Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 35 of 130
Found at i:8889974 original size:2 final size:2
Alignment explanation
Indices: 8889967--8889999 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8889957 AAACAAACGT
*
8889967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8890000 TAGTCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8892122 original size:13 final size:13
Alignment explanation
Indices: 8892104--8892128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8892094 TACATTACTC
8892104 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
8892117 TTTTTTTGTTTT
1 TTTTTTTGTTTT
8892129 ATTTCGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:8893055 original size:5 final size:5
Alignment explanation
Indices: 8893047--8893091 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
8893037 AAAAAAATGA
*
8893047 AATAT AATAT AATAC AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
8893092 TAAGCATCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:8894029 original size:3 final size:3
Alignment explanation
Indices: 8894021--8894045 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8894011 ACTTTAAAAC
8894021 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8894046 GCTAGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8898335 original size:17 final size:16
Alignment explanation
Indices: 8898314--8898353 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
8898304 AATAAGAACC
*
8898314 TTTTTTTATTTTTTGT
1 TTTTTTTATTTTTTAT
8898330 TGTTTTTTATTTTTTAT
1 T-TTTTTTATTTTTTAT
8898347 TTTTTTT
1 TTTTTTT
8898354 GTTTGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.88
Consensus pattern (16 bp):
TTTTTTTATTTTTTAT
Found at i:8898724 original size:104 final size:103
Alignment explanation
Indices: 8898454--8898728 Score: 241
Period size: 103 Copynumber: 2.7 Consensus size: 103
8898444 TTTCAACATT
* * * * * *
8898454 TTTGAATGCTCCTTCCAATAAAAAG-CATTAAAATTTTGAAAACTTAAAA-AGTTTTAC-CTGAA
1 TTTGAATGCTCC-TCCAATCAAAGGCCA-TAAAACTTTAAAAATTTAAAATA-TTTTACTC-GGA
* * * * * *
8898516 GGTTTTGAAAATTATGCTCGAAGGTCTTAGAGAATTCAAAAC
62 GGTCTTCAAAGTTGTGCTTGGAGGTCTTAGAGAATTCAAAAC
** * * * * *
8898558 TTTGAATGCTTTTTCAATTAAAGGCCATGAAACTTTAAAAATTTAAAATGTTTTGCTCGGAGGTC
1 TTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATTTAAAATATTTTACTCGGAGGTC
*
8898623 TTCAAAGTTGTGCTTGGAGGTCTTAGAGATTTCAAAATC
66 TTCAAAGTTGTGCTTGGAGGTCTTAGAGAATTCAAAA-C
* *** * * *
8898662 TTTGAATGCTCCTCCAATCAGAGGTTGTAAAACTTTAAACATTTAAAATATTTTATTTGGAGGTC
1 TTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATTTAAAATATTTTACTCGGAGGTC
8898727 TT
66 TT
8898729 AAAAATTATT
Statistics
Matches: 134, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
103 67 0.50
104 67 0.50
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (103 bp):
TTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATTTAAAATATTTTACTCGGAGGTC
TTCAAAGTTGTGCTTGGAGGTCTTAGAGAATTCAAAAC
Found at i:8898747 original size:104 final size:103
Alignment explanation
Indices: 8898537--8898757 Score: 237
Period size: 104 Copynumber: 2.1 Consensus size: 103
8898527 TTATGCTCGA
* ** * * *
8898537 AGGTCTTAGAGAATTCAAAACTTTGAATGCTTTTTCAATTAAAGGCCATGAAACTTTAAAAATTT
1 AGGTCTTAGAGATTTCAAAACTTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATTT
* * * * * *
8898602 AAAATGTTTTGCTCGGAGGTCTTCAAAGTTGTGCTTGG
66 AAAATATTTTACTCGGAGGTCTTAAAAATTGTCCATGG
* *** *
8898640 AGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCCAATCAGAGGTTGTAAAACTTTAAACATT
1 AGGTCTTAGAGATTTCAAAA-CTTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATT
* * *
8898705 TAAAATATTTTATTTGGAGGTCTTAAAAATTATTCCAT-G
65 TAAAATATTTTACTCGGAGGTCTTAAAAATT-GTCCATGG
8898744 AGGTCTTAGAGATT
1 AGGTCTTAGAGATT
8898758 ATGTCTAAGT
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
103 19 0.20
104 74 0.77
105 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (103 bp):
AGGTCTTAGAGATTTCAAAACTTTGAATGCTCCTCCAATCAAAGGCCATAAAACTTTAAAAATTT
AAAATATTTTACTCGGAGGTCTTAAAAATTGTCCATGG
Found at i:8899029 original size:26 final size:25
Alignment explanation
Indices: 8899000--8899065 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
8898990 ACAAATGTCT
*
8899000 ATTTCCAT-CAAATGATATGAATGCAA
1 ATTTCAATGCAAATG-TATG-ATGCAA
*
8899026 ATTTCAATGCAAATGTTTGATGCAA
1 ATTTCAATGCAAATGTATGATGCAA
*
8899051 A-TACAGATGCAAATG
1 ATTTCA-ATGCAAATG
8899066 AAAATGTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 16 0.46
26 10 0.29
27 6 0.17
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (25 bp):
ATTTCAATGCAAATGTATGATGCAA
Found at i:8899146 original size:66 final size:67
Alignment explanation
Indices: 8899056--8899212 Score: 237
Period size: 66 Copynumber: 2.3 Consensus size: 67
8899046 TGCAAATACA
* *
8899056 GATGCAAATGAAAATGTTCCTTTCATGTAAATGCCTCTACAAACACTTTTCTTAGGATGCAGATG
1 GATGCAAATGCAAAT-TT-CTTTCATGTAAATGCCCCTACAAACACTTTTCTTAGGATGCAGATG
8899121 CTAT
64 CTAT
*
8899125 GATGCAAATGCAAATTT-TTTCATGTAAATGCCCCTACAAATACTTTTCTTAGGATGCAGATGCT
1 GATGCAAATGCAAATTTCTTTCATGTAAATGCCCCTACAAACACTTTTCTTAGGATGCAGATGCT
8899189 AT
66 AT
*
8899191 -ACTACAAATGCAAATTTCTTTC
1 GA-TGCAAATGCAAATTTCTTTC
8899213 TTATGGTGTG
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
65 1 0.01
66 61 0.74
67 4 0.05
68 2 0.02
69 14 0.17
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (67 bp):
GATGCAAATGCAAATTTCTTTCATGTAAATGCCCCTACAAACACTTTTCTTAGGATGCAGATGCT
AT
Found at i:8901026 original size:12 final size:11
Alignment explanation
Indices: 8900973--8901041 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
8900963 CACCCATTCA
8900973 TTTTTT-TTCT
1 TTTTTTCTTCT
*
8900983 TTTATTCTTCAT
1 TTTTTTCTTC-T
*
8900995 TTCCTTTCATTTCAT
1 TT-TTTTC--TTC-T
8901010 TTTTTTCTTCT
1 TTTTTTCTTCT
8901021 TTTTTTCTTCAT
1 TTTTTTCTTC-T
*
8901033 TTTCTTCTT
1 TTTTTTCTT
8901042 TTATTGAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 5 0.10
11 14 0.29
12 15 0.31
13 3 0.06
14 4 0.08
15 7 0.15
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:8906279 original size:26 final size:26
Alignment explanation
Indices: 8906230--8906279 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8906220 TGAAAAAATA
** *
8906230 AAATAAAAGGAATTAAATTAAATATC
1 AAATAAAACCAATTAAATCAAATATC
*
8906256 AAATAAAACCAATTAAATCCAATA
1 AAATAAAACCAATTAAATCAAATA
8906280 ATTATTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.24
Consensus pattern (26 bp):
AAATAAAACCAATTAAATCAAATATC
Found at i:8906843 original size:23 final size:24
Alignment explanation
Indices: 8906813--8906858 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
8906803 AAGATTTAAT
8906813 ATAACATTCCTTT-TAAA-AATAAA
1 ATAACATT-CTTTGTAAATAATAAA
8906836 ATAACATTCTTTGTAAATAATAA
1 ATAACATTCTTTGTAAATAATAA
8906859 TTATTGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAACATTCTTTGTAAATAATAAA
Found at i:8907972 original size:3 final size:3
Alignment explanation
Indices: 8907964--8908011 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8907954 AGTTTAAAAC
8907964 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8908012 ATCAAACATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8908182 original size:16 final size:16
Alignment explanation
Indices: 8908163--8908193 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8908153 CAAATACACA
*
8908163 TAAAAATAAACTTTAT
1 TAAAAACAAACTTTAT
8908179 TAAAAACAAACTTTA
1 TAAAAACAAACTTTA
8908194 AATTTTATAT
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:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAACAAACTTTAT
Found at i:8911459 original size:17 final size:17
Alignment explanation
Indices: 8911420--8911461 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8911410 TGAGTTTCTC
8911420 TATTTTTTATTATAATT
1 TATTTTTTATTATAATT
* *
8911437 TGTTTTCTT-TTATACTT
1 TATTTT-TTATTATAATT
8911454 TATTTTTT
1 TATTTTTT
8911462 CAAATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTTTATTATAATT
Found at i:8924749 original size:11 final size:10
Alignment explanation
Indices: 8924728--8924761 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8924718 ATCTTGCTTA
8924728 TTTTCATTTT
1 TTTTCATTTT
*
8924738 TTTTCAATTT
1 TTTTCATTTT
8924748 TTTTCATGTTT
1 TTTTCAT-TTT
8924759 TTT
1 TTT
8924762 ATGGCTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:8936869 original size:130 final size:130
Alignment explanation
Indices: 8936624--8936881 Score: 421
Period size: 130 Copynumber: 2.0 Consensus size: 130
8936614 GCACTCACAA
* *
8936624 CTCAAATTTTTTTTCGCAAACCAAATGAAAATTATTTTTTTAATAAGTTTTAATTAATTTTAAAT
1 CTCAAATTTGTTTTCGCAAACCAAATGAAAATTACTTTTTTAATAAGTTTTAATTAATTTTAAAT
* *
8936689 CTTATTACGAATATAAATTTTTTTAAGTGACCAATCACATCTAGCTAAAAATATTTGTGGCTGCT
66 CTTATTAAGAATATAAATTTTTTTAAGTGACCAATCACATCTAGCAAAAAATATTTGTGGCTGCT
*
8936754 CTCAAATTTGTTTTCGCAAACCAAATGAAAATTGCTTTTTTAATAAGTTTTAATTAATTTTAAAT
1 CTCAAATTTGTTTTCGCAAACCAAATGAAAATTACTTTTTTAATAAGTTTTAATTAATTTTAAAT
* * * *
8936819 CTTATTAAGAATATAAA-TTTTTTATGTGACCAATCATATCTAGCCAAAAA-ATTGGTGGCTGCT
66 CTTATTAAGAATATAAATTTTTTTAAGTGACCAATCACATCTAGCAAAAAATATTTGTGGCTGCT
8936882 TTCCTTGTTT
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 12 0.10
129 30 0.25
130 78 0.65
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (130 bp):
CTCAAATTTGTTTTCGCAAACCAAATGAAAATTACTTTTTTAATAAGTTTTAATTAATTTTAAAT
CTTATTAAGAATATAAATTTTTTTAAGTGACCAATCACATCTAGCAAAAAATATTTGTGGCTGCT
Found at i:8937063 original size:15 final size:15
Alignment explanation
Indices: 8937040--8937073 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8937030 TAATTAATAT
*
8937040 TTAACTTTGATTTTC
1 TTAACTTTGACTTTC
*
8937055 TTAATTTTGACTTTC
1 TTAACTTTGACTTTC
8937070 TTAA
1 TTAA
8937074 GAAAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
TTAACTTTGACTTTC
Found at i:8937567 original size:21 final size:22
Alignment explanation
Indices: 8937537--8937588 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
8937527 GATATTTTTA
*
8937537 AATA-TTTATA-TTTGAAAAAT
1 AATATTTTATATTTTAAAAAAT
8937557 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
8937579 AATATTTTAT
1 AATATTTTAT
8937589 TAATTTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:8939332 original size:19 final size:19
Alignment explanation
Indices: 8939291--8939343 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
8939281 TTTAAAGTTC
* *
8939291 AACTAAAGAACAAGATGAAA
1 AACTAAAGAA-AATATCAAA
8939311 AACTAAAGAAAATATCAAA
1 AACTAAAGAAAATATCAAA
*
8939330 AACTGAAGAGAAAT
1 AACTAAAGA-AAAT
8939344 TGCATTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.13
Consensus pattern (19 bp):
AACTAAAGAAAATATCAAA
Found at i:8942336 original size:10 final size:10
Alignment explanation
Indices: 8942321--8942378 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
8942311 TCTAGTTTTG
8942321 CATTTTCATT
1 CATTTTCATT
*
8942331 CATTTTCATCA
1 CATTTTCAT-T
8942342 CATTTTTCATT
1 CA-TTTTCATT
8942353 GCATTTTCATT
1 -CATTTTCATT
*
8942364 -ATGTTTCATC
1 CAT-TTTCATT
8942374 CATTT
1 CATTT
8942379 CTTAGTTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 2 0.05
10 17 0.43
11 12 0.30
12 9 0.22
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.55
Consensus pattern (10 bp):
CATTTTCATT
Found at i:8942363 original size:11 final size:11
Alignment explanation
Indices: 8942318--8942363 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
8942308 TCATCTAGTT
8942318 TTGCATTTTCA
1 TTGCATTTTCA
8942329 TT-CATTTTCA
1 TTGCATTTTCA
**
8942339 TCACATTTTTCA
1 TTGCA-TTTTCA
8942351 TTGCATTTTCA
1 TTGCATTTTCA
8942362 TT
1 TT
8942364 ATGTTTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.30
11 12 0.40
12 9 0.30
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.57
Consensus pattern (11 bp):
TTGCATTTTCA
Found at i:8943276 original size:14 final size:14
Alignment explanation
Indices: 8943259--8943307 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
8943249 AAAAATAAAA
8943259 TTGAAACTTCAAAC
1 TTGAAACTTCAAAC
*
8943273 TTGAAACCTT-AAAG
1 TTGAAA-CTTCAAAC
**
8943287 TTGAAACCCCAAAC
1 TTGAAACTTCAAAC
8943301 TTGAAAC
1 TTGAAAC
8943308 CTCATATCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 1 0.03
14 25 0.86
15 3 0.10
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (14 bp):
TTGAAACTTCAAAC
Found at i:8943290 original size:28 final size:28
Alignment explanation
Indices: 8943254--8943309 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8943244 CCCCTAAAAA
**
8943254 TAAAATTGAAACTTCAAACTTGAAACCT
1 TAAAATTGAAACCCCAAACTTGAAACCT
*
8943282 TAAAGTTGAAACCCCAAACTTGAAACCT
1 TAAAATTGAAACCCCAAACTTGAAACCT
8943310 CATATCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (28 bp):
TAAAATTGAAACCCCAAACTTGAAACCT
Found at i:8943329 original size:13 final size:13
Alignment explanation
Indices: 8943313--8943353 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
8943303 GAAACCTCAT
8943313 ATCCAAACCCTAA
1 ATCCAAACCCTAA
8943326 ATCCCAAACCCTAA
1 AT-CCAAACCCTAA
* *
8943340 ATCCTAACCATAA
1 ATCCAAACCCTAA
8943353 A
1 A
8943354 CCAGGAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (13 bp):
ATCCAAACCCTAA
Found at i:8943334 original size:14 final size:14
Alignment explanation
Indices: 8943315--8943343 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8943305 AACCTCATAT
8943315 CCAAACCCTAAATC
1 CCAAACCCTAAATC
8943329 CCAAACCCTAAATC
1 CCAAACCCTAAATC
8943343 C
1 C
8943344 TAACCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (14 bp):
CCAAACCCTAAATC
Found at i:8943467 original size:13 final size:13
Alignment explanation
Indices: 8943422--8943472 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
8943412 ACCCTAAAGC
* *
8943422 CCTAAAGCCTAAA
1 CCTAAACCCTAAT
*
8943435 CCTAAACCTTAAT
1 CCTAAACCCTAAT
8943448 GCC-AAACCCTAAT
1 -CCTAAACCCTAAT
8943461 CCTAAACCCTAA
1 CCTAAACCCTAA
8943473 AATTCCTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.20
Consensus pattern (13 bp):
CCTAAACCCTAAT
Found at i:8943473 original size:7 final size:7
Alignment explanation
Indices: 8943411--8943473 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
8943401 GTCAAACTTG
8943411 AACCCTA
1 AACCCTA
8943418 AAGCCCTA
1 AA-CCCTA
*
8943426 AAGCCTA
1 AACCCTA
8943433 AA-CCTA
1 AACCCTA
*
8943439 AACCTTA
1 AACCCTA
**
8943446 ATGCC-A
1 AACCCTA
8943452 AACCCT-
1 AACCCTA
*
8943458 AATCCTA
1 AACCCTA
8943465 AACCCTA
1 AACCCTA
8943472 AA
1 AA
8943474 ATTCCTAACC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
6 15 0.35
7 21 0.49
8 7 0.16
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:8943946 original size:8 final size:8
Alignment explanation
Indices: 8943933--8943976 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
8943923 TTGTTTCAAA
8943933 AAAAAAAG
1 AAAAAAAG
8943941 -AAAAAAG
1 AAAAAAAG
8943948 AAAAAAAG
1 AAAAAAAG
*
8943956 AGAAAAAAT
1 A-AAAAAAG
8943965 AGAAAAAAG
1 A-AAAAAAG
8943974 AAA
1 AAA
8943977 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
8 10 0.31
9 15 0.47
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8943953 original size:17 final size:16
Alignment explanation
Indices: 8943930--8943976 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
8943920 TGATTGTTTC
8943930 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
*
8943946 AGAAAAAAAGAGAAAAA
1 A-AAAAAAAAAGAAAAA
* *
8943963 ATAGAAAAAAGAAA
1 AAAAAAAAAAGAAA
8943977 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAA
Found at i:8944616 original size:25 final size:25
Alignment explanation
Indices: 8944580--8944632 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
8944570 GTGTTTTATG
*
8944580 TTTCATGTATATTTTAATCATGCCA
1 TTTCATGCATATTTTAATCATGCCA
* *
8944605 TTTCATGCATATTTTAATTATGTCA
1 TTTCATGCATATTTTAATCATGCCA
8944630 TTT
1 TTT
8944633 ATTATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTCATGCATATTTTAATCATGCCA
Found at i:8944641 original size:25 final size:25
Alignment explanation
Indices: 8944580--8944644 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
8944570 GTGTTTTATG
*
8944580 TTTCATGTATATTTTAATCATGCCA
1 TTTCATATATATTTTAATCATGCCA
** * *
8944605 TTTCATGCATATTTTAATTATGTCA
1 TTTCATATATATTTTAATCATGCCA
8944630 TTT-ATTATATATTTT
1 TTTCA-TATATATTTT
8944645 TGTTCTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTCATATATATTTTAATCATGCCA
Found at i:8955519 original size:18 final size:18
Alignment explanation
Indices: 8955493--8955554 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
8955483 TTTCTCTTAC
* *
8955493 ATTTTTATTTCTTTTTAT
1 ATTTATATTTATTTTTAT
*
8955511 ATTTATATTTAGTTTTA-
1 ATTTATATTTATTTTTAT
*
8955528 A-TAATA-TTATTTTTAT
1 ATTTATATTTATTTTTAT
8955544 ATCTTATATTT
1 AT-TTATATTT
8955555 TATATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 1 0.03
18 18 0.53
19 2 0.06
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTATATTTATTTTTAT
Found at i:8956472 original size:13 final size:13
Alignment explanation
Indices: 8956446--8956539 Score: 63
Period size: 13 Copynumber: 7.5 Consensus size: 13
8956436 ATGGTTGAAT
8956446 TTTA-TTTA-TTA
1 TTTATTTTATTTA
8956457 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
8956470 TTTATGTTATAT-
1 TTTATTTTATTTA
*
8956482 TTTATTGTATTTA
1 TTTATTTTATTTA
* * *
8956495 TCTA-TGTATATA
1 TTTATTTTATTTA
*
8956507 TTTAGTTTATTTA
1 TTTATTTTATTTA
**
8956520 TCCCA-TTTATTTA
1 T-TTATTTTATTTA
8956533 TTTATTT
1 TTTATTT
8956540 AATCTTTATC
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
11 4 0.06
12 24 0.38
13 34 0.54
14 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:8956500 original size:25 final size:24
Alignment explanation
Indices: 8956455--8956540 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 24
8956445 TTTTATTTAT
*
8956455 TATTTATTTTATTTATTTATGT-TA
1 TATTTA-TTTATTTATCTATGTATA
8956479 TATTTTATTGTATTTATCTATGTATA
1 TA-TTTATT-TATTTATCTATGTATA
* * *
8956505 TATTTAGTTTATTTATCCCATTTATT
1 TATTTA-TTTATTTAT-CTATGTATA
8956531 TATTTATTTA
1 TATTTATTTA
8956541 ATCTTTATCT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.08
25 31 0.58
26 18 0.34
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (24 bp):
TATTTATTTATTTATCTATGTATA
Found at i:8956559 original size:4 final size:4
Alignment explanation
Indices: 8956446--8956540 Score: 77
Period size: 4 Copynumber: 23.0 Consensus size: 4
8956436 ATGGTTGAAT
*
8956446 TTTA TTTA -TTA TTTA TTTTA TTTA TTTA TGTTA TAT- TTTA TTGTA TTTA
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TT-TA TTTA
* * * **
8956495 TCTA TGTA TATA TTTA GTTTA TTTA TCCCA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
8956541 ATCTTTATCT
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
3 5 0.07
4 51 0.69
5 18 0.24
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:8957922 original size:117 final size:115
Alignment explanation
Indices: 8957787--8958010 Score: 290
Period size: 117 Copynumber: 1.9 Consensus size: 115
8957777 TTAAATTAAA
* * * *
8957787 TAAAATTTTTAAGGAAAAAGTTGATATATCAAATTTTCCTT-AAACAAAAATAATTTCAAAAAAA
1 TAAAATTTTTAAGAAAAAAGTTAAAATATCAAATTTTCCTTAAAACAAAAATAATTAC-AAAAAA
8957851 AACTTGAGAAAAAAGTTAAAAT-ATCAATTTTACCTTAAAATAAAAAATATTTT
65 AACTTGAG-AAAAAGTTAAAATAAT-AATTTTACCTT-AAATAAAAAATATTTT
* * *
8957904 TAAAATTTTTGAGAAAAAAGTTAAAATATCAATTTTTCCTTAAAACAAAACTAATTACAAAAAAA
1 TAAAATTTTTAAGAAAAAAGTTAAAATATCAAATTTTCCTTAAAACAAAAATAATTACAAAAAAA
** * * *
8957969 TTTTGCGAAAAAGTTAAAGTAATAATTTTTCCTTAAATAAAA
66 ACTTGAGAAAAAGTTAAAATAATAATTTTACCTTAAATAAAA
8958011 TTTTCCAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
115 8 0.09
116 22 0.24
117 49 0.53
118 14 0.15
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (115 bp):
TAAAATTTTTAAGAAAAAAGTTAAAATATCAAATTTTCCTTAAAACAAAAATAATTACAAAAAAA
ACTTGAGAAAAAGTTAAAATAATAATTTTACCTTAAATAAAAAATATTTT
Found at i:8957980 original size:58 final size:58
Alignment explanation
Indices: 8957801--8958005 Score: 211
Period size: 58 Copynumber: 3.5 Consensus size: 58
8957791 ATTTTTAAGG
* * * **
8957801 AAAAAGTTGATATATCAAATTTTCCTT-AAACAAAAATAATTTCAAAAAAAAACTTGAGA
1 AAAAAGTTAAAATATCAATTTTTCCTTAAAAC-AAAATAATTTC-AAAAAAATTTTGAGA
* * *** *
8957860 AAAAAGTTAAAATATCAATTTTACCTTAAAATAAAA-AATATTTTTAAAATTTTTGAGA
1 AAAAAGTTAAAATATCAATTTTTCCTTAAAACAAAATAAT-TTCAAAAAAATTTTGAGA
* *
8957918 AAAAAGTTAAAATATCAATTTTTCCTTAAAACAAAACTAATTACAAAAAAATTTTGCG-
1 AAAAAGTTAAAATATCAATTTTTCCTTAAAACAAAA-TAATTTCAAAAAAATTTTGAGA
*
8957976 AAAAAGTTAAAGTAAT-AATTTTTCCTTAAA
1 AAAAAGTTAAAAT-ATCAATTTTTCCTTAAA
8958006 TAAAATTTTC
Statistics
Matches: 121, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
58 73 0.60
59 42 0.35
60 6 0.05
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (58 bp):
AAAAAGTTAAAATATCAATTTTTCCTTAAAACAAAATAATTTCAAAAAAATTTTGAGA
Found at i:8958192 original size:52 final size:51
Alignment explanation
Indices: 8958069--8958197 Score: 174
Period size: 51 Copynumber: 2.5 Consensus size: 51
8958059 AATAAAATGG
*
8958069 AAAAGTTAAAATATCAATCTTTCC-TTTAAAATAATTTCAAAGGATTTAAGA
1 AAAAGTTGAAATATCAAT-TTTCCTTTTAAAATAATTTCAAAGGATTTAAGA
*
8958120 AAAAGTTGAAATATCAATTTTCCTTTTAGAATAATTTC-AA-GATTTTTAAGAA
1 AAAAGTTGAAATATCAATTTTCCTTTTAAAATAATTTCAAAGGA--TTTAAG-A
8958172 AAAAGTTGAAATATCAATTTTTCCTT
1 AAAAGTTGAAATATCAA-TTTTCCTT
8958198 GAAATTAATT
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
49 2 0.03
50 7 0.10
51 36 0.51
52 18 0.25
53 8 0.11
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (51 bp):
AAAAGTTGAAATATCAATTTTCCTTTTAAAATAATTTCAAAGGATTTAAGA
Found at i:8959622 original size:15 final size:15
Alignment explanation
Indices: 8959602--8959637 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8959592 AAGGCCTAAG
8959602 AAAAGATCAAGTCAA
1 AAAAGATCAAGTCAA
*
8959617 AAAAGATCAAGTCAG
1 AAAAGATCAAGTCAA
8959632 AAAAGA
1 AAAAGA
8959638 AGTAAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.17, T:0.11
Consensus pattern (15 bp):
AAAAGATCAAGTCAA
Found at i:8961767 original size:5 final size:5
Alignment explanation
Indices: 8961757--8961832 Score: 57
Period size: 5 Copynumber: 14.4 Consensus size: 5
8961747 TAAAAATCAG
* *
8961757 TAAAA TAAAA T-AAA TTAAA -AAAC TAAAAA TAAAA TAAAA TCAAAATA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA T--AAA-A
*
8961804 TAAAA TAAAT TAAAA TTAAAA TTAAAA TA
1 TAAAA TAAAA TAAAA -TAAAA -TAAAA TA
8961833 GAAAAATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
4 6 0.10
5 30 0.51
6 18 0.31
7 3 0.05
8 2 0.03
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:8961783 original size:23 final size:23
Alignment explanation
Indices: 8961757--8961832 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8961747 TAAAAATCAG
8961757 TAAAATAAAAT-AAATTAAAAAA
1 TAAAATAAAATAAAATTAAAAAA
* *
8961779 CTAAAAATAAAATAAAATCAAAATA
1 -T-AAAATAAAATAAAATTAAAAAA
* *
8961804 TAAAATAAATTAAAATT-AAAAT
1 TAAAATAAAATAAAATTAAAAAA
8961826 TAAAATA
1 TAAAATA
8961833 GAAAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 10 0.22
23 15 0.33
24 11 0.24
25 9 0.20
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATAAAATAAAATTAAAAAA
Found at i:8961785 original size:24 final size:24
Alignment explanation
Indices: 8961748--8961824 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
8961738 AATGAATAAT
8961748 AAAAATCAGTAAAATAAAATAAATTA
1 AAAAAT-A-TAAAATAAAATAAATTA
*
8961774 AAAAACTA-AAAATAAAATAAAAT-
1 AAAAA-TATAAAATAAAATAAATTA
* *
8961797 CAAAATATAAAATAAATTAAAATTA
1 AAAAATATAAAATAAAAT-AAATTA
8961822 AAA
1 AAA
8961825 TTAAAATAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.05
23 13 0.31
24 18 0.43
25 2 0.05
26 6 0.14
27 1 0.02
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (24 bp):
AAAAATATAAAATAAAATAAATTA
Found at i:8961793 original size:29 final size:28
Alignment explanation
Indices: 8961757--8961843 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
8961747 TAAAAATCAG
*
8961757 TAAAATAAAATAAATTAAAAAACTAAAAA
1 TAAAATAAAATAAAATAAAAAA-TAAAAA
* *
8961786 TAAAATAAAATCAAAATATAAAAT-AAAT
1 TAAAATAAAAT-AAAATAAAAAATAAAAA
8961814 TAAAATTAAAATTAAAATAGAAAAATAAAA
1 TAAAA-TAAAA-TAAAATA-AAAAATAAAA
8961844 CCTACGATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 8 0.16
29 23 0.47
30 15 0.31
31 3 0.06
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.23
Consensus pattern (28 bp):
TAAAATAAAATAAAATAAAAAATAAAAA
Found at i:8962670 original size:3 final size:3
Alignment explanation
Indices: 8962664--8962854 Score: 103
Period size: 3 Copynumber: 64.3 Consensus size: 3
8962654 TAACAATAGA
* * *
8962664 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AGT -AT AAAT AA- AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * *
8962708 AAT AAGCT CAT AAT AA- ATAT AAT -AT ACT ATAT TAT AAT AAT AAC AAA
1 AAT AA--T AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
8962755 AAA AAT AAT AAC AAT GAT AAT AAT AAT -AT AAT AAT -AT AAT -GT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
8962799 CAT ACT ATAT TAT AAT AAT AAT AAT AAT AAC AAT AA- AAT AAT AACA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
8962845 AAT AAT AAT A
1 AAT AAT AAT A
8962855 CTAGTAACAG
Statistics
Matches: 142, Mismatches: 30, Indels: 32
0.70 0.15 0.16
Matches are distributed among these distances:
2 14 0.10
3 119 0.84
4 7 0.05
5 2 0.01
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8963321 original size:55 final size:55
Alignment explanation
Indices: 8963144--8963331 Score: 180
Period size: 55 Copynumber: 3.4 Consensus size: 55
8963134 ATTGAATCAT
* * * * * *
8963144 AAGTCTAAAAAACAATTTGGACTAAGCCAAGATTGAATGACC-GTAATTGAACCGC
1 AAGTCTAGAAAATAATTTGGACTAAGCAAAGATCGAATGACCAG-GATTGAACTGC
* * ** * *
8963199 AAGTCTAGAAAATGATTTCGACTAAGCAAAGATCGAACAACCAGGATTGACCTGT
1 AAGTCTAGAAAATAATTTGGACTAAGCAAAGATCGAATGACCAGGATTGAACTGC
* * * *
8963254 AAGTCTAAAAAATAATATGGACTAAGCTAAGATCGAATGACCAGGATTGAACTAC
1 AAGTCTAGAAAATAATTTGGACTAAGCAAAGATCGAATGACCAGGATTGAACTGC
* * * *
8963309 AAGTTTGGAAAATGACTTGGACT
1 AAGTCTAGAAAATAATTTGGACT
8963332 GAGTCGAGGT
Statistics
Matches: 104, Mismatches: 28, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
55 103 0.99
56 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (55 bp):
AAGTCTAGAAAATAATTTGGACTAAGCAAAGATCGAATGACCAGGATTGAACTGC
Found at i:8965454 original size:44 final size:44
Alignment explanation
Indices: 8965406--8965765 Score: 301
Period size: 43 Copynumber: 8.4 Consensus size: 44
8965396 TTTTAAGTTA
* * * * *
8965406 TTGAGCCTCTATTTAGAAGAGCCTTCTTTACTTTTCAAAAGTCA
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
* ** *
8965450 TTGAGCTTCTGA-ACAGAGGAGCTTTATTTATTTTT-TAAAGTCG
1 TTGAGCCTCT-ATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
** * * * * * *
8965493 TAAAGTCTCTATTTATAGGAGCCTTATCTATTTTTTTTAAGTTG
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
*
8965537 -T-A---TCTATTTAGAGGAGCCTTATTTATTTTT-TGAAAGTTG
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCT-AAAGTCG
* * * * *
8965576 TTAAGCCTCTACTTAGAGAAGCCCTATTTA-TTTTCTAAAGTCA
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
* **
8965619 TTGAGCCTTTGCTTAGAGGAGCCTTATTTATTTTTC-AAAGTCG
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
* *
8965662 TTGAGCCTTTGTTTAGAGGAGCCTTATTTATTTTTC-AAAGTCG
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
* * * * * *
8965705 TTGAGCCTCTGTTTAGAGGAGCTTTATTTACTTTTCAAAAATTG
1 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
* *
8965749 TGGAGCATCTATTTAGA
1 TTGAGCCTCTATTTAGA
8965766 AGAGTTTTTA
Statistics
Matches: 260, Mismatches: 44, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
38 1 0.00
39 32 0.12
40 1 0.00
41 1 0.00
42 2 0.01
43 145 0.56
44 77 0.30
45 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (44 bp):
TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCTAAAGTCG
Found at i:8965553 original size:39 final size:39
Alignment explanation
Indices: 8965500--8965576 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
8965490 TCGTAAAGTC
* **
8965500 TCTATTTATAGGAGCCTTATCTATTTTTTTTAAGTTGTA
1 TCTATTTAGAGGAGCCTTATCTATTTTTTGAAAGTTGTA
*
8965539 TCTATTTAGAGGAGCCTTATTTATTTTTTGAAAGTTGT
1 TCTATTTAGAGGAGCCTTATCTATTTTTTGAAAGTTGT
8965577 TAAGCCTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (39 bp):
TCTATTTAGAGGAGCCTTATCTATTTTTTGAAAGTTGTA
Found at i:8965733 original size:169 final size:166
Alignment explanation
Indices: 8965382--8965733 Score: 352
Period size: 169 Copynumber: 2.1 Consensus size: 166
8965372 AAGATTGTCA
* ** * * * *
8965382 AGGAGCTTTTTTTTTTTTAAGTTATTGAGCCTCTATTTAGAAGAGCCTTCTTTACTTTTCAAAAG
1 AGGAGCTTTATTTTTTGAAAGTTATTAAGCCTCTACTTAGAAGAGCCCTATTTACTTTTCAAAAG
* * * *
8965447 TCATTGAGCTTCTGAACAGAGGAGCTTTATTTATTTTTTAAAGTCGTAAAGTCTCTATTTATAGG
66 TCATTGAGCTTCTGAACAGAGGAGCCTTATTTATTTTTCAAAGTCGTAAAGCCTCTATTTAGAGG
** *
8965512 AGCCTTATCTATTTTTTTTAAGTTGTATCTATTTAG
131 AGCCTTATCTATTTTTTCAAAGTCGTATCTATTTAG
*
8965548 AGGAGCCTTATTTATTTTTTGAAAGTTGTTAAGCCTCTACTTAG-AGAAGCCCTATTTA-TTTTC
1 AGGAG-C---TTTATTTTTTGAAAGTTATTAAGCCTCTACTTAGAAG-AGCCCTATTTACTTTTC
* *** ** * *
8965611 TAAAGTCATTGAGCCTT-TGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTTTGTT
61 AAAAGTCATTGAG-CTTCTGAACAGAGGAGCCTTATTTATTTTTCAAAGTCGTAAAGCCTCTATT
* *
8965675 TAGAGGAGCCTTATTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAG
125 TAGAGGAGCCTTATCTATTTTTTCAAAGTCG-T-A---TCTATTTAG
8965721 AGGAGCTTTATTT
1 AGGAGCTTTATTT
8965734 ACTTTTCAAA
Statistics
Matches: 150, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
166 5 0.03
167 1 0.01
168 10 0.07
169 79 0.53
170 41 0.27
172 1 0.01
173 13 0.09
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (166 bp):
AGGAGCTTTATTTTTTGAAAGTTATTAAGCCTCTACTTAGAAGAGCCCTATTTACTTTTCAAAAG
TCATTGAGCTTCTGAACAGAGGAGCCTTATTTATTTTTCAAAGTCGTAAAGCCTCTATTTAGAGG
AGCCTTATCTATTTTTTCAAAGTCGTATCTATTTAG
Found at i:8965956 original size:9 final size:9
Alignment explanation
Indices: 8965942--8965975 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
8965932 TTTTTTTTGT
8965942 TAAAAAAAA
1 TAAAAAAAA
8965951 TAAAAAAAA
1 TAAAAAAAA
8965960 T-AAAAAAA
1 TAAAAAAAA
8965968 TAAAAAAA
1 TAAAAAAA
8965976 TGAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:8965981 original size:9 final size:8
Alignment explanation
Indices: 8965944--8965986 Score: 68
Period size: 8 Copynumber: 5.2 Consensus size: 8
8965934 TTTTTTGTTA
8965944 AAAAAAAT
1 AAAAAAAT
8965952 AAAAAAAAT
1 -AAAAAAAT
8965961 AAAAAAAT
1 AAAAAAAT
8965969 AAAAAAAT
1 AAAAAAAT
*
8965977 GAAAAAAT
1 AAAAAAAT
8965985 AA
1 AA
8965987 GTGGTTGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8966782 original size:35 final size:34
Alignment explanation
Indices: 8966716--8966789 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
8966706 GAGCCAAGTC
* * * *
8966716 ATTTTTTTGTTTTGGTTTTTTTATTTTTTATTTA
1 ATTTTTTAGTTTTAGTTTTTTTATTTATTATTAA
8966750 ATTTTTTAGTTTTAGTTTTTTT-TTTGCATTATTAA
1 ATTTTTTAGTTTTAGTTTTTTTATTT--ATTATTAA
8966785 ATTTT
1 ATTTT
8966790 AAGAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 3 0.09
34 20 0.59
35 11 0.32
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.74
Consensus pattern (34 bp):
ATTTTTTAGTTTTAGTTTTTTTATTTATTATTAA
Found at i:8970068 original size:202 final size:202
Alignment explanation
Indices: 8969721--8970111 Score: 710
Period size: 202 Copynumber: 1.9 Consensus size: 202
8969711 AACCTAGACC
8969721 TAGTCTTCTAGTGATATCTTAAATCTTTGGTGGTTCTCTTATCCGCTATAAACTTCTGCCCAAAT
1 TAGTCTTCTAGTGATATCTTAAATCTTTGGTGGTTCTCTTATCCGCTATAAACTTCTGCCCAAAT
* *
8969786 TGACTCTCATATTCTAACCTTTATTGATCATCTGATTGATCACAATTTTACTGAACTTAAGTTTT
66 CGACTCTAATATTCTAACCTTTATTGATCATCTGATTGATCACAATTTTACTGAACTTAAGTTTT
8969851 TGCCTATTACGTTGATAGGTTCAAAAGATCAGTAAAAGCATTCCAATGACTCTTCTACATATGAG
131 TGCCTATTACGTTGATAGGTTCAAAAGATCAGTAAAAGCATTCCAATGACTCTTCTACATATGAG
8969916 GTATTTA
196 GTATTTA
*
8969923 TAGTCTTCTAGTGATATCTTAAATCTTTGGTGGTTTTCTTATCCGCTATAAACTTCTGCCCAAAT
1 TAGTCTTCTAGTGATATCTTAAATCTTTGGTGGTTCTCTTATCCGCTATAAACTTCTGCCCAAAT
* *
8969988 CGACTCTAATATTCTAACCTTTATTGATCATCTGATTGATCATAATTTTATTGAACTTAAGTTTT
66 CGACTCTAATATTCTAACCTTTATTGATCATCTGATTGATCACAATTTTACTGAACTTAAGTTTT
* * *
8970053 TGCCTATTGCGTTGATAGGTTTAAAAGATCAGTAAGAGCATTCCAATGACTCTTCTACA
131 TGCCTATTACGTTGATAGGTTCAAAAGATCAGTAAAAGCATTCCAATGACTCTTCTACA
8970112 ACTTCACATA
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
202 181 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (202 bp):
TAGTCTTCTAGTGATATCTTAAATCTTTGGTGGTTCTCTTATCCGCTATAAACTTCTGCCCAAAT
CGACTCTAATATTCTAACCTTTATTGATCATCTGATTGATCACAATTTTACTGAACTTAAGTTTT
TGCCTATTACGTTGATAGGTTCAAAAGATCAGTAAAAGCATTCCAATGACTCTTCTACATATGAG
GTATTTA
Found at i:8981154 original size:21 final size:22
Alignment explanation
Indices: 8981118--8981159 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8981108 TTTATGTTAT
*
8981118 TGCATGTTAGTTAAGTTTAATG
1 TGCATGTTACTTAAGTTTAATG
8981140 TGCATGTT-CTTAAGTTTAAT
1 TGCATGTTACTTAAGTTTAAT
8981160 AAGTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (22 bp):
TGCATGTTACTTAAGTTTAATG
Found at i:8981822 original size:29 final size:30
Alignment explanation
Indices: 8981768--8981825 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
8981758 ACTAATTCAA
**
8981768 TTTTGAAACATGCAATAAATTTAAATTAAC
1 TTTTGAAACATGCAATAAATCCAAATTAAC
8981798 TTTT-AAACATGCAATCAAA-CCAAATTAA
1 TTTTGAAACATGCAAT-AAATCCAAATTAA
8981826 ACCAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
TTTTGAAACATGCAATAAATCCAAATTAAC
Found at i:8987771 original size:19 final size:20
Alignment explanation
Indices: 8987743--8987783 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
8987733 TGCAACTATT
*
8987743 ATTAACCAAAC-TAAAATAA
1 ATTAAACAAACTTAAAATAA
*
8987762 ATTAAACAAACTTCAAATAA
1 ATTAAACAAACTTAAAATAA
8987782 AT
1 AT
8987784 CAAAACAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (20 bp):
ATTAAACAAACTTAAAATAA
Found at i:8988800 original size:12 final size:12
Alignment explanation
Indices: 8988771--8988813 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
8988761 ACCCCAACCC
8988771 CTTACTTACACT
1 CTTACTTACACT
8988783 -TTACTTACACT
1 CTTACTTACACT
*
8988794 CTTACTTATACT
1 CTTACTTACACT
8988806 CTTACTTA
1 CTTACTTA
8988814 AGACTAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.47
Consensus pattern (12 bp):
CTTACTTACACT
Found at i:8994685 original size:8 final size:9
Alignment explanation
Indices: 8994654--8994703 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 9
8994644 ATGAAGCCCA
8994654 AAAAAAATG
1 AAAAAAATG
8994663 AATGAAAAATG
1 AA--AAAAATG
8994674 AAAAAAAT-
1 AAAAAAATG
8994682 AAAAAAATGAG
1 AAAAAAAT--G
8994693 AAAAAAATG
1 AAAAAAATG
8994702 AA
1 AA
8994704 GAATGAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 8 0.22
9 11 0.31
11 17 0.47
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:8995559 original size:22 final size:21
Alignment explanation
Indices: 8995534--8995580 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8995524 TTTGTAAAAT
*
8995534 CTTTGGGCATAATCTTAAAGTC
1 CTTT-GGCATAATCTCAAAGTC
**
8995556 CTTTGTTATAATCTCAAAGTC
1 CTTTGGCATAATCTCAAAGTC
8995577 CTTT
1 CTTT
8995581 AAGCACGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (21 bp):
CTTTGGCATAATCTCAAAGTC
Found at i:8996045 original size:33 final size:32
Alignment explanation
Indices: 8995979--8996047 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
8995969 TATCATGTTT
* *
8995979 TTTTCGACTTCAGCTAAGTCCAAGTTATTTCA
1 TTTTCGACTTCAGCTAAGTCCAAGTCATATCA
* *
8996011 TTTTCTGACTTCAGCTAAGTCTAAGTCGTATCA
1 TTTTC-GACTTCAGCTAAGTCCAAGTCATATCA
8996044 TTTT
1 TTTT
8996048 TTTACTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (32 bp):
TTTTCGACTTCAGCTAAGTCCAAGTCATATCA
Found at i:8998164 original size:11 final size:11
Alignment explanation
Indices: 8998148--8998195 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
8998138 TTTAAAATTT
8998148 ATAATAAAATA
1 ATAATAAAATA
8998159 ATAATAAAATA
1 ATAATAAAATA
*
8998170 ACAATAAAA-A
1 ATAATAAAATA
*
8998180 GTAATAAAGATA
1 ATAATAAA-ATA
8998192 ATAA
1 ATAA
8998196 AAGATTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 7 0.23
11 20 0.65
12 4 0.13
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:8998364 original size:3 final size:3
Alignment explanation
Indices: 8998356--8998419 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
8998346 AAAATAAAGA
* *
8998356 AAT AAT AAT AAAT AAT AAT AAA AAT AAAT AAT AGT AA- AAGT AA- AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT
*
8998402 AAAT ACT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AA
8998420 ATTTTGATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 4 0.08
3 34 0.69
4 11 0.22
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:8998381 original size:16 final size:16
Alignment explanation
Indices: 8998344--8998399 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
8998334 AATATAAAAG
*
8998344 TAAAAATAAA-GA-AA
1 TAAAAATAAATAATAA
*
8998358 TAATAATAAATAATAA
1 TAAAAATAAATAATAA
*
8998374 TAAAAATAAATAATAG
1 TAAAAATAAATAATAA
*
8998390 TAAAAGTAAA
1 TAAAAATAAA
8998400 ATAAATACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 25 0.71
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
TAAAAATAAATAATAA
Found at i:8998421 original size:16 final size:16
Alignment explanation
Indices: 8998356--8998416 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
8998346 AAAATAAAGA
8998356 AATAATAATAAATAAT
1 AATAATAATAAATAAT
*
8998372 AATAAAAATAAATAAT
1 AATAATAATAAATAAT
*
8998388 AGTAA-AAGTAAAATAAAT
1 AATAATAA-T-AAAT-AAT
*
8998406 ACTAATAATAA
1 AATAATAATAA
8998417 TAAATTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.05
16 20 0.53
17 6 0.16
18 8 0.21
19 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:8998633 original size:13 final size:13
Alignment explanation
Indices: 8998602--8998636 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
8998592 ACCCTAAAGT
*
8998602 GAAACACTAACTC
1 GAAACCCTAACTC
8998615 GAAACCCTAACTC
1 GAAACCCTAACTC
8998628 GAAACCCTA
1 GAAACCCTA
8998637 TATGAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (13 bp):
GAAACCCTAACTC
Found at i:8998667 original size:19 final size:19
Alignment explanation
Indices: 8998655--8998691 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8998645 ATGAAACTGT
*
8998655 AAACCTTATATGAAACCCA
1 AAACCTTAAATGAAACCCA
8998674 AAACCTTAAATGAAACCC
1 AAACCTTAAATGAAACCC
8998692 TAGTTCAAAC
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:0.49, C:0.27, G:0.05, T:0.19
Consensus pattern (19 bp):
AAACCTTAAATGAAACCCA
Found at i:9000663 original size:45 final size:45
Alignment explanation
Indices: 9000549--9000671 Score: 115
Period size: 45 Copynumber: 2.7 Consensus size: 45
9000539 TAATTATAAT
* * *
9000549 TATAATTATTATTAAAATTTAAAATATATTATTATATTTATTTTA
1 TATAATTATTATTAAAATTTTAAATATATTATTATATTAAATTTA
* * ** * * *
9000594 AAT-ATT-TTATATAATCATAATAAATTTTTTATTTTATTAAATTTA
1 TATAATTATTAT-TAA-AATTTTAAATATATTATTATATTAAATTTA
*
9000639 TATAATTATTATTAAAATTTTAAATAAATTATT
1 TATAATTATTATTAAAATTTTAAATATATTATT
9000672 TTTATAATTT
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
43 4 0.07
44 6 0.11
45 37 0.65
46 6 0.11
47 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (45 bp):
TATAATTATTATTAAAATTTTAAATATATTATTATATTAAATTTA
Found at i:9000680 original size:23 final size:22
Alignment explanation
Indices: 9000625--9000682 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
9000615 AAATTTTTTA
* *
9000625 TTTTATTAAATTTATATAATTAT
1 TTTTA-TAATTTTAAATAATTAT
* *
9000648 TATTAAAATTTTAAATAAATTAT
1 TTTTATAATTTTAAAT-AATTAT
9000671 TTTTATAATTTT
1 TTTTATAATTTT
9000683 TATATCATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATAATTTTAAATAATTAT
Found at i:9001388 original size:14 final size:13
Alignment explanation
Indices: 9001369--9001404 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9001359 TTATTTGTAT
9001369 TTTAATTTTTTTAG
1 TTTAATTTTTTT-G
9001383 TTTAA-TTTTTTG
1 TTTAATTTTTTTG
9001395 TTTAATTTTT
1 TTTAATTTTT
9001405 GTTTTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 5 0.24
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTAATTTTTTTG
Found at i:9001391 original size:11 final size:12
Alignment explanation
Indices: 9001369--9001408 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 12
9001359 TTATTTGTAT
9001369 TTTAATTTTTTTAG
1 TTTAA-TTTTTT-G
9001383 TTTAATTTTTTG
1 TTTAATTTTTTG
9001395 TTTAA-TTTTTG
1 TTTAATTTTTTG
9001406 TTT
1 TTT
9001409 TTTTAGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.35
12 6 0.23
13 6 0.23
14 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTAATTTTTTG
Found at i:9002076 original size:32 final size:30
Alignment explanation
Indices: 9002040--9002200 Score: 94
Period size: 32 Copynumber: 5.5 Consensus size: 30
9002030 TTATGTATTA
*
9002040 TTATTTGCATGATTA-TATGTTTAATTGCATAT
1 TTATTTGCATGATTATTA-ATTTAATTG--TAT
*
9002072 TTATTTGCATTATTATTAATTTAATTGTAT
1 TTATTTGCATGATTATTAATTTAATTGTAT
* *
9002102 TTTTTTGCATGA-T-TT-A--T-A--CTA-
1 TTATTTGCATGATTATTAATTTAATTGTAT
*
9002123 TTATTTGTATGATTATAT-ATTTAATTGTATGT
1 TTATTTGCATGATTAT-TAATTTAATTGTA--T
* *
9002155 TTATTTGCATTATTA-TATATTTAATTATATGT
1 TTATTTGCATGATTATTA-ATTTAATTGTA--T
9002187 TTATTTGCATGATT
1 TTATTTGCATGATT
9002201 TATATTATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
21 10 0.10
22 3 0.03
23 1 0.01
24 3 0.03
25 1 0.01
26 1 0.01
27 2 0.02
28 2 0.02
29 3 0.03
30 14 0.14
32 61 0.59
33 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.58
Consensus pattern (30 bp):
TTATTTGCATGATTATTAATTTAATTGTAT
Found at i:9002134 original size:21 final size:21
Alignment explanation
Indices: 9002099--9002158 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
9002089 AATTTAATTG
* *
9002099 TATTTTTTTGCATGATTTATA
1 TATTTATTTGTATGATTTATA
9002120 CTA-TTATTTGTATGA-TTATA
1 -TATTTATTTGTATGATTTATA
*
9002140 TATTTAATTGTATG-TTTAT
1 TATTTATTTGTATGATTTAT
9002159 TTGCATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 19 0.58
21 10 0.30
22 2 0.06
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (21 bp):
TATTTATTTGTATGATTTATA
Found at i:9002137 original size:83 final size:85
Alignment explanation
Indices: 9002017--9002223 Score: 294
Period size: 83 Copynumber: 2.4 Consensus size: 85
9002007 ATGAATTGCA
*
9002017 TATTTGGCATGATTTATGTATTATTATTTGCATGATTATATGTTTAATTGCATATTTATTTGCAT
1 TATTT-GCATGATTTA--TATTATTATTTGCATGATTATATATTTAATTGCATATTTATTTGCAT
*
9002082 TATTAT-TAATTTAATTGTAT-TT
63 TATTATAT-ATTTAATTATATGTT
* * * *
9002104 T-TTTGCATGATTTATACTATTATTTGTATGATTATATATTTAATTGTATGTTTATTTGCATTAT
1 TATTTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATTAT
9002168 TATATATTTAATTATATGTT
66 TATATATTTAATTATATGTT
*
9002188 TATTTGCATGATTTATATTATTATTTGCAAGATTAT
1 TATTTGCATGATTTATATTATTATTTGCATGATTAT
9002224 TAATTTATTT
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
83 59 0.55
84 4 0.04
85 41 0.38
86 3 0.03
87 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (85 bp):
TATTTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATTAT
TATATATTTAATTATATGTT
Found at i:9002138 original size:51 final size:54
Alignment explanation
Indices: 9002072--9002173 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 54
9002062 AATTGCATAT
*
9002072 TTATTTGCATTATTAT-TAATTTAATTGTAT-TTT-TTTGCATGATT-TATACTA
1 TTATTTGCATGATTATAT-ATTTAATTGTATGTTTATTTGCATGATTATATACTA
* *
9002123 TTATTTGTATGATTATATATTTAATTGTATGTTTATTTGCATTATTATATA
1 TTATTTGCATGATTATATATTTAATTGTATGTTTATTTGCATGATTATATA
9002174 TTTAATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 26 0.59
52 4 0.09
53 10 0.23
54 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (54 bp):
TTATTTGCATGATTATATATTTAATTGTATGTTTATTTGCATGATTATATACTA
Found at i:9002204 original size:21 final size:21
Alignment explanation
Indices: 9002179--9002221 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9002169 ATATATTTAA
*
9002179 TTATATGT-TTATTTGCATGAT
1 TTATAT-TATTATTTGCAAGAT
9002200 TTATATTATTATTTGCAAGAT
1 TTATATTATTATTTGCAAGAT
9002221 T
1 T
9002222 ATTAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (21 bp):
TTATATTATTATTTGCAAGAT
Found at i:9002255 original size:85 final size:83
Alignment explanation
Indices: 9002023--9002255 Score: 224
Period size: 85 Copynumber: 2.8 Consensus size: 83
9002013 TGCATATTTG
* * * *
9002023 GCATGATTTATGTATTATTATTTGCATGATTATATGTTTAATTGCATAT-TT-ATTTGCATTATT
1 GCATGATTTA--TACTATTATTTGCAAGATTATATATTTAATT--ATATGTTGATTTGCATGATT
*
9002086 AT-TAATTTAATTGTATTTTTTT
62 ATAT-ATTTAATTATATTTTTTT
* * * * *
9002108 GCATGATTTATACTATTATTTGTATGATTATATATTTAATTGTATGTTTATTTGCATTATTATAT
1 GCATGATTTATACTATTATTTGCAAGATTATATATTTAATTATATGTTGATTTGCATGATTATAT
9002173 ATTTAATTATATGTTTATTT
66 ATTTAATTATAT-TTT-TTT
* * * *
9002193 GCATGATTTATATTATTATTTGCAAGATTAT-TAATTTATTTATTTGTGTGA-TTGTATGATTAT
1 GCATGATTTATACTATTATTTGCAAGATTATAT-ATTTAATTATATGT-TGATTTGCATGATTAT
9002256 TAATATATTT
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
81 3 0.02
82 2 0.02
83 53 0.42
84 5 0.04
85 62 0.49
86 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (83 bp):
GCATGATTTATACTATTATTTGCAAGATTATATATTTAATTATATGTTGATTTGCATGATTATAT
ATTTAATTATATTTTTTT
Found at i:9002414 original size:171 final size:163
Alignment explanation
Indices: 9002155--9002473 Score: 467
Period size: 171 Copynumber: 1.9 Consensus size: 163
9002145 AATTGTATGT
* *
9002155 TTATTTGCATTATTATATATTTAATTATATGTTTATTTGCATGATTTATATTATTATTTGCAAGA
1 TTATTTGCATTATTATATATCTAATTATATGTTTATTTGCATGATTTATATTATCATTTGCAAGA
* *
9002220 TTATTAATTTATTTATTTGTGTGATTGTATGATTATTAATATATTTATTTACATGATTATTTATT
66 TCATTAATTTATTTATTTGTGTGATTGTATGATTACTAATATATTTATTTACATGATTATTTATT
9002285 TATTTATTATTATTGCATAATTGATTTATATTA
131 TATTTATTATTATTGCATAATTGATTTATATTA
* * *
9002318 TTATTTGTATTATTATATATCTAATTGTTTGTTTATTTGCATGATTATATATTTAAGTGCATGTC
1 TTATTTGCATTATTATATATCTAATTATATGTTTATTTGCATGATT-TATA-TT-A-T-CAT-T-
* * * *
9002383 TAGCATGATCATTAATTTATTTATTTGTGTGATTGTTTGATTACTAATATATTTATTTGCATGGT
59 T-GCAAGATCATTAATTTATTTATTTGTGTGATTGTATGATTACTAATATATTTATTTACATGAT
9002448 TATTTATTTATTTATTATTATTGCAT
123 TATTTATTTATTTATTATTATTGCAT
9002474 GATTTTATAT
Statistics
Matches: 137, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
163 42 0.31
164 4 0.03
165 2 0.01
166 1 0.01
167 1 0.01
168 2 0.01
169 1 0.01
170 1 0.01
171 83 0.61
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (163 bp):
TTATTTGCATTATTATATATCTAATTATATGTTTATTTGCATGATTTATATTATCATTTGCAAGA
TCATTAATTTATTTATTTGTGTGATTGTATGATTACTAATATATTTATTTACATGATTATTTATT
TATTTATTATTATTGCATAATTGATTTATATTA
Found at i:9002502 original size:19 final size:19
Alignment explanation
Indices: 9002465--9002503 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9002455 TTATTTATTA
* *
9002465 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
*
9002484 TTATTGTATGATATGATAT
1 TTATTGCATGATATGATAT
9002503 T
1 T
9002504 GTATGATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:9008630 original size:21 final size:21
Alignment explanation
Indices: 9008600--9008644 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
9008590 AAAGAGATGA
*
9008600 AAAAAAAAAAAGTAAAACAATA
1 AAAAAAAAAAAG-AAAAAAATA
*
9008622 AAAAGAAAAAAGAAAAAAATA
1 AAAAAAAAAAAGAAAAAAATA
9008643 AA
1 AA
9008645 GACTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAAATA
Found at i:9009286 original size:23 final size:24
Alignment explanation
Indices: 9009254--9009306 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9009244 CTAGTTTCAA
* *
9009254 AAAAGTTGAAGA-AAAACATGATG
1 AAAAGTTGAAAAGAAAACATAATG
*
9009277 AGAAGTTGAAAAGAAAACATAATG
1 AAAAGTTGAAAAGAAAACATAATG
9009301 AAAAGT
1 AAAAGT
9009307 CTTGAGATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.21, T:0.17
Consensus pattern (24 bp):
AAAAGTTGAAAAGAAAACATAATG
Found at i:9010327 original size:43 final size:42
Alignment explanation
Indices: 9010112--9010330 Score: 237
Period size: 43 Copynumber: 5.1 Consensus size: 42
9010102 TAATAATCTT
* * *
9010112 ATTTTATTTTTC-AAAGTTCCAAAACCTCAGTTATGGAAGAGC
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGG-GGAGC
* * *
9010154 ATTTTATTTTTTTC-AAAGTTTCAAAGCCTTAGTTATAAGGGAGT
1 ATTTTA--TTTTTCAAAAGTTTCAAAGCCTCAGTTAT-GGGGAGC
* *
9010198 A-TTTATTTTTCAAAAGTTTCAATGCCTCAGTTATGAGGGAGT
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATG-GGGAGC
* *
9010240 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGAGGAGC
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGG-GGAGC
* * *
9010283 ATTTTATTTGTCAAAAGTTTCAAAGCGTTAGTTATGGGGAAGC
1 ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGGG-AGC
9010326 ATTTT
1 ATTTT
9010331 TCAAAAAAAA
Statistics
Matches: 151, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
41 6 0.04
42 36 0.24
43 79 0.52
44 29 0.19
45 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (42 bp):
ATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGGGAGC
Found at i:9011323 original size:41 final size:43
Alignment explanation
Indices: 9011254--9011339 Score: 140
Period size: 41 Copynumber: 2.0 Consensus size: 43
9011244 ATTGCATATT
*
9011254 TTGCATGATTTATATATTATTATTTGCATGATTATATATTTAA
1 TTGCATGATTTATATATTATTAATTGCATGATTATATATTTAA
*
9011297 TTGCATG-TTT-TATATTGTTAATTGCATGATTATATATTTAA
1 TTGCATGATTTATATATTATTAATTGCATGATTATATATTTAA
9011338 TT
1 TT
9011340 ATATGTCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 31 0.76
42 3 0.07
43 7 0.17
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (43 bp):
TTGCATGATTTATATATTATTAATTGCATGATTATATATTTAA
Found at i:9011339 original size:20 final size:22
Alignment explanation
Indices: 9011254--9011334 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
9011244 ATTGCATATT
*
9011254 TTGCATGATTTATATATTATTAT
1 TTGCATGA-TTATATATTATTAA
9011277 TTGCATGATTATATA-T-TTAA
1 TTGCATGATTATATATTATTAA
* *
9011297 TTGCATG-TTTTATATTGTTAA
1 TTGCATGATTATATATTATTAA
9011318 TTGCATGATTATATATT
1 TTGCATGATTATATATT
9011335 TAATTATATG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.12
20 11 0.21
21 12 0.23
22 15 0.29
23 8 0.15
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (22 bp):
TTGCATGATTATATATTATTAA
Found at i:9011535 original size:20 final size:20
Alignment explanation
Indices: 9011486--9011538 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
9011476 TAATTGTTTG
9011486 TTTATTTGCATGATTGATAT
1 TTTATTTGCATGATTGATAT
9011506 TATTATTTGCATGATT-ATAT
1 T-TTATTTGCATGATTGATAT
*
9011526 ATTTAATTGCATG
1 -TTTATTTGCATG
9011539 TCTATTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTATTTGCATGATTGATAT
Found at i:9011553 original size:53 final size:53
Alignment explanation
Indices: 9011443--9011546 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
9011433 ATCGCATGAT
* * * * ** *
9011443 TGATTTATATTATTATTTGTATTATTATATCTCTAATTGTTTGTTTATTTGCA
1 TGATTGATATTATTATTTGCATGATTATATATCTAATTGCATGTCTATTTGCA
*
9011496 TGATTGATATTATTATTTGCATGATTATATATTTAATTGCATGTCTATTTG
1 TGATTGATATTATTATTTGCATGATTATATATCTAATTGCATGTCTATTTG
9011547 TGTGATTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.57
Consensus pattern (53 bp):
TGATTGATATTATTATTTGCATGATTATATATCTAATTGCATGTCTATTTGCA
Found at i:9011647 original size:19 final size:19
Alignment explanation
Indices: 9011619--9011674 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
9011609 TATTTATTTA
*
9011619 TTATGATTATTGCATGATT
1 TTATGTTTATTGCATGATT
*
9011638 TTATGTTTATTGCATGCTT
1 TTATGTTTATTGCATGATT
* *
9011657 TTGTGTTTATTGTATGAT
1 TTATGTTTATTGCATGAT
9011675 ATGATATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57
Consensus pattern (19 bp):
TTATGTTTATTGCATGATT
Found at i:9013623 original size:18 final size:18
Alignment explanation
Indices: 9013595--9013631 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9013585 AAAATTTTAG
9013595 ATTTATTTTTAATAATTTT
1 ATTTATTTTTAAT-ATTTT
9013614 ATTT-TTTTTAATATTTT
1 ATTTATTTTTAATATTTT
9013631 A
1 A
9013632 ATGGGGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATTTTTAATATTTT
Found at i:9017048 original size:17 final size:16
Alignment explanation
Indices: 9017020--9017066 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 16
9017010 AAAATTAAGA
9017020 TATTTTAAATTAAATT
1 TATTTTAAATTAAATT
9017036 TATTTTAAAATTAAATT
1 TATTTT-AAATTAAATT
9017053 CTAAATTTTAAATT
1 -T--ATTTTAAATT
9017067 TGAAATGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.22
17 10 0.37
18 1 0.04
19 5 0.19
20 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTAAATTAAATT
Found at i:9017582 original size:16 final size:17
Alignment explanation
Indices: 9017561--9017594 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9017551 GGAAATAAAA
9017561 TATTTTA-AATTAAATT
1 TATTTTATAATTAAATT
*
9017577 TATTTTATCATTAAATT
1 TATTTTATAATTAAATT
9017594 T
1 T
9017595 TAAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTATAATTAAATT
Found at i:9018856 original size:16 final size:17
Alignment explanation
Indices: 9018835--9018868 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9018825 AGAAATAAGA
9018835 TATTTTA-AACTAAATT
1 TATTTTATAACTAAATT
*
9018851 TATTTTATAATTAAATT
1 TATTTTATAACTAAATT
9018868 T
1 T
9018869 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTTATAACTAAATT
Found at i:9018873 original size:7 final size:7
Alignment explanation
Indices: 9018861--9018887 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9018851 TATTTTATAA
9018861 TTAAATT
1 TTAAATT
9018868 TTAAATT
1 TTAAATT
9018875 TTAAATT
1 TTAAATT
9018882 TTAAAT
1 TTAAAT
9018888 GCATAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:9019736 original size:2 final size:2
Alignment explanation
Indices: 9019729--9019764 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9019719 TCGTTTATTA
9019729 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
9019765 TAATAGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9026063 original size:21 final size:22
Alignment explanation
Indices: 9026037--9026079 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
9026027 AATTTTTATA
9026037 TTTTTA-TTATATTTAAATAAT
1 TTTTTATTTATATTTAAATAAT
9026058 TTTTTATTTTATATTTAAATAA
1 TTTTTA-TTTATATTTAAATAA
9026080 GATTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTATTTATATTTAAATAAT
Found at i:9026073 original size:23 final size:23
Alignment explanation
Indices: 9026043--9026119 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 23
9026033 TATATTTTTA
9026043 TTATATTTAAATAATTTTTTATT
1 TTATATTTAAATAATTTTTTATT
*
9026066 TTATATTTAAATAAGATTTTAAATTTGAAT
1 TTATATTTAAAT-A-A-TTT---TTT-ATT
9026096 TTATATTTAAATAA-TTTTTATT
1 TTATATTTAAATAATTTTTTATT
9026118 TT
1 TT
9026120 TGAATTTGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.09
23 15 0.33
24 1 0.02
25 1 0.02
26 5 0.11
28 1 0.02
29 4 0.09
30 14 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (23 bp):
TTATATTTAAATAATTTTTTATT
Found at i:9026124 original size:29 final size:29
Alignment explanation
Indices: 9026056--9026145 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 29
9026046 TATTTAAATA
* * *
9026056 ATTTTTTATTTTATATTTAAATAAGATTTT
1 ATTTTTGAATTTATATTTAAATAA-TTTTT
**
9026086 AAATTTGAATTTATATTTAAATAATTTTT
1 ATTTTTGAATTTATATTTAAATAATTTTT
*
9026115 ATTTTTGAATTTGTATTTAAATAAATTTTT
1 ATTTTTGAATTTATATTTAAAT-AATTTTT
9026145 A
1 A
9026146 ATGTAAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 23 0.45
30 28 0.55
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
ATTTTTGAATTTATATTTAAATAATTTTT
Found at i:9026144 original size:30 final size:30
Alignment explanation
Indices: 9026065--9026146 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 30
9026055 AATTTTTTAT
9026065 TTTATATTTAAATAAGA-TTTTAAATTTGAA
1 TTTATATTTAAATAA-ATTTTTAAATTTGAA
**
9026095 TTTATATTTAAAT-AATTTTTATTTTTGAA
1 TTTATATTTAAATAAATTTTTAAATTTGAA
*
9026124 TTTGTATTTAAATAAATTTTTAA
1 TTTATATTTAAATAAATTTTTAA
9026147 TGTAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 1 0.02
29 24 0.52
30 21 0.46
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTATATTTAAATAAATTTTTAAATTTGAA
Found at i:9026171 original size:18 final size:17
Alignment explanation
Indices: 9026128--9026174 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
9026118 TTTGAATTTG
9026128 TATTTAAATAAATTTTT
1 TATTTAAATAAATTTTT
* *
9026145 AATGTAAATAAATTTTT
1 TATTTAAATAAATTTTT
9026162 TATTTAAAATAAA
1 TATTT-AAATAAA
9026175 AATGAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTAAATAAATTTTT
Found at i:9026212 original size:29 final size:29
Alignment explanation
Indices: 9026167--9026251 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
9026157 TTTTTTATTT
* * *
9026167 AAAAT-AAAAATGAATTTTGATATAAATAA
1 AAAATAAAAAAT-TATTTTAATACAAATAA
* *
9026196 AAAATAAAAAATTATTTTAATACGATTAA
1 AAAATAAAAAATTATTTTAATACAAATAA
* *
9026225 AATATAAAAAA-TATTTAAATA-AAATAA
1 AAAATAAAAAATTATTTTAATACAAATAA
9026252 TAATATTTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 4 0.09
28 9 0.20
29 27 0.59
30 6 0.13
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAATAAAAAATTATTTTAATACAAATAA
Found at i:9026256 original size:28 final size:29
Alignment explanation
Indices: 9026190--9026257 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
9026180 ATTTTGATAT
* *
9026190 AAATAAAAAATAAAAAATTATTTTAATAC
1 AAATAAAATATAAAAAATTATTTAAATAC
* *
9026219 GATTAAAATATAAAAAA-TATTTAAATA-
1 AAATAAAATATAAAAAATTATTTAAATAC
9026246 AAATAATAATAT
1 AAATAA-AATAT
9026258 TTAAAAACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 4 0.12
28 14 0.44
29 14 0.44
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
AAATAAAATATAAAAAATTATTTAAATAC
Found at i:9027682 original size:21 final size:23
Alignment explanation
Indices: 9027645--9027695 Score: 88
Period size: 21 Copynumber: 2.3 Consensus size: 23
9027635 AAGTTATTTT
9027645 TTTAATACTTTAGATTATTAAAA
1 TTTAATACTTTAGATTATTAAAA
9027668 TTTAA-ACTTTA-ATTATTAAAA
1 TTTAATACTTTAGATTATTAAAA
9027689 TTTAATA
1 TTTAATA
9027696 TTATATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.56
22 7 0.26
23 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAATACTTTAGATTATTAAAA
Found at i:9035047 original size:12 final size:12
Alignment explanation
Indices: 9035030--9035054 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9035020 ATACTATCAT
9035030 ATGTGTCATTTA
1 ATGTGTCATTTA
9035042 ATGTGTCATTTA
1 ATGTGTCATTTA
9035054 A
1 A
9035055 AAGAACTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (12 bp):
ATGTGTCATTTA
Found at i:9036926 original size:28 final size:28
Alignment explanation
Indices: 9036886--9036956 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
9036876 ATTAACACTT
* *
9036886 CAAGATCAAAGAATCCCTAGATGGAAAC
1 CAAGATCCAAGAATCCCTAGAAGGAAAC
*
9036914 CAAGATCCAAGAATCCCTAGAAGGGAAC
1 CAAGATCCAAGAATCCCTAGAAGGAAAC
*
9036942 TAAGATCCAAGAATC
1 CAAGATCCAAGAATC
9036957 TTTAAATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (28 bp):
CAAGATCCAAGAATCCCTAGAAGGAAAC
Found at i:9037328 original size:28 final size:28
Alignment explanation
Indices: 9037289--9037401 Score: 87
Period size: 28 Copynumber: 4.3 Consensus size: 28
9037279 CCTTGAAGCA
9037289 AAGTCT-ATATTCCTTTGGTTTAAGAAT
1 AAGTCTCATATTCCTTTGGTTTAAGAAT
* *
9037316 AAGTCTCATATTCCTTCGGTTCAAGAAT
1 AAGTCTCATATTCCTTTGGTTTAAGAAT
* * * * * *
9037344 GAGTTTCA-ACTAC-TT--TTGAAGTA-
1 AAGTCTCATATTCCTTTGGTTTAAGAAT
* *
9037367 AAGTC-CATATTCATTTGATTTAAGAAT
1 AAGTCTCATATTCCTTTGGTTTAAGAAT
9037394 AAGTCTCA
1 AAGTCTCA
9037402 AAGACTTTTG
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
22 2 0.03
23 5 0.08
24 8 0.13
26 7 0.11
27 14 0.22
28 27 0.43
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (28 bp):
AAGTCTCATATTCCTTTGGTTTAAGAAT
Found at i:9037392 original size:50 final size:50
Alignment explanation
Indices: 9037338--9037524 Score: 141
Period size: 50 Copynumber: 3.8 Consensus size: 50
9037328 CCTTCGGTTC
* * *
9037338 AAGAATGAGTTTCAACTACTTTTGAAGTAAAGTCCATATTCATTTGATTT
1 AAGAATAAGTCTCAAATACTTTTGAAGTAAAGTCCATATTCATTTGATTT
* * *
9037388 AAGAATAAGTCTCAAAGACTTTTGAAACG-AAA-TCCATATTC-TTTCCATTC
1 AAGAATAAGTCTCAAATACTTTTG-AA-GTAAAGTCCATATTCATTT-GATTT
* * * * * * * *
9037438 AAGAATAAGTTTTAACA-AC-TCTAAAGTGAAGTTCGTATTTATTTGATTT
1 AAGAATAAGTCTCAA-ATACTTTTGAAGTAAAGTCCATATTCATTTGATTT
** * *
9037487 AAGAATAAGTCTCAAATACCCTTGAAGTGAAGTTCATA
1 AAGAATAAGTCTCAAATACTTTTGAAGTAAAGTCCATA
9037525 CTTTTTAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
47 1 0.01
48 5 0.05
49 29 0.27
50 64 0.60
51 6 0.06
52 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.35
Consensus pattern (50 bp):
AAGAATAAGTCTCAAATACTTTTGAAGTAAAGTCCATATTCATTTGATTT
Found at i:9041574 original size:74 final size:73
Alignment explanation
Indices: 9041414--9041589 Score: 199
Period size: 74 Copynumber: 2.4 Consensus size: 73
9041404 CTTGAAGGTT
* * * * * *
9041414 ATGTTACTCTTAAGTAATAGCCTAAACTATTCAAACATGATGCTCATAAATAAGATTTTAAATTG
1 ATGTTGCTCCTAAGTAATAGCCTAAACTATTCAAACACGATGCTCATAAACAAAAGTTTAAATTG
* *
9041479 CATAAAAA
66 AACAAAAA
* * * ** *
9041487 ATGATGCTTCTAAGTAAGAGCCTAAACTATTCAAAACACGATGCTTTTAAGCAAAAGTTTAAATT
1 ATGTTGCTCCTAAGTAATAGCCTAAACTATTC-AAACACGATGCTCATAAACAAAAGTTTAAATT
*
9041552 GAACAAAAG
65 GAACAAAAA
*
9041561 ATGTTGCTCCTAAGCAATAGCCTAAACTA
1 ATGTTGCTCCTAAGTAATAGCCTAAACTA
9041590 CTCATGTTAC
Statistics
Matches: 83, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 27 0.33
74 56 0.67
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (73 bp):
ATGTTGCTCCTAAGTAATAGCCTAAACTATTCAAACACGATGCTCATAAACAAAAGTTTAAATTG
AACAAAAA
Found at i:9041833 original size:61 final size:60
Alignment explanation
Indices: 9041734--9042030 Score: 245
Period size: 60 Copynumber: 4.9 Consensus size: 60
9041724 TAAATTGTTT
* * * * * *
9041734 TAAATAAATAGTCTACTAAATTGAAAATCCTGCAAAAGACAATTTAGGCAAAAGTTAGGATA
1 TAAA-AAA-AGTCTGCTAAGTTGAAAATCTTACAAAAGATAACTTAGGCAAAAGTTAGGATA
** * *
9041796 TAAAAAAAGGTCTGCTAAGTTGAAAATCTTGTAAAAGATAACTTAGGTAAAAGTTTGGATA
1 TAAAAAAA-GTCTGCTAAGTTGAAAATCTTACAAAAGATAACTTAGGCAAAAGTTAGGATA
* * * * * * * *
9041857 TAAAAAAAGTTTGTTAAGTTAAAAATCCTACAAAAGATTACTTAGGTAAAAGTTATGAGA
1 TAAAAAAAGTCTGCTAAGTTGAAAATCTTACAAAAGATAACTTAGGCAAAAGTTAGGATA
** * * * * *
9041917 CCAAAAAAGCCTGCTAAGTTGAAAATCTTA-AAAATGATGACTTAGGAAAAAGTTAGCACA
1 TAAAAAAAGTCTGCTAAGTTGAAAATCTTACAAAA-GATAACTTAGGCAAAAGTTAGGATA
* * * * * * * *
9041977 AAAAAAAATATATGCTAATTTGAAAATCTTACAAATGACAAGTTAAGCAAAAGT
1 TAAAAAAA-GTCTGCTAAGTTGAAAATCTTACAAAAGATAACTTAGGCAAAAGT
9042031 AAGGGAAAAA
Statistics
Matches: 189, Mismatches: 42, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
59 4 0.02
60 92 0.49
61 86 0.46
62 7 0.04
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (60 bp):
TAAAAAAAGTCTGCTAAGTTGAAAATCTTACAAAAGATAACTTAGGCAAAAGTTAGGATA
Found at i:9042003 original size:121 final size:117
Alignment explanation
Indices: 9041749--9042089 Score: 301
Period size: 121 Copynumber: 2.8 Consensus size: 117
9041739 AAATAGTCTA
* * * * *
9041749 CTAAATTGAAAATCCTGCAAAAGACAATTTAGGCAAAAGTTAGGATATAAAAAAAGGTCTGCTAA
1 CTAAATTGAAAATCCTACAAAAGACAACTTAGGCAAAAGTTA--AGAGAAAAAAA-GCCTGCTAA
* * * * * * *
9041814 GTTGAAAATCTTGTAAAAGATAACTTAGGTAAAAGTTTGGATATAAAAAAAGTTTG
63 GTTGAAAATCTT-AAAAAGATGACTTAGGAAAAAGTTAGCACATAAAAAAAATTTG
* * * ** * *
9041870 TTAAGTTAAAAATCCTACAAAAGATTACTTAGGTAAAAGTTATGAGACCAAAAAAGCCTGCTAAG
1 CTAAATTGAAAATCCTACAAAAGACAACTTAGGCAAAAGTTAAGAGA--AAAAAAGCCTGCTAAG
9041935 TTGAAAATCTTAAAAATGATGACTTAGGAAAAAGTTAGCACA-AAAAAAAATATATG
64 TTGAAAATCTTAAAAA-GATGACTTAGGAAAAAGTTAGCACATAAAAAAAAT-T-TG
* * * * * * *
9041991 CTAATTTGAAAATCTTACAAATGACAAGTTAAGCAAAAG-TAAGGGAAAAAAA-CCTTTCTAAGT
1 CTAAATTGAAAATCCTACAAAAGACAACTTAGGCAAAAGTTAAGAGAAAAAAAGCC-TGCTAAGT
* * *
9042054 TAAAAATCCTATAAAGGATGACTTAGGAAAAAGTTA
65 TGAAAATCTTA-AAAAGATGACTTAGGAAAAAGTTA
9042090 AGGCATAAAA
Statistics
Matches: 178, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
117 2 0.01
118 42 0.24
119 17 0.10
120 46 0.26
121 71 0.40
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (117 bp):
CTAAATTGAAAATCCTACAAAAGACAACTTAGGCAAAAGTTAAGAGAAAAAAAGCCTGCTAAGTT
GAAAATCTTAAAAAGATGACTTAGGAAAAAGTTAGCACATAAAAAAAATTTG
Found at i:9045546 original size:115 final size:112
Alignment explanation
Indices: 9045426--9045742 Score: 343
Period size: 115 Copynumber: 2.8 Consensus size: 112
9045416 CGTTTTTTTT
* * *
9045426 TTTTAAGAAAAATTGGTAATTCCAACTTTTCCCCAAAATGTTTTTCTAAAACTTTAATTTT-GAG
1 TTTTAAGAAAAATTGGTAATTTCAACTTTTCCCAAAAATGTTTTT-TAAAACTTT-ATTTTCAAG
9045490 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAATTTA
64 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAA-TTA
* * * * *
9045540 TCTTTAAGAAAAATT-GAAAGTTTTACCTTTTCCTCAAAAATAGTTTTTAAAAATTTTATTTTCA
1 T-TTTAAGAAAAATTGGTAA-TTTCAACTTTTCC-CAAAAAT-GTTTTTTAAAACTTTATTTTCA
* * * *
9045604 AGAAAAATTGATACTTTTACCTTTTTCTCAAAAATATTTTTTAGAAAATTA
62 AGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAATTA
* * * * * *
9045655 TTTTCAAGGAAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAAC-TTATTTTCA
1 TTTT-AAGAAAAATTGGTAATTTCAACTTTTC-CCAAAAATGTTTTTT--AAAACTTTATTTTCA
*
9045719 AAAAAAATTGATACTTTCAACTTT
62 AGAAAAATTGATACTTTCAACTTT
9045743 CCCCTAAAAA
Statistics
Matches: 167, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
114 12 0.07
115 87 0.52
116 62 0.37
117 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (112 bp):
TTTTAAGAAAAATTGGTAATTTCAACTTTTCCCAAAAATGTTTTTTAAAACTTTATTTTCAAGAA
AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAATTA
Found at i:9045753 original size:58 final size:58
Alignment explanation
Indices: 9045425--9045773 Score: 347
Period size: 58 Copynumber: 6.1 Consensus size: 58
9045415 ACGTTTTTTT
* * * * * * *
9045425 TTTTTAAGAAAAATTGGTAATTCCAACTTTTCC-CCAAAATGTTTTTCTA-AAACTTTAA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAATTT-A
* * * *
9045483 TTTT-GAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAATTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTA
* * * * *
9045540 TCTTT-AAGAAAAATTGAAAGTTTTACCTTTTCCTCAAAAATAGTTTTTA-AAAATTTTA
1 T-TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAA-TTTA
* * *
9045598 TTTTCAAGAAAAATTGATACTTTTACCTTTTTCTCAAAAATATTTTTTAGAAAA-TTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTA
* * * *
9045655 TTTTCAAGGAAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTA
* * *
9045713 TTTTCAAAAAAAATTGATACTTTCAAC-TTTCCCCTAAAAATA-CTTTT-GAAAATTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTAGAAAA-TTTA
9045770 TTTT
1 TTTT
9045774 AAAAATTTTA
Statistics
Matches: 248, Mismatches: 34, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
56 5 0.02
57 100 0.40
58 139 0.56
59 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (58 bp):
TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTA
Found at i:9045771 original size:115 final size:114
Alignment explanation
Indices: 9045490--9045775 Score: 337
Period size: 115 Copynumber: 2.5 Consensus size: 114
9045480 TAATTTTGAG
*
9045490 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAAATTTATCTTTAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT-AGAAAATTTAT-TTTAAGAAAAATT
* * * * * *
9045555 GAAAGTTTTACCTTTTCCTCAAAAATAGTTTTTAAAAATTTTATTTTCAAG
64 GAAACTTTCAACTTTTCATCAAAAATAGTTTTTAAAAATCTTATTTTCAAA
* * *
9045606 AAAAATTGATACTTTTACCTTTTTCTCAAAAATATTTTTTAGAAAA-TTATTTTCAAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTAGAAAATTTATTTT-AAGAAAAATT
* * *
9045670 GATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAA-CTTATTTTCAAA
64 GAAACTTTCAACTTTTCATCAAAAATAGTTTTTA-AAAATCTTATTTTCAAA
* * *
9045721 AAAAATTGATACTTTCAAC-TTTCCCCTAAAAATACTTTT-GAAAATTTTATTTTAA
1 AAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTAGAAAA-TTTATTTTAA
9045776 AAATTTTATT
Statistics
Matches: 146, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
113 5 0.03
114 14 0.10
115 81 0.55
116 41 0.28
117 5 0.03
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (114 bp):
AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAAATTTATTTTAAGAAAAATTGA
AACTTTCAACTTTTCATCAAAAATAGTTTTTAAAAATCTTATTTTCAAA
Found at i:9045790 original size:15 final size:14
Alignment explanation
Indices: 9045756--9045787 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9045746 CTAAAAATAC
*
9045756 TTTTGAAAATTTTA
1 TTTTAAAAATTTTA
9045770 TTTTAAAAATTTTA
1 TTTTAAAAATTTTA
9045784 TTTT
1 TTTT
9045788 TAAGGAAAAT
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:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTAAAAATTTTA
Found at i:9045830 original size:16 final size:17
Alignment explanation
Indices: 9045809--9045842 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9045799 GATACTTTCA
9045809 ACTTTTTCTT-AAAAAT
1 ACTTTTTCTTCAAAAAT
*
9045825 ACTTTTTTTTCAAAAAT
1 ACTTTTTCTTCAAAAAT
9045842 A
1 A
9045843 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
ACTTTTTCTTCAAAAAT
Found at i:9045839 original size:17 final size:16
Alignment explanation
Indices: 9045809--9045852 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
9045799 GATACTTTCA
*
9045809 ACTTTTTCTTAAAAAT
1 ACTTTTTTTTAAAAAT
9045825 ACTTTTTTTTCAAAAAT
1 ACTTTTTTTT-AAAAAT
9045842 A-TATTTTTTTA
1 ACT-TTTTTTTA
9045853 GTTTTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (16 bp):
ACTTTTTTTTAAAAAT
Found at i:9045879 original size:98 final size:95
Alignment explanation
Indices: 9045763--9045972 Score: 348
Period size: 98 Copynumber: 2.2 Consensus size: 95
9045753 TACTTTTGAA
* *
9045763 AATTTTATTTTAAAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATACT
1 AATTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAC-
* *
9045828 TTTTTTTCAAAAATATATTTTTTTAGTTTTTGG
65 TTTTTTTCAAAAATATATATATTT--TTTTTGG
9045861 AATTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATACT
1 AATTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATACT
9045926 TTTTTTCAAAAATATATATATTTTTTTTGG
66 TTTTTTCAAAAATATATATATTTTTTTTGG
9045956 AATTTTATTTTAGAAAA
1 AATTTTATTTTA-AAAA
9045973 ATCATTAAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
95 19 0.18
96 4 0.04
97 22 0.21
98 62 0.58
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (95 bp):
AATTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATACT
TTTTTTCAAAAATATATATATTTTTTTTGG
Found at i:9046039 original size:3 final size:3
Alignment explanation
Indices: 9046027--9046065 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
9046017 CAAATAATTC
9046027 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9046066 TAATTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9046574 original size:12 final size:12
Alignment explanation
Indices: 9046570--9046600 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
9046560 AAAAAATTCT
9046570 AAAAAATTCAAA
1 AAAAAATTCAAA
9046582 AAAAAATTCAAA
1 AAAAAATTCAAA
9046594 AAAAAAT
1 AAAAAAT
9046601 CTGAACTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATTCAAA
Found at i:9046585 original size:10 final size:10
Alignment explanation
Indices: 9046559--9046597 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
9046549 AATTTTCCAG
9046559 AAAAAAATTC
1 AAAAAAATTC
*
9046569 TAAAAAATTC
1 AAAAAAATTC
9046579 AAAAAAAAATTC
1 --AAAAAAATTC
9046591 AAAAAAA
1 AAAAAAA
9046598 AATCTGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:9046913 original size:22 final size:21
Alignment explanation
Indices: 9046888--9046971 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 21
9046878 AAAAACATAT
*
9046888 ATATTAATAGATAAATAATAA
1 ATATTAATAAATAAATAATAA
*
9046909 A-ATATATATAGATAAATAAT--
1 ATAT-TA-ATAAATAAATAATAA
9046929 ATATTAATAAAT-AATAATAA
1 ATATTAATAAATAAATAATAA
* *
9046949 TATAAATAATAAAAAAATAATAA
1 -AT-ATTAATAAATAAATAATAA
9046972 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 5 0.10
21 7 0.13
22 21 0.40
23 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATTAATAAATAAATAATAA
Found at i:9046918 original size:30 final size:30
Alignment explanation
Indices: 9046847--9046961 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
9046837 AGATAAAGTC
9046847 AAAAAATATATATATTAATAGATAAATAAT
1 AAAAAATATATATATTAATAGATAAATAAT
*
9046877 AAAAAACATATATATTAATAGATAAATAAT
1 AAAAAATATATATATTAATAGATAAATAAT
* * * *
9046907 AAAATATATATAGATAAATA-ATATATTAAT
1 AAAAAATATATATATTAATAGATA-AATAAT
* *
9046937 AAATAATA-ATAATATAAATA-ATAAA
1 AAAAAATATAT-ATATTAATAGATAAA
9046962 AAAATAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.08
30 67 0.92
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAATATATATATTAATAGATAAATAAT
Found at i:9046944 original size:3 final size:3
Alignment explanation
Indices: 9046901--9046980 Score: 53
Period size: 3 Copynumber: 26.7 Consensus size: 3
9046891 TTAATAGATA
*
9046901 AAT AAT AA- AAT -AT ATAT AGAT AAAT AAT -AT ATT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT -AAT AAT AAT
* *
9046947 AAT -AT AAAT AAT AA- AAA AAT AAT AAT AAA AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9046981 AAATGCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 10 0.16
3 39 0.63
4 12 0.19
5 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Done.