Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 21 of 97
Found at i:9256979 original size:18 final size:17
Alignment explanation
Indices: 9256952--9256989 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9256942 TTTTACTAAT
9256952 TGTTATATCAAGA-ATTA
1 TGTTATATCAA-ATATTA
9256969 TGTTAATATCAAATATTA
1 TGTT-ATATCAAATATTA
9256987 TGT
1 TGT
9256990 GTTAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (17 bp):
TGTTATATCAAATATTA
Found at i:9261324 original size:123 final size:122
Alignment explanation
Indices: 9261105--9261349 Score: 456
Period size: 123 Copynumber: 2.0 Consensus size: 122
9261095 GAAAACAAAC
*
9261105 ACTTGCTTGGCTTTTTTTTTTTTTTTAAACTTTTTTTAGTAAAGTAGAATTGATTATGCAAAACG
1 ACTTGCTTGGCTTCTTTTTTTTTTTTAAACTTTTTTTAGTAAAGTAGAATTGATTATGCAAAACG
9261170 TGTTGAAATGCCATTGACAGAAAAGAAATGAAATTATATATGTTAATGACACCGAGT
66 TGTTGAAATGCCATTGACAGAAAAGAAATGAAATTATATATGTTAATGACACCGAGT
9261227 NACTTGTCTTGG-TTCTTTTTTTTTTTTAAACTTTTTTTAGTAAAGTAGAATTGATTATGCAAAA
1 -ACTTG-CTTGGCTTCTTTTTTTTTTTTAAACTTTTTTTAGTAAAGTAGAATTGATTATGCAAAA
9261291 CGTGTTGAAATGCCATTGACAGAAAAGAAATGAAATTATATATGTTAATGACACCGAGT
64 CGTGTTGAAATGCCATTGACAGAAAAGAAATGAAATTATATATGTTAATGACACCGAGT
9261350 TGCCTCCTTA
Statistics
Matches: 120, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
123 115 0.96
124 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (122 bp):
ACTTGCTTGGCTTCTTTTTTTTTTTTAAACTTTTTTTAGTAAAGTAGAATTGATTATGCAAAACG
TGTTGAAATGCCATTGACAGAAAAGAAATGAAATTATATATGTTAATGACACCGAGT
Found at i:9261740 original size:22 final size:22
Alignment explanation
Indices: 9261696--9261740 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9261686 TCTTAATAAA
* * *
9261696 TTTTAAAAATTTATTTAATTAT
1 TTTTAAAAATTGATGTAACTAT
*
9261718 TTTTAAAAATTGATGTGACTAT
1 TTTTAAAAATTGATGTAACTAT
9261740 T
1 T
9261741 ATGAATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTTAAAAATTGATGTAACTAT
Found at i:9266872 original size:17 final size:17
Alignment explanation
Indices: 9266850--9266884 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9266840 GACAAGTTTG
*
9266850 AGGAATTCTTATTCCTT
1 AGGAATTCCTATTCCTT
9266867 AGGAATTCCTATTCCTT
1 AGGAATTCCTATTCCTT
9266884 A
1 A
9266885 CCTTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (17 bp):
AGGAATTCCTATTCCTT
Found at i:9271413 original size:2 final size:2
Alignment explanation
Indices: 9271406--9271439 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9271396 ATCCTATCAC
9271406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9271440 GCATGCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9287169 original size:18 final size:18
Alignment explanation
Indices: 9287146--9287185 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9287136 ATATATTTAC
9287146 TTAA-TTGAGTTATCATGT
1 TTAATTTGA-TTATCATGT
*
9287164 TTAATTTTATTATCATGT
1 TTAATTTGATTATCATGT
9287182 TTAA
1 TTAA
9287186 ACGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (18 bp):
TTAATTTGATTATCATGT
Found at i:9287379 original size:12 final size:12
Alignment explanation
Indices: 9287347--9287400 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
9287337 TTAACTTTTG
*
9287347 ATAATTA-TTTG
1 ATAATTATTTTT
*
9287358 AT-ATTATTATT
1 ATAATTATTTTT
*
9287369 ATTATT-TTTATT
1 ATAATTATTT-TT
9287381 ATAATTATTTTT
1 ATAATTATTTTT
9287393 ATAATTAT
1 ATAATTAT
9287401 ATATTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 8 0.23
12 20 0.57
13 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
ATAATTATTTTT
Found at i:9287381 original size:15 final size:15
Alignment explanation
Indices: 9287361--9287407 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
9287351 TTATTTGATA
9287361 TTATTATTATTATTT
1 TTATTATTATTATTT
*
9287376 TTATTATAATTATTT
1 TTATTATTATTATTT
*
9287391 TTATAATTATATATTT
1 TTATTATTAT-TATTT
9287407 T
1 T
9287408 AAATTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 22 0.79
16 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:9288819 original size:2 final size:2
Alignment explanation
Indices: 9288812--9288873 Score: 94
Period size: 2 Copynumber: 32.0 Consensus size: 2
9288802 ACCCAACATC
9288812 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AGT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
9288853 AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
9288874 TAATTCCTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.05
2 51 0.91
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9296224 original size:27 final size:27
Alignment explanation
Indices: 9296180--9296311 Score: 129
Period size: 27 Copynumber: 4.9 Consensus size: 27
9296170 ATTTTGTTAT
* ** *
9296180 CATGACATGTAACGATTAAATTTTTAA
1 CATGACATATAATAATTAAATTTTCAA
*
9296207 CATGATATATAATAATTAAATTTTCAA
1 CATGACATATAATAATTAAATTTTCAA
* * *
9296234 CATGACGTATAATAATTACATTTTTTAA
1 CATGACATATAATAATTA-AATTTTCAA
* *
9296262 CATGACATGTAACAATTAAATTTTCAA
1 CATGACATATAATAATTAAATTTTCAA
* * * *
9296289 CATAACGTGTAACAATTAAATTT
1 CATGACATATAATAATTAAATTT
9296312 CAAAATATGG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 66 0.75
28 22 0.25
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (27 bp):
CATGACATATAATAATTAAATTTTCAA
Found at i:9296266 original size:55 final size:55
Alignment explanation
Indices: 9296189--9296311 Score: 167
Period size: 55 Copynumber: 2.3 Consensus size: 55
9296179 TCATGACATG
* * * *
9296189 TAACGATTAAA-TTTTTAACATGATATATAATAATTAAATTTTCAACATGACGTA
1 TAACAATTAAATTTTTTAACATGACATATAACAATTAAATTTTCAACATAACGTA
* * * *
9296243 TAATAATTACATTTTTTAACATGACATGTAACAATTAAATTTTCAACATAACGTG
1 TAACAATTAAATTTTTTAACATGACATATAACAATTAAATTTTCAACATAACGTA
9296298 TAACAATTAAATTT
1 TAACAATTAAATTT
9296312 CAAAATATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
54 8 0.14
55 50 0.86
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (55 bp):
TAACAATTAAATTTTTTAACATGACATATAACAATTAAATTTTCAACATAACGTA
Found at i:9296381 original size:78 final size:78
Alignment explanation
Indices: 9296297--9296444 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 78
9296287 AACATAACGT
* * * ** * *
9296297 GTAACAATTAAATTTCAAAATATGGTGTGTAACACTATATATTTCAATATAGTGTTAATAATATT
1 GTAACAACTAAATTTCAAAACATGATGTACAACACTATATATTTCAATATAGCGTTAATAACATT
9296362 TTTTTCACAAAAA
66 TTTTTCACAAAAA
* * * * *
9296375 GTAACAACTAAATTTTAAAACATTATGTACAATACTATATTTTTCAATATGGCGTTAATAACATT
1 GTAACAACTAAATTTCAAAACATGATGTACAACACTATATATTTCAATATAGCGTTAATAACATT
9296440 TTTTT
66 TTTTT
9296445 TAAAAAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (78 bp):
GTAACAACTAAATTTCAAAACATGATGTACAACACTATATATTTCAATATAGCGTTAATAACATT
TTTTTCACAAAAA
Found at i:9297615 original size:12 final size:12
Alignment explanation
Indices: 9297596--9297625 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9297586 CTGAAACCAG
9297596 TATATTTATTTA
1 TATATTTATTTA
*
9297608 TTTATTTATTTA
1 TATATTTATTTA
9297620 TATATT
1 TATATT
9297626 AGGGATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATATTTATTTA
Found at i:9301201 original size:2 final size:2
Alignment explanation
Indices: 9301194--9301230 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9301184 ATAATAAGTG
9301194 TA TA TA TA TA T- TA TA T- 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 TA TA T
9301231 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:9321474 original size:22 final size:22
Alignment explanation
Indices: 9321422--9321476 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9321412 GTATTGCATT
* *
9321422 ACTAATTTTTAAATATTGTGTC
1 ACTAGTTTTTAAATATTGTGAC
* *
9321444 ACT-GATTTTTAAGTATTGTGAG
1 ACTAG-TTTTTAAATATTGTGAC
9321466 ACTAGTTTTTA
1 ACTAGTTTTTA
9321477 GGCATTGCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (22 bp):
ACTAGTTTTTAAATATTGTGAC
Found at i:9321595 original size:23 final size:23
Alignment explanation
Indices: 9321565--9321715 Score: 152
Period size: 23 Copynumber: 6.8 Consensus size: 23
9321555 AATGCCTAAA
9321565 AACTAGTCAAGCAATGCCTTACT
1 AACTAGTCAAGCAATGCCTTACT
* *
9321588 AACTAGTC-A-CATTGCCTTACA
1 AACTAGTCAAGCAATGCCTTACT
* * * *
9321609 AACCAATCATGCAATGCCTTATT
1 AACTAGTCAAGCAATGCCTTACT
*
9321632 AACTAGTC-A-CAATGCCTTATT
1 AACTAGTCAAGCAATGCCTTACT
**
9321653 AACTA-TTTA-CAATGCCTTACT
1 AACTAGTCAAGCAATGCCTTACT
*
9321674 AACTAGTCACGCAATGCCTTACT
1 AACTAGTCAAGCAATGCCTTACT
* *
9321697 AATTAGTCAAGTAATGCCT
1 AACTAGTCAAGCAATGCCT
9321716 ATTAACCAGT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.01
21 50 0.48
22 2 0.02
23 51 0.49
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (23 bp):
AACTAGTCAAGCAATGCCTTACT
Found at i:9321605 original size:21 final size:22
Alignment explanation
Indices: 9321565--9321715 Score: 155
Period size: 21 Copynumber: 6.8 Consensus size: 22
9321555 AATGCCTAAA
9321565 AACTAGTCAAGCAATGCCTTACT
1 AACTAGTC-AGCAATGCCTTACT
* *
9321588 AACTAGTCA-CATTGCCTTACA
1 AACTAGTCAGCAATGCCTTACT
* * *
9321609 AACCAATCATGCAATGCCTTATT
1 AACTAGTCA-GCAATGCCTTACT
*
9321632 AACTAGTCA-CAATGCCTTATT
1 AACTAGTCAGCAATGCCTTACT
* *
9321653 AACTATTTA-CAATGCCTTACT
1 AACTAGTCAGCAATGCCTTACT
9321674 AACTAGTCACGCAATGCCTTACT
1 AACTAGTCA-GCAATGCCTTACT
* *
9321697 AATTAGTCAAGTAATGCCT
1 AACTAGTC-AGCAATGCCT
9321716 ATTAACCAGT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
21 54 0.50
22 1 0.01
23 51 0.48
24 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (22 bp):
AACTAGTCAGCAATGCCTTACT
Found at i:9321623 original size:44 final size:42
Alignment explanation
Indices: 9321575--9321695 Score: 143
Period size: 44 Copynumber: 2.8 Consensus size: 42
9321565 AACTAGTCAA
*
9321575 GCAATGCCTTACTAACTAGTCACATTGCCTTACAAACCAATCAT
1 GCAATGCCTTACTAACTAGTCACAATGCCTTACAAA-CAAT-AT
* ** * *
9321619 GCAATGCCTTATTAACTAGTCACAATGCCTTATTAACTATTT
1 GCAATGCCTTACTAACTAGTCACAATGCCTTACAAACAATAT
*
9321661 ACAATGCCTTACTAACTAGTCACGCAATGCCTTAC
1 GCAATGCCTTACTAACTAGTCA--CAATGCCTTAC
9321696 TAATTAGTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 21 0.32
43 3 0.05
44 42 0.64
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (42 bp):
GCAATGCCTTACTAACTAGTCACAATGCCTTACAAACAATAT
Found at i:9321649 original size:65 final size:66
Alignment explanation
Indices: 9321565--9321715 Score: 178
Period size: 65 Copynumber: 2.3 Consensus size: 66
9321555 AATGCCTAAA
* *
9321565 AACTAGTCAAGCAATGCCTTACTAACTAGTCACATTGCCTTACAAACCAATCATGCAATGCCTTA
1 AACTAGTC-AGCAATGCCTTACTAACTAGTCACAATGCCTTACAAACCAATCACGCAATGCCTTA
*
9321630 TT
65 CT
* * * * * *
9321632 AACTAGTCA-CAATGCCTTATTAACTATTTACAATGCCTTACTAACTAGTCACGCAATGCCTTAC
1 AACTAGTCAGCAATGCCTTACTAACTAGTCACAATGCCTTACAAACCAATCACGCAATGCCTTAC
9321696 T
66 T
* *
9321697 AATTAGTCAAGTAATGCCT
1 AACTAGTC-AGCAATGCCT
9321716 ATTAACCAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
65 54 0.76
66 2 0.03
67 15 0.21
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (66 bp):
AACTAGTCAGCAATGCCTTACTAACTAGTCACAATGCCTTACAAACCAATCACGCAATGCCTTAC
T
Found at i:9321807 original size:22 final size:21
Alignment explanation
Indices: 9321782--9321859 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
9321772 ACGCAATGCG
*
9321782 TAAAAACTAATCATGTAATACC
1 TAAAAACT-ATCATGCAATACC
* *
9321804 TAAAAACCTATTATGCAATGCC
1 TAAAAA-CTATCATGCAATACC
* * *
9321826 TAAAAACCGATTATGCAATGCC
1 TAAAAA-CTATCATGCAATACC
*
9321848 TAAAAACCATCA
1 TAAAAACTATCA
9321860 AAACTGCTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
21 4 0.08
22 43 0.88
23 2 0.04
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (21 bp):
TAAAAACTATCATGCAATACC
Found at i:9322034 original size:60 final size:60
Alignment explanation
Indices: 9321960--9322085 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
9321950 ACAAAGAATA
* *
9321960 CTTAAAATGCTCAAAAGTTTTTCTTCAT-AATAAAAAACCATTCCAAAATGCTTAAAAATG
1 CTTAAAACGCTCAAAAGTTTTTCTTCATGAATAAAAAACCACTCCAAAATGC-TAAAAATG
* * * * * *
9322020 CTTAAAACGCTCAAAGGTTTTTTTTCGTGTATAAAAAATCACTCCAAAATGCTCAAAATG
1 CTTAAAACGCTCAAAAGTTTTTCTTCATGAATAAAAAACCACTCCAAAATGCTAAAAATG
9322080 CTTAAA
1 CTTAAA
9322086 GATTTTTCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 37 0.65
61 20 0.35
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (60 bp):
CTTAAAACGCTCAAAAGTTTTTCTTCATGAATAAAAAACCACTCCAAAATGCTAAAAATG
Found at i:9322992 original size:22 final size:23
Alignment explanation
Indices: 9322964--9323043 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
9322954 CAAAGTTACA
9322964 CAATGCC-TAAAAACTAGTCACG
1 CAATGCCTTAAAAACTAGTCACG
*
9322986 CAATGCCTTACTAAAC-AGTCACG
1 CAATGCCTTA-AAAACTAGTCACG
**
9323009 CAATGCCTTACTAACTAGTCAC-
1 CAATGCCTTAAAAACTAGTCACG
*
9323031 CAATACC-TAAAAA
1 CAATGCCTTAAAAA
9323044 TCAATTATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
21 4 0.08
22 16 0.33
23 25 0.51
24 4 0.08
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (23 bp):
CAATGCCTTAAAAACTAGTCACG
Found at i:9323009 original size:23 final size:24
Alignment explanation
Indices: 9322974--9323034 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 24
9322964 CAATGCCTAA
9322974 AAACTAGTCACGCAATGCCTTACT
1 AAACTAGTCACGCAATGCCTTACT
9322998 AAAC-AGTCACGCAATGCCTTACT
1 AAACTAGTCACGCAATGCCTTACT
9323021 -AACTAGTCAC-CAAT
1 AAACTAGTCACGCAAT
9323035 ACCTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.19
23 25 0.69
24 4 0.11
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (24 bp):
AAACTAGTCACGCAATGCCTTACT
Found at i:9323101 original size:22 final size:22
Alignment explanation
Indices: 9323058--9323110 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9323048 TTATATAATG
***
9323058 TTTAAAAACTAATCATGTAATA
1 TTTAAAAACTAATCACACAATA
*
9323080 TTTAAAAACTAGTCACACAATA
1 TTTAAAAACTAATCACACAATA
*
9323102 TCTAAAAAC
1 TTTAAAAAC
9323111 CGATTACGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (22 bp):
TTTAAAAACTAATCACACAATA
Found at i:9336548 original size:69 final size:69
Alignment explanation
Indices: 9336390--9336589 Score: 244
Period size: 69 Copynumber: 2.9 Consensus size: 69
9336380 TAAGATATCT
* * * * *
9336390 TTTGAATA-GAGGTATCTTTCCAACAATCACTTTATCAAGAGACAACTTTTTATATTGAAAGACA
1 TTTGAATAGGA-GTGTCTTTCCAATAGTCACTTTATTAAGAGACAACTTTTTATATTGAAAGAAA
9336454 TAACC
65 TAACC
9336459 TTTGAATAGGAGTGTCTTTCCAATAGTCACTTTATTAAGAGACAACTTTTTATATTGAAAGAAAT
1 TTTGAATAGGAGTGTCTTTCCAATAGTCACTTTATTAAGAGACAACTTTTTATATTGAAAGAAAT
*
9336524 AGCC
66 AACC
* * * *
9336528 TTTGAATTA-GAGATGT-TTTCCGATAGTCACTTTATTACGGGACATAACTTTTTATTTTGAAA
1 TTTGAA-TAGGAG-TGTCTTTCCAATAGTCACTTTATTAAGAGAC--AACTTTTTATATTGAAA
9336590 ACACACCAAC
Statistics
Matches: 116, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
69 93 0.80
70 7 0.06
71 16 0.14
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (69 bp):
TTTGAATAGGAGTGTCTTTCCAATAGTCACTTTATTAAGAGACAACTTTTTATATTGAAAGAAAT
AACC
Found at i:9339676 original size:26 final size:26
Alignment explanation
Indices: 9339640--9339704 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
9339630 TAAACTTTGT
9339640 TTGGATTTGCTTCGTTTTACCCTTGC
1 TTGGATTTGCTTCGTTTTACCCTTGC
9339666 TTGGATTTGCTTCGTTTTACCCTTGC
1 TTGGATTTGCTTCGTTTTACCCTTGC
9339692 TTGGATTTGCTTC
1 TTGGATTTGCTTC
9339705 TCTTGCAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.51
Consensus pattern (26 bp):
TTGGATTTGCTTCGTTTTACCCTTGC
Found at i:9350193 original size:25 final size:25
Alignment explanation
Indices: 9350165--9350250 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
9350155 CATAGTCGGA
9350165 CATCCCATCTCACCCAGCTCATGTG
1 CATCCCATCTCACCCAGCTCATGTG
* * ** * *
9350190 CATCCCATCACATCGTGCACATATCCGG
1 CATCCCATCTCACCCAGCTCATGT---G
*
9350218 ACATCCCATCTCACCCAGCTCATGCG
1 -CATCCCATCTCACCCAGCTCATGTG
9350244 CATCCCA
1 CATCCCA
9350251 CCACATCGTG
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
25 25 0.57
26 1 0.02
28 1 0.02
29 17 0.39
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (25 bp):
CATCCCATCTCACCCAGCTCATGTG
Found at i:9350202 original size:54 final size:54
Alignment explanation
Indices: 9350116--9350270 Score: 258
Period size: 54 Copynumber: 2.9 Consensus size: 54
9350106 TCATCATATG
* *
9350116 CATCTCACCCAGCTCATGCGCATCCGACCACATCGTACACATAGTCGGACATCC
1 CATCTCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGTCGGACATCC
* *
9350170 CATCTCACCCAGCTCATGTGCATCCCATCACATCGTGCACATA-TCCGGACATCC
1 CATCTCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGT-CGGACATCC
9350224 CATCTCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGTCG
1 CATCTCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGTCG
9350271 AACAGTATCA
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGTCGGACATCC
Found at i:9350387 original size:2 final size:2
Alignment explanation
Indices: 9350380--9350406 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9350370 TATGACATAG
9350380 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9350407 CAACNGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9350455 original size:70 final size:69
Alignment explanation
Indices: 9350342--9350480 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 69
9350332 TACATGCACG
9350342 GTTGCATTTGTCACACAATGGTACCATTTATGACATAGTATATATATATATATATATATATATAT
1 GTTGCATTTGTCACACAATGGTACCATTTATGACATAGTATATATATATATATATATATATATAT
9350407 CAAC
66 CAAC
9350411 NGTTGCATTTGTCACACAATGGTACCATTTATGACATAGTATATATATATATATATATATATATA
1 -GTTGCATTTGTCACACAATGGTACCATTTATGACATAGTATATATATATATATATATATATATA
9350476 TCAAC
65 TCAAC
9350481 ATTATACAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (69 bp):
GTTGCATTTGTCACACAATGGTACCATTTATGACATAGTATATATATATATATATATATATATAT
CAAC
Found at i:9350457 original size:2 final size:2
Alignment explanation
Indices: 9350450--9350476 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9350440 TATGACATAG
9350450 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9350477 CAACATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9357582 original size:11 final size:11
Alignment explanation
Indices: 9357566--9357597 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
9357556 CAGACACGAC
9357566 AAACACGTTTA
1 AAACACGTTTA
9357577 AAACACGTTT-
1 AAACACGTTTA
9357587 AAACACGTTTA
1 AAACACGTTTA
9357598 CTTAATCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (11 bp):
AAACACGTTTA
Found at i:9357880 original size:32 final size:32
Alignment explanation
Indices: 9357837--9357914 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
9357827 GGAAGCCATT
* * *
9357837 ACCACCCGACCACCAGA-CCACGGCACCACAGC
1 ACCACCAGACCACCAAACCCA-AGCACCACAGC
* * *
9357869 ACCGCCAGACCACCAAACCCAAGCACGACGGC
1 ACCACCAGACCACCAAACCCAAGCACCACAGC
9357901 ACCACCAGACCACC
1 ACCACCAGACCACC
9357915 GGATATTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 35 0.92
33 3 0.08
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (32 bp):
ACCACCAGACCACCAAACCCAAGCACCACAGC
Found at i:9359028 original size:22 final size:22
Alignment explanation
Indices: 9359000--9359042 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9358990 TAACTTTTTC
9359000 TATATTGATTTAATTTTATTAA
1 TATATTGATTTAATTTTATTAA
* *
9359022 TATATTGTTTTTATTTTATTA
1 TATATTGATTTAATTTTATTA
9359043 TTAGGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TATATTGATTTAATTTTATTAA
Found at i:9359307 original size:20 final size:21
Alignment explanation
Indices: 9359267--9359315 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
9359257 ATATTAATTT
9359267 TTATTATATTTGATGTTATTA
1 TTATTATATTTGATGTTATTA
* *
9359288 TTATTATTTTTG-TTTTATTA
1 TTATTATATTTGATGTTATTA
*
9359308 TAATTATA
1 TTATTATA
9359316 GATTTTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
TTATTATATTTGATGTTATTA
Found at i:9359454 original size:52 final size:52
Alignment explanation
Indices: 9359390--9359499 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
9359380 GTGTCATTAA
*
9359390 TCGTGTCGTGTCTTATATTGACACGTTTAATAAACGTGTTAATCATGTCGTG
1 TCGTGTCGTGTCTTATATTGACACGTTTAATAAACATGTTAATCATGTCGTG
* * *
9359442 TTGTGTCGTGTCTTATATTGACACGTTTAATAAACATGTTTATCGTGTCGTG
1 TCGTGTCGTGTCTTATATTGACACGTTTAATAAACATGTTAATCATGTCGTG
9359494 TCGTGT
1 TCGTGT
9359500 TACATGTGTA
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:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (52 bp):
TCGTGTCGTGTCTTATATTGACACGTTTAATAAACATGTTAATCATGTCGTG
Found at i:9368876 original size:35 final size:35
Alignment explanation
Indices: 9368830--9368901 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
9368820 AGTTAGATTT
* * *
9368830 AGGTTTTGGTTGATCTTG-GTAAAAACCATTGTTAA
1 AGGTTGTGGTTGAGCTTGTG-AAAAACCATTGTAAA
*
9368865 AGGTTGTGGTTGAGCTTGTGAAAAGCCATTGTAAA
1 AGGTTGTGGTTGAGCTTGTGAAAAACCATTGTAAA
9368900 AG
1 AG
9368902 CTTGGTGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.35
Consensus pattern (35 bp):
AGGTTGTGGTTGAGCTTGTGAAAAACCATTGTAAA
Found at i:9369625 original size:18 final size:18
Alignment explanation
Indices: 9369602--9369649 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
9369592 TCTAATCATG
* *
9369602 AACAAAATTAAAGATCTA
1 AACAAAACTAAAGATCGA
*
9369620 AACAAAACCAAAGATCGA
1 AACAAAACTAAAGATCGA
*
9369638 AGCAAAACTAAA
1 AACAAAACTAAA
9369650 TTGAAGTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.17, G:0.08, T:0.12
Consensus pattern (18 bp):
AACAAAACTAAAGATCGA
Found at i:9374601 original size:65 final size:65
Alignment explanation
Indices: 9374461--9374583 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 65
9374451 TAACAAGTGG
* * *
9374461 TATCAAAGCAATGTTTACCAA-AGCTAAGTATTACAGTTAAAACCCTGTTGTGTTCTAACATTCC
1 TATCAAAGCAATGCTT-CCAAGAGCTAAGTACTACAGTTAAAACCCTATTGTGTTCTAACATTCC
9374525 T
65 T
*
9374526 TATCAAAGCAATGCTTCCAAGAGCTAAGTACTACAG-TAAGAATCCTATTGTGTTCTAA
1 TATCAAAGCAATGCTTCCAAGAGCTAAGTACTACAGTTAA-AACCCTATTGTGTTCTAA
9374584 TGTTCTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
64 7 0.13
65 45 0.87
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (65 bp):
TATCAAAGCAATGCTTCCAAGAGCTAAGTACTACAGTTAAAACCCTATTGTGTTCTAACATTCCT
Found at i:9377991 original size:41 final size:40
Alignment explanation
Indices: 9377941--9378034 Score: 93
Period size: 41 Copynumber: 2.3 Consensus size: 40
9377931 ATTAACATAT
* *
9377941 TAGGTTATTAAATT-GAACTATTGAGATATAATATATTATGA
1 TAGG-TATTAAATTAG-ACTACTAAGATATAATATATTATGA
** * *
9377982 TAGGCTATTAGGTTAGACTGCTAAGATATAATATGTTATGA
1 TAGG-TATTAAATTAGACTACTAAGATATAATATATTATGA
9378023 TAGGT-TTAAATT
1 TAGGTATTAAATT
9378035 TATATTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
39 5 0.12
40 1 0.02
41 36 0.84
42 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.40
Consensus pattern (40 bp):
TAGGTATTAAATTAGACTACTAAGATATAATATATTATGA
Found at i:9378303 original size:69 final size:70
Alignment explanation
Indices: 9378187--9378316 Score: 235
Period size: 69 Copynumber: 1.9 Consensus size: 70
9378177 TTGAAAAATA
*
9378187 AAACTAATTATTAAATAACAAATTATTTTGAAAGCCATTAAAAATATATATAATAAATAAAACTG
1 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAATAAATAAAACTG
9378252 TATTG
66 TATTG
*
9378257 AAACTAATTATTAAA-AAAAAATTATTTTGAAAGCCATTAAATATATATATAATAAATAAA
1 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAATAAATAAA
9378317 TTGTAATGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 43 0.74
70 15 0.26
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (70 bp):
AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAATAAATAAAACTG
TATTG
Found at i:9378705 original size:18 final size:17
Alignment explanation
Indices: 9378676--9378721 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
9378666 AACAAATGAG
9378676 TAAATAAAATAAAAATAAA
1 TAAAT-AAATAAAAAT-AA
*
9378695 TAAATAAATAATAATAA
1 TAAATAAATAAAAATAA
9378712 TAATATAAAT
1 TAA-ATAAAT
9378722 TGAAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATAAATAAAAATAA
Found at i:9382026 original size:21 final size:20
Alignment explanation
Indices: 9381987--9382026 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9381977 AAGTGAGTTA
* *
9381987 TTTTAATTTTATGTTATTTC
1 TTTTAATTTAATATTATTTC
9382007 TTTTAATTTAATTATTATTT
1 TTTTAATTTAA-TATTATTT
9382027 ATTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTAATTTAATATTATTTC
Found at i:9382035 original size:25 final size:25
Alignment explanation
Indices: 9381988--9382035 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9381978 AGTGAGTTAT
*
9381988 TTTAATTTTATGTTATTTCTTTTAA
1 TTTAATTTTATGTTATTACTTTTAA
*
9382013 TTTAATTATTAT-TTATTAGTTTT
1 TTTAATT-TTATGTTATTACTTTT
9382036 TTTGCAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTAATTTTATGTTATTACTTTTAA
Found at i:9383773 original size:22 final size:22
Alignment explanation
Indices: 9383747--9383788 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9383737 TTGAGTTGCT
*
9383747 CAAGGCAGTAGTGCCAAGGAGC
1 CAAGGCAGCAGTGCCAAGGAGC
* *
9383769 CAAGGCTGCAGTGCTAAGGA
1 CAAGGCAGCAGTGCCAAGGA
9383789 AAGCATGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.36, T:0.12
Consensus pattern (22 bp):
CAAGGCAGCAGTGCCAAGGAGC
Found at i:9384788 original size:11 final size:11
Alignment explanation
Indices: 9384772--9384797 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9384762 AAATAAGATT
9384772 AATTAGTCATG
1 AATTAGTCATG
9384783 AATTAGTCATG
1 AATTAGTCATG
9384794 AATT
1 AATT
9384798 TTAGTTCTTA
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (11 bp):
AATTAGTCATG
Found at i:9386967 original size:43 final size:43
Alignment explanation
Indices: 9386900--9386986 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
9386890 TTGTGTGATA
9386900 ATGAGGACCCAACTATGTGAGGTGTGGGAGTGCACATGAGTTG
1 ATGAGGACCCAACTATGTGAGGTGTGGGAGTGCACATGAGTTG
* * *
9386943 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGTTG
1 ATGAGGACCCAACTATGTGAGGTGTGGGAGTGCACATGAGTTG
9386986 A
1 A
9386987 GTGTGGCGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (43 bp):
ATGAGGACCCAACTATGTGAGGTGTGGGAGTGCACATGAGTTG
Found at i:9390231 original size:20 final size:20
Alignment explanation
Indices: 9390206--9390253 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9390196 AATAATAATC
9390206 AAATTAAAAGAAATAACATA
1 AAATTAAAAGAAATAACATA
* * *
9390226 AAATTAAAATAAATCACTTA
1 AAATTAAAAGAAATAACATA
*
9390246 AAAATAAA
1 AAATTAAA
9390254 CCAAGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATTAAAAGAAATAACATA
Found at i:9394865 original size:62 final size:62
Alignment explanation
Indices: 9394714--9394899 Score: 160
Period size: 62 Copynumber: 3.0 Consensus size: 62
9394704 GACTTAGCTA
* * * * * * * * * *
9394714 TCTATGAGTTGTAGTCCACCCCAACTTAAAACGGATAAGATATAGTCCCCGTATCTTGGATC
1 TCTATGAGTAGTAGTCCACACCAACTCATAACGAAGAGGGTATAGTTCCCTTATCTTGGATC
* * *
9394776 TCTATGAGTGGTAGTCCACCCCGACTCATAACGAAGAGGGTATAGTTCCCTTATCTTGGATC
1 TCTATGAGTAGTAGTCCACACCAACTCATAACGAAGAGGGTATAGTTCCCTTATCTTGGATC
* * * * * * *
9394838 TTTGTGA-TAGTAGTTCACAACCAACTCATAGCGAATAGGGTAT-GATCCATCTATCTTGGATC
1 TCTATGAGTAGTAGTCCAC-ACCAACTCATAACGAAGAGGGTATAGTTCCCT-TATCTTGGATC
9394900 CTTGAAGCTC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
61 14 0.14
62 88 0.86
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (62 bp):
TCTATGAGTAGTAGTCCACACCAACTCATAACGAAGAGGGTATAGTTCCCTTATCTTGGATC
Found at i:9401782 original size:9 final size:9
Alignment explanation
Indices: 9401768--9401816 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
9401758 AATAATACGT
9401768 TTAACACGA
1 TTAACACGA
* *
9401777 TTAACATGT
1 TTAACACGA
*
9401786 TTAACATGA
1 TTAACACGA
*
9401795 TTAACACGT
1 TTAACACGA
9401804 TTAACACGA
1 TTAACACGA
9401813 TTAA
1 TTAA
9401817 ATAAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (9 bp):
TTAACACGA
Found at i:9401789 original size:18 final size:18
Alignment explanation
Indices: 9401764--9401816 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
9401754 TATTAATAAT
9401764 ACGTTTAACACGATTAAC
1 ACGTTTAACACGATTAAC
* *
9401782 ATGTTTAACATGATTAAC
1 ACGTTTAACACGATTAAC
9401800 ACGTTTAACACGATTAA
1 ACGTTTAACACGATTAA
9401817 ATAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (18 bp):
ACGTTTAACACGATTAAC
Found at i:9403405 original size:24 final size:24
Alignment explanation
Indices: 9403378--9403430 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
9403368 AATACATATC
* *
9403378 AACCATGAACAATTCCAAACACCA
1 AACCATAAACAATACCAAACACCA
*
9403402 AACCATAAACAATACCTAACACCA
1 AACCATAAACAATACCAAACACCA
9403426 AACCA
1 AACCA
9403431 AAATCGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.34, G:0.02, T:0.11
Consensus pattern (24 bp):
AACCATAAACAATACCAAACACCA
Found at i:9406334 original size:29 final size:29
Alignment explanation
Indices: 9406295--9406351 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
9406285 AAATATTTAT
9406295 AATATCCATAGTAGCTAAACAAGATATAC
1 AATATCCATAGTAGCTAAACAAGATATAC
* *
9406324 AATATCTATAGTAGTTAAACAAGATATA
1 AATATCCATAGTAGCTAAACAAGATATA
9406352 TTGAATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (29 bp):
AATATCCATAGTAGCTAAACAAGATATAC
Found at i:9412842 original size:29 final size:29
Alignment explanation
Indices: 9412806--9412862 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
9412796 AAATATTTAT
*
9412806 AATATCCATAGTAGCTAAACAAGATATAC
1 AATATCCATAGTAACTAAACAAGATATAC
* *
9412835 AATATCCATAGTAACTGAGCAAGATATA
1 AATATCCATAGTAACTAAACAAGATATA
9412863 TTGAATATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (29 bp):
AATATCCATAGTAACTAAACAAGATATAC
Found at i:9419274 original size:13 final size:14
Alignment explanation
Indices: 9419241--9419291 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
9419231 TTAATAATAT
* *
9419241 TTAATAATTTAAATA
1 TTAAT-ATTTTAATG
9419256 TTAATATTTTAA-G
1 TTAATATTTTAATG
9419269 TTAATATTTTAATG
1 TTAATATTTTAATG
9419283 TTAAATATT
1 TT-AATATT
9419292 AATATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 12 0.38
14 9 0.28
15 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (14 bp):
TTAATATTTTAATG
Found at i:9419279 original size:28 final size:28
Alignment explanation
Indices: 9419241--9419328 Score: 71
Period size: 28 Copynumber: 3.3 Consensus size: 28
9419231 TTAATAATAT
*
9419241 TTAATAATTTAAATATTAATATTTTAAG
1 TTAATATTTTAAATATTAATATTTTAAG
* *
9419269 TTAATATTTT-AATGTTAA-ATATTAA-
1 TTAATATTTTAAATATTAATATTTTAAG
* *
9419294 -T-AT-TTTTAATTTTATAATATTTTAAG
1 TTAATATTTTAAATAT-TAATATTTTAAG
9419320 TTAAATATT
1 TT-AATATT
9419329 CATATTCATC
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 4 0.09
25 6 0.13
26 6 0.13
27 8 0.17
28 9 0.20
29 2 0.04
30 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTAATATTTTAAATATTAATATTTTAAG
Found at i:9419280 original size:8 final size:8
Alignment explanation
Indices: 9419221--9419318 Score: 50
Period size: 8 Copynumber: 12.8 Consensus size: 8
9419211 TTAAAAAATT
*
9419221 TTTTAAAA
1 TTTTAATA
9419229 TTTTAATAA
1 TTTTAAT-A
9419238 TATTTAATA
1 T-TTTAATA
*
9419247 ATTTAA-A
1 TTTTAATA
*
9419254 TATTAATA
1 TTTTAATA
9419262 TTTT-A-A
1 TTTTAATA
*
9419268 -GTTAATA
1 TTTTAATA
9419275 TTTT-A-A
1 TTTTAATA
*
9419281 TGTTAA-A
1 TTTTAATA
*
9419288 TATTAATA
1 TTTTAATA
9419296 TTTTTAAT-
1 -TTTTAATA
9419304 TTTATAATA
1 TTT-TAATA
9419313 TTTTAA
1 TTTTAA
9419319 GTTAAATATT
Statistics
Matches: 69, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
5 2 0.03
6 6 0.09
7 18 0.26
8 25 0.36
9 12 0.17
10 6 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (8 bp):
TTTTAATA
Found at i:9424928 original size:24 final size:23
Alignment explanation
Indices: 9424880--9424929 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
9424870 CAATTGGAAA
*
9424880 AGAAGAAAGAAAAGAAGGAAAAG
1 AGAAAAAAGAAAAGAAGGAAAAG
9424903 AGAAAAAAGACAAAGAA-GAAATAG
1 AGAAAAAAGA-AAAGAAGGAAA-AG
9424927 AGA
1 AGA
9424930 GTAAAACGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (23 bp):
AGAAAAAAGAAAAGAAGGAAAAG
Found at i:9425018 original size:24 final size:23
Alignment explanation
Indices: 9424963--9425010 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
9424953 AAATAGTATT
*
9424963 AAAATTTTAATTGATCAAAAATA
1 AAAATTTTAATTGATAAAAAATA
*
9424986 AAAATTTTAATTTATAATAAAATA
1 AAAATTTTAATTGATAA-AAAATA
9425010 A
1 A
9425011 TATTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATTTTAATTGATAAAAAATA
Found at i:9426630 original size:3 final size:3
Alignment explanation
Indices: 9426624--9426661 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9426614 ATAATAATAA
9426624 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9426662 GGTCTTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9434126 original size:49 final size:49
Alignment explanation
Indices: 9433973--9434119 Score: 204
Period size: 49 Copynumber: 3.0 Consensus size: 49
9433963 TGAACTTGCC
* * *
9433973 TGATTTTCGCTTCAAGGGTCTTCACGACTTAATCTTGATCACAAACACT
1 TGATCTTCGCTTCAAGGGTCTTGACGACTTAATCTTGATCACGAACACT
* * * *
9434022 TGATCTTCCCTTTAAGGGCCTTGACAACTTAATCTTGATCACGAACACT
1 TGATCTTCGCTTCAAGGGTCTTGACGACTTAATCTTGATCACGAACACT
* * *
9434071 TGATCTTCGCTTCAAAGATCTTGACGACTTAATCTTGATCACGATCACT
1 TGATCTTCGCTTCAAGGGTCTTGACGACTTAATCTTGATCACGAACACT
9434120 GTATCTTGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (49 bp):
TGATCTTCGCTTCAAGGGTCTTGACGACTTAATCTTGATCACGAACACT
Found at i:9434179 original size:23 final size:23
Alignment explanation
Indices: 9434149--9434209 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
9434139 TGCTTGATAT
9434149 CTTGATCACGAACTTCGCTACTG
1 CTTGATCACGAACTTCGCTACTG
* *
9434172 CTTGATCAAGAACTTCGCTGCTG
1 CTTGATCACGAACTTCGCTACTG
*
9434195 CTTAATCACGAACTT
1 CTTGATCACGAACTT
9434210 TGTTGCCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (23 bp):
CTTGATCACGAACTTCGCTACTG
Found at i:9434799 original size:81 final size:81
Alignment explanation
Indices: 9434555--9434801 Score: 320
Period size: 81 Copynumber: 3.1 Consensus size: 81
9434545 AATTTGATTT
* * * * ** * *
9434555 TTATCTCTAAATTAGTAT-AATTA-TTAGAGATAACTTAAACGACCAATAATTAAATTTTGATTG
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAAATTTTGATTG
9434618 GTCAAAAATATGAATA
66 GTCAAAAATATGAATA
* * * *
9434634 CTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGATCAATAACTAACTTTTGAGTG
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAAATTTTGATTG
*
9434699 GTCAAAAATATAAATA
66 GTCAAAAATATGAATA
* *
9434715 TTATCTCTAAATTATTTTGATTTATTTAGAGATAATTTGGATGACCAATAACTAATTTTTGATTG
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAAATTTTGATTG
*
9434780 GTAAAAAATATG-ATAA
66 GTCAAAAATATGAAT-A
9434796 TTATCT
1 TTATCT
9434802 ACCAATAGGT
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
79 15 0.10
80 6 0.04
81 124 0.86
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (81 bp):
TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAAATTTTGATTG
GTCAAAAATATGAATA
Found at i:9435140 original size:28 final size:28
Alignment explanation
Indices: 9435108--9435214 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 28
9435098 TATAATCTTG
*
9435108 GAAGATGTATATTGCAATAAAACTATTT
1 GAAGAAGTATATTGCAATAAAACTATTT
* **
9435136 GAAGAAGTATATTGTAATAAGGCTATAATTTT
1 GAAGAAGTATATTGCAATAAAAC--T-A-TTT
*
9435168 GAAAGAGGTATATTGCAATAAAACTATTT
1 G-AAGAAGTATATTGCAATAAAACTATTT
*
9435197 AAAGAAGTATATTGCAAT
1 GAAGAAGTATATTGCAAT
9435215 TAGTATTGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
28 35 0.55
29 3 0.05
30 2 0.03
31 2 0.03
32 4 0.06
33 18 0.28
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.34
Consensus pattern (28 bp):
GAAGAAGTATATTGCAATAAAACTATTT
Found at i:9436620 original size:42 final size:41
Alignment explanation
Indices: 9436547--9436680 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 41
9436537 TTTTATGTGA
* *
9436547 TAATGATGACCCAGCTCTATGCGTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGTGT-GGAGTGCACATGAGC
* *
9436589 TAATGATGACCCAACTATGTGCGATGTGGAGTGCACATGAAC
1 TAATGATGACCCAGCTATGTGCG-TGTGGAGTGCACATGAGC
* * *
9436631 TGACGATGATCCAGCTATGTGCGGTGTGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGC-GTGTGGAGTGCACATGAGC
*
9436673 TGATGATG
1 TAATGATG
9436681 GTGGGATGGT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 76 0.95
43 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (41 bp):
TAATGATGACCCAGCTATGTGCGTGTGGAGTGCACATGAGC
Found at i:9439229 original size:35 final size:35
Alignment explanation
Indices: 9439190--9439339 Score: 210
Period size: 35 Copynumber: 4.3 Consensus size: 35
9439180 GAGTGTGTGT
* * * *
9439190 GATGATATCGAAGTGTGCGTGTGGGGAGTGCACAC
1 GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
9439225 GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
1 GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *
9439260 GATGATATTGAAGTGTGTGAGTAGGGAGTGCATAC
1 GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *
9439295 GATGATATAGAAATGTGTGAGTAGGGAGTGCACAT
1 GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
9439330 GATGATATTG
1 GATGATATTG
9439340 CCCCGTGCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 103 1.00
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.26
Consensus pattern (35 bp):
GATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:9439354 original size:70 final size:70
Alignment explanation
Indices: 9439190--9439363 Score: 206
Period size: 70 Copynumber: 2.5 Consensus size: 70
9439180 GAGTGTGTGT
* ** * * *
9439190 GATGATATCGAAGTGTGCGTGTGGGGAGTGCACACGATGATATTGAAATGTGCGAGTAGGGAGTG
1 GATGATATTGAACCGTGCATGTAGGGAGTGCACACGATGATATAGAAATGTGCGAGTAGGGAGTG
9439255 CACAC
66 CACAC
** * * *
9439260 GATGATATTGAAGTGTGTGA-GTAGGGAGTGCATACGATGATATAGAAATGTGTGAGTAGGGAGT
1 GATGATATTGAACCGTG-CATGTAGGGAGTGCACACGATGATATAGAAATGTGCGAGTAGGGAGT
*
9439324 GCACAT
65 GCACAC
**
9439330 GATGATATTGCCCCGTGCATGTAGGGAGTGCACA
1 GATGATATTGAACCGTGCATGTAGGGAGTGCACA
9439364 TTGGCTGAGT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 1 0.01
70 87 0.99
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.25
Consensus pattern (70 bp):
GATGATATTGAACCGTGCATGTAGGGAGTGCACACGATGATATAGAAATGTGCGAGTAGGGAGTG
CACAC
Found at i:9448643 original size:49 final size:49
Alignment explanation
Indices: 9448488--9448636 Score: 235
Period size: 49 Copynumber: 3.0 Consensus size: 49
9448478 TGCGAACTTG
*
9448488 CTTGATCTTCGCTTCAAGGGTCTTCACGACTTAATCTTGATCACGAACA
1 CTTGATCTTCGCTTCAAGGGTCTTAACGACTTAATCTTGATCACGAACA
* *
9448537 CTTGATCTTCGTTTCAAGGGCCTTAACGACTTAATCTTGATCACGAACA
1 CTTGATCTTCGCTTCAAGGGTCTTAACGACTTAATCTTGATCACGAACA
* * * *
9448586 CTTGATCTTCGCTTCAAAGGTCTTGATGACTTAATCTTGATCACGATCA
1 CTTGATCTTCGCTTCAAGGGTCTTAACGACTTAATCTTGATCACGAACA
9448635 CT
1 CT
9448637 GTATCTTGAT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 91 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (49 bp):
CTTGATCTTCGCTTCAAGGGTCTTAACGACTTAATCTTGATCACGAACA
Found at i:9448644 original size:20 final size:20
Alignment explanation
Indices: 9448619--9448671 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
9448609 TGATGACTTA
9448619 ATCTTGATCACGATCACTGT
1 ATCTTGATCACGATCACTGT
9448639 ATCTTGATCACGATCACTGT
1 ATCTTGATCACGATCACTGT
9448659 ATCTTGATCACGA
1 ATCTTGATCACGA
9448672 ACTTCGCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (20 bp):
ATCTTGATCACGATCACTGT
Found at i:9448751 original size:25 final size:25
Alignment explanation
Indices: 9448658--9448752 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
9448648 ACGATCACTG
*
9448658 TATCTTGATCACGAACTTCGCTTAA
1 TATCTTGATCACGAACTTCGCTTGA
* * * *
9448683 TATCTTAATCGCAAACTTCTCTTGA
1 TATCTTGATCACGAACTTCGCTTGA
* *
9448708 TATCTTGATCATGAGCTTCGCTTGA
1 TATCTTGATCACGAACTTCGCTTGA
9448733 TATCTTGATCACGAACTTCG
1 TATCTTGATCACGAACTTCG
9448753 TTGTTGCTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (25 bp):
TATCTTGATCACGAACTTCGCTTGA
Found at i:9448832 original size:18 final size:18
Alignment explanation
Indices: 9448811--9448846 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9448801 GAAATGATCT
*
9448811 CAATCTTCGAACGCCTCC
1 CAATCTTCAAACGCCTCC
*
9448829 CAATCTTCAAATGCCTCC
1 CAATCTTCAAACGCCTCC
9448847 GAATGAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (18 bp):
CAATCTTCAAACGCCTCC
Found at i:9449244 original size:81 final size:81
Alignment explanation
Indices: 9449096--9449342 Score: 338
Period size: 81 Copynumber: 3.1 Consensus size: 81
9449086 AATTTGATTT
* * * * ** * * * *
9449096 TTATCTCTAAATTATTAT-AATTA-TTAGAAATCAATTAAATGACCAATAATTAAATTTTGATTG
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGAACAATAACTAATTTTTTATTG
9449159 GTCAAAAATATGAATA
66 GTCAAAAATATGAATA
*
9449175 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGAACAATAACTAATTTTTTATTA
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGAACAATAACTAATTTTTTATTG
*
9449240 GTCAAAAATATAAATA
66 GTCAAAAATATGAATA
* *
9449256 TTATCTCTAAATTAATTTGATTTATTTAGAGATAAATTGGATGATCAATAACTAATTTTTTATTG
1 TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGAACAATAACTAATTTTTTATTG
9449321 GTCAAAAATATG-ATAA
66 GTCAAAAATATGAAT-A
9449337 TTATCT
1 TTATCT
9449343 ACCAATAGGT
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
79 17 0.11
80 6 0.04
81 126 0.85
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (81 bp):
TTATCTCTAAATTATTTTGATTTATTTAGAGATAAATTGGATGAACAATAACTAATTTTTTATTG
GTCAAAAATATGAATA
Found at i:9449318 original size:38 final size:38
Alignment explanation
Indices: 9449195--9449319 Score: 101
Period size: 41 Copynumber: 3.2 Consensus size: 38
9449185 ATTATTTTGA
*
9449195 TTTATTTAGAGATAAATTGGATGAACAATAACTAATTT
1 TTTATTTAGAGATAAATTGGATGATCAATAACTAATTT
* * * * ** *
9449233 TTTATTAGTCAAAAATATAAAT--ATTATCTCTAAATTAATTT
1 TTTATT--T-AGAGATA-AATTGGATGATCAAT-AACTAATTT
9449274 GATTTATTTAGAGATAAATTGGATGATCAATAACTAATTT
1 --TTTATTTAGAGATAAATTGGATGATCAATAACTAATTT
9449314 TTTATT
1 TTTATT
9449320 GGTCAAAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 18
0.66 0.16 0.19
Matches are distributed among these distances:
38 12 0.19
39 3 0.05
40 19 0.30
41 20 0.32
42 3 0.05
43 6 0.10
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.44
Consensus pattern (38 bp):
TTTATTTAGAGATAAATTGGATGATCAATAACTAATTT
Found at i:9450424 original size:36 final size:35
Alignment explanation
Indices: 9450384--9450489 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 35
9450374 CGTGCGACAC
*
9450384 CAAAGCTACTGACAGAGAACAAAACACGTATGGCGT
1 CAAAGCTAC-GACAGAGAACAAAACACGTATGACGT
* * * * * *
9450420 CAAAGTTGCCAAAGGAGAACAAACCACGTACGACGT
1 CAAAGCTACGACA-GAGAACAAAACACGTATGACGT
9450456 CAAAGCTACCGACAGAGAA-AAAATCACGTATGAC
1 CAAAGCTA-CGACAGAGAACAAAA-CACGTATGAC
9450490 CCTGAAGTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
35 5 0.09
36 46 0.85
37 3 0.06
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (35 bp):
CAAAGCTACGACAGAGAACAAAACACGTATGACGT
Found at i:9450498 original size:72 final size:72
Alignment explanation
Indices: 9450361--9450503 Score: 164
Period size: 72 Copynumber: 2.0 Consensus size: 72
9450351 AGTTGTTGAT
* * * * *
9450361 GGAGAAAAAATCACGTGCGACACCAAAGCTACTGACAGAGAACAAAACACGTATGGCGTCAAAGT
1 GGAGAAAAAACCACGTACGACACCAAAGCTACCGACAGAGAACAAAACACGTATGCCCTCAAAGT
*
9450426 TGCCAAA
66 TCCCAAA
* ** *
9450433 GGAGAACAAACCACGTACGACGTCAAAGCTACCGACAGAGAA-AAAATCACGTATGACCCT-GAA
1 GGAGAAAAAACCACGTACGACACCAAAGCTACCGACAGAGAACAAAA-CACGTATG-CCCTCAAA
9450496 GTTCCCAA
64 GTTCCCAA
9450504 CAAATAACAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 4 0.07
72 53 0.90
73 2 0.03
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (72 bp):
GGAGAAAAAACCACGTACGACACCAAAGCTACCGACAGAGAACAAAACACGTATGCCCTCAAAGT
TCCCAAA
Found at i:9468998 original size:17 final size:18
Alignment explanation
Indices: 9468968--9469001 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9468958 TCGACCACGT
*
9468968 TCTTGAAAATTAAAAATG
1 TCTTGAAAAATAAAAATG
9468986 TCTT-AAAAATAAAAAT
1 TCTTGAAAAATAAAAAT
9469002 TAAATTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
TCTTGAAAAATAAAAATG
Found at i:9470135 original size:530 final size:532
Alignment explanation
Indices: 9469153--9470160 Score: 1461
Period size: 531 Copynumber: 1.9 Consensus size: 532
9469143 TATCTTTTCG
* *
9469153 AAATTCCAATAATTAAGAAAATGTTGAATTTATTTCTTTAACATTTTGAGCATTTTGAAATTTTT
1 AAATTCCAATAATTAAGAAAATGTTGAATTTATTTCTATAACATTTTGAGCATTCTGAAATTTTT
* *
9469218 TTATTGATAGTATATATGACATTTGAATAGCACTCATATAATATATGATTTATATCATGACATAT
66 TTATTGACAGTATATATGACATTTGAATAACACTCATATAATATATGATTTATATCATGACATAT
* * * * *
9469283 TTTAATTATTCAAAAGATTAAATTCCTATTAATTCCTTATGTTTAGCATGATAATTTTATGAGTT
131 TTAAATAATTCAAAAGATTAAATTCCTATTAATTCCATATGTTTAGCATGACAATTTTATGAGAT
* * * * *
9469348 ATTAAATATCCTAAGCTTTCCAGTAATATTTAATTTCGTAACAGGTCTAGGAATGCCATCCCAAG
196 ATTAAACAACCTAAGCTTTCCAGTAATATGTAATTTAGTAAAAGGTCTAGGAATGCCATCCCAAG
** * *
9469413 TAGAGGATTTTGGTTGAGTGAAATTTTTCAAATTTTACTCCTAAAATTAAAATTTTACACATGAA
261 TAGAGGATTTTAATTGAGTGAAAATTTTCAAATTTTACTCCTAAAACTAAAATTTTACACATGAA
**
9469478 TTATATTGAATAATGTTAATAATTACTTCTATGCAGGAGATGATTAGGAGCATAGCAAATTTTCA
326 TTATATTGAATAATGTTAATAATTACTTCTATAAAGGAGATGATTAGGAGCATAGCAAATTTTCA
* * *
9469543 ATCTTGCAACTTGCATATTATTTTTGTTATTTGGTTCGAATTTATCCGAAAAAATATTATCTTCT
391 ATCTTGCAACATGCATATTATTTTTGTTATTTGATTCAAATTTATCCGAAAAAATATTATCTTCT
*
9469608 AGTGCTAATTATTAATATCTATTACACATATTGTCCCTAATAATTAAGAAAACCTATAAATATTG
456 AGTGCTAATTATTAATAGCTATTACACATATTGTCCCTAATAATTAAGAAAACCTATAAATATTG
9469673 CACATGTGTACA
521 CACATGTGTACA
*
9469685 AAATTCCAATAATTAAGAAAATGTTGAATTTATTTCTATAATATTTTGAGCATTCTGAAA-TTTT
1 AAATTCCAATAATTAAGAAAATGTTGAATTTATTTCTATAACATTTTGAGCATTCTGAAATTTTT
* * * * * *
9469749 TTATTGACAGTATATATGATATTTGCATAACATTGATATGATATATGATTTATATCATGACATGT
66 TTATTGACAGTATATATGACATTTGAATAACACTCATATAATATATGATTTATATCATGACATAT
* *
9469814 TTAAATAATTCAAATA-ATTAAATTCCTATTAATTGCATATGTTTAGTATGACAATTTTATGAGA
131 TTAAATAATTCAAA-AGATTAAATTCCTATTAATTCCATATGTTTAGCATGACAATTTTATGAGA
* ** * * * * *
9469878 TATTAGACAAGTTAAGTTTTCTAGTAATATGTAATTTAGTAAAATGTCTAGGAATGCCATGCTAA
195 TATTAAACAACCTAAGCTTTCCAGTAATATGTAATTTAGTAAAAGGTCTAGGAATGCCATCCCAA
* ** * *
9469943 GTGGGAGG-TTTTAATTGAGTGAAAATTTTCGGA-TTTACTTCTAAAACTAAAATTTTACGCATG
260 GT-AGAGGATTTTAATTGAGTGAAAATTTTCAAATTTTACTCCTAAAACTAAAATTTTACACATG
* *
9470006 AATTATATTGAATAATGTTAATAATTATTTCTATAAAGGAGATGTTTAGGAGCATAGCAAATTTT
324 AATTATATTGAATAATGTTAATAATTACTTCTATAAAGGAGATGATTAGGAGCATAGCAAATTTT
* ** *
9470071 CAATCTTGTAACATGTGTATTATTTTCT-TTATTTGATTCAAATTTATCC-AGCAAAATATTATC
389 CAATCTTGCAACATGCATATTATTTT-TGTTATTTGATTCAAATTTATCCGA-AAAAATATTATC
*
9470134 TTGTAGTGCTAATTATTAATAGCTATT
452 TTCTAGTGCTAATTATTAATAGCTATT
9470161 GCACTTTTTT
Statistics
Matches: 419, Mismatches: 53, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
529 1 0.00
530 165 0.39
531 191 0.46
532 62 0.15
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (532 bp):
AAATTCCAATAATTAAGAAAATGTTGAATTTATTTCTATAACATTTTGAGCATTCTGAAATTTTT
TTATTGACAGTATATATGACATTTGAATAACACTCATATAATATATGATTTATATCATGACATAT
TTAAATAATTCAAAAGATTAAATTCCTATTAATTCCATATGTTTAGCATGACAATTTTATGAGAT
ATTAAACAACCTAAGCTTTCCAGTAATATGTAATTTAGTAAAAGGTCTAGGAATGCCATCCCAAG
TAGAGGATTTTAATTGAGTGAAAATTTTCAAATTTTACTCCTAAAACTAAAATTTTACACATGAA
TTATATTGAATAATGTTAATAATTACTTCTATAAAGGAGATGATTAGGAGCATAGCAAATTTTCA
ATCTTGCAACATGCATATTATTTTTGTTATTTGATTCAAATTTATCCGAAAAAATATTATCTTCT
AGTGCTAATTATTAATAGCTATTACACATATTGTCCCTAATAATTAAGAAAACCTATAAATATTG
CACATGTGTACA
Found at i:9478782 original size:43 final size:42
Alignment explanation
Indices: 9478734--9478865 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
9478724 CACCATCCCA
* *
9478734 TCATCATCAGCTCATGTACACTCCCTACTCGCACATGGCTGGG
1 TCATCATCAGCTTATGCACACTCCCTACTCGCACAT-GCTGGG
* * **
9478777 TCATCA-CCGATTTATGCACACTCCCTACTCGCACATAATCGGG
1 TCATCATCAG-CTTATGCACACTCCCTACTCGCACATGCT-GGG
* * * *
9478820 TCATCGTCAGCTTATGCGCACTCCCTACTCACACATAGCTGAG
1 TCATCATCAGCTTATGCACACTCCCTACTCGCACAT-GCTGGG
9478863 TCA
1 TCA
9478866 ATATCATTAC
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.04
43 65 0.92
44 3 0.04
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (42 bp):
TCATCATCAGCTTATGCACACTCCCTACTCGCACATGCTGGG
Found at i:9485218 original size:25 final size:26
Alignment explanation
Indices: 9485190--9485239 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
9485180 TCCAATTTTT
9485190 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
9485215 AATAAAATATTAATATTTAAATTAT
1 AATAAAATATTAATATTTAAATTAT
9485240 CAATTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:9487631 original size:19 final size:19
Alignment explanation
Indices: 9487591--9487632 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9487581 GAAGAAGGAG
*
9487591 AAGAAGCTGCTAGAGAATA
1 AAGAAGCTGCTAAAGAATA
*
9487610 AAGAAGTTGCTGAAAGAA-A
1 AAGAAGCTGCT-AAAGAATA
9487629 AAGA
1 AAGA
9487633 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.14
Consensus pattern (19 bp):
AAGAAGCTGCTAAAGAATA
Found at i:9490109 original size:29 final size:30
Alignment explanation
Indices: 9490077--9490144 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
9490067 GAGTATGTTG
9490077 TGTAACAACAATA-TTTTTTCAACATGGCA
1 TGTAACAACAATATTTTTTTCAACATGGCA
* **
9490106 TGTAACAACAATATTTTTTTTAACATGGTG
1 TGTAACAACAATATTTTTTTCAACATGGCA
9490136 TGTAACAAC
1 TGTAACAAC
9490145 CTTTTTTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (30 bp):
TGTAACAACAATATTTTTTTCAACATGGCA
Found at i:9490151 original size:29 final size:29
Alignment explanation
Indices: 9490075--9490225 Score: 97
Period size: 31 Copynumber: 5.4 Consensus size: 29
9490065 TTGAGTATGT
* *
9490075 TGTGTAACAACAATATTTTTTCAACATGG
1 TGTGTAACAACATTTTTTTTTCAACATGG
**
9490104 CATGTAACAACAATATTTTTTTT-AACATGG
1 TGTGTAACAAC-AT-TTTTTTTTCAACATGG
*
9490134 TGTGTAACAAC---CTTTTTT-AACCATGG
1 TGTGTAACAACATTTTTTTTTCAA-CATGG
* * * *
9490160 CGTG---CAACATGTTTCTGT--ACATGG
1 TGTGTAACAACATTTTTTTTTCAACATGG
9490184 TGTGTAACAACAATATTTTTTTTCAACATGG
1 TGTGTAACAAC-AT-TTTTTTTTCAACATGG
*
9490215 CGTGTAACAAC
1 TGTGTAACAAC
9490226 CTAATCATAG
Statistics
Matches: 93, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
23 4 0.04
24 8 0.09
25 9 0.10
26 12 0.13
27 4 0.04
28 2 0.02
29 14 0.15
30 17 0.18
31 23 0.25
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (29 bp):
TGTGTAACAACATTTTTTTTTCAACATGG
Found at i:9494785 original size:22 final size:22
Alignment explanation
Indices: 9494741--9494887 Score: 101
Period size: 22 Copynumber: 6.8 Consensus size: 22
9494731 CCTCTAGGTA
** *
9494741 ACAA-CTTCAAAACCTTTACGT
1 ACAATCTTCAAAACCTCCAAGT
*
9494762 ACAATTTTCAAAACCTCCAAGT
1 ACAATCTTCAAAACCTCCAAGT
* * *
9494784 AC-ATCTTCAAAACTTTCTAGT
1 ACAATCTTCAAAACCTCCAAGT
*
9494805 AACAA-CTTCAAAACCTCCAAAT
1 -ACAATCTTCAAAACCTCCAAGT
* *
9494827 ATAATTGCTT-AAAACCT-CTAGTT
1 ACAA-T-CTTCAAAACCTCCAAG-T
*
9494850 AC-ATCTTCAAAACCTTCAAGT
1 ACAATCTTCAAAACCTCCAAGT
9494871 ATCAAT-TTCAAAACCTC
1 A-CAATCTTCAAAACCTC
9494888 TAGATAACAT
Statistics
Matches: 97, Mismatches: 18, Indels: 21
0.71 0.13 0.15
Matches are distributed among these distances:
20 3 0.03
21 32 0.33
22 47 0.48
23 12 0.12
24 3 0.03
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (22 bp):
ACAATCTTCAAAACCTCCAAGT
Found at i:9494861 original size:44 final size:43
Alignment explanation
Indices: 9494746--9494896 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
9494736 AGGTAACAAC
* * *
9494746 TTCAAAACCTTTACGT-ACAATTTTCAAAACCTCCAAGTA-C-AT
1 TTCAAAACCTCTA-GTAACAA-CTTCAAAACCTCCAAATATCAAT
*
9494788 CTTCAAAACTTTCTAGTAACAACTTCAAAACCTCCAAATAT-AAT
1 -TTCAAAAC-CTCTAGTAACAACTTCAAAACCTCCAAATATCAAT
* * * * *
9494832 TGCTTAAAACCTCTAGTTACATCTTCAAAACCTTCAAGTATCAAT
1 T--TCAAAACCTCTAGTAACAACTTCAAAACCTCCAAATATCAAT
9494877 TTCAAAACCTCTAGATAACA
1 TTCAAAACCTCTAG-TAACA
9494897 TTTTCCAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
43 39 0.44
44 39 0.44
45 10 0.11
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (43 bp):
TTCAAAACCTCTAGTAACAACTTCAAAACCTCCAAATATCAAT
Found at i:9494901 original size:22 final size:21
Alignment explanation
Indices: 9494728--9494906 Score: 98
Period size: 22 Copynumber: 8.1 Consensus size: 21
9494718 GCTATACTAT
*
9494728 AAACCTCTAGGTAACAACTTCA
1 AAACCTCTA-GTAACATCTTCA
* *
9494750 AAACCTTTACGT-ACAATTTTCA
1 AAACCTCTA-GTAAC-ATCTTCA
*
9494772 AAACCTCCAAGT-ACATCTTCA
1 AAACCT-CTAGTAACATCTTCA
* *
9494793 AAACTTTCTAGTAACAACTTCA
1 AAAC-CTCTAGTAACATCTTCA
* *
9494815 AAACCTCCAAATATA-ATTGCTT-A
1 AAACCT-CTAGTA-ACA-T-CTTCA
*
9494838 AAACCTCTAGTTACATCTTCA
1 AAACCTCTAGTAACATCTTCA
* *
9494859 AAACCTTCAAGTATCAAT-TTCA
1 AAACC-TCTAGTAAC-ATCTTCA
*
9494881 AAACCTCTAGATAACATTTTCCA
1 AAACCTCTAG-TAACATCTT-CA
9494904 AAA
1 AAA
9494907 TCTTTAAGTC
Statistics
Matches: 120, Mismatches: 22, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.03
21 31 0.26
22 67 0.56
23 16 0.13
24 3 0.03
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (21 bp):
AAACCTCTAGTAACATCTTCA
Found at i:9499068 original size:28 final size:29
Alignment explanation
Indices: 9499025--9499088 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
9499015 AGCAAATTTT
* ** *
9499025 AAAAATTACACTTTTGCCCCCGTAAAGTG
1 AAAAATTACACTTTTGACCCCAAAAACTG
9499054 AAAAATTACA-TTTTGACCCCAAAAACTG
1 AAAAATTACACTTTTGACCCCAAAAACTG
9499082 AAAAATT
1 AAAAATT
9499089 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (29 bp):
AAAAATTACACTTTTGACCCCAAAAACTG
Found at i:9499573 original size:26 final size:26
Alignment explanation
Indices: 9499537--9499587 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9499527 TAAAGTAGAA
9499537 ATATAAAATATTCATGCTTTTAAAAT
1 ATATAAAATATTCATGCTTTTAAAAT
* *
9499563 ATATATAATATTTATGCTTTTAAAA
1 ATATAAAATATTCATGCTTTTAAAA
9499588 ATAAACTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
ATATAAAATATTCATGCTTTTAAAAT
Found at i:9502273 original size:60 final size:60
Alignment explanation
Indices: 9502207--9502319 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
9502197 ACTCAATCCA
* * * *
9502207 ATTTAATAAATCAA-AGGATAAAATATGATACATACTACATTATATCAAATTCAATATTTG
1 ATTTAATAAATCAAGA-GACAAAATATAATACATACTACATGATAACAAATTCAATATTTG
* *
9502267 ATTTAATAAATCCAGAGACAAAATATAATATATACTACATGATAACAAATTCA
1 ATTTAATAAATCAAGAGACAAAATATAATACATACTACATGATAACAAATTCA
9502320 CATTTAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 45 0.98
61 1 0.02
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (60 bp):
ATTTAATAAATCAAGAGACAAAATATAATACATACTACATGATAACAAATTCAATATTTG
Found at i:9506862 original size:19 final size:19
Alignment explanation
Indices: 9506838--9506907 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
9506828 ATGATGAATG
9506838 TGTTCTTCCATAATGGACC
1 TGTTCTTCCATAATGGACC
* **** *
9506857 TGTTCTTCTCTTAGCAAACA
1 TGTTCTTC-CATAATGGACC
9506877 TGTTCTTCCATAATGGACC
1 TGTTCTTCCATAATGGACC
*
9506896 TATTCTTGCCAT
1 TGTTCTT-CCAT
9506908 GATGAATAGG
Statistics
Matches: 36, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTTCTTCCATAATGGACC
Found at i:9506921 original size:39 final size:39
Alignment explanation
Indices: 9506828--9506922 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 39
9506818 GTATTTTCCA
*
9506828 ATGATGAAT-GTGTTCTTCCATAATGGACCTGTTCTTCTC
1 ATGATGAATAG-GTTCTTCCATAATGGACCTATTCTTCTC
* * *
9506867 -TTA-GCAAACATGTTCTTCCATAATGGACCTATTCTTGC-C
1 ATGATG--AATAGGTTCTTCCATAATGGACCTATTCTT-CTC
9506906 ATGATGAATAGGTTCTT
1 ATGATGAATAGGTTCTT
9506923 TCTAAACGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
37 1 0.02
38 2 0.05
39 36 0.84
40 3 0.07
41 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (39 bp):
ATGATGAATAGGTTCTTCCATAATGGACCTATTCTTCTC
Found at i:9518675 original size:31 final size:32
Alignment explanation
Indices: 9518622--9518693 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
9518612 CAGAGACCCA
* * *
9518622 AACCC-AAGAAACATGAATCTAAAATTA-CTTG
1 AACCCAAAAAAACATGAACCTAAAATGATC-TG
9518653 AACCCAAAAAAACA-GAACCTAAAATGATCTG
1 AACCCAAAAAAACATGAACCTAAAATGATCTG
9518684 AACCCAAAAA
1 AACCCAAAAA
9518694 TGATGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 28 0.78
32 8 0.22
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.15
Consensus pattern (32 bp):
AACCCAAAAAAACATGAACCTAAAATGATCTG
Found at i:9521257 original size:2 final size:2
Alignment explanation
Indices: 9521250--9521309 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
9521240 TAAGTAAATA
9521250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9521292 AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
9521310 GTATGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9530867 original size:23 final size:23
Alignment explanation
Indices: 9530815--9531231 Score: 236
Period size: 23 Copynumber: 17.9 Consensus size: 23
9530805 ACATAATGAT
* **
9530815 GAGAATATATGACACATCATGGA
1 GAGAATATGTGACACGCCATGGA
*
9530838 -AGGAATATGTGACACGTCATGGA
1 GA-GAATATGTGACACGCCATGGA
* * * * **
9530861 GAAAATATGCGAGACGCTATGCT
1 GAGAATATGTGACACGCCATGGA
* *
9530884 GAGAATATGTGACACGTCATGGT
1 GAGAATATGTGACACGCCATGGA
*
9530907 GAGAATATGTGACACGCCATAGA
1 GAGAATATGTGACACGCCATGGA
* *
9530930 -AGAAATATATGGCACGCCATGGA
1 GAG-AATATGTGACACGCCATGGA
* * *
9530953 TG-GAAGATGTGACACACTATGGTA
1 -GAGAATATGTGACACGCCATGG-A
*
9530977 TG-GAATATGTGACACGCCA-CGA
1 -GAGAATATGTGACACGCCATGGA
* * *
9530999 TGAGAATATATGACATGCCATAGA
1 -GAGAATATGTGACACGCCATGGA
* * * * *
9531023 GGGAATATGTGAAATGTCATGGT
1 GAGAATATGTGACACGCCATGGA
* * *
9531046 GAGAATATGTGACATGCTATTGA
1 GAGAATATGTGACACGCCATGGA
* * ** *
9531069 GGGAATATGTGACATGCCACAGT
1 GAGAATATGTGACACGCCATGGA
*
9531092 GAGAATATGTGACACCCCATGGA
1 GAGAATATGTGACACGCCATGGA
* * *
9531115 G-GAAATATGTGACATGCCACGCTACAGT
1 GAG-AATATGTGACACGCCA---T--GGA
*
9531143 GAGAATATGTGACACGCCATGAA
1 GAGAATATGTGACACGCCATGGA
* * * * *
9531166 AAAAATATATGATACGCCATAGA
1 GAGAATATGTGACACGCCATGGA
* *
9531189 G-GAAATATGTGATACGTCATGGA
1 GAG-AATATGTGACACGCCATGGA
*
9531212 GATAATATGTGACACGCCAT
1 GAGAATATGTGACACGCCAT
9531232 AAATTTAAAT
Statistics
Matches: 299, Mismatches: 78, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
22 7 0.02
23 251 0.84
24 21 0.07
25 1 0.00
26 1 0.00
28 17 0.06
29 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (23 bp):
GAGAATATGTGACACGCCATGGA
Found at i:9530937 original size:46 final size:46
Alignment explanation
Indices: 9530814--9531231 Score: 275
Period size: 46 Copynumber: 9.0 Consensus size: 46
9530804 CACATAATGA
* ** * *
9530814 TGAGAATATATGACACATCATGGAAGGAATATGTGACACGTCATGG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
* * * * * ** * *
9530860 AGAAAATATGCGAGACGCTATGCTGAGAATATGTGACACGTCATGG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
* * * * *
9530906 TGAGAATATGTGACACGCCATAGAAGAAATATATGGCACGCCATGG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
* * * * * *
9530952 ATG-GAAGATGTGACACACTATGGTATGGAATATGTGACACGCCACGA
1 -TGAGAATATGTGACACGCCATGG-AGGGAATATGTGACACGCCATGG
* * * * * *
9530999 TGAGAATATATGACATGCCATAGAGGGAATATGTGAAATGTCATGG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
* * * * **
9531045 TGAGAATATGTGACATGCTATTGAGGGAATATGTGACATGCCACAG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
* * * *
9531091 TGAGAATATGTGACACCCCATGGAGGAAATATGTGACATGCCACGCTACAG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCA---T--GG
* *** * *
9531142 TGAGAATATGTGACACGCCATGAAAAAAATATATGATACGCCATAGAG
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCAT-G-G
* * **
9531190 -GA-AATATGTGATACGTCATGGAGATAATATGTGACACGCCAT
1 TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCAT
9531232 AAATTTAAAT
Statistics
Matches: 286, Mismatches: 77, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
46 211 0.74
47 35 0.12
48 2 0.01
51 38 0.13
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (46 bp):
TGAGAATATGTGACACGCCATGGAGGGAATATGTGACACGCCATGG
Found at i:9531161 original size:28 final size:27
Alignment explanation
Indices: 9531087--9531161 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
9531077 GTGACATGCC
9531087 ACAGTGAGAATATGTGACAC-CC-CAT
1 ACAGTGAGAATATGTGACACGCCACAT
** * *
9531112 GGAG-GA-AATATGTGACATGCCACGCT
1 ACAGTGAGAATATGTGACACGCCAC-AT
9531138 ACAGTGAGAATATGTGACACGCCA
1 ACAGTGAGAATATGTGACACGCCA
9531162 TGAAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
23 11 0.29
24 4 0.11
25 3 0.08
26 3 0.08
27 2 0.05
28 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
ACAGTGAGAATATGTGACACGCCACAT
Found at i:9531511 original size:18 final size:18
Alignment explanation
Indices: 9531484--9531525 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
9531474 TCAATGGTGA
*
9531484 GTTTTCTTTTGTTTTGT--
1 GTTTT-TTTTTTTTTGTGG
9531501 GTTTTTTTTTTTTTGTGG
1 GTTTTTTTTTTTTTGTGG
9531519 GTTTTTT
1 GTTTTTT
9531526 GTTCATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (18 bp):
GTTTTTTTTTTTTTGTGG
Found at i:9532297 original size:217 final size:217
Alignment explanation
Indices: 9531908--9532329 Score: 580
Period size: 217 Copynumber: 1.9 Consensus size: 217
9531898 ATGGCATGTA
* * * **
9531908 ACAATATTTTACTTGGTCAGCATAGCATGTAACAAAAATAAATTTCTTTAATCTGGCATGTTGCA
1 ACAACATTGTACTTGGTCAGCATAGCATGTAACAAAAATAAATTCCTTTAATCAAGCATGTTGCA
* * * *
9531973 CATTATGAGTTAACTATTTTTGGGTTTAGCTTAGCGTTACATGTATGGCATGTAGTATGTAAACT
66 CATTATGAGCTAACTATTTTTGGGTCTAGCTTAGCATTACATGTATGGCATGTAGTATGTAAACC
* * *
9532038 GCATACTCGGCTTGGCATATCGTGTAACAATGTGGATTTAGGATTCATTCATGGCGTTTAA-AAT
131 GCATACTCGGCATGGCATATCGTGTAACAATGTGGATTTAGGATTCATTCATGGCATGTAACAA-
9532102 ATAAGTAATTATATCTAACGTAT
195 ATAAGTAATTATATCTAACGTAT
* * *
9532125 ACAACATTGTACTTGGT-ATGCATAGCGTGTAACAACAATAAATTCCTTCT-ATCAAGCGTGTTG
1 ACAACATTGTACTTGGTCA-GCATAGCATGTAACAAAAATAAATTCCTT-TAATCAAGCATGTTG
* * * * * * *
9532188 TACATTATGGGCTAATTGTTTTTGGGTCTCGCTTGGCATTACATGTATGGCATGTAGTGTGTAAA
64 CACATTATGAGCTAACTATTTTTGGGTCTAGCTTAGCATTACATGTATGGCATGTAGTATGTAAA
* *
9532253 CCGCATACTCGGCATGGCATATCGTGTAACAATGTGGCTTTAGGATTTATTCATGGCATGTAACA
129 CCGCATACTCGGCATGGCATATCGTGTAACAATGTGGATTTAGGATTCATTCATGGCATGTAACA
9532318 AATAAGTAATTA
194 AATAAGTAATTA
9532330 CACTTGGTGT
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
216 1 0.01
217 174 0.98
218 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (217 bp):
ACAACATTGTACTTGGTCAGCATAGCATGTAACAAAAATAAATTCCTTTAATCAAGCATGTTGCA
CATTATGAGCTAACTATTTTTGGGTCTAGCTTAGCATTACATGTATGGCATGTAGTATGTAAACC
GCATACTCGGCATGGCATATCGTGTAACAATGTGGATTTAGGATTCATTCATGGCATGTAACAAA
TAAGTAATTATATCTAACGTAT
Found at i:9534047 original size:24 final size:24
Alignment explanation
Indices: 9533992--9534047 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
9533982 CATTGGCTTG
* *
9533992 GGAGGTGGGGGTGGTTCAGGATCA
1 GGAGCTGGGGCTGGTTCAGGATCA
* * *
9534016 GGGGCTGGGGCTGGTTCCGGTTCA
1 GGAGCTGGGGCTGGTTCAGGATCA
*
9534040 GGATCTGG
1 GGAGCTGG
9534048 AGGTTCAAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.11, C:0.14, G:0.52, T:0.23
Consensus pattern (24 bp):
GGAGCTGGGGCTGGTTCAGGATCA
Found at i:9534185 original size:60 final size:60
Alignment explanation
Indices: 9534112--9534224 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
9534102 CGGCGGGTCC
*
9534112 GGTGCAGGTTCTGAAGCTGGTTCATCTGCAGGGTCCT-ATGCTGGGTCTCGAGCCGGCTCT
1 GGTGCAGGTTCTGAAGCTGGTTCATCTGCAGGGTCCTCA-GCTGGCTCTCGAGCCGGCTCT
* *
9534172 GGTGCAGGTTCTGAAGCTGGTTCATCTGCTGGTTCCTCAGCTGGCTCTCGAGC
1 GGTGCAGGTTCTGAAGCTGGTTCATCTGCAGGGTCCTCAGCTGGCTCTCGAGC
9534225 TGGGTCAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.29
Consensus pattern (60 bp):
GGTGCAGGTTCTGAAGCTGGTTCATCTGCAGGGTCCTCAGCTGGCTCTCGAGCCGGCTCT
Found at i:9544714 original size:31 final size:31
Alignment explanation
Indices: 9544678--9544739 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9544668 TGCAAGCATC
* *
9544678 AATTTGGCCAATAATAGTATATTATGAATTA
1 AATTTGGCCAATAATAGCATATTAAGAATTA
* * *
9544709 AATTTGGTCAATGATAGCATGTTAAGAATTA
1 AATTTGGCCAATAATAGCATATTAAGAATTA
9544740 TATAGAGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
AATTTGGCCAATAATAGCATATTAAGAATTA
Found at i:9545565 original size:40 final size:41
Alignment explanation
Indices: 9545519--9545597 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
9545509 TGACAATCTT
**
9545519 GAATATTTGCTCTCTTT-TTTTGTAGGATTTTATCTTTGGA
1 GAATATTTGCTCTCTTTCTTTTCAAGGATTTTATCTTTGGA
*
9545559 GAATATTTGCTCTTTTTCTTTTCAAGGATTTTATCTTTG
1 GAATATTTGCTCTCTTTCTTTTCAAGGATTTTATCTTTG
9545598 AAATCAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 16 0.46
41 19 0.54
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (41 bp):
GAATATTTGCTCTCTTTCTTTTCAAGGATTTTATCTTTGGA
Found at i:9547728 original size:26 final size:26
Alignment explanation
Indices: 9547699--9547801 Score: 70
Period size: 26 Copynumber: 4.1 Consensus size: 26
9547689 GGGTTAAAGC
9547699 ATCCATCTACTTCTAATGGTAAAATT
1 ATCCATCTACTTCTAATGGTAAAATT
* * ***
9547725 ATCCAT-T--TT-TAGTAGGTTAAGGC
1 ATCCATCTACTTCTAAT-GGTAAAATT
** * *
9547748 ATCTGTCAACTTCTGATGGTAAAATT
1 ATCCATCTACTTCTAATGGTAAAATT
* *
9547774 ATCCATCCACTTCTGATGGTAAAATT
1 ATCCATCTACTTCTAATGGTAAAATT
9547800 AT
1 AT
9547802 TCTTAAAATT
Statistics
Matches: 55, Mismatches: 17, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
22 3 0.05
23 11 0.20
25 1 0.02
26 38 0.69
27 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (26 bp):
ATCCATCTACTTCTAATGGTAAAATT
Found at i:9547743 original size:49 final size:49
Alignment explanation
Indices: 9547684--9547779 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
9547674 TTTTAGTGGG
* *
9547684 TTAGTGGGTTAAAGCATCCATCTACTTCTAATGGTAAAATTATCCATTT
1 TTAGTAGGTTAAAGCATCCATCAACTTCTAATGGTAAAATTATCCATTT
* ** *
9547733 TTAGTAGGTTAAGGCATCTGTCAACTTCTGATGGTAAAATTATCCAT
1 TTAGTAGGTTAAAGCATCCATCAACTTCTAATGGTAAAATTATCCAT
9547780 CCACTTCTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (49 bp):
TTAGTAGGTTAAAGCATCCATCAACTTCTAATGGTAAAATTATCCATTT
Found at i:9548291 original size:19 final size:19
Alignment explanation
Indices: 9548248--9548291 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
9548238 ATATAAAAGA
*
9548248 AAAAAATATTTAAATGGAG
1 AAAAAATATTTAAAGGGAG
9548267 AGAAAAA-ATTTAAAGGGAG
1 A-AAAAATATTTAAAGGGAG
*
9548286 TAAAAA
1 AAAAAA
9548292 GATCTTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.20
Consensus pattern (19 bp):
AAAAAATATTTAAAGGGAG
Found at i:9550746 original size:28 final size:30
Alignment explanation
Indices: 9550709--9550782 Score: 107
Period size: 28 Copynumber: 2.5 Consensus size: 30
9550699 TATTAAAAAA
*
9550709 TTAATTAATTTTTATATTTTTATTAT-A-T
1 TTAATAAATTTTTATATTTTTATTATAAGT
*
9550737 TTAATAAATTTTTATATTTTTATTTTAAGT
1 TTAATAAATTTTTATATTTTTATTATAAGT
*
9550767 TAAATAAATTTTTATA
1 TTAATAAATTTTTATA
9550783 ATTAATTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 24 0.59
29 1 0.02
30 16 0.39
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TTAATAAATTTTTATATTTTTATTATAAGT
Found at i:9559023 original size:18 final size:18
Alignment explanation
Indices: 9559002--9559036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9558992 ACGGGGCTCC
*
9559002 GGCTGTGGCTCCGGCTGT
1 GGCTGCGGCTCCGGCTGT
*
9559020 GGCTGCGGCTGCGGCTG
1 GGCTGCGGCTCCGGCTG
9559037 CCACTCCTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.49, T:0.23
Consensus pattern (18 bp):
GGCTGCGGCTCCGGCTGT
Found at i:9559037 original size:12 final size:12
Alignment explanation
Indices: 9558996--9559035 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
9558986 CCAGTGACGG
9558996 GGCTCCGGCTGT
1 GGCTCCGGCTGT
9559008 GGCTCCGGCTGT
1 GGCTCCGGCTGT
* *
9559020 GGCTGCGGCTGC
1 GGCTCCGGCTGT
9559032 GGCT
1 GGCT
9559036 GCCACTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.33, G:0.45, T:0.23
Consensus pattern (12 bp):
GGCTCCGGCTGT
Found at i:9577850 original size:179 final size:179
Alignment explanation
Indices: 9577550--9577907 Score: 662
Period size: 179 Copynumber: 2.0 Consensus size: 179
9577540 TGTAAAGGGG
*
9577550 AAATCTGACGTGTTTTCCTTGCATTTAACTTACAAATCAAAACTACCACACTTTAGACTGGGCTG
1 AAATCTGAAGTGTTTTCCTTGCATTTAACTTACAAATCAAAACTACCACACTTTAGACTGGGCTG
9577615 CTATCAAGAATCTTGGCAGGTGTTGTTTTAATCAGCTGATATCCTAGAGAGAAGAATTGCATGGA
66 CTATCAAGAATCTTGGCAGGTGTTGTTTTAATCAGCTGATATCCTAGAGAGAAGAATTGCATGGA
* *
9577680 TAGAACAAAACAGTAAAACATGTCGTTTCACTAAGCATATCTTAGGTGA
131 TAAAACAAAACAGTAAAACATGTCGTTTCACTAAGCATATCGTAGGTGA
* *
9577729 AAATCTGAAGTGTTTTCCTTGCATTTAAGTTACAAATCAAAACTACCACACTTTATACTGGGCTG
1 AAATCTGAAGTGTTTTCCTTGCATTTAACTTACAAATCAAAACTACCACACTTTAGACTGGGCTG
*
9577794 CTATCAAGAATCTTGGCAGGTGTTGTTTTAATCAGCTGATATCCTAGAGAGAAGAATTGTATGGA
66 CTATCAAGAATCTTGGCAGGTGTTGTTTTAATCAGCTGATATCCTAGAGAGAAGAATTGCATGGA
9577859 TAAAACAAAACAGTAAAACATGTCGTTTCACTAAGCATATCGTAGGTGA
131 TAAAACAAAACAGTAAAACATGTCGTTTCACTAAGCATATCGTAGGTGA
9577908 TTGATTTTAA
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 173 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (179 bp):
AAATCTGAAGTGTTTTCCTTGCATTTAACTTACAAATCAAAACTACCACACTTTAGACTGGGCTG
CTATCAAGAATCTTGGCAGGTGTTGTTTTAATCAGCTGATATCCTAGAGAGAAGAATTGCATGGA
TAAAACAAAACAGTAAAACATGTCGTTTCACTAAGCATATCGTAGGTGA
Found at i:9580096 original size:16 final size:16
Alignment explanation
Indices: 9580075--9580107 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9580065 GCAATTTTCA
9580075 TGTAAGGCCATGATCG
1 TGTAAGGCCATGATCG
9580091 TGTAAGGCCATGATCG
1 TGTAAGGCCATGATCG
9580107 T
1 T
9580108 ATTTTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (16 bp):
TGTAAGGCCATGATCG
Found at i:9587388 original size:4 final size:4
Alignment explanation
Indices: 9587379--9587433 Score: 62
Period size: 4 Copynumber: 14.0 Consensus size: 4
9587369 TAATTGAAAA
*
9587379 AAAT AAAT AAAT AAAT AAAT -AAT -AAT AATAT AAAT AAAA AAATT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAA-T AAAT
9587427 AAA- AAAT
1 AAAT AAAT
9587434 TTATTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
3 9 0.20
4 29 0.64
5 7 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:9591988 original size:23 final size:23
Alignment explanation
Indices: 9591958--9592054 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
9591948 ACAATACCTA
* *
9591958 AGTCACATAATACCTTATTAACT
1 AGTCACATAATGCCTTACTAACT
* *
9591981 AGTCACATAATGTCTTGCTAACT
1 AGTCACATAATGCCTTACTAACT
** *
9592004 AGTCACGCAATGCCTTACTAATT
1 AGTCACATAATGCCTTACTAACT
*
9592027 AGTCACATAATGTC-TA-TCAACT
1 AGTCACATAATGCCTTACT-AACT
9592049 AGTCAC
1 AGTCAC
9592055 GCAATGTCAT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
21 1 0.02
22 11 0.18
23 48 0.80
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (23 bp):
AGTCACATAATGCCTTACTAACT
Found at i:9592030 original size:46 final size:45
Alignment explanation
Indices: 9591970--9592060 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 45
9591960 TCACATAATA
*
9591970 CCTTATTAACTAGTCACATAATGTCT-TGCTAACTAGTCACGCAATG
1 CCTTACTAACTAGTCACATAATGTCTAT-C-AACTAGTCACGCAATG
*
9592016 CCTTACTAATTAGTCACATAATGTCTATCAACTAGTCACGCAATG
1 CCTTACTAACTAGTCACATAATGTCTATCAACTAGTCACGCAATG
9592061 TCATTTCAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
45 16 0.38
46 25 0.60
47 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (45 bp):
CCTTACTAACTAGTCACATAATGTCTATCAACTAGTCACGCAATG
Found at i:9592170 original size:22 final size:22
Alignment explanation
Indices: 9592142--9592202 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
9592132 AAGATCAGTC
9592142 ATGTAATACCTAAAAATTAATA
1 ATGTAATACCTAAAAATTAATA
* * *
9592164 ATGTAATACCTAAAAACTAGTC
1 ATGTAATACCTAAAAATTAATA
*
9592186 ACGTAATACCTAAAAAT
1 ATGTAATACCTAAAAAT
9592203 CGGTTACACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (22 bp):
ATGTAATACCTAAAAATTAATA
Found at i:9594613 original size:41 final size:41
Alignment explanation
Indices: 9594556--9594644 Score: 151
Period size: 41 Copynumber: 2.2 Consensus size: 41
9594546 ATTGTGCCTG
* *
9594556 CTTTCATTATGAGATAAAAATGTAAAAAGTAAAAGTTTTTT
1 CTTTCATCATGAGATAAAAATGTAAAAAGCAAAAGTTTTTT
*
9594597 CTTTCATCATGGGATAAAAATGTAAAAAGCAAAAGTTTTTT
1 CTTTCATCATGAGATAAAAATGTAAAAAGCAAAAGTTTTTT
9594638 CTTTCAT
1 CTTTCAT
9594645 TTACATGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (41 bp):
CTTTCATCATGAGATAAAAATGTAAAAAGCAAAAGTTTTTT
Found at i:9598334 original size:28 final size:28
Alignment explanation
Indices: 9598294--9598353 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
9598284 TTCAAAAATT
*
9598294 ATTAATATTTTAATTATAAT-ATATTTAA
1 ATTAATATTTTAA-AATAATAATATTTAA
*
9598322 ATTAATATTTTAAAATATTAATATTTAA
1 ATTAATATTTTAAAATAATAATATTTAA
9598350 ATTA
1 ATTA
9598354 TTAAGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAATATTTTAAAATAATAATATTTAA
Found at i:9598341 original size:16 final size:16
Alignment explanation
Indices: 9598288--9598357 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 16
9598278 GAAAACTTCA
9598288 AAAATTATTAATATTTT
1 AAAA-TATTAATATTTT
*
9598305 -AATTA-TAATATATTT
1 AAAATATTAATAT-TTT
9598320 --AA-ATTAATATTTT
1 AAAATATTAATATTTT
9598333 AAAATATTAATA-TTT
1 AAAATATTAATATTTT
*
9598348 AAATTATTAA
1 AAAATATTAA
9598358 GTGAAAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 4 0.09
14 13 0.29
15 19 0.42
16 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTAATATTTT
Found at i:9598364 original size:28 final size:28
Alignment explanation
Indices: 9598314--9598367 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9598304 TAATTATAAT
** *
9598314 ATATTTAAATTAATATTTTAAAATATTA
1 ATATTTAAATTAATAAGTGAAAATATTA
*
9598342 ATATTTAAATTATTAAGTGAAAATAT
1 ATATTTAAATTAATAAGTGAAAATAT
9598368 AAATTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
ATATTTAAATTAATAAGTGAAAATATTA
Found at i:9598518 original size:14 final size:13
Alignment explanation
Indices: 9598501--9598582 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 13
9598491 TTTAAGCATA
9598501 ATAATATTTAAATT
1 ATAATA-TTAAATT
* *
9598515 ATAA-AATAAAAT
1 ATAATATTAAATT
9598527 ATTAATATTTAAATT
1 A-TAATA-TTAAATT
*
9598542 TTAATGATTAAATT
1 ATAAT-ATTAAATT
*
9598556 ATAA-A-TAAAAT
1 ATAATATTAAATT
9598567 ATTAATATTTAAATT
1 A-TAATA-TTAAATT
9598582 A
1 A
9598583 CCAATTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
11 6 0.12
12 10 0.19
13 5 0.10
14 19 0.37
15 12 0.23
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (13 bp):
ATAATATTAAATT
Found at i:9598685 original size:135 final size:135
Alignment explanation
Indices: 9598500--9598759 Score: 371
Period size: 135 Copynumber: 1.9 Consensus size: 135
9598490 TTTTAAGCAT
* * *
9598500 AATAATATTTAAATTATAAAATAAAATATTAATATTTAAATTTTAATGATTAAATTATAAATAAA
1 AATAACATTTAAATGATAAAATAAAATATTAATATTTAAATATTAATGATTAAATTATAAATAAA
* * * *
9598565 ATATTAATATTTAAATTACCAATTATTAATATTTTAAATCAATTATAAATTATTAATATTGAAAA
66 ATACTAATATTTAAAATACCAATTATTAATATTTCAAATAAATTATAAATTATTAATATTGAAAA
9598630 AATAG
131 AATAG
* * *
9598635 AATAACATTTAAATGATAAATTAAATAATATT-AT-TTTTAATATTATTGATTAAATTATAAATA
1 AATAACATTTAAATGATAAAAT-AA-AATATTAATATTTAAATATTAATGATTAAATTATAAATA
* * *
9598698 AAATACTAATATTTAAAATATCAATTTTTAATATTTCAAATAAATTGTAAATTATTAATATT
64 AAATACTAATATTTAAAATACCAATTATTAATATTTCAAATAAATTATAAATTATTAATATT
9598760 TAAAGTTAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
135 100 0.91
136 4 0.04
137 6 0.05
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (135 bp):
AATAACATTTAAATGATAAAATAAAATATTAATATTTAAATATTAATGATTAAATTATAAATAAA
ATACTAATATTTAAAATACCAATTATTAATATTTCAAATAAATTATAAATTATTAATATTGAAAA
AATAG
Found at i:9600568 original size:19 final size:19
Alignment explanation
Indices: 9600546--9600600 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
9600536 ATATGTTAAC
9600546 CATATTAGATCATAATCTT
1 CATATTAGATCATAATCTT
9600565 CATA-T-G-T--TAA-C--
1 CATATTAGATCATAATCTT
9600576 CATATTAGATCATAATCTT
1 CATATTAGATCATAATCTT
9600595 CATATT
1 CATATT
9600601 GCCTTGACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
12 1 0.04
13 2 0.07
14 4 0.14
16 4 0.14
17 2 0.07
18 1 0.04
19 10 0.36
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (19 bp):
CATATTAGATCATAATCTT
Done.