Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 98 of 203
Found at i:31049226 original size:11 final size:11
Alignment explanation
Indices: 31049192--31049226 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
31049182 AAAATATGTT
*
31049192 AAAATTTT-TA
1 AAAATTTTAAA
31049202 AAAATTTTAAA
1 AAAATTTTAAA
31049213 AAAATTTTAAA
1 AAAATTTTAAA
31049224 AAA
1 AAA
31049227 TAGAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:31049253 original size:20 final size:19
Alignment explanation
Indices: 31049228--31049279 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
31049218 TTTAAAAAAT
31049228 AGAAATTGTAAAATATTG-TA
1 AGAAATTGTAAAA-A-TGATA
* *
31049248 AGAAATTATAAAAATGATT
1 AGAAATTGTAAAAATGATA
31049267 AGAAATTGTAAAA
1 AGAAATTGTAAAA
31049280 GATAGTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 14 0.50
20 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (19 bp):
AGAAATTGTAAAAATGATA
Found at i:31050266 original size:18 final size:18
Alignment explanation
Indices: 31050241--31050280 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
31050231 ATAATTTTAC
31050241 TAATTTTTTTCCAACTTTT
1 TAATTTTTTTCCAA-TTTT
31050260 TAATTTTTTTCCAATTTT
1 TAATTTTTTTCCAATTTT
31050278 TAA
1 TAA
31050281 AAATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTTTTTTCCAATTTT
Found at i:31055318 original size:13 final size:13
Alignment explanation
Indices: 31055284--31055325 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
31055274 AAAATGTTTA
31055284 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
* *
31055297 --CTCTCTTTTTC
1 TTTTCTTTTTTTC
31055308 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
31055321 TTTTC
1 TTTTC
31055326 ATCTTATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:31057051 original size:13 final size:13
Alignment explanation
Indices: 31057017--31057064 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
31057007 GGCAATACTT
31057017 TTGAAAAGTGTTA
1 TTGAAAAGTGTTA
*
31057030 TGGAAAAGTGTTA
1 TTGAAAAGTGTTA
*
31057043 TTGAGAAGTGCTT-
1 TTGAAAAGTG-TTA
31057056 TTGAAAAGT
1 TTGAAAAGT
31057065 TTAGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 28 0.93
14 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (13 bp):
TTGAAAAGTGTTA
Found at i:31059512 original size:13 final size:13
Alignment explanation
Indices: 31059492--31059525 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31059482 AGATTTTCCA
31059492 AATT-AATTTTTC
1 AATTAAATTTTTC
*
31059504 AATTAAATTTTTT
1 AATTAAATTTTTC
31059517 AATTAAATT
1 AATTAAATT
31059526 CTCTAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTAAATTTTTC
Found at i:31060561 original size:20 final size:20
Alignment explanation
Indices: 31060523--31060561 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31060513 TAGAGTAGGA
* *
31060523 ATATCGATACCTTAGGAAAT
1 ATATCAATACCTTAAGAAAT
*
31060543 ATATCAATACTTTAAGAAA
1 ATATCAATACCTTAAGAAA
31060562 ACTATTGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Found at i:31062223 original size:20 final size:20
Alignment explanation
Indices: 31062172--31062223 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
31062162 TTCAATTATG
*
31062172 ATTAAACTTAATCACTTTCAT
1 ATTAAA-TTAATCACTTTAAT
**
31062193 ATTAAGCTAATCACTTTAAT
1 ATTAAATTAATCACTTTAAT
31062213 ATTAAATTAAT
1 ATTAAATTAAT
31062224 AAAATACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:31062279 original size:24 final size:25
Alignment explanation
Indices: 31062239--31062288 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
31062229 ACTATTAAGA
*
31062239 TAAATATTAAATTTAAT-TTAATTT
1 TAAATATTAAATATAATATTAATTT
*
31062263 TAAACTATTAAA-ATAATATTATTTT
1 TAAA-TATTAAATATAATATTAATTT
31062288 T
1 T
31062289 GATATAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAATATTAAATATAATATTAATTT
Found at i:31063859 original size:15 final size:15
Alignment explanation
Indices: 31063839--31063868 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31063829 TTGTGCATGC
*
31063839 AAAATATAAAAGACA
1 AAAATACAAAAGACA
31063854 AAAATACAAAAGACA
1 AAAATACAAAAGACA
31063869 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:31064308 original size:92 final size:92
Alignment explanation
Indices: 31064147--31064333 Score: 304
Period size: 92 Copynumber: 2.0 Consensus size: 92
31064137 CAAGTAATAC
*
31064147 TTCTGGTCAATATGTTTGGTCTTCTTGTGACTTCTTATTTCCTTGGTATTAGTTATTACAGCACT
1 TTCTGGTCAATATGTTTGGTCTTCTTGTGACTTCTTATTTCCTTGGTATTAGTTATTACAGCACC
31064212 GTTATCACAATACATTGTTATAGCTTT
66 GTTATCACAATACATTGTTATAGCTTT
* * *
31064239 TTCTGGTCAATATGTTTGGT-TCTCTTGTGACTTCTTATTTTCTTGGTATTAGTTATTGCTGCAC
1 TTCTGGTCAATATGTTTGGTCT-TCTTGTGACTTCTTATTTCCTTGGTATTAGTTATTACAGCAC
* *
31064303 CGTTATCATAATATATTGTTATAGCTTT
65 CGTTATCACAATACATTGTTATAGCTTT
31064331 TTC
1 TTC
31064334 CATACAAGGA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 1 0.01
92 87 0.99
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (92 bp):
TTCTGGTCAATATGTTTGGTCTTCTTGTGACTTCTTATTTCCTTGGTATTAGTTATTACAGCACC
GTTATCACAATACATTGTTATAGCTTT
Found at i:31065567 original size:33 final size:34
Alignment explanation
Indices: 31065524--31065587 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
31065514 TTTTATTAAA
*
31065524 CTTATTTTAG-TTAATTAATTGCTAGAATAAATG
1 CTTATCTTAGTTTAATTAATTGCTAGAATAAATG
* * *
31065557 CTTATCTTAGTTTATTTAATTGTTGGAATAA
1 CTTATCTTAGTTTAATTAATTGCTAGAATAA
31065588 CTTATTGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 9 0.35
34 17 0.65
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (34 bp):
CTTATCTTAGTTTAATTAATTGCTAGAATAAATG
Found at i:31076742 original size:13 final size:12
Alignment explanation
Indices: 31076711--31076743 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31076701 CAATATAAAG
31076711 ATTAT-AAACAA
1 ATTATAAAACAA
31076722 ATTATAAAACAA
1 ATTATAAAACAA
31076734 ATATATAAAA
1 AT-TATAAAA
31076744 AGATGGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (12 bp):
ATTATAAAACAA
Found at i:31085204 original size:22 final size:22
Alignment explanation
Indices: 31085178--31085242 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
31085168 AACTAAATCC
31085178 TTTCTCTCAAATTCTCTCT-AA
1 TTTCTCTCAAATTCTCTCTCAA
31085199 TATTCTCTCAAATTCT-TCTCAA
1 T-TTCTCTCAAATTCTCTCTCAA
*
31085221 TTTCCTCTCAATTTC-CTCTCAA
1 TTT-CTCTCAAATTCTCTCTCAA
31085243 ATTATTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 6 0.15
22 33 0.85
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTCTCTCAAATTCTCTCTCAA
Found at i:31085220 original size:11 final size:10
Alignment explanation
Indices: 31085179--31085245 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 10
31085169 ACTAAATCCT
31085179 TTCTCTCAAA
1 TTCTCTCAAA
31085189 TTCTCTCTAATA
1 TTCTCTC-AA-A
31085201 TTCTCTCAAA
1 TTCTCTCAAA
*
31085211 TTCTTCTCAAT
1 TTC-TCTCAAA
*
31085222 TTCCTCTCAAT
1 TT-CTCTCAAA
31085233 TTCCTCTCAAA
1 TT-CTCTCAAA
31085244 TT
1 TT
31085246 ATTTTTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.22
11 31 0.61
12 9 0.18
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:31085240 original size:33 final size:33
Alignment explanation
Indices: 31085182--31085245 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
31085172 AAATCCTTTC
31085182 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
1 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
*
31085215 TCTCAATTTC-CTCTCAAT-TTCCTCTCAAATT
1 TCTCAAATTCTCTCT-AATATT-CTCTCAAATT
31085246 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (33 bp):
TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
Found at i:31085297 original size:30 final size:29
Alignment explanation
Indices: 31085242--31085298 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
31085232 TTTCCTCTCA
31085242 AATTATTTTTAAAAAAGCTTTAATTTTTT
1 AATTATTTTTAAAAAAGCTTTAATTTTTT
* *
31085271 AATTATTTTTAAAAAAGTTTTAAATTTT
1 AATTATTTTTAAAAAAGCTTTAATTTTT
31085299 ATTTTTTTAA
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:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGCTTTAATTTTTT
Found at i:31085298 original size:28 final size:29
Alignment explanation
Indices: 31085242--31085308 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
31085232 TTTCCTCTCA
*
31085242 AATTATTTTTAAAAAAGCTTTAATTTTTT
1 AATTATTTTTAAAAAAGCTTTAATATTTT
*
31085271 AATTATTTTTAAAAAAGTTTTAA-ATTTT
1 AATTATTTTTAAAAAAGCTTTAATATTTT
31085299 -ATT-TTTTTAA
1 AATTATTTTTAA
31085309 TTTTTTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 7 0.19
27 3 0.08
28 4 0.11
29 22 0.61
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGCTTTAATATTTT
Found at i:31087118 original size:18 final size:18
Alignment explanation
Indices: 31087095--31087137 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
31087085 TGCCAGGTGC
*
31087095 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
31087113 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
31087131 GTTTCCT
1 GTATCCT
31087138 TTTTGTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:31087428 original size:21 final size:22
Alignment explanation
Indices: 31087379--31087430 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
31087369 TAACACCGAC
31087379 AACCAG-ATCCCCTACCGGAAG
1 AACCAGAATCCCCTACCGGAAG
*
31087400 AACCAGAATCCCC-ACCGGAGG
1 AACCAGAATCCCCTACCGGAAG
31087421 AACCAGAATC
1 AACCAGAATC
31087431 TCGTCGGAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.37, C:0.37, G:0.19, T:0.08
Consensus pattern (22 bp):
AACCAGAATCCCCTACCGGAAG
Found at i:31087785 original size:38 final size:38
Alignment explanation
Indices: 31087743--31087823 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
31087733 ACATTGTTTT
*
31087743 GAATAAAGTAATTGTAATTTATTTTAATATTTTTAATA
1 GAATAAAGTAATTGTAATTTACTTTAATATTTTTAATA
31087781 GAATAAAGTAATTGTAATTTACTTTAATATTTTTAATA
1 GAATAAAGTAATTGTAATTTACTTTAATATTTTTAATA
31087819 GAATA
1 GAATA
31087824 GATTTTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (38 bp):
GAATAAAGTAATTGTAATTTACTTTAATATTTTTAATA
Found at i:31091326 original size:251 final size:251
Alignment explanation
Indices: 31090874--31091416 Score: 802
Period size: 251 Copynumber: 2.2 Consensus size: 251
31090864 GGCCAAACAG
**
31090874 GAGCTACTGTAGCAAAAACGCGTCCATATGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
31090939 TTGCTTAAAGCATTTTTGACACATTTGCTCAGAAACGTCTACTCGAAATTATTATTTCAGAAGCT
66 CTGCTTAAAGCATTTTTAACACATTTGCTCAGAAACGTCTACTCGAAATTATTATTTCAGAAGCC
* **
31091004 ACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGATGAAGCATACTACT
131 ACTGTAGCAAAAGCGCATCCACGTGAGAGCTTCTTTCAGTACTTTTACTGACAAAGCATACTACT
31091069 TAAAGCGTTTTTGACAC-TATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAA
196 TAAAGCGTTTTTGAC-CTTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAA
* * * *
31091125 GATCTACTCTAGCAAAAACGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACGAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * *
31091190 CTGCTTAAAGCGTTTTTAACACTATTTGCTTAGAAATGTCTACTCGAAATTATTTTTTCAGGAGC
66 CTGCTTAAAGCATTTTTAACAC-ATTTGCTCAGAAACGTCTACTCGAAATTATTATTTCAGAAGC
* * *
31091255 CACTGTAGCAAAAGCGCATCCAC-TGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGC
130 CACTGTAGCAAAAGCGCATCCACGTGAGAGCTTCTTTCAGTACTTTTACTGACAAAGCATACTAC
* ** * *
31091319 TTAAAGCGTTTTTGACCTTATTTGCTCAGAAATGTTTACTCGAAATTATTTTTTCAG
195 TTAAAGCGTTTTTGACCTTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAA
* **
31091376 GAGCAACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
31091417 AAATTAACAA
Statistics
Matches: 259, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
250 1 0.00
251 198 0.76
252 60 0.23
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (251 bp):
GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCATTTTTAACACATTTGCTCAGAAACGTCTACTCGAAATTATTATTTCAGAAGCC
ACTGTAGCAAAAGCGCATCCACGTGAGAGCTTCTTTCAGTACTTTTACTGACAAAGCATACTACT
TAAAGCGTTTTTGACCTTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAA
Found at i:31091331 original size:125 final size:126
Alignment explanation
Indices: 31090871--31091416 Score: 783
Period size: 125 Copynumber: 4.3 Consensus size: 126
31090861 TTAGGCCAAA
* **
31090871 CAGGAGCTACTGTAGCAAAAACGCGTCCATATGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * *
31090936 ATCTTGCTTAAAGCATTTTTGACAC-ATTTGCTCAGAAACGTCTACTCGAAATTATTATTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
* * * **
31090996 CAGAAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGATGAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * * *
31091061 ATACTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
* * * * * *
31091122 CAAGATCTACTCTAGCAAAAACGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACGAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * *
31091187 ATCCTGCTTAAAGCGTTTTTAACACTATTTGCTTAGAAATGTCTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
* * *
31091248 CAGGAGCCACTGTAGCAAAAGCGCATCCAC-TGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* *
31091312 ATCCTGCTTAAAGCGTTTTTGAC-CTTATTTGCTCAGAAATGTTTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACAC-TATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
* *
31091373 CAGGAGCAACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
31091417 AAATTAACAA
Statistics
Matches: 373, Mismatches: 45, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
124 1 0.00
125 194 0.52
126 178 0.48
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
Found at i:31092355 original size:26 final size:27
Alignment explanation
Indices: 31092313--31092363 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
31092303 ATCACCTTTT
*
31092313 TTTTAAATATTATAAAAAAT-ATATTG
1 TTTTAAATATTAAAAAAAATCATATTG
31092339 TTTTAAA-ATGTAAAAAAAATCATAT
1 TTTTAAATAT-TAAAAAAAATCATAT
31092364 ATAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 16 0.73
27 4 0.18
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
TTTTAAATATTAAAAAAAATCATATTG
Found at i:31092808 original size:18 final size:19
Alignment explanation
Indices: 31092744--31092807 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 19
31092734 TAATATTTTG
* *
31092744 ATTTTTAAAATTTTAAATTA
1 ATTTTTAGAATTTT-ATTTA
*
31092764 TATATTTTAGAATTTTATTTT
1 -AT-TTTTAGAATTTTATTTA
31092785 ATTTTTA-AATTTT-TTTA
1 ATTTTTAGAATTTTATTTA
31092802 ATTTTT
1 ATTTTT
31092808 TTGAATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 5 0.13
20 2 0.05
21 5 0.13
22 11 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTAGAATTTTATTTA
Found at i:31094013 original size:11 final size:10
Alignment explanation
Indices: 31093973--31094044 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
31093963 TTTTCTATTA
31093973 AATATAATTT
1 AATATAATTT
**
31093983 AATA-AAAAT
1 AATATAATTT
31093992 AATAAATAATTT
1 AAT--ATAATTT
31094004 AATCATAATTT
1 AAT-ATAATTT
31094015 AATATAA-TT
1 AATATAATTT
31094024 -AT-T-ATTT
1 AATATAATTT
31094031 AATATAATTT
1 AATATAATTT
31094041 AATA
1 AATA
31094045 AAAATAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
6 1 0.02
7 3 0.06
8 4 0.08
9 9 0.18
10 16 0.32
11 11 0.22
12 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATAATTT
Found at i:31094017 original size:16 final size:16
Alignment explanation
Indices: 31093976--31094038 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
31093966 TCTATTAAAT
* *
31093976 ATAATTTAATAAAAATA
1 ATAATTTAAT-ATAATC
* *
31093993 ATAA-ATAATTTAATC
1 ATAATTTAATATAATC
*
31094008 ATAATTTAATATAATT
1 ATAATTTAATATAATC
*
31094024 ATTATTTAATATAAT
1 ATAATTTAATATAAT
31094039 TTAATAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 7 0.19
16 26 0.70
17 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAATATAATC
Found at i:31094018 original size:26 final size:25
Alignment explanation
Indices: 31093989--31094051 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
31093979 ATTTAATAAA
31093989 AATAATAAATAATTTAATCATAATTT
1 AATAATAAATAATTTAAT-ATAATTT
*
31094015 AAT-ATAATTATTATTTAATATAATTT
1 AATAATAA--ATAATTTAATATAATTT
31094041 AATAA-AAATAA
1 AATAATAAATAA
31094052 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 15 0.47
27 10 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAATAAATAATTTAATATAATTT
Found at i:31094021 original size:21 final size:20
Alignment explanation
Indices: 31093973--31094044 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
31093963 TTTTCTATTA
**
31093973 AATATAATTTAATA-AAAAT
1 AATATAATTTAATATAATTT
31093992 AATAAATAATTTAATCATAATTT
1 AAT--ATAATTTAAT-ATAATTT
31094015 AATATAA-TT-AT-T-ATTT
1 AATATAATTTAATATAATTT
31094031 AATATAATTTAATA
1 AATATAATTTAATA
31094045 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
16 11 0.25
17 3 0.07
18 2 0.05
19 5 0.11
20 2 0.05
21 14 0.32
22 1 0.02
23 6 0.14
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATAATTTAATATAATTT
Found at i:31094038 original size:58 final size:56
Alignment explanation
Indices: 31093968--31094086 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 56
31093958 GAATTTTTTC
* * *
31093968 TATTAAATATAATTTAATAAAAATAATAAATAATTTAATCATAAT-TTAATATAATTAT
1 TATTTAATATAATTTAATAAAAAT-A-AAA-AATTTAATAACAATCTTAATATAATTAT
*
31094026 TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACATTCTTAATATAATTAT
1 TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACAATCTTAATATAATTAT
31094082 T-TTTA
1 TATTTA
31094087 TTAAATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
55 15 0.27
56 17 0.30
57 1 0.02
58 23 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (56 bp):
TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACAATCTTAATATAATTAT
Found at i:31094764 original size:19 final size:18
Alignment explanation
Indices: 31094740--31094811 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
31094730 CAATTTCACA
31094740 TTTTATCTTTAAAATAATT
1 TTTTAT-TTTAAAATAATT
** *
31094759 TTTTATTAAAAAATTATAT
1 TTTTATTTTAAAATAAT-T
*
31094778 TTTTATATTTAATATAATT
1 TTTTAT-TTTAAAATAATT
* *
31094797 TTTAATTTCAAAATA
1 TTTTATTTTAAAATA
31094812 CATAGTGACT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 15 0.37
19 19 0.46
20 7 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATTTTAAAATAATT
Found at i:31094797 original size:18 final size:18
Alignment explanation
Indices: 31094740--31094811 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
31094730 CAATTTCACA
*
31094740 TTTTATCTTTAAAATAAT
1 TTTTATATTTAAAATAAT
*
31094758 TTTT-TATTAAAAAATTATAT
1 TTTTATATT-TAAAA-TA-AT
*
31094778 TTTTATATTTAATATAAT
1 TTTTATATTTAAAATAAT
31094796 TTTTA-ATTTCAAAATA
1 TTTTATATTT-AAAATA
31094812 CATAGTGACT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.16
18 20 0.45
19 4 0.09
20 9 0.20
21 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATATTTAAAATAAT
Found at i:31107420 original size:32 final size:32
Alignment explanation
Indices: 31107377--31107480 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
31107367 AGTTCAATTA
31107377 TAAT-TAA-ACTTAATCACTTTAATATTAAAT
1 TAATATAATACTTAATCACTTTAATATTAAAT
* *
31107407 TAATATAATACTT-ATCA-TGATAAATATTAGAT
1 TAATATAATACTTAATCACT--TTAATATTAAAT
* *
31107439 TAAATTTAATATTAAGATAATCACTTTAATATTAAAT
1 T-AATATAATACT----TAATCACTTTAATATTAAAT
31107476 TAATA
1 TAATA
31107481 ATATATTATC
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
30 5 0.09
31 7 0.12
32 15 0.27
33 9 0.16
36 3 0.05
37 12 0.21
38 4 0.07
39 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (32 bp):
TAATATAATACTTAATCACTTTAATATTAAAT
Found at i:31107519 original size:68 final size:69
Alignment explanation
Indices: 31107387--31107521 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 69
31107377 TAATTAAACT
* * *
31107387 TAATCACTTTAATATTAAATTAATATAATACTTATCATGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAAATTAATATT
31107452 AAGA
66 AAGA
*
31107456 TAATCACTTTAATATTAAATTAATA-ATATA-TTATCAAGATAAGTATTAAATTAAAATTAATAT
1 TAATCACTTTAATATTAAATTAATATA-ATACTTATCAAGATAAATATTAAATTAAAATTAATAT
31107519 TAA
65 TAA
31107522 ATATATTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
68 33 0.54
69 28 0.46
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAAATTAATATT
AAGA
Found at i:31107528 original size:26 final size:30
Alignment explanation
Indices: 31107465--31107541 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 30
31107455 ATAATCACTT
*
31107465 TAATATTAAATTAATAATATATTATCAAGA
1 TAATATTAAATTAATAATATAATATCAAGA
*
31107495 TAAGTATTAAATTAA-AAT-TAATATTAA-A
1 TAA-TATTAAATTAATAATATAATATCAAGA
*
31107523 T-ATATTAAAATAATAATAT
1 TAATATTAAATTAATAATAT
31107542 TTTTGAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 10 0.24
27 4 0.10
28 3 0.07
29 7 0.17
30 6 0.15
31 11 0.27
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (30 bp):
TAATATTAAATTAATAATATAATATCAAGA
Found at i:31107537 original size:68 final size:69
Alignment explanation
Indices: 31107396--31107537 Score: 173
Period size: 68 Copynumber: 2.1 Consensus size: 69
31107386 TTAATCACTT
* * *
31107396 TAATATTAAATTAATATAATACTTATCATGATAAATATTAGATTAAATTTAATATTAAGATAATC
1 TAATATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAAATTAATATTAAGATAATC
***
31107461 ACTT
66 AAAA
*
31107465 TAATATTAAATTAATA-ATATA-TTATCAAGATAAGTATTAAATTAAAATTAATATTAA-ATATA
1 TAATATTAAATTAATATA-ATACTTATCAAGATAAATATTAAATTAAAATTAATATTAAGATA-A
*
31107527 TTAAAA
64 TCAAAA
31107533 TAATA
1 TAATA
31107538 ATATTTTTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
67 3 0.05
68 41 0.65
69 19 0.30
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAAATTAATATTAAGATAATC
AAAA
Found at i:31109223 original size:64 final size:64
Alignment explanation
Indices: 31109122--31109252 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
31109112 TAAAATTGTC
31109122 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
* *
31109186 TTAACAATAAAATTTAGGAGAAATATAGAAATATTAATATAAAATAAATTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
31109250 TTA
1 TTA
31109253 GAATAGGAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (64 bp):
TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
Found at i:31109228 original size:32 final size:32
Alignment explanation
Indices: 31109128--31109230 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
31109118 TGTCTTAACA
*
31109128 ATAAAATTTAGGAGAAACATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
** **** ** *
31109160 ATAAAATAAAGTTTTAATCAT-TTAAT-TTAACA
1 ATAAAATTTAGGAGAAAT-ATAGAAATATTAA-T
31109192 ATAAAATTTAGGAGAAATATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
31109224 ATAAAAT
1 ATAAAAT
31109231 AAATTTTTAA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 6 0.12
32 36 0.75
33 6 0.12
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (32 bp):
ATAAAATTTAGGAGAAATATAGAAATATTAAT
Found at i:31109423 original size:46 final size:46
Alignment explanation
Indices: 31109349--31109438 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
31109339 TTTCAAAATT
* * *
31109349 TTAATATATAAATAATTGACCCTGATAGTAAAATTTTATAATTTTC
1 TTAATATATAAAGAATTGACCCTAATAGTAAAATTTTAAAATTTTC
* * * *
31109395 TTAATATATAAAGAATTTATCGTAATAGTAAAGTTTTAAAATTT
1 TTAATATATAAAGAATTGACCCTAATAGTAAAATTTTAAAATTT
31109439 ATACAAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (46 bp):
TTAATATATAAAGAATTGACCCTAATAGTAAAATTTTAAAATTTTC
Found at i:31118601 original size:18 final size:18
Alignment explanation
Indices: 31118563--31118612 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
31118553 ATCAAAACTC
31118563 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAA-TTTTAAA
*
31118582 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTTTAAA
*
31118600 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
31118613 AAGTCTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (18 bp):
GTTTCTCCAAATTTTAAA
Found at i:31118635 original size:14 final size:14
Alignment explanation
Indices: 31118616--31118647 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31118606 AAAATTTAAG
*
31118616 TCTTAAATTATTTT
1 TCTTAAATTATCTT
31118630 TCTTAAATTATCTT
1 TCTTAAATTATCTT
31118644 TCTT
1 TCTT
31118648 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTAAATTATCTT
Found at i:31120608 original size:42 final size:43
Alignment explanation
Indices: 31120537--31120633 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
31120527 AATTTGAGAT
* * **
31120537 TTACGTGTAAGACCATGTCTGGGACATTGGTGTCG-TATATGA
1 TTACGTGTAAGACCATGTATGGAACATTGGCATCGTTATATGA
* * *
31120579 TTACGTGTAAGACCCTGTATGGAATATTGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTATGGAACATTGGCATCGTTATATGA
*
31120622 TTACATGTAAGA
1 TTACGTGTAAGA
31120634 TCACGTCTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 29 0.63
43 17 0.37
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTATGGAACATTGGCATCGTTATATGA
Found at i:31126274 original size:25 final size:25
Alignment explanation
Indices: 31126234--31126308 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
31126224 CTTATACAAG
*
31126234 CATGTAATTGGGAAGCTCTTTCGAGC
1 CATGTAA-CGGGAAGCTCTTTCGAGC
* *
31126260 CATGTAACGGGAAGCTCATGT-AAGC
1 CATGTAACGGGAAGCTC-TTTCGAGC
* * *
31126285 TATATAACGGGAAGCTCTTGCGAG
1 CATGTAACGGGAAGCTCTTTCGAG
31126309 AAAATTATCG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.74
26 9 0.23
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (25 bp):
CATGTAACGGGAAGCTCTTTCGAGC
Found at i:31126323 original size:25 final size:24
Alignment explanation
Indices: 31126295--31126373 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 24
31126285 TATATAACGG
* *
31126295 GAAGCTCTTGCGAGAAAATTATCGA
1 GAAGCTCATACGAGAAAA-TATCGA
**
31126320 GAAGCTCATACGAGCCAATATCGA
1 GAAGCTCATACGAGAAAATATCGA
* **
31126344 GAAGCTCATA-AAGCCAATATCGA
1 GAAGCTCATACGAGAAAATATCGA
31126367 GAAGCTC
1 GAAGCTC
31126374 TGGAAAGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
23 19 0.39
24 16 0.33
25 14 0.29
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (24 bp):
GAAGCTCATACGAGAAAATATCGA
Found at i:31126362 original size:23 final size:24
Alignment explanation
Indices: 31126314--31126373 Score: 104
Period size: 23 Copynumber: 2.5 Consensus size: 24
31126304 GCGAGAAAAT
*
31126314 TATCGAGAAGCTCATACGAGCCAA
1 TATCGAGAAGCTCATACAAGCCAA
31126338 TATCGAGAAGCTCATA-AAGCCAA
1 TATCGAGAAGCTCATACAAGCCAA
31126361 TATCGAGAAGCTC
1 TATCGAGAAGCTC
31126374 TGGAAAGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (24 bp):
TATCGAGAAGCTCATACAAGCCAA
Found at i:31126424 original size:25 final size:26
Alignment explanation
Indices: 31126390--31126452 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
31126380 GCCATTAAGT
* *
31126390 ATCGGGAAGCTCAAGGGATCCAT-TA
1 ATCGGGAAGCTCAAGAGAGCCATATA
*
31126415 ATCGGGAAGCTTAAGAGAGCCATATA
1 ATCGGGAAGCTCAAGAGAGCCATATA
*
31126441 A-CGGGATGCTCA
1 ATCGGGAAGCTCA
31126453 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (26 bp):
ATCGGGAAGCTCAAGAGAGCCATATA
Found at i:31126833 original size:21 final size:21
Alignment explanation
Indices: 31126809--31126850 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31126799 TGAATTTAGC
* *
31126809 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATACACAT
*
31126830 TCAATTCAATCCAATACACAT
1 TCAATTCAATACAATACACAT
31126851 CTTTTACAAA
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:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
TCAATTCAATACAATACACAT
Found at i:31128634 original size:92 final size:92
Alignment explanation
Indices: 31128468--31128662 Score: 372
Period size: 92 Copynumber: 2.1 Consensus size: 92
31128458 TTTTCCTACC
*
31128468 ATTTACATTAATAATAACTCCCAAAATCTCGCACAACAATGAAGTAAAAAAATCGTTGTCTTTGG
1 ATTT-CATAAATAATAACTCCCAAAATCTCGCACAACAATGAAGTAAAAAAATCGTTGTCTTTGG
31128533 AAGAAAAGAAGCCATTATTGATTCACTT
65 AAGAAAAGAAGCCATTATTGATTCACTT
31128561 ATTTCATAAATAATAACTCCCAAAATCTCGCACAACAATGAAGTAAAAAAATCGTTGTCTTTGGA
1 ATTTCATAAATAATAACTCCCAAAATCTCGCACAACAATGAAGTAAAAAAATCGTTGTCTTTGGA
31128626 AGAAAAGAAGCCATTATTGATTCACTT
66 AGAAAAGAAGCCATTATTGATTCACTT
31128653 ATTTCATAAA
1 ATTTCATAAA
31128663 CTAACACAAC
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 97 0.96
93 4 0.04
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (92 bp):
ATTTCATAAATAATAACTCCCAAAATCTCGCACAACAATGAAGTAAAAAAATCGTTGTCTTTGGA
AGAAAAGAAGCCATTATTGATTCACTT
Found at i:31130366 original size:20 final size:20
Alignment explanation
Indices: 31130310--31130369 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
31130300 GTGTTTTCAA
*
31130310 TAATATTTGATATTTT-AATT
1 TAATATTT-TTATTTTAAATT
** *
31130330 TTCTATTTTTAAATTTAAATT
1 TAATATTTTT-ATTTTAAATT
31130351 TAATATTTTTATTTTAAAT
1 TAATATTTTTATTTTAAAT
31130370 AAATCTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 1 0.03
20 18 0.58
21 12 0.39
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TAATATTTTTATTTTAAATT
Found at i:31131427 original size:16 final size:17
Alignment explanation
Indices: 31131400--31131457 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
31131390 CTTCCCCCTA
31131400 TTTACTTTCCCTCAAACT
1 TTTA-TTTCCCTCAAACT
*
31131418 TTTA-TTCCCTAAAACTT
1 TTTATTTCCCTCAAAC-T
31131435 TTTATTTTCCCTCTAAACT
1 TTTA-TTTCCCTC-AAACT
31131454 TTTA
1 TTTA
31131458 CTTCTCACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.29
17 5 0.15
18 4 0.12
19 11 0.32
20 4 0.12
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTTCCCTCAAACT
Found at i:31131440 original size:17 final size:16
Alignment explanation
Indices: 31131406--31131436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31131396 CCTATTTACT
*
31131406 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
31131422 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
31131437 TATTTTCCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:31132391 original size:10 final size:10
Alignment explanation
Indices: 31132376--31132413 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
31132366 ATAACTTTTT
31132376 TTAAATATAA
1 TTAAATATAA
31132386 TTAAATAATAA
1 TTAAAT-ATAA
*
31132397 TTAATTATAA
1 TTAAATATAA
31132407 TTAAATA
1 TTAAATA
31132414 CTAAAATCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAATATAA
Found at i:31132518 original size:17 final size:17
Alignment explanation
Indices: 31132498--31132530 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31132488 TATTTATTTA
31132498 TAATAATTATAATTAAT
1 TAATAATTATAATTAAT
*
31132515 TAATAATTATATTTAA
1 TAATAATTATAATTAA
31132531 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAATTATAATTAAT
Found at i:31132795 original size:44 final size:44
Alignment explanation
Indices: 31132698--31132844 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 44
31132688 GTTTATGTAA
* * * *
31132698 AAACGCCGCTAAAGACCATGACATTTAGTGGCGCTTTTGGT-AC
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCACTTTTTGTCAC
*
31132741 AAACGCCGCTAAAGAACATGACCTTTAGTGGCATTTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCACTTTTTGTCAC
* * * * * *
31132785 AAACGCCGCTATAGATCA-AACCTTTAGCGGCACTTCTTG-CAA
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCACTTTTTGTCAC
31132827 AAACGCCGCTAAA-AACAT
1 AAACGCCGCTAAAGAACAT
31132845 AACGTTTAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.03
42 14 0.16
43 53 0.60
44 18 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (44 bp):
AAACGCCGCTAAAGAACATGACCTTTAGTGGCACTTTTTGTCAC
Found at i:31134967 original size:17 final size:17
Alignment explanation
Indices: 31134945--31134981 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
31134935 CAATAGCAAA
*
31134945 GAATGAACCACCTTTTT
1 GAATGAACCACCTCTTT
31134962 GAATGAACCACCTCTTT
1 GAATGAACCACCTCTTT
31134979 GAA
1 GAA
31134982 AGACCTTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (17 bp):
GAATGAACCACCTCTTT
Found at i:31135213 original size:33 final size:33
Alignment explanation
Indices: 31135171--31135264 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
31135161 TAAGCGCCAG
31135171 TTGAGAGTTAAAGCTAAATATTAGAAGTGCAAA
1 TTGAGAGTTAAAGCTAAATATTAGAAGTGCAAA
31135204 TTGAGAGTTAAAGCTAAATATTAGAAGTGCAAA
1 TTGAGAGTTAAAGCTAAATATTAGAAGTGCAAA
*
31135237 TTGAGAGTTAAAGCTAATTATTAGAAGT
1 TTGAGAGTTAAAGCTAAATATTAGAAGT
31135265 TTCATACAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (33 bp):
TTGAGAGTTAAAGCTAAATATTAGAAGTGCAAA
Found at i:31137348 original size:14 final size:15
Alignment explanation
Indices: 31137329--31137361 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31137319 CTTAAACCAG
31137329 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
31137343 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
31137358 AATC
1 AATC
31137362 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:31137811 original size:41 final size:41
Alignment explanation
Indices: 31137761--31138112 Score: 358
Period size: 41 Copynumber: 8.7 Consensus size: 41
31137751 AAATGTTTTT
* *
31137761 GCGGCGCTTTTTTAAAAACGCTGCT-AAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAG-CCTGAGCATTA
** *
31137802 GCGATGC-TTTTTAAAAAAGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
* * * * * *
31137842 GCTGTGC---TTCAAAAATGGCACTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
* * * *
31137880 GTGGCGCTTTTCTAAAAACGCCACTAAAGGCCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
31137921 GCGGCGCTTATTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
31137962 GCGGCGCTTTTTTAAAAACGCTGCTAAAAGCCTGAGGATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
** * * *
31138003 GAAGTGCTTTTTTAAAAATGCCGCTAAAAG-CTCGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCT-GAGCATTA
* * *
31138044 GCAGCGCTTTTTAAAAAACACCGCT-AAAGCTCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAAGC-CTGAGCATTA
* * *
31138085 GCGGCGCTTTCTCAAAAAAGCCGCTAAA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAA
31138113 GCCCCGAAAG
Statistics
Matches: 257, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
38 31 0.12
40 36 0.14
41 186 0.72
42 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:31141714 original size:36 final size:36
Alignment explanation
Indices: 31141667--31141951 Score: 123
Period size: 36 Copynumber: 7.7 Consensus size: 36
31141657 GTGCCTAGCA
*
31141667 CTAGTCAGATAAACTAACGAAGATTTGCGCCCAGCG
1 CTAGTCAGATAAACTGACGAAGATTTGCGCCCAGCG
* * * * * * *
31141703 CTAGTCGGATAATCTGTCAAATATAATGATGTGCCCAGCA
1 CTAGTCAGATAAACTGACGAAGAT--T--TGCGCCCAGCG
* * *
31141743 CTAGTAAGATAAACTGGCGAAGATTTGCACCCAGCG
1 CTAGTCAGATAAACTGACGAAGATTTGCGCCCAGCG
* * * * * *
31141779 CTAGTCGGAT--A-TGATGAATATAATGATGTGTCCAGCT
1 CTAGTCAGATAAACTGACGAAGAT--T--TGCGCCCAGCG
* * * * *
31141816 ATAGTCAGGTAAACTGACAAAGATTTGTGCCCTGCG
1 CTAGTCAGATAAACTGACGAAGATTTGCGCCCAGCG
* * **
31141852 CTAGTC-GAATAAA-TCGATGAAGATAATGATGTGCCCAGTA
1 CTAGTCAG-ATAAACT-GACGAAGAT--T--TGCGCCCAGCG
* * *
31141892 CTAGTAAGGTAAATTGACGAAGATTTGCGCCCAGCG
1 CTAGTCAGATAAACTGACGAAGATTTGCGCCCAGCG
*
31141928 CTAGTCGGATAAA-TCGACGAAGAT
1 CTAGTCAGATAAACT-GACGAAGAT
31141952 AATGATGTGC
Statistics
Matches: 178, Mismatches: 51, Indels: 40
0.66 0.19 0.15
Matches are distributed among these distances:
33 7 0.04
34 1 0.01
35 4 0.02
36 85 0.48
37 14 0.08
38 5 0.03
39 1 0.01
40 59 0.33
41 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (36 bp):
CTAGTCAGATAAACTGACGAAGATTTGCGCCCAGCG
Found at i:31141753 original size:76 final size:76
Alignment explanation
Indices: 31141656--31141994 Score: 379
Period size: 76 Copynumber: 4.5 Consensus size: 76
31141646 ATATAGAGGT
* * *
31141656 TGTGCCTAGCACTAGTCAGATAAACTAACGAAGATTTGCGCCCAGCGCTAGTCGGAT-AATCTG-
1 TGTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATC-GA
* *
31141719 TCAAATATAATGA
65 T-GAAGATAATGA
* *
31141732 TGTGCCCAGCACTAGTAAGATAAACTGGCGAAGATTTGCACCCAGCGCTAGTCGGAT--AT-GAT
1 TGTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATCGAT
*
31141794 GAATATAATGA
66 GAAGATAATGA
* * * * * * *
31141805 TGTGTCCAGCTA-TAGTCAGGTAAACTGACAAAGATTTGTGCCCTGCGCTAGTCGAATAAATCGA
1 TGTGCCCAGC-ACTAGTAAGATAAACTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATCGA
31141869 TGAAGATAATGA
65 TGAAGATAATGA
* * * *
31141881 TGTGCCCAGTACTAGTAAGGTAAATTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATCGAC
1 TGTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATCGAT
31141946 GAAGATAATGA
66 GAAGATAATGA
* * *
31141957 TGTGCCTAACACTAGTCACG-TAAA-TCGACGAAGATTTG
1 TGTGCCCAGCACTAGT-AAGATAAACT-GACGAAGATTTG
31141995 TTCACCAAAA
Statistics
Matches: 226, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
73 57 0.25
74 2 0.01
75 6 0.03
76 159 0.70
77 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (76 bp):
TGTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCGCCCAGCGCTAGTCGGATAAATCGAT
GAAGATAATGA
Found at i:31141857 original size:149 final size:149
Alignment explanation
Indices: 31141668--31141938 Score: 393
Period size: 149 Copynumber: 1.8 Consensus size: 149
31141658 TGCCTAGCAC
* * *
31141668 TAGTCAGATAAACTAACGAAGATTTGCGCCCAGCGCTAGTCGGAT-AATCTG-TCAAATATAATG
1 TAGTCAGATAAACTAACAAAGATTTGCGCCCAGCGCTAGTCGAATAAATC-GAT-AAAGATAATG
*
31141731 ATGTGCCCAGCACTAGTAAGATAAACTGGCGAAGATTTGCACCCAGCGCTAGTCGGATATGATGA
64 ATGTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCACCCAGCGCTAGTCGGATATGATGA
31141796 ATATAATGATGTGTCCAGCTA
129 ATATAATGATGTGTCCAGCTA
* * * * *
31141817 TAGTCAGGTAAACTGACAAAGATTTGTGCCCTGCGCTAGTCGAATAAATCGATGAAGATAATGAT
1 TAGTCAGATAAACTAACAAAGATTTGCGCCCAGCGCTAGTCGAATAAATCGATAAAGATAATGAT
* * * *
31141882 GTGCCCAGTACTAGTAAGGTAAATTGACGAAGATTTGCGCCCAGCGCTAGTCGGATA
66 GTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCACCCAGCGCTAGTCGGATA
31141939 AATCGACGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
149 102 0.95
150 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (149 bp):
TAGTCAGATAAACTAACAAAGATTTGCGCCCAGCGCTAGTCGAATAAATCGATAAAGATAATGAT
GTGCCCAGCACTAGTAAGATAAACTGACGAAGATTTGCACCCAGCGCTAGTCGGATATGATGAAT
ATAATGATGTGTCCAGCTA
Found at i:31141896 original size:40 final size:40
Alignment explanation
Indices: 31141841--31141991 Score: 127
Period size: 40 Copynumber: 3.9 Consensus size: 40
31141831 GACAAAGATT
* * *
31141841 TGTGCCCTGCGCTAGTCGAATAAATCGATGAAGATAATGA
1 TGTGCCCAGCACTAGTCGAATAAATCGACGAAGATAATGA
* *
31141881 TGTGCCCAGTACTAGT--AAGGTAAATTGACGAAGAT--T--
1 TGTGCCCAGCACTAGTCGAA--TAAATCGACGAAGATAATGA
* * *
31141917 TGCGCCCAGCGCTAGTCGGATAAATCGACGAAGATAATGA
1 TGTGCCCAGCACTAGTCGAATAAATCGACGAAGATAATGA
* * *
31141957 TGTGCCTAACACTAGTC-ACGTAAATCGACGAAGAT
1 TGTGCCCAGCACTAGTCGA-ATAAATCGACGAAGAT
31141992 TTGTTCACCA
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
36 27 0.31
38 5 0.06
40 54 0.63
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (40 bp):
TGTGCCCAGCACTAGTCGAATAAATCGACGAAGATAATGA
Found at i:31148075 original size:39 final size:43
Alignment explanation
Indices: 31147971--31148079 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 43
31147961 GATTAGAGGC
31147971 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--AT
* * ***
31148016 GTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
31148056 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
31148080 TAAGGAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
Found at i:31148245 original size:18 final size:17
Alignment explanation
Indices: 31148224--31148258 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31148214 TTATTATTAA
*
31148224 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31148242 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31148259 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31148305 original size:61 final size:61
Alignment explanation
Indices: 31148239--31148426 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
31148229 TTTTAATTAA
31148239 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
31148300 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
31148359 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
31148420 AATATAT
1 AATATAT
31148427 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:31148372 original size:14 final size:15
Alignment explanation
Indices: 31148323--31148374 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31148313 ATAAAATATA
31148323 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
31148338 TATTAAATATATTAT
1 AATTAAATATATTAT
31148353 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
31148366 AATTTAATA
1 AATTAAATA
31148375 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:31148418 original size:120 final size:120
Alignment explanation
Indices: 31148205--31148464 Score: 459
Period size: 120 Copynumber: 2.2 Consensus size: 120
31148195 TAATCATATT
*
31148205 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
1 TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
31148270 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAA
66 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
*
31148325 TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
31148390 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAT
66 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
*
31148445 TTGAA-ATAATTAATATTAAA
1 TT-AACATAATTATTATTAAA
31148465 ATTAACATGT
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 132 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
Found at i:31167988 original size:37 final size:37
Alignment explanation
Indices: 31167938--31168016 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31167928 TTATTACGAA
* * *
31167938 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31167975 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31168012 GTCTT
1 GTCTT
31168017 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31168213 original size:47 final size:47
Alignment explanation
Indices: 31168135--31168500 Score: 590
Period size: 47 Copynumber: 7.7 Consensus size: 47
31168125 CCCTTCGGGA
* * * * * *
31168135 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31168182 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31168229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31168276 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31168323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31168370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31168417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31168466 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
31168501 AGAATCCTAA
Statistics
Matches: 301, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 255 0.85
49 45 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31172991 original size:26 final size:26
Alignment explanation
Indices: 31172960--31173084 Score: 69
Period size: 26 Copynumber: 4.9 Consensus size: 26
31172950 AATTTTCTTG
31172960 AAATTTTTCTAGGGGTAAAATTGTCA
1 AAATTTTTCTAGGGGTAAAATTGTCA
** *
31172986 AAATTTTAT-TTTGGATAAAATTGTCA
1 AAATTTT-TCTAGGGGTAAAATTGTCA
* * **
31173012 AAATCTTATCGA-ACGTAAAATTGTCA
1 AAAT-TTTTCTAGGGGTAAAATTGTCA
* * * ** *
31173038 AAAATTATC-GGGGGTAAAATCATTA
1 AAATTTTTCTAGGGGTAAAATTGTCA
* *
31173063 AAATTTTACT-GGAGTAAAATTG
1 AAATTTTTCTAGGGGTAAAATTG
31173085 GGATGAAAAA
Statistics
Matches: 72, Mismatches: 22, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
25 29 0.40
26 40 0.56
27 3 0.04
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (26 bp):
AAATTTTTCTAGGGGTAAAATTGTCA
Found at i:31177907 original size:15 final size:16
Alignment explanation
Indices: 31177887--31177916 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31177877 ATAATACATG
31177887 CAAATAA-AAATATGT
1 CAAATAATAAATATGT
31177902 CAAATAATAAATATG
1 CAAATAATAAATATG
31177917 ATAAACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
CAAATAATAAATATGT
Found at i:31178284 original size:11 final size:11
Alignment explanation
Indices: 31178268--31178314 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
31178258 ACTAAACTAA
31178268 TTTCATTAAGT
1 TTTCATTAAGT
31178279 TTTCATTAAGTTT
1 TTTCATTAAG--T
*
31178292 TTTCATTAATT
1 TTTCATTAAGT
31178303 TTTC-TTAAGT
1 TTTCATTAAGT
31178313 TT
1 TT
31178315 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 7 0.22
11 15 0.47
13 10 0.31
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (11 bp):
TTTCATTAAGT
Found at i:31178310 original size:23 final size:24
Alignment explanation
Indices: 31178268--31178314 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
31178258 ACTAAACTAA
31178268 TTTCATTAAGTTTTCATTAAGTTT
1 TTTCATTAAGTTTTCATTAAGTTT
*
31178292 TTTCATTAATTTTTC-TTAAGTTT
1 TTTCATTAAGTTTTCATTAAGTTT
31178315 CTTTTTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTCATTAAGTTTTCATTAAGTTT
Found at i:31187410 original size:67 final size:66
Alignment explanation
Indices: 31187292--31187735 Score: 399
Period size: 67 Copynumber: 6.7 Consensus size: 66
31187282 ATTTCTTGGC
* ** * *
31187292 AGACTCTATATGTTATCATAGCCAAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
31187357 GT
65 AT
* * * * *
31187359 GGATTCTCTATGTTGCCATAATCGAGCTATGGTTTTACATATCATATCCCATGTTTAATGT-C--
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
31187421 AT
65 AT
* * ** * * *
31187423 GGACTCTTTACATTGCCATAGTCGAGCTATGGTCTTACATATCATATCCCATATTAAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
31187488 CT
65 AT
* * * * * * * ** *
31187490 ATACTCTTTATGTTGCCATAGCCGAGCTAGGGTTTTACACATTATACCTCATGATTAATGTATTG
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATGTCCTA
**
31187555 GC
65 AT
* * * * * * *
31187557 AAACTCTCTATGTTTCCATAGTCGAGCTATGGTGTTACACATTATACCTCATGTTTAATATACTG
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATGTCCTA
*
31187622 AC
65 AT
* *
31187624 ATACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
31187689 AC
65 AT
* * * *
31187691 AGACTTTTTATGTTGCCATAGTCGAGCTATGGTATTATACATCAT
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCAT
31187736 TTCCCCATTA
Statistics
Matches: 312, Mismatches: 60, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
64 54 0.17
65 1 0.00
66 3 0.01
67 252 0.81
68 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (66 bp):
AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACCCATGTTTAATGTCCTAA
T
Found at i:31187630 original size:134 final size:131
Alignment explanation
Indices: 31187287--31187735 Score: 458
Period size: 134 Copynumber: 3.4 Consensus size: 131
31187277 CATTTATTTC
* ** * *
31187287 TTGGCAGACTCTATATGTTATCATAGCCAAGCTATGGTCTTACACATCATACCCCATGTTTAATG
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATG
* * * * *
31187352 TCCTA-GTGGATTCTCTATGTTGCCATAATCGAGCTATGGTTTTACATATCATATCCCATGTTTA
65 TCCTACAT--ACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATA-CCCATGTTTA
31187416 ATGTCA
127 ATGT-A
** * * *
31187422 -T-G--GACTCTTTACATTGCCATAGTCGAGCTATGGTCTTACATATCATATCCCATATTAAATG
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATG
* * * *
31187483 TCCTACTATACTCTTTATGTTGCCATAGCCGAGCTAGGGTTTTACACATTATACCTCATGATTAA
65 TCCTAC-ATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATACC-CATGTTTAA
31187548 TGTA
128 TGTA
* * * * * *
31187552 TTGGCAAACTCTCTATGTTTCCATAGTCGAGCTATGGTGTTACACATTATACCTCATGTTTAATA
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATG
* *
31187617 TACTGACATACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAA
65 TCCT-ACATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATA-CCCATGTTTAA
*
31187682 TGTC
128 TGTA
* ** * * *
31187686 CTAACAGACTTTTTATGTTGCCATAGTCGAGCTATGGTATTATACATCAT
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCAT
31187736 TTCCCCATTA
Statistics
Matches: 256, Mismatches: 48, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
130 3 0.01
131 102 0.40
132 1 0.00
133 4 0.02
134 142 0.55
135 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (131 bp):
TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACCCATGTTTAATGT
CCTACATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATACCCATGTTTAATGT
A
Found at i:31190634 original size:5 final size:5
Alignment explanation
Indices: 31190624--31190706 Score: 166
Period size: 5 Copynumber: 16.6 Consensus size: 5
31190614 TTCTGATATT
31190624 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
31190674 TATGA TATGA TATGA TATGA TATGA TATGA TAT
1 TATGA TATGA TATGA TATGA TATGA TATGA TAT
31190707 ATGGTGATGG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 78 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:31193779 original size:27 final size:27
Alignment explanation
Indices: 31193749--31193926 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31193739 ATATTGAGTC
* * * *
31193749 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31193776 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31193803 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31193831 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31193858 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31193885 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31193912 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31193927 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31193888 original size:82 final size:81
Alignment explanation
Indices: 31193770--31193925 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31193760 TGCTATATAA
* *
31193770 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31193835 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31193852 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31193916 CACTTAGTGC
65 CACTTAGTGC
31193926 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31194415 original size:2 final size:2
Alignment explanation
Indices: 31194408--31194435 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31194398 ATGGCATACT
31194408 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
31194436 CTTCGGAATG
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:31205498 original size:20 final size:20
Alignment explanation
Indices: 31205470--31205511 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
31205460 CATTTTACCA
31205470 CTTTAATACTCCACAACCTT
1 CTTTAATACTCCACAACCTT
* *
31205490 CTTTGATACTCCTCAACCTT
1 CTTTAATACTCCACAACCTT
31205510 CT
1 CT
31205512 CTTTTACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (20 bp):
CTTTAATACTCCACAACCTT
Found at i:31209611 original size:35 final size:35
Alignment explanation
Indices: 31209565--31209635 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
31209555 CTTGTATAAG
*
31209565 TTCATTGATAATATTTGTGTTCCTCGTAGCTATAT
1 TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
*
31209600 TTCATTGATAATATTTGTGTTCCTTGTAACTATAT
1 TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
31209635 T
1 T
31209636 CTTGTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (35 bp):
TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
Found at i:31233299 original size:19 final size:20
Alignment explanation
Indices: 31233275--31233318 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
31233265 GTCAATATTT
*
31233275 TAAAAAAATATTTA-ATATA
1 TAAAAAAATATTTATAAATA
*
31233294 T-AAAAATTATTTATAAATA
1 TAAAAAAATATTTATAAATA
31233313 TAAAAA
1 TAAAAA
31233319 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAAATATTTATAAATA
Found at i:31233304 original size:18 final size:19
Alignment explanation
Indices: 31233277--31233321 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
31233267 CAATATTTTA
* *
31233277 AAAAAATATTTA-ATATAT
1 AAAAATTATTTATAAATAT
31233295 AAAAATTATTTATAAATAT
1 AAAAATTATTTATAAATAT
31233314 AAAAATTA
1 AAAAATTA
31233322 AATTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTATTTATAAATAT
Found at i:31233328 original size:18 final size:18
Alignment explanation
Indices: 31233286--31233330 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
31233276 AAAAAAATAT
**
31233286 TTAATATATAAAAATTATT
1 TTAA-ATATAAAAATTAAA
31233305 TATAAATATAAAAATTAAA
1 T-TAAATATAAAAATTAAA
31233324 TTAAATA
1 TTAAATA
31233331 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 14 0.61
20 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATATAAAAATTAAA
Found at i:31233368 original size:28 final size:29
Alignment explanation
Indices: 31233308--31233375 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
31233298 AATTATTTAT
* *
31233308 AAATATAAAAATTAAATTAAATAAATTTT
1 AAATATAAAAATTAAATTAAATAAATCTA
*
31233337 AAATATAAAATATT-CATT-AATAAATCTA
1 AAATATAAAA-ATTAAATTAAATAAATCTA
31233365 AAAT-TAAAAAT
1 AAATATAAAAAT
31233376 AACGATACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 5 0.14
28 12 0.34
29 13 0.37
30 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATATAAAAATTAAATTAAATAAATCTA
Found at i:31233372 original size:49 final size:50
Alignment explanation
Indices: 31233274--31233372 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
31233264 TGTCAATATT
*
31233274 TTAAAAAAATATTTAATATATAAAAATTATTTATAAATATAAAAATTAAA
1 TTAAAAAAATATTTAATATATAAAAATTATTAATAAATATAAAAATTAAA
* *
31233324 TTAAATAAAT-TTTAA-ATATAAAATATTCATTAATAAATCT-AAAATTAAA
1 TTAAAAAAATATTTAATATATAAAA-ATT-ATTAATAAATATAAAAATTAAA
31233373 AATAACGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
48 8 0.18
49 17 0.39
50 19 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (50 bp):
TTAAAAAAATATTTAATATATAAAAATTATTAATAAATATAAAAATTAAA
Found at i:31235936 original size:15 final size:15
Alignment explanation
Indices: 31235912--31235942 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31235902 GTTATGTAAG
31235912 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
31235927 TGAAATGTCAAGAGT
1 TGAAAGGTCAAGAGT
31235942 T
1 T
31235943 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:31236075 original size:16 final size:16
Alignment explanation
Indices: 31236051--31236088 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
31236041 TTTGGTTCGC
* *
31236051 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
31236067 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
31236083 TGTAAT
1 TGTAAT
31236089 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:31236172 original size:39 final size:43
Alignment explanation
Indices: 31236067--31236176 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
31236057 GGATTAGAGG
31236067 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * * ***
31236112 TGTAATGGAATAAAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
31236152 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
31236177 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:31236385 original size:51 final size:51
Alignment explanation
Indices: 31236330--31236505 Score: 136
Period size: 54 Copynumber: 3.1 Consensus size: 51
31236320 AAATATATTA
31236330 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
* * * **
31236381 TAATTTACTGAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATAT
1 TAA-TTA---AAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT-A-ATAATTAATATT-CTTAT
31236446 ATT
50 A-T
31236449 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 -TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
*
31236501 GAATT
1 TAATT
31236506 TACTCAAATC
Statistics
Matches: 96, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
51 7 0.07
52 4 0.04
53 4 0.04
54 11 0.11
55 5 0.05
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 5 0.05
66 11 0.11
67 4 0.04
68 4 0.04
69 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (51 bp):
TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
Found at i:31236453 original size:120 final size:120
Alignment explanation
Indices: 31236305--31236835 Score: 772
Period size: 120 Copynumber: 4.5 Consensus size: 120
31236295 ATCATATTTA
*
31236305 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
31236370 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
31236425 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
31236490 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
31236545 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC-------TT-A
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
31236602 -A----TA-ATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAA-TT
* * * *
31236651 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-T-AAT
* * * *
31236714 TAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAAAT
63 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
31236772 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATAATTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
31236836 GCAGAAATTT
Statistics
Matches: 370, Mismatches: 20, Indels: 42
0.86 0.05 0.10
Matches are distributed among these distances:
105 3 0.01
106 88 0.24
107 4 0.01
111 1 0.00
112 1 0.00
113 2 0.01
114 1 0.00
115 1 0.00
116 1 0.00
119 1 0.00
120 177 0.48
121 87 0.24
122 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:31236470 original size:14 final size:15
Alignment explanation
Indices: 31236421--31236472 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31236411 ATAAAATATA
31236421 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
31236436 TATTAAATATATTAT
1 AATTAAATATATTAT
31236451 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
31236464 AATTTAATA
1 AATTAAATA
31236473 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:31236590 original size:14 final size:15
Alignment explanation
Indices: 31236541--31236592 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31236531 GTAAAATATA
31236541 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
31236556 TATTAAATATATTAT
1 AATTAAATATATTAT
31236571 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
31236584 AATTTAATA
1 AATTAAATA
31236593 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:31236604 original size:24 final size:24
Alignment explanation
Indices: 31236577--31236632 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
31236567 TTATAATTAA
*
31236577 AATATAT-AATTTAATAAAATTCTT
1 AATATATGAATTTAATAAAA-TCAT
* *
31236601 AATA-ATGAATTTACTCAAATCAT
1 AATATATGAATTTAATAAAATCAT
31236624 AATATATGA
1 AATATATGA
31236633 TACTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
AATATATGAATTTAATAAAATCAT
Found at i:31236620 original size:106 final size:105
Alignment explanation
Indices: 31236491--31236709 Score: 345
Period size: 106 Copynumber: 2.1 Consensus size: 105
31236481 AATAATTAAT
* *
31236491 ATTCTT-ATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAAT
1 ATTCTTAATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTGAA-ATAAT
*
31236553 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
64 TAATATTAAATATATTATAATTAAAATATATAATTTAATAAA
31236595 ATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTGAAATAATT
1 ATTCTTAAT-ATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTGAAATAATT
* *
31236660 AATATTAAATATATTTTAATTAAAATATATAATTTAATGAA
65 AATATTAAATATATTATAATTAAAATATATAATTTAATAAA
31236701 ATTCTTAAT
1 ATTCTTAAT
31236710 TGGATAATAT
Statistics
Matches: 106, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
104 6 0.06
105 5 0.05
106 93 0.88
107 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (105 bp):
ATTCTTAATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTGAAATAATTA
ATATTAAATATATTATAATTAAAATATATAATTTAATAAA
Found at i:31236745 original size:121 final size:123
Alignment explanation
Indices: 31236590--31236830 Score: 337
Period size: 121 Copynumber: 2.0 Consensus size: 123
31236580 ATATAATTTA
*
31236590 ATAAAATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTGAA
1 ATAAAATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA-AT-AA
* * * *
31236654 -ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGG
64 CATAATTAATATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATTGG
* * * * *
31236713 ATAATATTCTT-AT-ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAAATAACA
1 ATAAAATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAAATAACA
*
31236776 TAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAAT
66 TAATTAATATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAAT
31236831 AATTAGCAGA
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
120 2 0.02
121 88 0.84
122 5 0.05
123 10 0.10
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (123 bp):
ATAAAATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAAATAACA
TAATTAATATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATTGG
Found at i:31236777 original size:227 final size:226
Alignment explanation
Indices: 31236382--31236833 Score: 748
Period size: 227 Copynumber: 2.0 Consensus size: 226
31236372 TTCTTATATT
* * *
31236382 AATTTACTGAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATA
1 AATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAATTAATATTAAATATA
31236447 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
* *
31236512 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAA
131 AATCATAATATATGATACTGTAAAATATAAAATAACATAATTATTATTAAATATAATATAATTAA
*
31236577 AATATATAATTTAATAAAATTCTTAATAATG
196 AATATATAATTTAATAAAATTATTAATAATG
31236608 AATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTGAA-ATAATTAATATTAAATA
1 AATTTACTCAAATCATAATATATGATACTATAAAAGATAAA-TT-AACATAATTAATATTAAATA
* * * *
31236671 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTATATTAATTTA
64 TATTATAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATTAATATTCTTATATGAATTTA
*
31236735 CTGAAATCATAATATATGATACTGTAAAATATAAAATAACATAATTATTATTAAATATAATATAA
127 CTCAAATCATAATATATGATACTGTAAAATATAAAATAACATAATTATTATTAAATATAATATAA
31236800 TTAAAATATATAATTTAATAAAATTATTAATAAT
192 TTAAAATATATAATTTAATAAAATTATTAATAAT
31236834 TAGCAGAAAT
Statistics
Matches: 211, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
225 3 0.01
226 89 0.42
227 118 0.56
228 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (226 bp):
AATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAATTAATATTAAATATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
AATCATAATATATGATACTGTAAAATATAAAATAACATAATTATTATTAAATATAATATAATTAA
AATATATAATTTAATAAAATTATTAATAATG
Found at i:31236810 original size:18 final size:18
Alignment explanation
Indices: 31236789--31236835 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
31236779 TTATTATTAA
31236789 ATATAATATAATTAAAAT
1 ATATAATATAATTAAAAT
*
31236807 ATATAATTTAA-TAAAAT
1 ATATAATATAATTAAAAT
*
31236824 -TATTA-ATAATTA
1 ATATAATATAATTA
31236836 GCAGAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 6 0.24
17 6 0.24
18 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATATAATTAAAAT
Found at i:31238292 original size:12 final size:12
Alignment explanation
Indices: 31238275--31238329 Score: 56
Period size: 12 Copynumber: 4.1 Consensus size: 12
31238265 GATGCAGACT
31238275 GGAGAAAGCAAA
1 GGAGAAAGCAAA
31238287 GGAGAAAGCAAAGCAAA
1 GGAG--A--A-AGCAAA
31238304 GGAAGAAAGCAAA
1 GG-AGAAAGCAAA
31238317 GGAGAAAGCAAA
1 GGAGAAAGCAAA
31238329 G
1 G
31238330 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 15 0.41
13 8 0.22
14 2 0.05
16 2 0.05
17 8 0.22
18 2 0.05
ACGTcount: A:0.58, C:0.09, G:0.33, T:0.00
Consensus pattern (12 bp):
GGAGAAAGCAAA
Found at i:31238312 original size:18 final size:17
Alignment explanation
Indices: 31238279--31238334 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
31238269 CAGACTGGAG
31238279 AAAGCAAAGGAGAAAGC
1 AAAGCAAAGGAGAAAGC
31238296 AAAGCAAA-G-G-AAG-
1 AAAGCAAAGGAGAAAGC
31238309 AAAGCAAAGGAGAAAGC
1 AAAGCAAAGGAGAAAGC
*
31238326 AAAGAAAAG
1 AAAGCAAAG
31238335 AAAAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 2 0.06
16 4 0.12
17 16 0.47
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (17 bp):
AAAGCAAAGGAGAAAGC
Found at i:31238313 original size:30 final size:30
Alignment explanation
Indices: 31238277--31238334 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
31238267 TGCAGACTGG
*
31238277 AGAAAGCAAAGGAGAAAGCAAAGCAAAGGA
1 AGAAAGCAAAGGAGAAAGCAAAGAAAAGGA
31238307 AGAAAGCAAAGGAGAAAGCAAAGAAAAG
1 AGAAAGCAAAGGAGAAAGCAAAGAAAAG
31238335 AAAAGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (30 bp):
AGAAAGCAAAGGAGAAAGCAAAGAAAAGGA
Found at i:31238329 original size:5 final size:5
Alignment explanation
Indices: 31238321--31238352 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
31238311 AGCAAAGGAG
*
31238321 AAAGC AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
31238353 CGGAGGGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:31242875 original size:15 final size:15
Alignment explanation
Indices: 31242855--31242885 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31242845 GTTATGTAAG
31242855 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
31242870 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
31242885 T
1 T
31242886 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:31244139 original size:17 final size:17
Alignment explanation
Indices: 31244113--31244145 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31244103 GTCACATAAT
31244113 CTAGTATAAA-TCTATA
1 CTAGTATAAATTCTATA
31244129 CTAGTTATAAATTCTAT
1 CTAG-TATAAATTCTAT
31244146 GATTGAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
CTAGTATAAATTCTATA
Found at i:31245940 original size:37 final size:37
Alignment explanation
Indices: 31245893--31245967 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
31245883 AATTACCCAA
*
31245893 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
31245930 TTGAATCACTACGTAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
31245967 T
1 T
31245968 GAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:31246141 original size:38 final size:39
Alignment explanation
Indices: 31246097--31246174 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
31246087 TCTTAATAGT
*
31246097 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
31246135 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
31246174 T
1 T
31246175 TAGGTTGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:31246173 original size:13 final size:13
Alignment explanation
Indices: 31246155--31246209 Score: 74
Period size: 13 Copynumber: 3.9 Consensus size: 13
31246145 TTTTAGTTTT
31246155 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
31246168 ATTGGGTTAGGTTGGTA
1 ATTGGGTT--G--GGTA
31246185 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
31246198 ATTGGGTTGGGT
1 ATTGGGTTGGGT
31246210 TGGATAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 24 0.63
15 2 0.05
17 12 0.32
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:31246182 original size:18 final size:17
Alignment explanation
Indices: 31246159--31246219 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
31246149 AGTTTTATTG
31246159 GGTTGGGTAATTGGGTT
1 GGTTGGGTAATTGGGTT
31246176 AGGTT-GGTAATT--G--
1 -GGTTGGGTAATTGGGTT
31246189 GGTTGGGTAATTGGGTT
1 GGTTGGGTAATTGGGTT
*
31246206 GGGTTGGATAATTG
1 -GGTTGGGTAATTG
31246220 TATTTATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
12 4 0.11
13 7 0.19
15 2 0.06
17 7 0.19
18 16 0.44
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.39
Consensus pattern (17 bp):
GGTTGGGTAATTGGGTT
Found at i:31246191 original size:30 final size:31
Alignment explanation
Indices: 31246155--31246219 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
31246145 TTTTAGTTTT
31246155 ATTGGGTTGGGTAATTGGGTTAGGTTGG-TA
1 ATTGGGTTGGGTAATTGGGTTAGGTTGGATA
*
31246185 ATTGGGTTGGGTAATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTAATTGGGTTAGGTTGGATA
31246216 ATTG
1 ATTG
31246220 TATTTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (31 bp):
ATTGGGTTGGGTAATTGGGTTAGGTTGGATA
Found at i:31246336 original size:30 final size:30
Alignment explanation
Indices: 31246300--31246358 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
31246290 AATTTTACCA
*
31246300 ACCGATTAACCGAATTCGGTCGGTTAACCC
1 ACCGATTAACCGAATGCGGTCGGTTAACCC
31246330 ACCGATTAACCGAATGCGGTCGGTTAACC
1 ACCGATTAACCGAATGCGGTCGGTTAACC
31246359 GAATTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (30 bp):
ACCGATTAACCGAATGCGGTCGGTTAACCC
Found at i:31246533 original size:10 final size:9
Alignment explanation
Indices: 31246501--31246534 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
31246491 TTTACCCACC
31246501 ATTAAAACA
1 ATTAAAACA
*
31246510 ATTAAAAAA
1 ATTAAAACA
31246519 ATTAAAACA
1 ATTAAAACA
31246528 ACTTAAA
1 A-TTAAA
31246535 CACTAACCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (9 bp):
ATTAAAACA
Found at i:31249313 original size:23 final size:23
Alignment explanation
Indices: 31249268--31249313 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
31249258 CTTTCTTACT
*
31249268 GTAGTAATTTTCAGGGTATTACA
1 GTAGTAATTTTCAGGGTAGTACA
31249291 GTAGTAATTTTC-GGGATAGTACA
1 GTAGTAATTTTCAGGG-TAGTACA
31249314 AAGAAACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (23 bp):
GTAGTAATTTTCAGGGTAGTACA
Found at i:31265482 original size:19 final size:19
Alignment explanation
Indices: 31265455--31265491 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31265445 AAGTGAGCCC
31265455 TGTCCAATGCTAGGACCAT
1 TGTCCAATGCTAGGACCAT
*
31265474 TGTCTAATGCTAGGACCA
1 TGTCCAATGCTAGGACCA
31265492 GCACTGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (19 bp):
TGTCCAATGCTAGGACCAT
Found at i:31272319 original size:5 final size:5
Alignment explanation
Indices: 31272311--31272336 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31272301 GAGATGGAAT
31272311 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
31272337 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:31272336 original size:26 final size:26
Alignment explanation
Indices: 31272285--31272336 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
31272275 TGAAGTTTTC
* * *
31272285 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
31272311 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
31272337 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:31274848 original size:15 final size:15
Alignment explanation
Indices: 31274824--31274853 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31274814 ATCCTAAATA
*
31274824 TTCTATTTCTATTTT
1 TTCTAATTCTATTTT
31274839 TTCTAATTCTATTTT
1 TTCTAATTCTATTTT
31274854 CTTAGGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTAATTCTATTTT
Found at i:31292531 original size:6 final size:6
Alignment explanation
Indices: 31292520--31292549 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
31292510 TTTTGTTTAG
*
31292520 TTGGTT TTGGTT TTGGTT TTGGTT TGGGTT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT
31292550 GGATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (6 bp):
TTGGTT
Found at i:31293070 original size:94 final size:94
Alignment explanation
Indices: 31292879--31293096 Score: 285
Period size: 94 Copynumber: 2.3 Consensus size: 94
31292869 CAATTCGATA
* * * * * * **
31292879 CACTGTAACTTTAGAGATATAAGATTTGTAGCTTCATCTTGCTCTACTACAACTTCGGGGAGATA
1 CACTGCAACTTCAGGGATATAGGATTTGTAACTTCATCTTGCTCCACTACAACTTCAAGGAGATA
*
31292944 AGATTCGCTATGGTAGATTCAATCCGATC
66 AGATTCGCTATGGTAGATTCAATCCGACC
* * *
31292973 CACTGCAACTTCAGGGATATAGGATTTGTAACTTCATTTTGCTCCACTGCAACTTTAAGGAGATA
1 CACTGCAACTTCAGGGATATAGGATTTGTAACTTCATCTTGCTCCACTACAACTTCAAGGAGATA
*
31293038 AGATTCGCTATGGTAGATTCGA-CCTGACC
66 AGATTCGCTATGGTAGATTCAATCC-GACC
* *
31293067 CACTACAACTTCAGGGGTATAGGATTTGTA
1 CACTGCAACTTCAGGGATATAGGATTTGTA
31293097 GTTGCAGCTT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 2 0.02
94 106 0.98
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (94 bp):
CACTGCAACTTCAGGGATATAGGATTTGTAACTTCATCTTGCTCCACTACAACTTCAAGGAGATA
AGATTCGCTATGGTAGATTCAATCCGACC
Found at i:31311191 original size:15 final size:16
Alignment explanation
Indices: 31311171--31311203 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31311161 AATTTATATT
31311171 AAAAATT-TAAAACCC
1 AAAAATTGTAAAACCC
*
31311186 AAAAATTGTTAAACCC
1 AAAAATTGTAAAACCC
31311202 AA
1 AA
31311204 TAACATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATTGTAAAACCC
Found at i:31316042 original size:12 final size:13
Alignment explanation
Indices: 31316014--31316046 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31316004 AAATGAAGAG
31316014 AGAAGAAACATGA
1 AGAAGAAACATGA
*
31316027 AGAAGAAGCA-GA
1 AGAAGAAACATGA
31316039 AGAAGAAA
1 AGAAGAAA
31316047 AGCTTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.64, C:0.06, G:0.27, T:0.03
Consensus pattern (13 bp):
AGAAGAAACATGA
Done.