAGAAATTGATTCATTTATATGTTTTGTTTGTT
1 TATATATATATAGAAATTGATTCATTTATATGTTTTGTTTGTT
*
30826657 TATATAAATATA
1 TATATATATATA
30826669 TAATATATGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (43 bp):
TATATATATATAGAAATTGATTCATTTATATGTTTTGTTTGTT
Found at i:30830800 original size:135 final size:135
Alignment explanation
Indices: 30830614--30830988 Score: 423
Period size: 135 Copynumber: 2.8 Consensus size: 135
30830604 TCTACTGCAA
* * ** * * *
30830614 CTGCTCCACTGCAAGTTCAGAGAGAT-ACGGTTTGTGTATTTTTATCCTGCTCTACTACAACTTC
1 CTGCTCCACTGCAACTTCAGGGAGATGA-GACTTGGGTAATTTTATCCTGCTCTACTGCAACTTC
* * * * * *
30830678 AGAGAGTTAAGGATTGTGACTTCAATCTGCTTAACTGCAACTTTAGGGAGATTAGATCGGCTAAC
65 AGAGAGATAAGGATTGTGGCTTCGATCTGCTCAACTGCAACTTTAGAGAGATAAGATCGGCTAAC
*
30830743 TTCAGT
130 TTCAAT
* * *
30830749 TTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGGTAATTTTATCCTGCTCTACCGCAACTTTA
1 CTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
* * * ** *
30830814 GAGAGATAAGGATTGTGGCTTCGATCCGCTCCATTGCAACTTTAGAGAGATAAGATCTTCTATCT
66 GAGAGATAAGGATTGTGGCTTCGATCTGCTCAACTGCAACTTTAGAGAGATAAGATCGGCTAACT
*
30830879 TTAAT
131 TCAAT
* * * **
30830884 CTGCTCCACTGCAACTTCAGGGAGATGAGACTT-GCT-ACTTTAACCCACTCTACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
* * * *
30830947 GAGAGATAAGGTTTGCGGCTTCGATCTGCTCCACTGTAACTT
66 GAGAGATAAGGATTGTGGCTTCGATCTGCTCAACTGCAACTT
30830989 CAGGAAGATG
Statistics
Matches: 202, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
133 58 0.29
134 2 0.01
135 141 0.70
136 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (135 bp):
CTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
GAGAGATAAGGATTGTGGCTTCGATCTGCTCAACTGCAACTTTAGAGAGATAAGATCGGCTAACT
TCAAT
Found at i:30830998 original size:88 final size:88
Alignment explanation
Indices: 30830882--30831050 Score: 311
Period size: 88 Copynumber: 1.9 Consensus size: 88
30830872 TCTATCTTTA
* *
30830882 ATCTGCTCCACTGCAACTTCAGGGAGATGAGACTTGCTACTTTAACCCACTCTACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGAAGATGAGACTTGCTACTTCAACCCACTCTACTGCAACTTCA
30830947 GAGAGATAAGGTTTGCGGCTTCG
66 GAGAGATAAGGTTTGCGGCTTCG
*
30830970 ATCTGCTCCACTGTAACTTCAGGAAGATGAGACTTGCTACTTCAACCCACTCTACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGAAGATGAGACTTGCTACTTCAACCCACTCTACTGCAACTTCA
30831035 GAGAGATAAGGTTTGC
66 GAGAGATAAGGTTTGC
30831051 TATGATGACT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGAAGATGAGACTTGCTACTTCAACCCACTCTACTGCAACTTCA
GAGAGATAAGGTTTGCGGCTTCG
Found at i:30831051 original size:44 final size:44
Alignment explanation
Indices: 30830616--30831052 Score: 220
Period size: 44 Copynumber: 9.8 Consensus size: 44
30830606 TACTGCAACT
* * * * * **
30830616 GCTCCACTGCAAGTTCAGAGAGATACGGTTTGTGTATTTTTATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTG-CTACTTCAATCC
* * * *
30830661 TGCTCTACTACAACTTCAGAGAGTTAAGGA-TTG-TGACTTCAATCT
1 -GCTCCACTGCAACTTCAGAGAGATAA-GATTTGCT-ACTTCAATCC
** * * * ** * **
30830706 GCTTAACTGCAACTTTAGGGAGATTAGATCGGCTAACTTCAGTTT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ACTTCAATCC
* * * * * **
30830751 GCTCCACTGCAACTTCAGGGAGATGAGACTTGGGTAATTTTATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGA-TTTGCTACTTCAATCC
* * * * *
30830796 TGCTCTACCGCAACTTTAGAGAGATAAGGA-TTG-TGGCTTCGATCC
1 -GCTCCACTGCAACTTCAGAGAGATAA-GATTTGCT-ACTTCAATCC
* * * *
30830841 GCTCCATTGCAACTTTAGAGAGATAAGATCTT-CTATCTTTAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TTGCTA-CTTCAATCC
* * * * *
30830886 GCTCCACTGCAACTTCAGGGAGATGAGACTTGCTACTTTAACCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTGCTACTTCAATCC
* * * ** * *
30830930 ACTCTACTGCAACTTCAGAGAGATAAGGTTTGCGGCTTCGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTGCTACTTCAATCC
* * * *
30830974 GCTCCACTGTAACTTCAG-GAAGATGAGACTTGCTACTTCAACCC
1 GCTCCACTGCAACTTCAGAG-AGATAAGATTTGCTACTTCAATCC
* * *
30831018 ACTCTACTGCAACTTCAGAGAGATAAGGTTTGCTA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTGCTA
30831053 TGATGACTTA
Statistics
Matches: 289, Mismatches: 87, Indels: 32
0.71 0.21 0.08
Matches are distributed among these distances:
43 5 0.02
44 144 0.50
45 88 0.30
46 49 0.17
47 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTTGCTACTTCAATCC
Found at i:30832649 original size:129 final size:129
Alignment explanation
Indices: 30832311--30832650 Score: 284
Period size: 129 Copynumber: 2.6 Consensus size: 129
30832301 AGTCCAACGA
* * ** * * *
30832311 AAAATCGAAACCCAGCACGGTAGGGCACGATTCCTTGAATTTCTAAACATTGAATCATTACCTT-
1 AAAATCGAAACCCAGCAAGATAGGGCACGATTCCCCGAATTCCCAAACATTCAA-CATTACCTTG
* * * ** *
30832375 CTGT-A-GAAT-TTAGAAAACACGAGTGAAATTCAAAAGGAATATTCGATTATTTTTAAACAAAC
65 TTTTAAGGAATCTT-CAAAGTACGAATGAAATTCAAAAGGAATATTCGATTA-TTTTAAACAAAC
*
30832437 GG
128 AG
* * * * * *
30832439 GAAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAGACATTGAACATTGCCTTGT
1 AAAATCGAAACCCAGCAAGATAGGGCACGATTCCCCGAATTCCCAAACATTCAACATTACCTTGT
* * **
30832504 TTTAAAGGAATTTTCAAAGTACGAATGAAATTTCAAAA-GAATATTTGATTA-TTTGGACAAACA
66 TTT-AAGGAATCTTCAAAGTACGAATGAAA-TTCAAAAGGAATATTCGATTATTTTAAACAAACA
30832567 G
129 G
* * * *
30832568 AAAATTGAAACCCAGCATAG-TTGGGCACGATTCCTCGAGTTCCCAAACA-TCAACTATTACCTT
1 AAAATCGAAACCCAGCA-AGATAGGGCACGATTCCCCGAATTCCCAAACATTCAAC-ATTACCTT
30832631 CGTTTT-AGTGAATCTTCAAA
64 -GTTTTAAG-GAATCTTCAAA
30832651 CAAACAATTG
Statistics
Matches: 174, Mismatches: 28, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
127 8 0.05
128 56 0.32
129 66 0.38
130 7 0.04
131 28 0.16
132 9 0.05
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (129 bp):
AAAATCGAAACCCAGCAAGATAGGGCACGATTCCCCGAATTCCCAAACATTCAACATTACCTTGT
TTTAAGGAATCTTCAAAGTACGAATGAAATTCAAAAGGAATATTCGATTATTTTAAACAAACAG
Found at i:30833336 original size:2 final size:2
Alignment explanation
Indices: 30833331--30833360 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30833321 ACACACACAC
30833331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30833361 GTAAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30833812 original size:11 final size:11
Alignment explanation
Indices: 30833796--30833821 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30833786 ACACAAATAG
30833796 AAAACTGAATT
1 AAAACTGAATT
30833807 AAAACTGAATT
1 AAAACTGAATT
30833818 AAAA
1 AAAA
30833822 TAAGAGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAACTGAATT
Found at i:30842118 original size:39 final size:39
Alignment explanation
Indices: 30842074--30842308 Score: 402
Period size: 39 Copynumber: 6.1 Consensus size: 39
30842064 ATGCAAGACA
30842074 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
30842113 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30842152 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
30842191 CTGGAAATATATCCGGGCCAAAGT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
30842229 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
30842268 CTGGAAATGTATCCGGGTTAAAGT-CCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30842306 CTG
1 CTG
30842309 ATAATATAAT
Statistics
Matches: 187, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 53 0.28
39 134 0.72
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:30842243 original size:116 final size:116
Alignment explanation
Indices: 30842074--30842316 Score: 400
Period size: 116 Copynumber: 2.1 Consensus size: 116
30842064 ATGCAAGACA
* * *
30842074 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
1 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
30842139 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
66 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGT-CCGCAGGCTTCGTG
*
30842191 CTGGAAATATATCCGGGCCAAAGT-CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
1 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
* *
30842255 CGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCGCAGGCTTTGTG
66 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCGCAGGCTTCGTG
30842306 CT-GATAATATA
1 CTGGA-AATATA
30842317 ATTTCGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
114 2 0.02
115 21 0.18
116 74 0.62
117 22 0.18
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (116 bp):
CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCGCAGGCTTCGTG
Found at i:30842265 original size:77 final size:77
Alignment explanation
Indices: 30842074--30842308 Score: 416
Period size: 77 Copynumber: 3.0 Consensus size: 77
30842064 ATGCAAGACA
30842074 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGT-C
30842139 CGCAGGCTTCGTG
65 CGCAGGCTTCGTG
*
30842152 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
30842217 GCAGGCTTCGTG
66 GCAGGCTTCGTG
* * *
30842229 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
*
30842294 GCAGGCTTTGTG
66 GCAGGCTTCGTG
30842306 CTG
1 CTG
30842309 ATAATATAAT
Statistics
Matches: 151, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
77 89 0.59
78 62 0.41
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (77 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
GCAGGCTTCGTG
Found at i:30847983 original size:39 final size:39
Alignment explanation
Indices: 30847900--30848174 Score: 453
Period size: 39 Copynumber: 7.1 Consensus size: 39
30847890 ATGCAAGACA
30847900 CTGGAAATGTATCCGGGCTAAAGTCCCGC-GGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
30847938 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30847977 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
30848016 CTGGAAATATATCAGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30848055 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
30848094 CTGGAAATGTATCCGGGCCAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
30848133 ATGGAAATGTATCCGGGTTAAAGTCTCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30848172 CTG
1 CTG
30848175 ATAATATAAT
Statistics
Matches: 219, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
38 28 0.13
39 191 0.87
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:30850873 original size:40 final size:40
Alignment explanation
Indices: 30850807--30850957 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
30850797 AAATTGAATG
* *
30850807 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
30850846 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
*
30850886 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
30850926 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
30850958 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:30850940 original size:80 final size:79
Alignment explanation
Indices: 30850807--30850957 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
30850797 AAATTGAATG
*
30850807 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
30850872 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * *
30850886 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
30850949 CATTTGTGC
63 CAATTGTGC
30850958 ACATGGTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 18 0.29
80 45 0.71
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:30858822 original size:127 final size:126
Alignment explanation
Indices: 30858631--30858952 Score: 475
Period size: 127 Copynumber: 2.5 Consensus size: 126
30858621 TATTTAGCCC
* * * *
30858631 AACGAAAAATCGAAACCCAGCACGGTAGGGCACGTTTCCTCGAATTTCCAAACATTGAACATTGC
1 AACGAGAAATCGAAACCCAGCACGATA-GGCACGATTCCCCGAATTTCCAAACATTGAACATTGC
*
30858696 CTTGCTTTAGAATTTAGAAAACACGAGTGAAATTCTAAAGGAATATTAAATTATTTTGAACA
65 CTTGCTTTAGAATTTAGAAAACACGAGTGAAATTCTAAAGGAATATTAAATCATTTTGAACA
* *
30858758 AACCG-GAAATCGAAACCTAGCACGATAGAGCACGATTCCCCGAATTTCCAAACATTGAATATTG
1 AA-CGAGAAATCGAAACCCAGCACGATAG-GCACGATTCCCCGAATTTCCAAACATTGAACATTG
* * *
30858822 CCTTGTTTTAGAATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCAATCATTTTGAACA
64 CCTTGCTTTAGAATTTAGAAAACACGAGTGAAATTCTAAAGGAATATTAAATCATTTTGAACA
* * **
30858885 AATGAGAAATCGAAACCCAGCACGATAGGACACGATTTCCCGAATTTCCAAACATCAAACATTGC
1 AACGAGAAATCGAAACCCAGCACGATAGG-CACGATTCCCCGAATTTCCAAACATTGAACATTGC
30858950 CTT
65 CTT
30858953 CGTTTTAAGG
Statistics
Matches: 175, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 3 0.02
127 170 0.97
128 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (126 bp):
AACGAGAAATCGAAACCCAGCACGATAGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCC
TTGCTTTAGAATTTAGAAAACACGAGTGAAATTCTAAAGGAATATTAAATCATTTTGAACA
Found at i:30863056 original size:9 final size:8
Alignment explanation
Indices: 30863021--30863056 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
30863011 TTATTTAATT
30863021 TTAAAATA
1 TTAAAATA
30863029 TTAAAATA
1 TTAAAATA
*
30863037 ATAAAATA
1 TTAAAATA
30863045 TTAAGAATA
1 TTAA-AATA
30863054 TTA
1 TTA
30863057 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
TTAAAATA
Found at i:30863073 original size:68 final size:70
Alignment explanation
Indices: 30862972--30863104 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 70
30862962 ATATTTATGT
30862972 TATTAAAATATTTATTATAAAATATTTAAAATTA-TATTATTAT-TTAATTTTAAAATATTAAAA
1 TATTAAAATATTTATTATAAAATATTTAAAATTATTATTA--ATGTTAATTTT-AAATATTAAAA
30863035 TAATAAAA
63 TAATAAAA
* *
30863043 TATTAAGAATA-TTATT-T-AAA-ATTTAAAATTATTATTAATGTTAATTTTTATTATTAAAATA
1 TATTAA-AATATTTATTATAAAATATTTAAAATTATTATTAATGTTAATTTTAAATATTAAAATA
30863104 A
65 A
30863105 AATTATAATG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
67 14 0.25
68 19 0.33
69 8 0.14
70 1 0.02
71 11 0.19
72 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (70 bp):
TATTAAAATATTTATTATAAAATATTTAAAATTATTATTAATGTTAATTTTAAATATTAAAATAA
TAAAA
Found at i:30863075 original size:20 final size:21
Alignment explanation
Indices: 30863020--30863078 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 21
30863010 ATTATTTAAT
30863020 TTTAAAATATTAA-AATA--A
1 TTTAAAATATTAAGAATATTA
30863038 --TAAAATATTAAGAATATTA
1 TTTAAAATATTAAGAATATTA
30863057 TTTAAAAT-TTAA-AATTATTA
1 TTTAAAATATTAAGAA-TATTA
30863077 TT
1 TT
30863079 AATGTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
19 3 0.09
20 11 0.31
21 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAAATATTAAGAATATTA
Found at i:30865378 original size:26 final size:25
Alignment explanation
Indices: 30865342--30865451 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 25
30865332 TGATACAAAT
30865342 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
30865368 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
* *
30865394 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATG-TTCA
*
30865420 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
30865446 TGATAA
1 TGATAA
30865452 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:30865406 original size:52 final size:52
Alignment explanation
Indices: 30865342--30865451 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
30865332 TGATACAAAT
30865342 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
* ** * *
30865394 TGATAATGGGTTAGGTAAATGTTTTATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
30865446 TGATAA
1 TGATAA
30865452 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
Found at i:30871204 original size:26 final size:25
Alignment explanation
Indices: 30871142--30871249 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
30871132 TGATACAAAT
30871142 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
30871167 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
* *
30871193 TGATAATGGGTTAGGTAAATGTTTA
1 TGATAATAGGTTAGGTAAATGTTCA
*
30871218 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
30871244 TGATAA
1 TGATAA
30871250 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 45 0.58
26 33 0.42
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:30871205 original size:51 final size:51
Alignment explanation
Indices: 30871142--30871249 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
30871132 TGATACAAAT
30871142 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
* * * *
30871193 TGATAATGGGTTAGGTAAATGTTTATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
30871244 TGATAA
1 TGATAA
30871250 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:30877843 original size:15 final size:17
Alignment explanation
Indices: 30877812--30877846 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
30877802 AAAAATATTA
30877812 TTTACTATTTAATAAAG
1 TTTACTATTTAATAAAG
30877829 TTTA-TATTT-ATAAAG
1 TTTACTATTTAATAAAG
30877844 TTT
1 TTT
30877847 TGATAATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTACTATTTAATAAAG
Found at i:30878250 original size:4 final size:4
Alignment explanation
Indices: 30878241--30878274 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
30878231 AAAATTTTAA
*
30878241 AAAT AAAT AAAT AAA- CAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
30878275 CAATCATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:30878262 original size:15 final size:14
Alignment explanation
Indices: 30878238--30878270 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
30878228 TAAAAAATTT
30878238 TAAAAATAAATAAA
1 TAAAAATAAATAAA
30878252 TAAACAATAAATAAA
1 TAAA-AATAAATAAA
30878267 TAAA
1 TAAA
30878271 TAAACAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAATAAATAAA
Found at i:30878265 original size:19 final size:19
Alignment explanation
Indices: 30878241--30878278 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30878231 AAAATTTTAA
30878241 AAATAAATAAATAAACAAT
1 AAATAAATAAATAAACAAT
30878260 AAATAAATAAATAAACAAT
1 AAATAAATAAATAAACAAT
30878279 CATGCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAATAAATAAACAAT
Found at i:30878745 original size:15 final size:16
Alignment explanation
Indices: 30878720--30878749 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30878710 ACTGAATGTG
30878720 TTGTACCAGCCCACTT
1 TTGTACCAGCCCACTT
30878736 TTGT-CCAGCCCACT
1 TTGTACCAGCCCACT
30878750 AAACTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.40, G:0.13, T:0.30
Consensus pattern (16 bp):
TTGTACCAGCCCACTT
Found at i:30879897 original size:3 final size:3
Alignment explanation
Indices: 30879889--30880475 Score: 112
Period size: 3 Copynumber: 193.7 Consensus size: 3
30879879 TATCATTTAC
* *
30879889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
30879937 TTA -TA CTT- GTA CTTA -TA TTTA TT- TTA TTC TAA TGCCA TTT TTA
1 TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA T--TA TTA TTA
* * * **
30879980 TTA CTA TT- TCCA TTA TTA TTA TTA TTA TTA TTA TATA TATA CATA TCC
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA
* * * * *
30880028 TTT TTA CTA TT- TTT TTA TACA TATA TTA TT- TATA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
30880074 TTA TTA CTA TTA TTA CTA TT- TCTT TTA TGT- CTA TT- TTT TTGA -TA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TT-A TTA
* * * * * * *
30880118 TTA TTA TTA TAA TCTCG TT- TCA TTA TTA TCA TTC TTA TTA ATA -CA
1 TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
30880163 TTA TTA CTA TTA TTT TTA TTT TTA TTT TTA TTA CTA TTC TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * ** *
30880209 TTA TTA CTA CTA CTG TTA TTT TTA TTA ACA -TA TTA TT- TT- TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
30880254 -TA TTA TTA TT- TCCTA TT- TTT TTA TATA TTA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA T--TA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A T-TA
* * * * *
30880301 CTA TTA TTT TCTA TTTA TTA CTA TTA -TA TTTA TTA CTA TTA TTA ATA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * * *
30880348 TT- TTT TTCT TTA ATA CTA TCA GTA TTA TTA -TA TTA TT- TGTC TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
30880392 TTAA TGTA CTA TTA TTA TT- TCCTA CTTA GCTA TTA TTA CTA TTA TTA
1 TT-A T-TA TTA TTA TTA TTA T--TA -TTA -TTA TTA TTA TTA TTA TTA
* * * * *
30880439 TTT TTA CTA TTA TAA TTA TTA TTA ATC TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30880476 CTCTTACATT
Statistics
Matches: 422, Mismatches: 107, Indels: 110
0.66 0.17 0.17
Matches are distributed among these distances:
2 41 0.10
3 326 0.77
4 47 0.11
5 7 0.02
6 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30880307 original size:20 final size:20
Alignment explanation
Indices: 30880282--30880327 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
30880272 TTTTATATAT
30880282 TATTATTAT-TATTAATGTAC
1 TATTATTATCTATTAAT-TAC
* *
30880302 TATTATTTTCTATTTATTAC
1 TATTATTATCTATTAATTAC
30880322 TATTAT
1 TATTAT
30880328 ATTTATTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTATCTATTAATTAC
Found at i:30880338 original size:35 final size:36
Alignment explanation
Indices: 30880266--30880343 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
30880256 TTATTATTTC
*
30880266 CTATT-TTTTTATATATTATTATTATTATTAATGTA
1 CTATTATTTTTATATATTACTATTATTATTAATGTA
* *
30880301 CTATTATTTTCTATTTATTACTATTA-TATTTAT-TA
1 CTATTATTTT-TATATATTACTATTATTATTAATGTA
30880336 CTATTATT
1 CTATTATT
30880344 AATATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 15 0.39
36 10 0.26
37 13 0.34
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (36 bp):
CTATTATTTTTATATATTACTATTATTATTAATGTA
Found at i:30883471 original size:2 final size:2
Alignment explanation
Indices: 30883464--30883498 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30883454 TCATTCATTT
30883464 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30883499 TTTCTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30883533 original size:3 final size:3
Alignment explanation
Indices: 30883525--30883582 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
30883515 CTGACTTTAT
*
30883525 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
30883573 TCA TTA TTA T
1 TTA TTA TTA T
30883583 ATCATTACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30885089 original size:132 final size:130
Alignment explanation
Indices: 30884852--30885352 Score: 431
Period size: 132 Copynumber: 3.8 Consensus size: 130
30884842 TTCACAATTA
* * * * *
30884852 TTAAAAATTCTTTAAAATGAAGACGAGACTCGATATTTGGCAATTC-ACGGAATAGTGCCCTAAC
1 TTAAAAACTCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGA-GGAATAGTGCCCTATC
* * * *
30884916 GTGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCATAATTTCACTCATGC
65 ATGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCA-AATTTCACTCATG-
*
30884981 CTT
128 TTT
* *
30884984 TTAAAAATTATTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
1 TTAAAAACTCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
* * * **
30885049 TGCTGGGTTATAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTT
66 TGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCA-AATTTCACTCATGTT
30885114 T
130 T
* * * * * *
30885115 ATTAAAAAC-CTTTCAATAC-AA-AGGATGTTCGATGTTTGGCAATTTGA-GAATCGTGCCCTAT
1 -TTAAAAACTCTTT-AAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTAT
* * * ** * * * * * * * * *
30885176 CGTGTTGGGTTGCGCTTTTTCATTTGTTCTAAACAATCGAAGATTCTTTCGAAATTTCATTCACG
64 CATGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTC-AAATTTCACTCATG
30885241 TTT
128 TTT
* * * * * *
30885244 TCTAAAAACCCTTTAAAACGAAAGAAG-TGTTCGATGTTTGGCAGTTCGGGGAATAGTGCCCTAT
1 T-TAAAAACTCTTTAAAACG-AAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTAT
* * * * *
30885308 CATGCTGGGCTGCAATCTCCCGTTTG-TCCAAAATAATCGAATATC
64 CATGCTGGGTTACAATTTCTCGTTTGCT-CAAAACAATCGAATATC
30885353 TATCCGAAAT
Statistics
Matches: 298, Mismatches: 60, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
128 1 0.00
129 73 0.24
130 27 0.09
131 29 0.10
132 167 0.56
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
TTAAAAACTCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
TGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAATTTCACTCATGTTT
Found at i:30897055 original size:49 final size:46
Alignment explanation
Indices: 30896983--30897383 Score: 149
Period size: 45 Copynumber: 8.9 Consensus size: 46
30896973 GATCAAATAT
* *
30896983 AACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAA
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-TAA
* * * *
30897030 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-T----TAA
1 A--ACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTAA
* *
30897073 AACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-AC
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTAA
*** * ** ** * * *
30897118 GGTAAATCTTGCCTTTCTGAATTTGCAGT-GAAGCAGATTTAAG--C
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGTAA
* * * * * * ** ** *
30897162 CAC-CATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG-AT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTAA
*** * * * * *
30897206 TGTAGATCTTGTTTCCCTG-AGATTGCAGTGGAGCAGA-TCAAATATA
1 AACAGATCTTATCTCCCTGAAG-TTGCAGTGGAACAGATTGAAGTA-A
*
30897252 GAA-A-ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAA
1 -AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-TAA
* * * *
30897298 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T----CAA
1 A--ACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTAA
* * * *
30897341 AACAGATCTTGTCTCTCTGAAGTTACAGTGGAACAGATCGAAG
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
30897384 ACGATAAATC
Statistics
Matches: 257, Mismatches: 70, Indels: 55
0.67 0.18 0.14
Matches are distributed among these distances:
41 63 0.25
42 1 0.00
43 29 0.11
44 11 0.04
45 81 0.32
46 7 0.03
47 4 0.02
48 3 0.01
49 58 0.23
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (46 bp):
AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTAA
Found at i:30897082 original size:90 final size:88
Alignment explanation
Indices: 30896983--30897384 Score: 330
Period size: 90 Copynumber: 4.5 Consensus size: 88
30896973 GATCAAATAT
* *
30896983 AACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AAATTACAGATCTTATCTCT
* *
30897048 CTAAAGTTGCAGTAGAGCAGATTAA
64 CTGAAGTTGCAGTAGAGCAGATCAA
* *** ** *
30897073 AACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATTGAAGACGGTA-A-ATCTTGCCTTTCT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAATTACAGATCTTATCTCTCT
* *
30897136 GAATTTGCAGT-GAAGCAGATTTAA
66 GAAGTTGCAGTAG-AGCAGA-TCAA
** * * * * * ** ** ** * * *
30897160 GCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG--ATTGTAGATCTTGTTTCCC
1 AACA-GATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAATTACAGATCTTATCTCTC
*
30897223 TG-AGATTGCAGTGGAGCAGATCAA
65 TGAAG-TTGCAGTAGAGCAGATCAA
* *
30897247 ATATAGAAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTAT
1 A-ACAG---ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AAATTACAGATCTTAT
30897312 CTCTCTGAAGTTGCAGTAGAGCAGATCAA
60 CTCTCTGAAGTTGCAGTAGAGCAGATCAA
* * * *
30897341 AACAGATCTTGTCTCTCTGAAGTTACAGTGGAACAGATCGAAGA
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGA
30897385 CGATAAATCT
Statistics
Matches: 239, Mismatches: 57, Indels: 34
0.72 0.17 0.10
Matches are distributed among these distances:
85 1 0.00
86 26 0.11
87 12 0.05
88 57 0.24
89 1 0.00
90 102 0.43
93 3 0.01
94 35 0.15
95 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
AACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAATTACAGATCTTATCTCTCT
GAAGTTGCAGTAGAGCAGATCAA
Found at i:30897096 original size:41 final size:41
Alignment explanation
Indices: 30897033--30897111 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
30897023 AAGCTAAATT
* *
30897033 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
1 ACAGATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
* * *
30897074 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATT
1 ACAGATCTTATCTCCCTAAAGTTGCAGTAGAACAGATT
30897112 GAAGACGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (41 bp):
ACAGATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
Found at i:30897234 original size:88 final size:89
Alignment explanation
Indices: 30896871--30897243 Score: 233
Period size: 88 Copynumber: 4.2 Consensus size: 89
30896861 GCTTCCTAAT
** * * ** *
30896871 GTTGCAGTGAAGCAGATTTATGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
1 GTTGCAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
30896936 ATTGTAGATCTTGTTTCCCTGAGA
66 ATTGTAGATCTTGTTTCCCTGAGA
* * ** ** * * * * *
30896960 -TTGTAGTGGAGCAGATCAAATATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGA
1 GTTGCAGTGAAGCAGATTTAA-ACCAC-CATCCTATCTCCCTAAAGTTGCAGTGGAACAGACTGA
** * * * *
30897024 AGCTAAATTACAGATCTTATCTCTCT-AAA
64 AG----ATTGTAGATCTTGTTTCCCTGAGA
* * * * * *
30897053 GTTGCAGT-AGAGCAGA-TTAAAACA-GATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATTGAA
1 GTTGCAGTGA-AGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGCAGTGGAACAGACTGAA
** *
30897115 GACGGTAAATCTTGCCTTT--CTGA-A
65 GATTGTAGATCTTG--TTTCCCTGAGA
* * * * ** *
30897139 TTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
1 GTTGCAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
30897204 ATTGTAGATCTTGTTTCCCTGAGA
66 ATTGTAGATCTTGTTTCCCTGAGA
*
30897228 -TTGCAGTGGAGCAGAT
1 GTTGCAGTGAAGCAGAT
30897244 CAAATATAGA
Statistics
Matches: 210, Mismatches: 57, Indels: 35
0.70 0.19 0.12
Matches are distributed among these distances:
86 26 0.12
87 8 0.04
88 75 0.36
89 3 0.01
90 65 0.31
92 2 0.01
93 4 0.02
94 27 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (89 bp):
GTTGCAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
ATTGTAGATCTTGTTTCCCTGAGA
Found at i:30897295 original size:268 final size:268
Alignment explanation
Indices: 30896806--30897434 Score: 1021
Period size: 268 Copynumber: 2.3 Consensus size: 268
30896796 GATCAATTCT
* * * * ** * *
30896806 ACAGACCTTGTTTCCCTG-AGATTGCAGTGGAGCAGATCGAAAACGGCGAATCTAGGCTTCCT-A
1 ACAGATCTTGTCTCCCTGAAG-TTGCAGTGGAACAGATCGAAGACGGTAAATCTTGCCTTCCTGA
* *
30896869 ATGTTGCAGTGAAGCAGATTTATGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
65 AT-TTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGA
*
30896934 AGATTGTAGATCTTGTTTCCCTGAGATTGTAGTGGAGCAGATCAAATATAACAAATCTTATTTCC
129 AGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAACAAATCTTATTTCC
30896999 CTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGA
194 CTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGA
*
30897064 GCAGATTAAA
259 GCAGATCAAA
* *
30897074 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATTGAAGACGGTAAATCTTGCCTTTCTGAA
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
30897139 TTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
66 TTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
30897204 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGA-AAATCTTATTTCCC
131 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATA-ACAAATCTTATTTCCC
*
30897268 TGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAG
195 TGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAG
30897333 CAGATCAAA
260 CAGATCAAA
* * *
30897342 ACAGATCTTGTCTCTCTGAAGTTACAGTGGAACAGATCGAAGACGATAAATCTTGCCTTCCTGAA
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
* * *
30897407 GTTGCAGTGAAACATATTTAAGCCACCA
66 TTTGCAGTGAAGCAGATTTAAGCCACCA
30897435 AGCCTTAATC
Statistics
Matches: 335, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
268 329 0.98
269 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (268 bp):
ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
TTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAACAAATCTTATTTCCCT
GAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGC
AGATCAAA
Found at i:30897358 original size:41 final size:41
Alignment explanation
Indices: 30897301--30897379 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30897291 AAGCTAAATT
* *
30897301 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA
1 ACAGATCTTATCTCTCTGAAGTTACAGTAGAACAGATCAAA
* *
30897342 ACAGATCTTGTCTCTCTGAAGTTACAGTGGAACAGATC
1 ACAGATCTTATCTCTCTGAAGTTACAGTAGAACAGATC
30897380 GAAGACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
ACAGATCTTATCTCTCTGAAGTTACAGTAGAACAGATCAAA
Found at i:30897497 original size:89 final size:89
Alignment explanation
Indices: 30897389--30897563 Score: 298
Period size: 89 Copynumber: 2.0 Consensus size: 89
30897379 CGAAGACGAT
* * *
30897389 AAATCTTGCCTTCCTGAAGTTGCAGTGAAACATATTTAAGCCACCAAGCCTTAATCCCCTAAGC-
1 AAATCTTGCCTTCCTGAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCG
30897453 AGTAGGGTAATAGGCTGAAAATTAC
66 A-TAGGGTAATAGGCTGAAAATTAC
*
30897478 AAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCG
1 AAATCTTGCCTTCCTGAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCG
30897543 ATAGGGTAATAGGCTGAAAAT
66 ATAGGGTAATAGGCTGAAAAT
30897564 CACTAGTCTT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 80 0.99
90 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (89 bp):
AAATCTTGCCTTCCTGAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCG
ATAGGGTAATAGGCTGAAAATTAC
Found at i:30897590 original size:89 final size:89
Alignment explanation
Indices: 30897389--30897600 Score: 255
Period size: 89 Copynumber: 2.4 Consensus size: 89
30897379 CGAAGACGAT
* * * * * * * *
30897389 AAATCTTGCCTTCCTGAAGTTGCAGTGAAACATATTTAAGCCACCAAGCCTTAATCCCCTAAGCA
1 AAATCTTACCTCCCTAAAATTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCA
*
30897454 GTAGGGTAATAGGCTGAAAATTAC
66 GTAGGGTAATAGGCTGAAAATCAC
* * * *
30897478 AAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGC-
1 AAATCTTACCTCCCTAAAATTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCA
30897542 GATAGGGTAATAGGCTGAAAATCAC
66 G-TAGGGTAATAGGCTGAAAATCAC
* * * *
30897567 TAGTCTTATCTCCCTAAAATTGCAGTGGAGCAGA
1 AAATCTTACCTCCCTAAAATTGCAGTGAAGCAGA
30897601 CTGAAGACAG
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 1 0.01
89 108 0.99
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (89 bp):
AAATCTTACCTCCCTAAAATTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCA
GTAGGGTAATAGGCTGAAAATCAC
Found at i:30899531 original size:3 final size:3
Alignment explanation
Indices: 30899511--30899601 Score: 121
Period size: 3 Copynumber: 30.3 Consensus size: 3
30899501 CTCACTTTAT
* * *
30899511 TTA TTA TCA TCA TCA TTA TTA TTGA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* *
30899556 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30899602 ATCATTACTA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 1 0.01
3 78 0.98
4 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30901081 original size:132 final size:130
Alignment explanation
Indices: 30900844--30901355 Score: 430
Period size: 132 Copynumber: 4.0 Consensus size: 130
30900834 TTCACAATTA
* * * * * * *
30900844 TTAAAAATTCTTTAAAATGAAGACGAGACTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
1 TTAAAAATCCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
* * *
30900909 TGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCC
66 TGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCACTCATG--
30900974 TT
129 TT
*
30900976 TTAAAAATTCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
1 TTAAAAATCCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
* * * ***
30901041 TGCTGGGTTATAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATG-T
66 TGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTT
* * * * * *
30901105 TT--AAA-CCTTTCAATAC-AA-AGGATGTTCGATGTTTGGCAATTTGA-GAATCGTGCCCTATC
1 TTAAAAATCCTTT-AAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATC
* * * ** * * * * * * * * *
30901164 GTGTTGGGTTGCGTTTTTTCATTTGTTCTAAACAATCGAAGATTCCTTCGAAATTTCATTCACGT
65 ATGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCACTCATG-
30901229 TT
129 TT
* * * * * * *
30901231 TCTAAAAACCCTTTAAAACGAAAGAAG-TGTTCGATGTTTGGCAGTTCGGGGAATAATGCCCTAT
1 T-TAAAAATCCTTTAAAACG-AAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTAT
* * * * * * * *
30901295 CATGCTGGGCTGCAATCTCCCGTTTG-TCCAAAATAATCGAATATCTCTCCGAAATTTCACT
64 CATGCTGGGTTACAATTTCTCGTTTGCT-CAAAACAATCGAATATCCCTTCAAAATTTCACT
30901356 TGTATTTTCC
Statistics
Matches: 305, Mismatches: 63, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
124 60 0.20
125 22 0.07
126 8 0.03
127 8 0.03
129 10 0.03
130 5 0.02
131 22 0.07
132 170 0.56
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (130 bp):
TTAAAAATCCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCA
TGCTGGGTTACAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTT
Found at i:30901355 original size:256 final size:257
Alignment explanation
Indices: 30900873--30901355 Score: 537
Period size: 256 Copynumber: 1.9 Consensus size: 257
30900863 AAGACGAGAC
* *
30900873 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTCAA
1 TCGATATTTGGCAATTCGCAGAATAGTGCCCTAACGTGTTGGGTTACAATTTCGCATTTGCTCAA
* * * ** *
30900938 AATAATCGAATATCCCTTCAAAATTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGACGAT
66 AACAATCGAAGATCCCTTCAAAATTTCACTCACGCCTTTTAAAAACCCTTTAAAACGAAGAAGAT
* * * * *
30901003 ATTCGATATTTGGCAATTCGAGGAATAGTGCCCTATCATGCTGGGTTATAATTTCTCGTTTGCTC
131 ATTCGATATTTGGCAATTCGAGGAATAATGCCCTATCATGCTGGGCTACAATCTCCCGTTTGCTC
** **
30901068 AAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTAAACCTTTCAATACAAAGGATGT
196 AAAACAATCGAATATTCCTCGAGAATTTCACTCATGTTTAAACCTTTCAATACAAAGGATGT
* * * * * ** ** * *
30901130 TCGATGTTTGGCAATTTG-AGAATCGTGCCCTATCGTGTTGGGTTGCGTTTTTTCATTTGTTCTA
1 TCGATATTTGGCAATTCGCAGAATAGTGCCCTAACGTGTTGGGTTACAATTTCGCATTTGCTCAA
* * * *
30901194 AACAATCGAAGATTCCTTCGAAATTTCATTCACG-TTTTCTAAAAACCCTTTAAAACGAAAGAAG
66 AACAATCGAAGATCCCTTCAAAATTTCACTCACGCCTTT-TAAAAACCCTTTAAAACG-AAGAAG
* * * * *
30901258 -TGTTCGATGTTTGGCAGTTCGGGGAATAATGCCCTATCATGCTGGGCTGCAATCTCCCGTTTG-
129 ATATTCGATATTTGGCAATTCGAGGAATAATGCCCTATCATGCTGGGCTACAATCTCCCGTTTGC
*
30901321 TCCAAAATAATCGAATA-TCTCTCCGA-AATTTCACT
194 T-CAAAACAATCGAATATTC-CT-CGAGAATTTCACT
30901356 TGTATTTTCC
Statistics
Matches: 183, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
255 6 0.03
256 155 0.85
257 22 0.12
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (257 bp):
TCGATATTTGGCAATTCGCAGAATAGTGCCCTAACGTGTTGGGTTACAATTTCGCATTTGCTCAA
AACAATCGAAGATCCCTTCAAAATTTCACTCACGCCTTTTAAAAACCCTTTAAAACGAAGAAGAT
ATTCGATATTTGGCAATTCGAGGAATAATGCCCTATCATGCTGGGCTACAATCTCCCGTTTGCTC
AAAACAATCGAATATTCCTCGAGAATTTCACTCATGTTTAAACCTTTCAATACAAAGGATGT
Found at i:30910534 original size:132 final size:129
Alignment explanation
Indices: 30910069--30910539 Score: 423
Period size: 132 Copynumber: 3.6 Consensus size: 129
30910059 AAGACGAGAC
* * *
30910069 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTCAA
1 TCGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGTTGGGTTACAATTTCTCGTTTGCTCAA
* * * * * *
30910134 AATAATCGAATATCCCTTCAAAATTTCACTCATGCCTTTTAAAAATTCTTTAAAACG-AAGATGA
66 AACAATCGAATATTCCTT-TAAATTTCACTCATG-TTTTTAAAAA-CCTTTAAAACGAAAGAAG-
*
30910198 TAT
127 TGT
* * * *
30910201 TCGATATTTGGCAATTCGAGGAATAGTGCCCTATCATGCTGGGTTATAATTTCTCGTTTGCTCAA
1 TCGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGTTGGGTTACAATTTCTCGTTTGCTCAA
* ** * *
30910266 AACAATCAAATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAACCTTTCAATAC-AAAGGA-T
66 AACAATCGAATATTCCTTTA-AATTTCACTCATGTTT-TTAAAAACCTTT-AAAACGAAAGAAGT
30910329 GT
128 GT
* * * * * * * * * * *
30910331 TCGATGTTTGGCGATT-TGAGAATCGTGCCCTATCGTGTTGGGTTGCACTTTTTCATTTGTTCTA
1 TCGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGTTGGGTTACAATTTCTCGTTTGCTCAA
* * *
30910395 AACAATCGAAGATTCCTTTGAAATTTCATTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAGT
66 AACAATCGAATATTCCTTT-AAATTTCACTCATGTTTT-TAAAAA-CCTTTAAAACGAAAGAAGT
30910460 GT
128 GT
* * * * * * *
30910462 TCGATGTTTGGCAGTTTGGGGAATAATGCCCTATCGT-TCTGGGCTGCAATCTCTCGTTTG-TCC
1 TCGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGT-TGGGTTACAATTTCTCGTTTGCT-C
*
30910525 AAAATAATCGAATAT
64 AAAACAATCGAATAT
30910540 CTCTCCGGAA
Statistics
Matches: 272, Mismatches: 55, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
128 1 0.00
129 74 0.27
130 27 0.10
131 26 0.10
132 144 0.53
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (129 bp):
TCGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGTTGGGTTACAATTTCTCGTTTGCTCAA
AACAATCGAATATTCCTTTAAATTTCACTCATGTTTTTAAAAACCTTTAAAACGAAAGAAGTGT
Found at i:30912711 original size:18 final size:18
Alignment explanation
Indices: 30912690--30912812 Score: 138
Period size: 18 Copynumber: 6.8 Consensus size: 18
30912680 GGAATACGAC
30912690 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGT
* *
30912708 ACTATTCATGTATACGAT
1 ACTATTCACGTATACGGT
** **
30912726 ACTATTCATATATACGAC
1 ACTATTCACGTATACGGT
*
30912744 ACTATTCACGTATATGGT
1 ACTATTCACGTATACGGT
* *
30912762 ACTATTCACGTATATGGC
1 ACTATTCACGTATACGGT
*
30912780 ACTATTCACGTATATGGT
1 ACTATTCACGTATACGGT
* *
30912798 ACTGTTCATGTATAC
1 ACTATTCACGTATAC
30912813 AGTAGTTGGG
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (18 bp):
ACTATTCACGTATACGGT
Done.