Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 2 of 59
Found at i:19618 original size:20 final size:20
Alignment explanation
Indices: 19491--19610 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 20
19481 TTTTTACTCT
* *
19491 TTTTAAGGATGTTTAAGGTCA
1 TTTTAAGGATTTTTAAGG-AA
19512 TTTTAAGGATTTTTAA-GAA
1 TTTTAAGGATTTTTAAGGAA
** *
19531 TTTTTTAAAGGATTTCAAAGGAT
1 --TTTT-AAGGATTTTTAAGGAA
19554 TTTTAAGGAGTTTTTAAGGAA
1 TTTTAAGGA-TTTTTAAGGAA
* **
19575 TTTTAAGGAATTTTAAGGTT
1 TTTTAAGGATTTTTAAGGAA
*
19595 TTTTAAGGTTTTTTAA
1 TTTTAAGGATTTTTAA
19611 TGCATTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.01
20 28 0.35
21 40 0.49
22 10 0.12
23 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (20 bp):
TTTTAAGGATTTTTAAGGAA
Found at i:19763 original size:438 final size:437
Alignment explanation
Indices: 19269--20150 Score: 1748
Period size: 438 Copynumber: 2.0 Consensus size: 437
19259 AAGCATTTTA
19269 AAGATAATTTTAAGCATATTTAAGGTTTTTAAGAGATTTTTCATGAAATTTGAAAGACTTATGAT
1 AAGATAATTTTAAGCATATTTAAGGTTTTTAAGAGATTTTTCATGAAATTTGAAAGACTTATGAT
19334 TTTTTAAAGAATTTTAAATTTCTTTAATTATTTATTACGAATTCTAAACATTTTTTAAGGTTTTT
66 TTTTTAAAGAATTTTAAATTTCTTTAATTATTTATTACGAATTCTAAACATTTTTTAAGGTTTTT
19399 TCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTGTTTTT
131 TCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTGTTTTT
19464 AGGGTTTTTTATTTTTTTTTTTACTCTTTTTAAGGATGTTTAAGGTCATTTTAAGGATTTTTAAG
196 AGGGTTTTTTATTTTTTTTTTTACTCTTTTTAAGGATGTTTAAGGTCATTTTAAGGATTTTTAAG
19529 AATTTTTTAAAGGATTTCAAAGGATTTTTAAGGAGTTTTTAAGGAATTTTAAGGAATTTTAAGGT
261 AATTTTTTAAAGGATTTCAAAGGATTTTTAAGGAGTTTTTAAGGAATTTTAAGGAATTTTAAGGT
19594 TTTTTAAGGTTTTTTAATGCATTTTCTGTCAAGCCCTACTCCATTATATACTCATCATAACATCC
326 TTTTTAAGGTTTTTTAATGCATTTTCTGTCAAGCCCTACTCCATTATATACTCATCATAACATCC
19659 ATATACTTGATGACACATCTGCATGTTAGATAGCCTTAGAAATAGTT
391 ATATACTTGATGACACATCTGCATGTTAGATAGCCTTAGAAATAGTT
19706 NAAGATAATTTTAAGCATATTTAAGGTTTTTAAGAGATTTTTCATGAAATTTGAAAGACTTATGA
1 -AAGATAATTTTAAGCATATTTAAGGTTTTTAAGAGATTTTTCATGAAATTTGAAAGACTTATGA
19771 TTTTTTAAAGAATTTTAAATTTCTTTAATTATTTATTACGAATTCTAAACATTTTTTAAGGTTTT
65 TTTTTTAAAGAATTTTAAATTTCTTTAATTATTTATTACGAATTCTAAACATTTTTTAAGGTTTT
19836 TTCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTGTTTT
130 TTCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTGTTTT
19901 TAGGGTTTTTTATTTTTTTTTTTACTCTTTTTAAGGATGTTTAAGGTCATTTTAAGGATTTTTAA
195 TAGGGTTTTTTATTTTTTTTTTTACTCTTTTTAAGGATGTTTAAGGTCATTTTAAGGATTTTTAA
19966 GAATTTTTTAAAGGATTTCAAAGGATTTTTAAGGAGTTTTTAAGGAATTTTAAGGAATTTTAAGG
260 GAATTTTTTAAAGGATTTCAAAGGATTTTTAAGGAGTTTTTAAGGAATTTTAAGGAATTTTAAGG
20031 TTTTTTAAGGTTTTTTAATGCATTTTCTGTCAAGCCCTACTCCATTATATACTCATCATAACATC
325 TTTTTTAAGGTTTTTTAATGCATTTTCTGTCAAGCCCTACTCCATTATATACTCATCATAACATC
20096 CATATACTTGATGACACATCTGCATGTTAGATAGCCTTAGAAATAGTT
390 CATATACTTGATGACACATCTGCATGTTAGATAGCCTTAGAAATAGTT
20144 AA-ATAAT
1 AAGATAAT
20151 CAGTATCGTA
Statistics
Matches: 444, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
436 5 0.01
437 2 0.00
438 437 0.98
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (437 bp):
AAGATAATTTTAAGCATATTTAAGGTTTTTAAGAGATTTTTCATGAAATTTGAAAGACTTATGAT
TTTTTAAAGAATTTTAAATTTCTTTAATTATTTATTACGAATTCTAAACATTTTTTAAGGTTTTT
TCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTGTTTTT
AGGGTTTTTTATTTTTTTTTTTACTCTTTTTAAGGATGTTTAAGGTCATTTTAAGGATTTTTAAG
AATTTTTTAAAGGATTTCAAAGGATTTTTAAGGAGTTTTTAAGGAATTTTAAGGAATTTTAAGGT
TTTTTAAGGTTTTTTAATGCATTTTCTGTCAAGCCCTACTCCATTATATACTCATCATAACATCC
ATATACTTGATGACACATCTGCATGTTAGATAGCCTTAGAAATAGTT
Found at i:19943 original size:10 final size:10
Alignment explanation
Indices: 19928--20048 Score: 118
Period size: 10 Copynumber: 11.7 Consensus size: 10
19918 TTTTTTACTC
19928 TTTTTAAGGA
1 TTTTTAAGGA
*
19938 TGTTTAAGG-
1 TTTTTAAGGA
19947 TCATTTTAAGGA
1 T--TTTTAAGGA
*
19959 TTTTTAAGAA
1 TTTTTAAGGA
19969 TTTTTTAAAGGA
1 -TTTTT-AAGGA
**
19981 TTTCAAAGGA
1 TTTTTAAGGA
19991 TTTTTAAGGA
1 TTTTTAAGGA
20001 GTTTTTAAGGA
1 -TTTTTAAGGA
*
20012 ATTTTAAGGA
1 TTTTTAAGGA
* *
20022 ATTTTAAGGT
1 TTTTTAAGGA
*
20032 TTTTTAAGGT
1 TTTTTAAGGA
20042 TTTTTAA
1 TTTTTAA
20049 TGCATTTTCT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
9 1 0.01
10 63 0.67
11 25 0.27
12 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:19963 original size:31 final size:30
Alignment explanation
Indices: 19928--20045 Score: 114
Period size: 31 Copynumber: 3.8 Consensus size: 30
19918 TTTTTTACTC
*
19928 TTTTTAAGGA-TGTTTAAGGTCATTTTAAGGA
1 TTTTTAAGGAGTTTTTAAGG--ATTTTAAGGA
* * *
19959 TTTTTAAGAATTTTTTAAAGGATTTCAAAGGA
1 TTTTTAAGGAGTTTTT-AAGGATTT-TAAGGA
19991 TTTTTAAGGAGTTTTTAAGGAATTTTAAGGA
1 TTTTTAAGGAGTTTTTAAGG-ATTTTAAGGA
* * *
20022 ATTTTAAGG-TTTTTTAAGGTTTTT
1 TTTTTAAGGAGTTTTTAAGGATTTT
20046 TAATGCATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
29 4 0.05
30 9 0.12
31 30 0.41
32 27 0.36
33 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (30 bp):
TTTTTAAGGAGTTTTTAAGGATTTTAAGGA
Found at i:19973 original size:72 final size:74
Alignment explanation
Indices: 19823--19973 Score: 198
Period size: 72 Copynumber: 2.1 Consensus size: 74
19813 TTCTAAACAT
* *
19823 TTTTTAAGGTTTTTTCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
1 TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
**
19888 TTTTAAGTG
66 TTTTAAGAA
* ** * * *
19897 TTTTTAGGGTTTTTT-ATTTTTTTTTTTACTCTTTTT-AAGGATGTTTAAGGTCATTTTAAGGAT
1 TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
19960 TTTTAAGAA
66 TTTTAAGAA
19969 TTTTT
1 TTTTT
19974 TAAAGGATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
72 37 0.55
73 16 0.24
74 14 0.21
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.58
Consensus pattern (74 bp):
TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
TTTTAAGAA
Found at i:19990 original size:32 final size:31
Alignment explanation
Indices: 19949--20038 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 31
19939 GTTTAAGGTC
*
19949 ATTTTAAGGATTTTTAAGAATTTTTTAAAGG-
1 ATTTAAAGGATTTTTAAG-ATTTTTTAAAGGA
*
19980 ATTTCAAAGGATTTTTAAGGAGTTTTT-AAGGA
1 ATTT-AAAGGATTTTTAA-GATTTTTTAAAGGA
* * *
20012 ATTTTAAGGAATTTTAAGGTTTTTTAA
1 ATTTAAAGGATTTTTAAGATTTTTTAA
20039 GGTTTTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
30 6 0.12
31 20 0.41
32 22 0.45
33 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (31 bp):
ATTTAAAGGATTTTTAAGATTTTTTAAAGGA
Found at i:20056 original size:20 final size:20
Alignment explanation
Indices: 19929--20048 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 20
19919 TTTTTACTCT
* *
19929 TTTTAAGGATGTTTAAGGTCA
1 TTTTAAGGATTTTTAAGG-AA
19950 TTTTAAGGATTTTTAA-GAA
1 TTTTAAGGATTTTTAAGGAA
** *
19969 TTTTTTAAAGGATTTCAAAGGAT
1 --TTTT-AAGGATTTTTAAGGAA
19992 TTTTAAGGAGTTTTTAAGGAA
1 TTTTAAGGA-TTTTTAAGGAA
* **
20013 TTTTAAGGAATTTTAAGGTT
1 TTTTAAGGATTTTTAAGGAA
*
20033 TTTTAAGGTTTTTTAA
1 TTTTAAGGATTTTTAA
20049 TGCATTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.01
20 28 0.35
21 40 0.49
22 10 0.12
23 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (20 bp):
TTTTAAGGATTTTTAAGGAA
Found at i:25715 original size:10 final size:10
Alignment explanation
Indices: 25678--25789 Score: 75
Period size: 10 Copynumber: 10.6 Consensus size: 10
25668 GATTTCAAAG
*
25678 GATTTTTAAG
1 GATTTTTAAA
*
25688 GAGTTTTCAAA
1 GA-TTTTTAAA
*
25699 GAATTTTAAA
1 GATTTTTAAA
*
25709 GATTTTTAAG
1 GATTTTTAAA
*
25719 GCTTTTTAAA
1 GATTTTTAAA
25729 GTATTTTTTAAA
1 G-A-TTTTTAAA
25741 GATTATTT-AA
1 GATT-TTTAAA
25751 G-TCTTTTAAA
1 GAT-TTTTAAA
*
25761 GCATTTTTAAG
1 G-ATTTTTAAA
*
25772 GTTTTTTTAATA
1 G-ATTTTTAA-A
25784 GATTTT
1 GATTTT
25790 GAAGCATTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
9 4 0.05
10 34 0.43
11 30 0.38
12 11 0.14
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (10 bp):
GATTTTTAAA
Found at i:25738 original size:12 final size:11
Alignment explanation
Indices: 25680--25789 Score: 61
Period size: 11 Copynumber: 10.3 Consensus size: 11
25670 TTTCAAAGGA
* *
25680 TTTTTAAGGAG
1 TTTTTAAAGAT
*
25691 TTTTCAAAGA-
1 TTTTTAAAGAT
*
25701 ATTTTAAAGA-
1 TTTTTAAAGAT
**
25711 TTTTT-AAGGC
1 TTTTTAAAGAT
25721 TTTTTAAAGTAT
1 TTTTTAAAG-AT
25733 TTTTTAAAGAT
1 TTTTTAAAGAT
*
25744 TATTT-AAG-T
1 TTTTTAAAGAT
*
25753 CTTTTAAAGCA-
1 TTTTTAAAG-AT
* *
25764 TTTTTAAGGTT
1 TTTTTAAAGAT
25775 TTTTTAATAGAT
1 TTTTTAA-AGAT
25787 TTT
1 TTT
25790 GAAGCATTTT
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
9 7 0.09
10 23 0.31
11 31 0.41
12 14 0.19
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.52
Consensus pattern (11 bp):
TTTTTAAAGAT
Found at i:25743 original size:32 final size:32
Alignment explanation
Indices: 25702--25768 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
25692 TTTCAAAGAA
*
25702 TTTTAAAGATT-TTTAAGGCTTTTTAAAGTATT
1 TTTTAAAGATTATTTAAGGC-TTTTAAAGCATT
*
25734 TTTTAAAGATTATTTAAGTCTTTTAAAGCATT
1 TTTTAAAGATTATTTAAGGCTTTTAAAGCATT
25766 TTT
1 TTT
25769 AAGGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 25 0.78
33 7 0.22
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (32 bp):
TTTTAAAGATTATTTAAGGCTTTTAAAGCATT
Found at i:25752 original size:22 final size:20
Alignment explanation
Indices: 25711--25789 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 20
25701 ATTTTAAAGA
* *
25711 TTTTTAAGGCTTTTTAAAGTAT
1 TTTTTAAAGATTTTT-AAGT-T
25733 TTTTTAAAGATTATTTAAG-T
1 TTTTTAAAGATT-TTTAAGTT
*
25753 CTTTTAAAGCATTTTTAAGGTT
1 TTTTTAAAG-ATTTTTAA-GTT
25775 TTTTTAATAGATTTT
1 TTTTTAA-AGATTTT
25790 GAAGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 14 0.29
21 4 0.08
22 25 0.52
23 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (20 bp):
TTTTTAAAGATTTTTAAGTT
Found at i:26117 original size:20 final size:19
Alignment explanation
Indices: 26068--26128 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
26058 TTTTTTTCAT
* *
26068 AGATTTCAAAGGATTTTTAA
1 AGATTTTAAAGAATTTTT-A
*
26088 ACAGTTTTAAAGTAATTTTTA
1 AGA-TTTTAAAG-AATTTTTA
*
26109 AGATTTTAAAGATTTTTTA
1 AGATTTTAAAGAATTTTTA
26128 A
1 A
26129 CTCATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.24
20 10 0.29
21 10 0.29
22 6 0.18
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.46
Consensus pattern (19 bp):
AGATTTTAAAGAATTTTTA
Found at i:26206 original size:10 final size:10
Alignment explanation
Indices: 26193--26424 Score: 115
Period size: 10 Copynumber: 22.2 Consensus size: 10
26183 ATGGATTTCA
26193 AAGGATTTTT
1 AAGGATTTTT
*
26203 AAGGAGTTTT
1 AAGGATTTTT
*
26213 AAGGAATTTT
1 AAGGATTTTT
*
26223 AAGAATTTTT
1 AAGGATTTTT
26233 AAGGA-TTTT
1 AAGGATTTTT
* *
26242 ATTGCATTTTTT
1 A-AGGA-TTTTT
*
26254 AAAGATTTTT
1 AAGGATTTTT
* *
26264 GAAGTATTTTC
1 -AAGGATTTTT
26275 AAGGTATTTTT
1 AAGG-ATTTTT
* **
26286 CATGGATTTCA
1 -AAGGATTTTT
*
26297 AAAGATTTTT
1 AAGGATTTTT
*
26307 AAGGAGTTTTC
1 AAGGA-TTTTT
*
26318 AAGGAATTTT
1 AAGGATTTTT
*
26328 AAAGATTTTT
1 AAGGATTTTT
*
26338 AAGGTTTTTT
1 AAGGATTTTT
*
26348 AAAGCATTTTT
1 -AAGGATTTTT
*
26359 AAAAGATTTTT
1 -AAGGATTTTT
** *
26370 GAAGTCTTTTA
1 -AAGGATTTTT
**
26381 AAACATTTTT
1 AAGGATTTTT
*
26391 AAGGTTTTCTT
1 AAGGATTT-TT
*
26402 AATGAATTTTT
1 AA-GGATTTTT
**
26413 AAATATTTTT
1 AAGGATTTTT
26423 AA
1 AA
26425 AATAATTTAA
Statistics
Matches: 162, Mismatches: 50, Indels: 20
0.70 0.22 0.09
Matches are distributed among these distances:
9 5 0.03
10 88 0.54
11 57 0.35
12 12 0.07
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:26216 original size:20 final size:20
Alignment explanation
Indices: 26193--26424 Score: 115
Period size: 21 Copynumber: 11.1 Consensus size: 20
26183 ATGGATTTCA
*
26193 AAGGATTTTTAAGGAGTTTT
1 AAGGATTTTTAAGGATTTTT
* *
26213 AAGGAATTTTAAGAATTTTT
1 AAGGATTTTTAAGGATTTTT
* *
26233 AAGGA-TTTTATTGCATTTTTT
1 AAGGATTTTTA-AGGA-TTTTT
* * *
26254 AAAGATTTTTGAAGTATTTTC
1 AAGGATTTTT-AAGGATTTTT
* **
26275 AAGGTATTTTTCATGGATTTCA
1 AAGG-ATTTTT-AAGGATTTTT
* *
26297 AAAGATTTTTAAGGAGTTTTC
1 AAGGATTTTTAAGGA-TTTTT
* *
26318 AAGGAATTTTAAAGATTTTT
1 AAGGATTTTTAAGGATTTTT
* *
26338 AAGGTTTTTTAAAGCATTTTT
1 AAGGATTTTT-AAGGATTTTT
* ** *
26359 AAAAGATTTTTGAAGTCTTTTA
1 -AAGGATTTTT-AAGGATTTTT
** *
26381 AAACATTTTTAAGGTTTTCTT
1 AAGGATTTTTAAGGATTT-TT
* **
26402 AATGAATTTTTAAATATTTTT
1 AA-GGATTTTTAAGGATTTTT
26423 AA
1 AA
26425 AATAATTTAA
Statistics
Matches: 160, Mismatches: 42, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
19 5 0.03
20 46 0.29
21 61 0.38
22 47 0.29
23 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (20 bp):
AAGGATTTTTAAGGATTTTT
Found at i:26272 original size:11 final size:10
Alignment explanation
Indices: 26196--26766 Score: 106
Period size: 10 Copynumber: 54.9 Consensus size: 10
26186 GATTTCAAAG
*
26196 GATTTTTAAG
1 GATTTTTAAA
* *
26206 GAGTTTTAAG
1 GATTTTTAAA
*
26216 GAATTTT-AA
1 GATTTTTAAA
*
26225 GAATTTTTAAG
1 G-ATTTTTAAA
**
26236 GA-TTTTATT
1 GATTTTTAAA
26245 GCATTTTTTAAA
1 G-A-TTTTTAAA
*
26257 GATTTTTGAA
1 GATTTTTAAA
* *
26267 GTATTTTCAAG
1 G-ATTTTTAAA
**
26278 GTATTTTTCATG
1 G-ATTTTT-AAA
**
26290 GATTTCAAAA
1 GATTTTTAAA
*
26300 GATTTTTAAG
1 GATTTTTAAA
* *
26310 GAGTTTTCAAG
1 GA-TTTTTAAA
*
26321 GAATTTTAAA
1 GATTTTTAAA
*
26331 GATTTTTAAG
1 GATTTTTAAA
*
26341 GTTTTTTAAA
1 GATTTTTAAA
26351 GCATTTTTAAAA
1 G-ATTTTT-AAA
*
26363 GATTTTTGAA
1 GATTTTTAAA
26373 G-TCTTTTAAAA
1 GAT-TTTT-AAA
* *
26384 CATTTTTAAG
1 GATTTTTAAA
* *
26394 GTTTTCTTAAT
1 GATTT-TTAAA
26405 GAATTTTTAAA
1 G-ATTTTTAAA
*
26416 TATTTTTAAA
1 GATTTTTAAA
*
26426 -ATAATTTAAA
1 GAT-TTTTAAA
* *
26436 TCATATTT-AA
1 -GATTTTTAAA
*
26446 GGTTTTTAAAA
1 GATTTTT-AAA
* *
26457 GATTTTTCAT
1 GATTTTTAAA
* *
26467 GAAATTTAAAA
1 G-ATTTTTAAA
* *
26478 GATTTTTTAT
1 GATTTTTAAA
26488 G-TTTTTAAA
1 GATTTTTAAA
* *
26497 GGTCATTCTAAA
1 GAT--TTTTAAA
*
26509 CATTTTT-AA
1 GATTTTTAAA
* *
26518 GGTTTTTATATG
1 GATTTTTA-A-A
* *
26530 GA-TTTCAGAG
1 GATTTTTA-AA
26540 GATTTTTAAA
1 GATTTTTAAA
*
26550 G-TGTTTTCAAG
1 GAT-TTTT-AAA
*
26561 GATTTTCAAGA
1 GATTTTTAA-A
* *
26572 GA-TTTCATA
1 GATTTTTAAA
*
26581 TATTTTT-AA
1 GATTTTTAAA
*
26590 GGTTTTTAAA
1 GATTTTTAAA
26600 GTCATTTTTAAAA
1 G--ATTTTT-AAA
*
26613 CATTTTTAAAA
1 GATTTTT-AAA
*
26624 TATTTTTAAA
1 GATTTTTAAA
* *
26634 GTCTTTTTAAG
1 G-ATTTTTAAA
**
26645 GATTTTTAGG
1 GATTTTTAAA
* *
26655 GTTTTTTTAAT
1 G-ATTTTTAAA
26666 GAATTTTT-AA
1 G-ATTTTTAAA
26676 GCATTTTTAAA
1 G-ATTTTTAAA
**
26687 GCCTTTTAAA
1 GATTTTTAAA
** *
26697 GAAATTTAAG
1 GATTTTTAAA
* *
26707 GTTTTTTAGA
1 GATTTTTAAA
* *
26717 GATTTGTCAAG
1 GATTT-TTAAA
* * *
26728 GAATTTGAAG
1 GATTTTTAAA
*
26738 GATTTTTAAT
1 GATTTTTAAA
26748 G-TTTTTAAAA
1 GATTTTT-AAA
26758 GATTTTTAA
1 GATTTTTAA
26767 TTTTTTTAAT
Statistics
Matches: 403, Mismatches: 115, Indels: 86
0.67 0.19 0.14
Matches are distributed among these distances:
9 43 0.11
10 183 0.45
11 141 0.35
12 33 0.08
13 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (10 bp):
GATTTTTAAA
Found at i:26318 original size:31 final size:31
Alignment explanation
Indices: 26282--26369 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
26272 TTCAAGGTAT
*
26282 TTTTCATGG-ATTTCAAAAGATTTTTAAGGAG
1 TTTTCAAGGAATTT-AAAAGATTTTTAAGGAG
* **
26313 TTTTCAAGGAATTTTAAAGATTTTTAAGGTT
1 TTTTCAAGGAATTTAAAAGATTTTTAAGGAG
* * *
26344 TTTTAAAGCATTTTTAAAAGATTTTT
1 TTTTCAAGGA-ATTTAAAAGATTTTT
26370 GAAGTCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 30 0.64
32 17 0.36
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.48
Consensus pattern (31 bp):
TTTTCAAGGAATTTAAAAGATTTTTAAGGAG
Found at i:26363 original size:12 final size:11
Alignment explanation
Indices: 26296--26392 Score: 53
Period size: 11 Copynumber: 9.2 Consensus size: 11
26286 CATGGATTTC
26296 AAAAGATTTTT
1 AAAAGATTTTT
* *
26307 -AAGGAGTTTT
1 AAAAGATTTTT
* * *
26317 CAAGGAATTTT
1 AAAAGATTTTT
26328 -AAAGATTTTT
1 AAAAGATTTTT
*
26338 --AAGGTTTTT
1 AAAAGATTTTT
*
26347 TAAAGCATTTTT
1 AAAAG-ATTTTT
26359 AAAAGATTTTT
1 AAAAGATTTTT
*
26370 -GAAG-TCTTTT
1 AAAAGAT-TTTT
*
26380 AAAACATTTTT
1 AAAAGATTTTT
26391 AA
1 AA
26393 GGTTTTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
9 9 0.13
10 23 0.34
11 26 0.38
12 10 0.15
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.45
Consensus pattern (11 bp):
AAAAGATTTTT
Found at i:26369 original size:32 final size:32
Alignment explanation
Indices: 26248--26392 Score: 111
Period size: 32 Copynumber: 4.6 Consensus size: 32
26238 TTTTATTGCA
* *
26248 TTTTTTAAAG-ATTTTT-GAAGTATTTTCAAGG
1 TTTTTTAAAGCATTTTTAAAAG-ATTTTTAAGG
* * * *
26279 TATTTTTCATGGA-TTTCAAAAGATTTTTAAGG
1 T-TTTTTAAAGCATTTTTAAAAGATTTTTAAGG
** * * *
26311 AGTTTTCAAGGAATTTT-AAAGATTTTTAAGG
1 TTTTTTAAAGCATTTTTAAAAGATTTTTAAGG
26342 TTTTTTAAAGCATTTTTAAAAGATTTTTGAA-G
1 TTTTTTAAAGCATTTTTAAAAGATTTTT-AAGG
* *
26374 TCTTTTAAAACATTTTTAA
1 TTTTTTAAAGCATTTTTAA
26393 GGTTTTCTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
31 36 0.39
32 50 0.54
33 6 0.07
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (32 bp):
TTTTTTAAAGCATTTTTAAAAGATTTTTAAGG
Found at i:26421 original size:53 final size:53
Alignment explanation
Indices: 26323--26463 Score: 153
Period size: 53 Copynumber: 2.7 Consensus size: 53
26313 TTTTCAAGGA
* * * *
26323 ATTTT-AAAGATTTTTAAGGTTTTTTAAAGCATTTTTAAAAGATTTTTGAAGT
1 ATTTTAAAACATTTTTAAGGTTTTTTAAAGAATTTTTAAAAGATTTTTAAAAT
* * *
26375 CTTTTAAAACATTTTTAAGGTTTTCTTAATGAATTTTT-AAATATTTTTAAAAT
1 ATTTTAAAACATTTTTAAGGTTTT-TTAAAGAATTTTTAAAAGATTTTTAAAAT
* * * *
26428 AATTTAAATCATATTTAAGGTTTTTAAAAG-ATTTTT
1 ATTTTAAAACATTTTTAAGGTTTTTTAAAGAATTTTT
26464 CATGAAATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
51 6 0.08
52 8 0.11
53 49 0.66
54 11 0.15
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (53 bp):
ATTTTAAAACATTTTTAAGGTTTTTTAAAGAATTTTTAAAAGATTTTTAAAAT
Found at i:26481 original size:221 final size:220
Alignment explanation
Indices: 26060--26484 Score: 466
Period size: 221 Copynumber: 1.9 Consensus size: 220
26050 TTTATGGTTT
* * *
26060 TTTTTCATAGATTTCAAAGGATTTTTAAACAGTTTTAAAGTAATTTTTAAGATTTTAAAGATTTT
1 TTTTTCATAGATTTCAAAAGATTTTTAAACAGTTTTAAAGGAATTTTAAAGATTTTAAAGATTTT
** * * * * * * *
26125 TTAACTCATTTTAAAAATATTTTTGATGTCTTTTGAAGCATTTTTAAGGTTTTTTTTCATGGATT
66 TTAAAGCATTTTAAAAAGATTTTTGAAGTCTTTTAAAACATTTTTAAGGTTTTTCTTAATGAATT
* * * ** *
26190 TCAAAGGATTTTTAAGGAGTTTTAAGGAATTTTAAGAATTTTTAAGGATTTTATTGCATTTTTTA
131 TCAAAGGATTTTTAA-GAATTTTAAAGAATTTTAAGAATTTTTAAAGATTTTATTGCAAATTTAA
26255 AAGATTTTTGAAGTATTTTCAAGGTA
195 AAGATTTTTGAAGTATTTTCAAGGTA
* ** * * *
26281 TTTTTCATGGATTTCAAAAGATTTTTAAGGAGTTTTCAAGGAATTTTAAAGATTTTTAAGGTTTT
1 TTTTTCATAGATTTCAAAAGATTTTTAAACAGTTTTAAAGGAATTTTAAAGATTTTAAAGATTTT
*
26346 TTAAAGCATTTTTAAAAGATTTTTGAAGTCTTTTAAAACATTTTTAAGG-TTTTCTTAATGAATT
66 TTAAAGCATTTTAAAAAGATTTTTGAAGTCTTTTAAAACATTTTTAAGGTTTTTCTTAATGAA-T
* * ** *
26410 TTTAAA-TATTTTTAA-AATAATTTAAATCATATTTAAG-GTTTTTAAAAGATTTT-TCATG-AA
130 TTCAAAGGATTTTTAAGAAT--TTTAAAGAAT-TTTAAGAATTTTT-AAAGATTTTAT--TGCAA
26470 ATTTAAAAGATTTTT
189 ATTTAAAAGATTTTT
26485 TATGTTTTTA
Statistics
Matches: 167, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
218 2 0.01
220 31 0.19
221 132 0.79
222 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.49
Consensus pattern (220 bp):
TTTTTCATAGATTTCAAAAGATTTTTAAACAGTTTTAAAGGAATTTTAAAGATTTTAAAGATTTT
TTAAAGCATTTTAAAAAGATTTTTGAAGTCTTTTAAAACATTTTTAAGGTTTTTCTTAATGAATT
TCAAAGGATTTTTAAGAATTTTAAAGAATTTTAAGAATTTTTAAAGATTTTATTGCAAATTTAAA
AGATTTTTGAAGTATTTTCAAGGTA
Found at i:26629 original size:10 final size:11
Alignment explanation
Indices: 26592--26633 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
26582 ATTTTTAAGG
*
26592 TTTTTAAAGTCA
1 TTTTTAAA-ACA
26604 TTTTTAAAACA
1 TTTTTAAAACA
*
26615 TTTTTAAAATA
1 TTTTTAAAACA
26626 TTTTTAAA
1 TTTTTAAA
26634 GTCTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (11 bp):
TTTTTAAAACA
Found at i:26640 original size:22 final size:21
Alignment explanation
Indices: 26580--26643 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
26570 GAGATTTCAT
*
26580 ATATTTTT-AAGGTTTTTAAA
1 ATATTTTTAAAGCTTTTTAAA
* *
26600 GTCATTTTTAAAACATTTTTAAA
1 AT-ATTTTTAAAGC-TTTTTAAA
26623 ATATTTTTAAAGTCTTTTTAA
1 ATATTTTTAAAG-CTTTTTAA
26644 GGATTTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 6 0.17
22 18 0.51
23 10 0.29
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (21 bp):
ATATTTTTAAAGCTTTTTAAA
Found at i:26649 original size:21 final size:22
Alignment explanation
Indices: 26625--26675 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
26615 TTTTTAAAAT
*
26625 ATTTTTAAAGTCTTTTTAA-GG
1 ATTTTTAAAGTCTTTTTAATGA
** *
26646 ATTTTTAGGGTTTTTTTAATGA
1 ATTTTTAAAGTCTTTTTAATGA
26668 ATTTTTAA
1 ATTTTTAA
26676 GCATTTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (22 bp):
ATTTTTAAAGTCTTTTTAATGA
Found at i:26763 original size:20 final size:20
Alignment explanation
Indices: 26738--26775 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26728 GAATTTGAAG
26738 GATTTTTAATGTTTTTAAAA
1 GATTTTTAATGTTTTTAAAA
*
26758 GATTTTTAATTTTTTTAA
1 GATTTTTAATGTTTTTAA
26776 TTATTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
GATTTTTAATGTTTTTAAAA
Found at i:26824 original size:21 final size:21
Alignment explanation
Indices: 26800--26886 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
26790 TTTTAAAATT
26800 TTTTTAAAGGT-TTTTCAAGGA
1 TTTTTAAA-GTCTTTTCAAGGA
*
26821 TTTTTAGAGTCTTTT-AAGGA
1 TTTTTAAAGTCTTTTCAAGGA
* * *
26841 TCTTTAATGTC-ATTCAAAGGA
1 TTTTTAAAGTCTTTTC-AAGGA
*
26862 TTTTTAAAGTGTTTTCAAGGA
1 TTTTTAAAGTCTTTTCAAGGA
26883 TTTT
1 TTTT
26887 CAAGAGATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.28
21 33 0.62
22 3 0.06
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (21 bp):
TTTTTAAAGTCTTTTCAAGGA
Found at i:27001 original size:11 final size:10
Alignment explanation
Indices: 26967--27044 Score: 59
Period size: 10 Copynumber: 7.7 Consensus size: 10
26957 TTTTAAGATT
*
26967 TTTTTATGGA
1 TTTTTAAGGA
*
26977 TTTTTATGGA
1 TTTTTAAGGA
*
26987 TTTTTAAGGTT
1 TTTTTAAGG-A
*
26998 TTTTTAAAGA
1 TTTTTAAGGA
* *
27008 TATTTAAAGA
1 TTTTTAAGGA
*
27018 TTTTTAATG-
1 TTTTTAAGGA
*
27027 TTTTAAAGGTA
1 TTTTTAAGG-A
27038 TTTTTAA
1 TTTTTAA
27045 TTTTCTTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.13
10 34 0.62
11 14 0.25
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.56
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:27020 original size:31 final size:31
Alignment explanation
Indices: 26955--27030 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
26945 CTTTTGAAGT
* ** * **
26955 ATTTTTAAGATTTTTTTATGGATTTTTATGG
1 ATTTTTAAGGTTTTTTTAAAGATATTTAAAG
26986 ATTTTTAAGGTTTTTTTAAAGATATTTAAAG
1 ATTTTTAAGGTTTTTTTAAAGATATTTAAAG
*
27017 ATTTTTAATGTTTT
1 ATTTTTAAGGTTTT
27031 AAAGGTATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (31 bp):
ATTTTTAAGGTTTTTTTAAAGATATTTAAAG
Found at i:27088 original size:20 final size:20
Alignment explanation
Indices: 27038--27093 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
27028 TTTAAAGGTA
27038 TTTTTA-ATTTTCTTAATCATT
1 TTTTTAGATTTT-TT-ATCATT
*
27059 TCTTTT-GATTTTTTATGATT
1 T-TTTTAGATTTTTTATCATT
27079 TTTTTAGATTTTTTA
1 TTTTTAGATTTTTTA
27094 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 15 0.48
21 3 0.10
22 9 0.29
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTTAGATTTTTTATCATT
Found at i:27349 original size:20 final size:20
Alignment explanation
Indices: 27272--27362 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 20
27262 AAAGAATTAG
*
27272 AAGGATTTTTGATGT-TTTT
1 AAGGATTTTTAATGTATTTT
* *
27291 AAGGGATTTTTAAT-TCTCTT
1 AA-GGATTTTTAATGTATTTT
** * *
27311 AATTATTTATT-ACGAATTTT
1 AAGGATTT-TTAATGTATTTT
27331 AAGGATTTTTAATGTATTTT
1 AAGGATTTTTAATGTATTTT
*
27351 CAAGGACTTTTA
1 -AAGGATTTTTA
27363 GGGTCTTTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
19 10 0.19
20 33 0.62
21 10 0.19
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (20 bp):
AAGGATTTTTAATGTATTTT
Found at i:27383 original size:21 final size:20
Alignment explanation
Indices: 27327--27388 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
27317 TTATTACGAA
* *
27327 TTTTAAGGATTTTTAATGTAT
1 TTTTAAGGA-TTTTAAGGTCT
* *
27348 TTTCAAGGACTTTTAGGGTCT
1 TTTTAAGGA-TTTTAAGGTCT
27369 TTTTAAGGATGTTTAAGGTC
1 TTTTAAGGAT-TTTAAGGTC
27389 ATTCTAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (20 bp):
TTTTAAGGATTTTAAGGTCT
Found at i:27877 original size:19 final size:17
Alignment explanation
Indices: 27853--27887 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
27843 ATAAATATTT
27853 TTTTTCTTCTCATTTTTCC
1 TTTTTCTT-TC-TTTTTCC
27872 TTTTTCTTTCTTTTTC
1 TTTTTCTTTCTTTTTC
27888 TTCTCACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTCC
Found at i:28264 original size:17 final size:17
Alignment explanation
Indices: 28239--28271 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
28229 CATGAAGAAG
28239 AAAAAAGAA-AAAAAAC
1 AAAAAAGAATAAAAAAC
28255 AAAAATAGAATAAAAAA
1 AAAAA-AGAATAAAAAA
28272 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.85, C:0.03, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAAGAATAAAAAAC
Found at i:28314 original size:26 final size:26
Alignment explanation
Indices: 28271--28359 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
28261 AGAATAAAAA
* *
28271 AATATTTATAAAATTTAAAATATTATT
1 AATATTAATATAA-TTAAAATATTATT
* *
28298 -ATTTTATATATAATTAAAAAATTATT
1 AATATTA-ATATAATTAAAATATTATT
* *
28324 AATATTAATATGATTAAAATATTA-A
1 AATATTAATATAATTAAAATATTATT
28349 AATATTAATAT
1 AATATTAATAT
28360 TTTAAACTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
25 11 0.21
26 31 0.60
27 10 0.19
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
AATATTAATATAATTAAAATATTATT
Found at i:28349 original size:8 final size:8
Alignment explanation
Indices: 28279--28372 Score: 55
Period size: 8 Copynumber: 11.4 Consensus size: 8
28269 AAAATATTTA
28279 TAAAAT-T
1 TAAAATAT
28286 TAAAATAT
1 TAAAATAT
** *
28294 TATTATTT
1 TAAAATAT
*
28302 TATATATAAT
1 TA-AAAT-AT
*
28312 TAAAAAAT
1 TAAAATAT
*
28320 TATTAATAT
1 TA-AAATAT
*
28329 TAATATGAT
1 TAAAAT-AT
28338 TAAAATAT
1 TAAAATAT
28346 TAAAATAT
1 TAAAATAT
* *
28354 TAATATTT
1 TAAAATAT
*
28362 TAAACTAT
1 TAAAATAT
28370 TAA
1 TAA
28373 TGTTTTATTT
Statistics
Matches: 65, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
7 6 0.09
8 38 0.58
9 18 0.28
10 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
TAAAATAT
Found at i:28371 original size:47 final size:46
Alignment explanation
Indices: 28320--28408 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
28310 ATTAAAAAAT
28320 TATTAATATTA-ATATGATTAAAATATTAAAATATTAATATTTTAAAC
1 TATTAATATTATAT-TGATTAAAATATTAAAATATTAA-ATTTTAAAC
* * * * *
28367 TATTAATGTTTTATTTATTAAATTATTAATATATTAAATTTT
1 TATTAATATTATATTGATTAAAATATTAAAATATTAAATTTT
28409 TAATGAGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 5 0.14
47 29 0.81
48 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (46 bp):
TATTAATATTATATTGATTAAAATATTAAAATATTAAATTTTAAAC
Found at i:28394 original size:8 final size:8
Alignment explanation
Indices: 28316--28411 Score: 51
Period size: 8 Copynumber: 12.2 Consensus size: 8
28306 TATAATTAAA
28316 AAATTATT
1 AAATTATT
28324 -AA-TATT
1 AAATTATT
*
28330 AATATGATT
1 AA-ATTATT
*
28339 AAAATATT
1 AAATTATT
*
28347 AAAATATT
1 AAATTATT
28355 AATATT-TT
1 AA-ATTATT
*
28363 AAACTATT
1 AAATTATT
28371 -AATGT-TT
1 AAAT-TATT
* *
28378 TATTTATT
1 AAATTATT
28386 AAATTATT
1 AAATTATT
28394 -AATATATT
1 AAAT-TATT
*
28402 AAATTTTT
1 AAATTATT
28410 AA
1 AA
28412 TGAGTATAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
6 4 0.06
7 13 0.19
8 41 0.60
9 10 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (8 bp):
AAATTATT
Found at i:28411 original size:16 final size:16
Alignment explanation
Indices: 28328--28412 Score: 61
Period size: 16 Copynumber: 5.3 Consensus size: 16
28318 ATTATTAATA
* *
28328 TTAATATGATTAAAATA
1 TTAATAT-ATTAAATTT
*
28345 TTAAAATATT-AATATT
1 TTAATATATTAAAT-TT
28361 TTAA-ACTATT-AATGTT
1 TTAATA-TATTAAAT-TT
* *
28377 TT-ATTTATTAAATTA
1 TTAATATATTAAATTT
28392 TTAATATATTAAATTT
1 TTAATATATTAAATTT
28408 TTAAT
1 TTAAT
28413 GAGTATAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 11 0.20
16 38 0.69
17 6 0.11
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (16 bp):
TTAATATATTAAATTT
Found at i:28494 original size:15 final size:15
Alignment explanation
Indices: 28474--28566 Score: 70
Period size: 15 Copynumber: 6.4 Consensus size: 15
28464 AAATTAAAAA
*
28474 TAAAATATTATTAAT
1 TAAAATATTAATAAT
28489 TAAAATATTAATAAT
1 TAAAATATTAATAAT
28504 T--AA-ATT-ATAA-
1 TAAAATATTAATAAT
* *
28514 TAAAATATTGATATT
1 TAAAATATTAATAAT
* *
28529 TAAATTATTAATTAT
1 TAAAATATTAATAAT
* *
28544 TAATATTTTAATTAAT
1 TAAAATATTAA-TAAT
28560 TATAAAT
1 TA-AAAT
28567 TACTAATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
10 1 0.02
11 4 0.07
12 5 0.08
13 5 0.08
14 3 0.05
15 34 0.57
16 5 0.08
17 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
TAAAATATTAATAAT
Found at i:28514 original size:14 final size:14
Alignment explanation
Indices: 28453--28516 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
28443 TATTTTAATC
*
28453 ATAATAATATTAAAT
1 ATAATAAT-TAAAAT
*
28468 -TAA-AAATAAAAT
1 ATAATAATTAAAAT
*
28480 ATTATTAATTAAAAT
1 A-TAATAATTAAAAT
*
28495 ATTAATAATTAAATT
1 A-TAATAATTAAAAT
28510 ATAATAA
1 ATAATAA
28517 AATATTGATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 5 0.12
13 2 0.05
14 11 0.28
15 22 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATAATTAAAAT
Found at i:28516 original size:40 final size:39
Alignment explanation
Indices: 28457--28555 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 39
28447 TTAATCATAA
*
28457 TAATATTAAATTAAAAATAAAATATT-ATTAATTAAAATAT
1 TAATATTAAATT-ATAATAAAATATTGA-TAATTAAAATAT
* *
28497 TAATAATTAAATTATAATAAAATATTGATATTTAAATTAT
1 TAAT-ATTAAATTATAATAAAATATTGATAATTAAAATAT
*
28537 TAATTATTAATATTTTAAT
1 TAA-TATTAA-ATTATAAT
28556 TAATTATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
40 34 0.67
41 17 0.33
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (39 bp):
TAATATTAAATTATAATAAAATATTGATAATTAAAATAT
Found at i:28522 original size:25 final size:26
Alignment explanation
Indices: 28480--28564 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
28470 AAAATAAAAT
28480 ATTATTAATTAAAATATTAATAATTAA
1 ATTA-TAATTAAAATATTAATAATTAA
* *
28507 ATTATAA-TAAAATATTGATATTTAA
1 ATTATAATTAAAATATTAATAATTAA
* *
28532 ATTATTAATTATTAATATT-TTAATT-A
1 ATTA-TAATTA-AAATATTAATAATTAA
28558 ATTATAA
1 ATTATAA
28565 ATTACTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 23 0.46
26 11 0.22
27 10 0.20
28 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATTATAATTAAAATATTAATAATTAA
Found at i:28549 original size:22 final size:24
Alignment explanation
Indices: 28489--28577 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
28479 TATTATTAAT
*
28489 TAAAATATTAATAATTAAATTATAA
1 TAAAATATTAATATTTAAATTAT-A
*
28514 TAAAATATTGATATTTAAATTAT-
1 TAAAATATTAATATTTAAATTATA
* *
28537 T-AATTATTAATATTTTAATTAATTA
1 TAAAATATTAATATTTAAATT-A-TA
* *
28562 TAAATTACTAATATTT
1 TAAAATATTAATATTT
28578 TAAAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
22 16 0.30
23 2 0.04
24 1 0.02
25 22 0.41
26 13 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TAAAATATTAATATTTAAATTATA
Found at i:28560 original size:26 final size:26
Alignment explanation
Indices: 28531--28580 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28521 TTGATATTTA
* *
28531 AATTATTAATTATTAATATTTTAATT
1 AATTATAAATTACTAATATTTTAATT
28557 AATTATAAATTACTAATATTTTAA
1 AATTATAAATTACTAATATTTTAA
28581 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AATTATAAATTACTAATATTTTAATT
Found at i:29122 original size:21 final size:22
Alignment explanation
Indices: 29088--29149 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
29078 TTTTAAGTCA
* *
29088 TTTTAAAAATATTTTTAAAGCC
1 TTTTAAATAGATTTTTAAAGCC
* * **
29110 TTTTAAA-GGATTTTTAATGTG
1 TTTTAAATAGATTTTTAAAGCC
29131 TTTTAAATAGATTTTTAAA
1 TTTTAAATAGATTTTTAAA
29150 CATTTTTAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (22 bp):
TTTTAAATAGATTTTTAAAGCC
Found at i:29236 original size:20 final size:19
Alignment explanation
Indices: 29212--29349 Score: 82
Period size: 20 Copynumber: 6.8 Consensus size: 19
29202 AAATTTAAAA
29212 GATTTTTAATGTTTTTAAG
1 GATTTTTAATGTTTTTAAG
*
29231 GTATTTTTAAT-TTTCTTAAT
1 G-ATTTTTAATGTTT-TTAAG
* **
29251 TATTTATTAACATTTTTAAG
1 GATTT-TTAATGTTTTTAAG
29271 GATTTTTTAGAT-TTTTTAATG
1 GA-TTTTTA-ATGTTTTTAA-G
* *
29292 AATTTTTAAAGCCTTTTTAAG
1 GATTTTTAATG--TTTTTAAG
* *
29313 GATGTTTAAGGTCATTTTAAG
1 GATTTTTAATGT--TTTTAAG
* *
29334 CATTTTTAACGTTTTT
1 GATTTTTAATGTTTTT
29350 TCATTAATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
19 14 0.15
20 38 0.41
21 34 0.37
22 7 0.08
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (19 bp):
GATTTTTAATGTTTTTAAG
Found at i:29275 original size:10 final size:10
Alignment explanation
Indices: 29262--29810 Score: 74
Period size: 10 Copynumber: 53.0 Consensus size: 10
29252 ATTTATTAAC
29262 ATTTTTAAGG
1 ATTTTTAAGG
*
29272 ATTTTTTA-G
1 ATTTTTAAGG
*
29281 ATTTTTTAATGA
1 A-TTTTTAA-GG
*
29293 ATTTTTAAAGC
1 ATTTTT-AAGG
*
29304 CTTTTTAAGG
1 ATTTTTAAGG
*
29314 ATGTTTAAGG
1 ATTTTTAAGG
*
29324 -TCATTTTAAGC
1 AT--TTTTAAGG
*
29335 ATTTTTAACG
1 ATTTTTAAGG
* ***
29345 TTTTTTCATTA
1 ATTTTT-AAGG
** *
29356 ATTTCAAAAG
1 ATTTTTAAGG
*
29366 ATTTTTACGTTG
1 ATTTTTAAG--G
*
29378 -TTTTCAAGG
1 ATTTTTAAGG
*
29387 -TATTTTATGG
1 AT-TTTTAAGG
29397 A-TTTTAAGG
1 ATTTTTAAGG
*
29406 -TTTTGTAAGTC
1 ATTTT-TAAG-G
*
29417 ATTTTTAAAAG
1 ATTTTT-AAGG
*
29428 ATTTTTAAAGC
1 ATTTTT-AAGG
* * *
29439 CTTTTAAAGC
1 ATTTTTAAGG
*
29449 ATTTTAAAGG
1 ATTTTTAAGG
*
29459 TTTTTTCATA-G
1 ATTTTT-A-AGG
*
29470 ATTTTTAAGC
1 ATTTTTAAGG
29480 ATTTTTAAGG
1 ATTTTTAAGG
29490 -TCATTTTAAGG
1 AT--TTTTAAGG
*
29501 ATATTTAAGG
1 ATTTTTAAGG
*
29511 -TTTTTTA-G
1 ATTTTTAAGG
29519 ATATATTTCAAGG
1 AT-T-TTT-AAGG
* **
29532 AATTAGAAGG
1 ATTTTTAAGG
* *
29542 ATTTTTTATG
1 ATTTTTAAGG
*
29552 -TTTTAAAGG
1 ATTTTTAAGG
29561 ATTTTTAA--
1 ATTTTTAAGG
* *
29569 TTTTATTAATTG
1 ATTT-TTAA-GG
*
29581 -TTTATT-ACG
1 ATTT-TTAAGG
* *
29590 AATTTTAAGA
1 ATTTTTAAGG
*
29600 ATTTTTAAGAT
1 ATTTTTAAG-G
29611 ATTTTTAAGG
1 ATTTTTAAGG
*
29621 ATGTTTAAGG
1 ATTTTTAAGG
**
29631 -TTATTCTAAAC
1 ATT-TT-TAAGG
*
29642 ATTTTAAAGG
1 ATTTTTAAGG
* *
29652 CTTTTTTGATGG
1 -ATTTTT-AAGG
*
29664 ATTTTAAAGG
1 ATTTTTAAGG
29674 ATTTTT-AGG
1 ATTTTTAAGG
* **
29683 GTGTTTTCAACTT
1 AT-TTTT-AA-GG
*
29696 ATTTTCAAAGG
1 ATTTT-TAAGG
*
29707 A-TTTTATGG
1 ATTTTTAAGG
29716 ATTTTTAAGG
1 ATTTTTAAGG
*
29726 -TTTTTAAAGTC
1 ATTTTT-AAG-G
*
29737 ATTTTTAAAAG
1 ATTTTT-AAGG
*
29748 ATTTTTAAAGC
1 ATTTTT-AAGG
* * *
29759 CTTTTCAAGC
1 ATTTTTAAGG
*
29769 ATTTTTAAAG
1 ATTTTTAAGG
*
29779 ATTTTTTCATGG
1 A-TTTTT-AAGG
*
29791 ATTTTTAAGC
1 ATTTTTAAGG
29801 ATTTTTAAGG
1 ATTTTTAAGG
29811 TCCATTTATG
Statistics
Matches: 378, Mismatches: 109, Indels: 104
0.64 0.18 0.18
Matches are distributed among these distances:
8 4 0.01
9 50 0.13
10 172 0.46
11 112 0.30
12 37 0.10
13 3 0.01
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:29496 original size:21 final size:21
Alignment explanation
Indices: 29472--29511 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29462 TTTCATAGAT
*
29472 TTTTAAGCATTTTTAAGGTCA
1 TTTTAAGCATATTTAAGGTCA
*
29493 TTTTAAGGATATTTAAGGT
1 TTTTAAGCATATTTAAGGT
29512 TTTTTAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTTAAGCATATTTAAGGTCA
Found at i:29740 original size:21 final size:20
Alignment explanation
Indices: 29716--29811 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 20
29706 GATTTTATGG
29716 ATTTTTAAGGTTTTTAAAGTC
1 ATTTTTAAGGTTTTTAAAG-C
*
29737 ATTTTTAAAAGATTTTTAAAGC
1 ATTTTT--AAGGTTTTTAAAGC
* * *
29759 CTTTTCAAGCATTTTTAAAG-
1 ATTTTTAAG-GTTTTTAAAGC
*
29779 ATTTTTTCATGGATTTTT-AAGC
1 A-TTTTT-AAGG-TTTTTAAAGC
29801 ATTTTTAAGGT
1 ATTTTTAAGGT
29812 CCATTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
19 1 0.02
20 6 0.10
21 28 0.47
22 13 0.22
23 12 0.20
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTTTTAAGGTTTTTAAAGC
Found at i:29754 original size:42 final size:43
Alignment explanation
Indices: 29663--29755 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
29653 TTTTTTGATG
* * * * *
29663 GATTTTAAAGGATTTTTAGGGTGTTTTCAACTTATTTTCAAAG
1 GATTTTTAAGGATTTTTAAGGTGTTTTAAACTCATTTTCAAAA
* * *
29706 GA-TTTTATGGATTTTTAAGGT-TTTTAAAGTCATTTTTAAAA
1 GATTTTTAAGGATTTTTAAGGTGTTTTAAACTCATTTTCAAAA
29747 GATTTTTAA
1 GATTTTTAA
29756 AGCCTTTTCA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
41 17 0.43
42 21 0.52
43 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.49
Consensus pattern (43 bp):
GATTTTTAAGGATTTTTAAGGTGTTTTAAACTCATTTTCAAAA
Found at i:29763 original size:11 final size:11
Alignment explanation
Indices: 29726--29808 Score: 66
Period size: 11 Copynumber: 7.6 Consensus size: 11
29716 ATTTTTAAGG
29726 TTTTTAAAGTCA
1 TTTTTAAAG-CA
29738 TTTTTAAAAG-A
1 TTTTT-AAAGCA
29749 TTTTTAAAGC-
1 TTTTTAAAGCA
* *
29759 CTTTTCAAGCA
1 TTTTTAAAGCA
29770 TTTTTAAAG-A
1 TTTTTAAAGCA
* * *
29780 TTTTTTCATGGA
1 -TTTTTAAAGCA
29792 TTTTT-AAGCA
1 TTTTTAAAGCA
29802 TTTTTAA
1 TTTTTAA
29809 GGTCCATTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
10 21 0.37
11 26 0.46
12 6 0.11
13 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (11 bp):
TTTTTAAAGCA
Found at i:29785 original size:22 final size:22
Alignment explanation
Indices: 29717--29806 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
29707 ATTTTATGGA
*
29717 TTTTT-AAGGTTTTTAAAGTCAT
1 TTTTTCAAGATTTTTAAAG-CAT
**
29739 TTTTAAAAGATTTTTAAAGC--
1 TTTTTCAAGATTTTTAAAGCAT
*
29759 CTTTTCAAGCATTTTTAAAG-AT
1 TTTTTCAAG-ATTTTTAAAGCAT
*
29781 TTTTTCATGGATTTTT-AAGCAT
1 TTTTTCA-AGATTTTTAAAGCAT
29803 TTTT
1 TTTT
29807 AAGGTCCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
20 6 0.11
21 13 0.24
22 23 0.42
23 13 0.24
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTTTCAAGATTTTTAAAGCAT
Found at i:29785 original size:32 final size:31
Alignment explanation
Indices: 29727--29808 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
29717 TTTTTAAGGT
*
29727 TTTTAAAGTCATTTTTAAAAGATTTTTAAAGCC
1 TTTTAAAG-CATTTTT-AAAGATTTTTAAAGCA
* * * *
29760 TTTTCAAGCATTTTTAAAGATTTTTTCATGGA
1 TTTTAAAGCATTTTTAAAGA-TTTTTAAAGCA
*
29792 TTTTTAAGCATTTTTAA
1 TTTTAAAGCATTTTTAA
29809 GGTCCATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 5 0.12
32 30 0.71
33 7 0.17
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.50
Consensus pattern (31 bp):
TTTTAAAGCATTTTTAAAGATTTTTAAAGCA
Found at i:36125 original size:19 final size:19
Alignment explanation
Indices: 36088--36125 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36078 ACTTATTAAC
*
36088 CTCAAATCATACTCCAATA
1 CTCAAATCATACTACAATA
*
36107 CTCAAATCATACTATAATA
1 CTCAAATCATACTACAATA
36126 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTACAATA
Found at i:36809 original size:30 final size:31
Alignment explanation
Indices: 36763--36820 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
36753 TTTTAAAAAT
*
36763 ATTTTTAAAGATATTTAAA-GATTTTTAGAA
1 ATTTTTAAAGAAATTTAAAGGATTTTTAGAA
*
36793 ATTTTTCAAGAAATTTAAAGGATTTTTA
1 ATTTTTAAAGAAATTTAAAGGATTTTTA
36821 ATGTTCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTTTTAAAGAAATTTAAAGGATTTTTAGAA
Found at i:36856 original size:19 final size:20
Alignment explanation
Indices: 36810--36850 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
36800 AAGAAATTTA
36810 AAGG-ATTTTTAATGTTCTT
1 AAGGTATTTTTAATGTTCTT
*
36829 AAGGTATTTTTAATTTTCTT
1 AAGGTATTTTTAATGTTCTT
36849 AA
1 AA
36851 TTATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (20 bp):
AAGGTATTTTTAATGTTCTT
Found at i:37328 original size:11 final size:10
Alignment explanation
Indices: 37298--37361 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
37288 ATAGATTTCA
*
37298 AAGGATTTCT
1 AAGGATTTTT
37308 AAGG-TGTTTT
1 AAGGAT-TTTT
37318 CAAGGATTTTT
1 -AAGGATTTTT
37329 AATGGA-TTTT
1 AA-GGATTTTT
*
37339 ATGGATTTTT
1 AAGGATTTTT
*
37349 AAGGTTTTTT
1 AAGGATTTTT
37359 AAG
1 AAG
37362 TCACTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 4 0.09
10 29 0.64
11 11 0.24
12 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:37338 original size:21 final size:21
Alignment explanation
Indices: 37270--37350 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
37260 CATTTTAAAC
* * *
37270 ATTTTCAAGGTTTTTTTCATAG
1 ATTTTCAAGG-ATTTTTAATGG
*
37292 A-TTTCAAAGGATTTCTAA-GG
1 ATTTTC-AAGGATTTTTAATGG
*
37312 TGTTTTCAAGGATTTTTAATGG
1 -ATTTTCAAGGATTTTTAATGG
*
37334 ATTTT-ATGGATTTTTAA
1 ATTTTCAAGGATTTTTAA
37351 GGTTTTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 12 0.26
21 24 0.51
22 11 0.23
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.49
Consensus pattern (21 bp):
ATTTTCAAGGATTTTTAATGG
Found at i:37411 original size:21 final size:21
Alignment explanation
Indices: 37372--37426 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
37362 TCACTTTTAA
* *
37372 AAGATTTCTAAAGTCTTTTTC
1 AAGATTTTTAAAGTCTTTTCC
* *
37393 AAGATTTTTAAGGTTTTTTCC
1 AAGATTTTTAAAGTCTTTTCC
*
37414 ATGAATTTTTAAA
1 AAG-ATTTTTAAA
37427 CATTTTTAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (21 bp):
AAGATTTTTAAAGTCTTTTCC
Found at i:37443 original size:53 final size:53
Alignment explanation
Indices: 37342--37464 Score: 117
Period size: 53 Copynumber: 2.3 Consensus size: 53
37332 GGATTTTATG
* * *
37342 GATTTTTAAGGTTTTTTAAGTCACTTTTAAAAGATTTCTAAAGTCTTTTTCAA
1 GATTTTTAAGGTTTTTTAAGTCAATTTTAAAACATTTCTAAAGCCTTTTTCAA
* * * * *
37395 GATTTTTAAGGTTTTTTCCA-TGAATTTTTAAACATTTTTAAGGCC-TTTTC-A
1 GATTTTTAAGGTTTTTT-AAGTCAATTTTAAAACATTTCTAAAGCCTTTTTCAA
**
37446 GAAAATTTAAGGTTTTTTA
1 G-ATTTTTAAGGTTTTTTA
37465 GAGATTGTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
51 2 0.04
52 19 0.33
53 35 0.61
54 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (53 bp):
GATTTTTAAGGTTTTTTAAGTCAATTTTAAAACATTTCTAAAGCCTTTTTCAA
Found at i:37765 original size:21 final size:21
Alignment explanation
Indices: 37700--37779 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
37690 ATTTTAAAAT
* * *
37700 ATTTTTAAAGTCTTTTGAAGC
1 ATTTTTAAGGTCTTTTCAAGG
* * *
37721 ATTTTTTAGGTTTTTTTCATGG
1 ATTTTTAAGG-TCTTTTCAAGG
37743 ATTTTTAAGGTCCTTTT-AAGG
1 ATTTTTAAGGT-CTTTTCAAGG
* * *
37764 ATATTAAAGGTTTTTT
1 ATTTTTAAGGTCTTTT
37780 AGAATTTTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 4 0.09
21 21 0.47
22 20 0.44
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (21 bp):
ATTTTTAAGGTCTTTTCAAGG
Found at i:38038 original size:11 final size:10
Alignment explanation
Indices: 38008--38226 Score: 72
Period size: 10 Copynumber: 21.2 Consensus size: 10
37998 CATGGATTTA
38008 AAGGATTTTT
1 AAGGATTTTT
38018 AAGG-TGTTTT
1 AAGGAT-TTTT
38028 CAAGGATTTTT
1 -AAGGATTTTT
38039 GAAGGGATTTTT
1 -AA-GGATTTTT
* * *
38051 -TGCATTGTT
1 AAGGATTTTT
38060 AAGG-TTTTT
1 AAGGATTTTT
* *
38069 CAAGTCA-TTTA
1 -AAG-GATTTTT
** *
38080 AAAAAATTTT
1 AAGGATTTTT
*
38090 AAAGACTTTTT
1 AAGGA-TTTTT
*
38101 AAGGATTTTA
1 AAGGATTTTT
38111 AAGGTATTTTT
1 AAGG-ATTTTT
*
38122 AGTGGATTTTT
1 A-AGGATTTTT
*
38133 AAGCATTTTT
1 AAGGATTTTT
** *
38143 AATGGCCTTTC
1 AA-GGATTTTT
* *
38154 AAAGATATTT
1 AAGGATTTTT
*
38164 AAGGCTTTTT
1 AAGGATTTTT
*
38174 -AGAAATTTTT
1 AAG-GATTTTT
* * *
38184 CAAGAAATTTG
1 -AAGGATTTTT
38195 AAGGATTTTT
1 AAGGATTTTT
*
38205 AATG-TTTTT
1 AAGGATTTTT
38214 AAGGTATTTTT
1 AAGG-ATTTTT
38225 AA
1 AA
38227 TTTTTGTAAT
Statistics
Matches: 150, Mismatches: 41, Indels: 35
0.66 0.18 0.15
Matches are distributed among these distances:
9 22 0.15
10 63 0.42
11 52 0.35
12 13 0.09
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:38222 original size:20 final size:18
Alignment explanation
Indices: 38195--38307 Score: 57
Period size: 20 Copynumber: 5.6 Consensus size: 18
38185 AAGAAATTTG
38195 AAGGATTTTTAATGTTTTT
1 AAGGATTTTTAAT-TTTTT
38214 AAGGTATTTTTAATTTTTGT
1 AAGG-ATTTTTAATTTTT-T
** *
38234 AATTATTTATTAGGATTTGTT
1 AAGGATTT-TTA--ATTTTTT
38255 AA-GATTTTTTTAGATTTTTT
1 AAGGA--TTTTTA-ATTTTTT
*
38275 AAAGAATTTTTAATGCCTTTTT
1 -AAGGATTTTTAAT---TTTTT
*
38297 AAGGATGTTTA
1 AAGGATTTTTA
38308 TGGTCATTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
19 14 0.19
20 29 0.39
21 17 0.23
22 14 0.19
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (18 bp):
AAGGATTTTTAATTTTTT
Found at i:38267 original size:21 final size:21
Alignment explanation
Indices: 38238--38285 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
38228 TTTTGTAATT
*
38238 ATTTATTAGGATTTGTT-AAGA
1 ATTTTTTA-GATTTGTTAAAGA
* *
38259 TTTTTTTAGATTTTTTAAAGA
1 ATTTTTTAGATTTGTTAAAGA
38280 ATTTTT
1 ATTTTT
38286 AATGCCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (21 bp):
ATTTTTTAGATTTGTTAAAGA
Found at i:38784 original size:10 final size:10
Alignment explanation
Indices: 38771--38857 Score: 52
Period size: 10 Copynumber: 8.5 Consensus size: 10
38761 TTTTAAAGTC
38771 TTTTTAAGGA
1 TTTTTAAGGA
*
38781 TTTTTAACGTA
1 TTTTTAA-GGA
*
38792 TTTTTAATGAA
1 TTTTTAA-GGA
*
38803 TTTTTAAGCA
1 TTTTTAAGGA
*
38813 TTTTT-AGGTC
1 TTTTTAAGG-A
**
38823 TTTTTATCGA
1 TTTTTAAGGA
* *
38833 TATTTAAGGG
1 TTTTTAAGGA
38843 TTTTT-AGAGA
1 TTTTTAAG-GA
38853 TTTTT
1 TTTTT
38858 CAAGAAATTT
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
9 4 0.07
10 35 0.60
11 19 0.33
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:38784 original size:21 final size:22
Alignment explanation
Indices: 38758--38818 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
38748 ATTTTCAAAA
*
38758 GATTTTTAAAGTCTTTTTAA-G
1 GATTTTTAAAGTATTTTTAATG
*
38779 GATTTTTAACGTATTTTTAATG
1 GATTTTTAAAGTATTTTTAATG
* *
38801 AATTTTT-AAGCATTTTTA
1 GATTTTTAAAGTATTTTTA
38819 GGTCTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (22 bp):
GATTTTTAAAGTATTTTTAATG
Found at i:39327 original size:21 final size:21
Alignment explanation
Indices: 39245--39328 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
39235 TTTATTCTGA
*
39245 ATTTTAAGAATTTTTTAAGG-C
1 ATTTTAAGCA-TTTTTAAGGTC
* *
39266 ATTTTCAAGGATTTTTAGGGTC
1 ATTTT-AAGCATTTTTAAGGTC
* * * *
39288 CTTTTAAGTATGTTAAAGGTC
1 ATTTTAAGCATTTTTAAGGTC
*
39309 ATTCTAAGCATTTTTAAGGT
1 ATTTTAAGCATTTTTAAGGT
39329 TTTTGTTCAT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
21 40 0.82
22 9 0.18
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (21 bp):
ATTTTAAGCATTTTTAAGGTC
Found at i:39850 original size:30 final size:31
Alignment explanation
Indices: 39788--39851 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
39778 AAGCCTTTTC
*
39788 AAGCATTTTAAGGATATTTTCATGGATTTTT
1 AAGCATTTTAAGGATATTTTCATGGATATTT
*
39819 AAGCATTTTAAGG-TCCTTTT-ATGGATATTT
1 AAGCATTTTAAGGAT-ATTTTCATGGATATTT
39849 AAG
1 AAG
39852 GTTTTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (31 bp):
AAGCATTTTAAGGATATTTTCATGGATATTT
Found at i:39969 original size:21 final size:21
Alignment explanation
Indices: 39945--40161 Score: 56
Period size: 21 Copynumber: 10.3 Consensus size: 21
39935 TTTGAAGAAT
39945 TTTTTAAGGCATTTTAAAGGA
1 TTTTTAAGGCATTTTAAAGGA
* *
39966 TTTTT-AGTCTCATTTT-AGGGA
1 TTTTTAAG--GCATTTTAAAGGA
* * *
39987 TGTTTAAGGTCATTCT-AAGCA
1 TTTTTAAGG-CATTTTAAAGGA
* ** * *
40008 TTTTAAAGTTATTTTCATGGA
1 TTTTTAAGGCATTTTAAAGGA
** *
40029 TTTCAAAGG-ATTTTTAAGGTA
1 TTTTTAAGGCATTTTAAAGG-A
* * * **
40050 TTTTCAAAG-ATTTGCATGGGA
1 TTTTTAAGGCATTT-TAAAGGA
* * *
40071 -TTTTATG-CATTTTTAAGGT
1 TTTTTAAGGCATTTTAAAGGA
* *
40090 TTTTTAAGTCATTTTTAAAAGA
1 TTTTTAAGGCA-TTTTAAAGGA
* *
40112 TTTTTAAAGTC-TTTT-TAGGAA
1 TTTTT-AAGGCATTTTAAAGG-A
*
40133 TTTTTAAGGTATTTTTAAAGGA
1 TTTTTAAGGCA-TTTTAAAGGA
40155 TTTTTAA
1 TTTTTAA
40162 ACATTTTTAA
Statistics
Matches: 138, Mismatches: 42, Indels: 31
0.65 0.20 0.15
Matches are distributed among these distances:
19 2 0.01
20 33 0.24
21 61 0.44
22 34 0.25
23 8 0.06
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (21 bp):
TTTTTAAGGCATTTTAAAGGA
Found at i:40047 original size:10 final size:10
Alignment explanation
Indices: 40034--40171 Score: 64
Period size: 10 Copynumber: 13.2 Consensus size: 10
40024 ATGGATTTCA
40034 AAGGATTTTT
1 AAGGATTTTT
*
40044 AAGGTATTTTC
1 AAGG-ATTTTT
* **
40055 AAAGATTTGC
1 AAGGATTTTT
*
40065 ATGGGA-TTTT
1 A-AGGATTTTT
* *
40075 ATGCATTTTT
1 AAGGATTTTT
*
40085 AAGGTTTTTT
1 AAGGATTTTT
*
40095 AAGTCATTTTT
1 AAG-GATTTTT
*
40106 AAAAGATTTTT
1 -AAGGATTTTT
*
40117 AAAG-TCTTTT
1 AAGGAT-TTTT
*
40127 TAGGAATTTTT
1 AAGG-ATTTTT
40138 AAGGTATTTTT
1 AAGG-ATTTTT
40149 AAAGGATTTTT
1 -AAGGATTTTT
**
40160 AAACATTTTT
1 AAGGATTTTT
40170 AA
1 AA
40172 TGTCCCTCTA
Statistics
Matches: 97, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
9 3 0.03
10 47 0.48
11 40 0.41
12 7 0.07
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:40115 original size:32 final size:33
Alignment explanation
Indices: 40079--40171 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 33
40069 GATTTTATGC
*
40079 ATTTTTAAGGTTTTTTAAGTCATTTTTAAAAG-
1 ATTTTTAAGGTTTTTTAAGACATTTTTAAAAGT
* * *
40111 ATTTTTAAAGTCTTTTTAGGA-ATTTTT-AAGGT
1 ATTTTTAAGGT-TTTTTAAGACATTTTTAAAAGT
*
40143 ATTTTTAAAGGATTTTTAA-ACATTTTTAA
1 ATTTTT-AAGGTTTTTTAAGACATTTTTAA
40172 TGTCCCTCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 4 0.08
32 34 0.69
33 11 0.22
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (33 bp):
ATTTTTAAGGTTTTTTAAGACATTTTTAAAAGT
Found at i:40167 original size:21 final size:22
Alignment explanation
Indices: 40078--40171 Score: 81
Period size: 21 Copynumber: 4.4 Consensus size: 22
40068 GGATTTTATG
* *
40078 CATTTTT-AAGGTTTTTTAAGT
1 CATTTTTAAAGGATTTTTAAGA
* *
40099 CATTTTTAAAAGATTTTTAAAGT
1 CATTTTTAAAGGATTTTT-AAGA
*
40122 C-TTTTT--AGGAATTTTTAAGG
1 CATTTTTAAAGG-ATTTTTAAGA
*
40142 TATTTTTAAAGGATTTTTAA-A
1 CATTTTTAAAGGATTTTTAAGA
40163 CATTTTTAA
1 CATTTTTAA
40172 TGTCCCTCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.08
21 26 0.43
22 21 0.35
23 8 0.13
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (22 bp):
CATTTTTAAAGGATTTTTAAGA
Found at i:40322 original size:21 final size:22
Alignment explanation
Indices: 40298--40346 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
40288 TTTTCAGATT
* *
40298 TTTTAAAGAATTTTTAGGGTC-
1 TTTTAAAGAATGTTTAAGGTCA
* *
40319 TTTTTAAGGATGTTTAAGGTCA
1 TTTTAAAGAATGTTTAAGGTCA
40341 TTTTAA
1 TTTTAA
40347 GCATTTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (22 bp):
TTTTAAAGAATGTTTAAGGTCA
Found at i:40347 original size:21 final size:20
Alignment explanation
Indices: 40309--40355 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
40299 TTTAAAGAAT
* * *
40309 TTTTAGGGTCTTTTTAAGGA
1 TTTTAAGGTCATTTTAAGCA
40329 TGTTTAAGGTCATTTTAAGCA
1 T-TTTAAGGTCATTTTAAGCA
40350 TTTTAA
1 TTTTAA
40356 AGTTCTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (20 bp):
TTTTAAGGTCATTTTAAGCA
Found at i:40494 original size:21 final size:21
Alignment explanation
Indices: 40444--40525 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
40434 TGTAAGTTAT
*
40444 TTTTAAAAG-ATTTTTAAAGTC
1 TTTT-AAAGCATTTTTAAGGTC
40465 TTTTAAAGCATTTTTAAGGTCC
1 TTTTAAAGCATTTTTAAGGT-C
* * *
40487 TTTT-AAGCATATTTAAGATT
1 TTTTAAAGCATTTTTAAGGTC
*
40507 TTTTAGAG-ATTTTTCAAGG
1 TTTTAAAGCATTTTT-AAGG
40526 AATTAGAAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 13 0.26
21 32 0.64
22 5 0.10
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (21 bp):
TTTTAAAGCATTTTTAAGGTC
Found at i:41104 original size:21 final size:22
Alignment explanation
Indices: 41068--41109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
41058 ATTTTTTAGA
*
41068 TTTTAAAGGATTTTTAGGGTCT
1 TTTTAAAGGATGTTTAGGGTCT
*
41090 TTTTAAA-GATGTTTATGGTC
1 TTTTAAAGGATGTTTAGGGTC
41110 ATTCTAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (22 bp):
TTTTAAAGGATGTTTAGGGTCT
Found at i:41328 original size:20 final size:20
Alignment explanation
Indices: 41305--41342 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41295 GACTTAGAAA
*
41305 GATTTTTTATGTTTTTAAGG
1 GATTTTTAATGTTTTTAAGG
*
41325 GATTTTTAATTTTTTTAA
1 GATTTTTAATGTTTTTAA
41343 TTATTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (20 bp):
GATTTTTAATGTTTTTAAGG
Found at i:41661 original size:342 final size:330
Alignment explanation
Indices: 41204--42036 Score: 962
Period size: 342 Copynumber: 2.5 Consensus size: 330
41194 TTGCAGGTTA
* * * *
41204 TTTTTAAATTATTTTTAAA-CTTTTTTTAT-GAATTTTAAGCATTTTTAAGATCCTTTTAAGGAT
1 TTTTTAAA-TATTTTTAAAGCTTTTTTCATAG-ATTTTAAGTATTTTTAAGGTCCTTTTAAGAAT
** * * * *
41267 ATTTAAGGGCTTTTAAAGATTTTTCAAGGACTTAGAAAGATTTTTTATGTTTTTAAGGGATTTTT
64 ATTTAAGGTTTTTTAAAGATTTTT-AAGAAATTTGAAGGATTTTTTATGTTTTTAAGGGATTTTT
** *
41332 AATTTTTTTAATTATTTATTACGAATTTTAAGAATTTTTAAGGCATTTTCATGGAATTTTTAGGG
128 AATTTTTTTAATTATTTATTACGAATTTTAAGAATTTTTAAGGCATTTTCAAAG-ATTTTTAGAG
* * *
41397 TCTTTTTAAGGATGTTTAAGGTCATTCTAAACATTTTTAAATTTTTTTTAAGGAATTTGAAAGGA
192 TCATTTTAAGGATGTTTAAGGTCATTCTAAACA-TTTTAAATTTTTTCTAAGGAATTTCAAAGGA
41462 TTTTTAAGGTGTTTTCATGGATTTTCAAGAGATTCTATGAATTTTCAAAGTTTTGT-AAGTCATT
256 TTTTTAA-G-G----C---GATTTTCAAGAGATTCTATGAATTTTCAAAGTTTT-TCAAGTCATT
*
41526 TT-AAAAGATTTTTGACA-TC
311 TTAAAAAGATTTTT-AAAGTC
*
41545 TTTTCAAATATTTTTAAAGCTTTTTTCATAGATTTCTAAGTATTTTTAAGGTCCTTTTAAGAATA
1 TTTTTAAATATTTTTAAAGCTTTTTTCATAGATTT-TAAGTATTTTTAAGGTCCTTTTAAGAATA
* * ** * * * *
41610 TTTAATGTTTTTTAGATTTTTTTGAAGAATTTTGAAGGGTTTTTGATGTTTTTAAGTGATTTTTA
65 TTTAAGGTTTTTTAAAGATTTTT-AAGAAATTTGAAGGATTTTTTATGTTTTTAAGGGATTTTTA
* * * *
41675 ATTTTTTAAATTATTTATTACTAATTTTAAAGATTTTTTAAGGCATTTTTAAAGATTTTTAGAGT
129 ATTTTTTTAATTATTTATTACGAATTTT-AAGAATTTTTAAGGCATTTTCAAAGATTTTTAGAGT
* * * * * *
41740 CATTTTAAGGATGTTTAAGGTCATTCTAAGCATTTTAAGTTTTTTCTCATGTATTTCAATGGATT
193 CATTTTAAGGATGTTTAAGGTCATTCTAAACATTTTAAATTTTTTCTAAGGAATTTCAAAGGATT
* * * * *
41805 TTTAAGGCGTTTTTCAAGGGATTTTATGAATTTTTAAGGTTTTTCAAGTCATTTTAAAAAGATTT
258 TTTAAGGCGATTTTCAAGAGATTCTATGAATTTTCAAAGTTTTTCAAGTCATTTTAAAAAGATTT
41870 TTAAAGTC
323 TTAAAGTC
** * *
41878 TTTTTAAGGATTTTT-AAGGTTTTTTCATTA-ATTTTTAAGTATTTTTAAGGTCCTTTTAAGCAT
1 TTTTTAAATATTTTTAAAGCTTTTTTCA-TAGA-TTTTAAGTATTTTTAAGGTCCTTTTAAGAAT
* *
41941 ATTTAAGGTTTTTTAAAGATTTTTAAGAAATTTGAA-GATTTTTTTTTGTTTTTAAAGGATTTTT
64 ATTTAAGGTTTTTTAAAGATTTTTAAGAAATTTGAAGGA-TTTTTTATGTTTTTAAGGGATTTTT
* * *
42005 AATTTTCTTAATTATTTATTATGATTTTTAAG
128 AATTTTTTTAATTATTTATTACGAATTTTAAG
42037 GTTTTTCAAA
Statistics
Matches: 421, Mismatches: 61, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
330 4 0.01
331 57 0.14
332 101 0.24
333 30 0.07
335 1 0.00
339 1 0.00
340 11 0.03
341 51 0.12
342 144 0.34
343 21 0.05
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (330 bp):
TTTTTAAATATTTTTAAAGCTTTTTTCATAGATTTTAAGTATTTTTAAGGTCCTTTTAAGAATAT
TTAAGGTTTTTTAAAGATTTTTAAGAAATTTGAAGGATTTTTTATGTTTTTAAGGGATTTTTAAT
TTTTTTAATTATTTATTACGAATTTTAAGAATTTTTAAGGCATTTTCAAAGATTTTTAGAGTCAT
TTTAAGGATGTTTAAGGTCATTCTAAACATTTTAAATTTTTTCTAAGGAATTTCAAAGGATTTTT
AAGGCGATTTTCAAGAGATTCTATGAATTTTCAAAGTTTTTCAAGTCATTTTAAAAAGATTTTTA
AAGTC
Found at i:41722 original size:21 final size:20
Alignment explanation
Indices: 41698--41764 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
41688 TTTATTACTA
41698 ATTTTAAAGATTTTTTAAGGC
1 ATTTTAAAGA-TTTTTAAGGC
*
41719 ATTTTTAAAGATTTTTAGAGTC
1 A-TTTTAAAGATTTTTA-AGGC
* *
41741 ATTTTAAGGATGTTTAAGGTC
1 ATTTTAAAGATTTTTAAGG-C
41762 ATT
1 ATT
41765 CTAAGCATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 2 0.05
21 24 0.62
22 13 0.33
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.48
Consensus pattern (20 bp):
ATTTTAAAGATTTTTAAGGC
Found at i:41769 original size:21 final size:20
Alignment explanation
Indices: 41738--41778 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
41728 GATTTTTAGA
* *
41738 GTCATTTTAAGGATGTTTAAG
1 GTCATTCTAAGCAT-TTTAAG
41759 GTCATTCTAAGCATTTTAAG
1 GTCATTCTAAGCATTTTAAG
41779 TTTTTTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (20 bp):
GTCATTCTAAGCATTTTAAG
Found at i:41858 original size:21 final size:20
Alignment explanation
Indices: 41834--41953 Score: 70
Period size: 21 Copynumber: 5.8 Consensus size: 20
41824 GATTTTATGA
41834 ATTTTTAAGGTTTTTCAAGTC
1 ATTTTTAAGGTTTTT-AAGTC
* *
41855 ATTTTAAAAAGATTTTTAAAGTC
1 ATTTT--TAAGGTTTTT-AAGTC
*
41878 -TTTTTAAGGATTTTTAAGGTT
1 ATTTTTAAGG-TTTTTAA-GTC
*
41899 TTTTCATTAA--TTTTTAAGT-
1 ATTT--TTAAGGTTTTTAAGTC
41918 ATTTTTAAGGTCCTTTTAAG-C
1 ATTTTTAAGGT--TTTTAAGTC
*
41939 ATATTTAAGGTTTTT
1 ATTTTTAAGGTTTTT
41954 TAAAGATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
17 4 0.05
19 8 0.10
20 7 0.09
21 36 0.46
22 7 0.09
23 13 0.16
24 4 0.05
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (20 bp):
ATTTTTAAGGTTTTTAAGTC
Found at i:41859 original size:30 final size:32
Alignment explanation
Indices: 41802--41860 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
41792 ATTTCAATGG
*
41802 ATTTTTAAGGCGTTTTTCAAGGGATTTTATGA
1 ATTTTTAAGGCGTTTTTCAAGGCATTTTATGA
*
41834 ATTTTTAA-G-GTTTTTCAAGTCATTTTA
1 ATTTTTAAGGCGTTTTTCAAGGCATTTTA
41861 AAAAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.64
31 1 0.04
32 8 0.32
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (32 bp):
ATTTTTAAGGCGTTTTTCAAGGCATTTTATGA
Found at i:41900 original size:9 final size:10
Alignment explanation
Indices: 41800--41967 Score: 72
Period size: 10 Copynumber: 16.1 Consensus size: 10
41790 GTATTTCAAT
41800 GGATTTTTAA
1 GGATTTTTAA
*
41810 GGCGTTTTTCAA
1 GG-ATTTTT-AA
*
41822 GGGA-TTTTAT
1 -GGATTTTTAA
*
41832 GAATTTTTAA
1 GGATTTTTAA
41842 GG-TTTTTCAA
1 GGATTTTT-AA
* *
41852 GTCATTTTAAAA
1 G-GATTTT-TAA
*
41864 AGATTTTTAAA
1 GGATTTTT-AA
**
41875 GTCTTTTTAA
1 GGATTTTTAA
41885 GGATTTTTAA
1 GGATTTTTAA
* *
41895 GGTTTTTTCAT
1 GGATTTTT-AA
**
41906 TAATTTTTAA
1 GGATTTTTAA
*
41916 GTATTTTTAA
1 GGATTTTTAA
41926 GG-TCCTTTTAA
1 GGAT--TTTTAA
* *
41937 GCATATTTAA
1 GGATTTTTAA
*
41947 GGTTTTTTAA
1 GGATTTTTAA
*
41957 AGATTTTTAA
1 GGATTTTTAA
41967 G
1 G
41968 AAATTTGAAG
Statistics
Matches: 112, Mismatches: 33, Indels: 26
0.65 0.19 0.15
Matches are distributed among these distances:
9 8 0.07
10 59 0.53
11 34 0.30
12 9 0.08
13 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (10 bp):
GGATTTTTAA
Found at i:42231 original size:9 final size:10
Alignment explanation
Indices: 42209--42264 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
42199 TTTTAAAGTC
42209 TTTTTAAGGA
1 TTTTTAAGGA
*
42219 TTTTTAAGGT
1 TTTTTAAGGA
*
42229 TTTTTATA-TA
1 TTTTTA-AGGA
42239 TTTTTGAAGGA
1 TTTTT-AAGGA
* *
42250 ATTTTAAGAA
1 TTTTTAAGGA
42260 TTTTT
1 TTTTT
42265 TTATGTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
10 29 0.81
11 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:42234 original size:31 final size:31
Alignment explanation
Indices: 42194--42370 Score: 100
Period size: 31 Copynumber: 5.8 Consensus size: 31
42184 TCATTTTCAA
*
42194 AAGA-TTTTTAAAGTCTTTTTAAGGATTTTT
1 AAGATTTTTTAAAGTATTTTTAAGGATTTTT
* * *
42224 AAGGTTTTTTATA-TATTTTTGAAGGAATTTT
1 AAGATTTTTTAAAGTATTTTT-AAGGATTTTT
* * *
42255 AAGAATTTTTTTATGT-TTTTAAAGGA-TTTT
1 AAG-ATTTTTTAAAGTATTTTTAAGGATTTTT
* * ** *
42285 CA-ATTTTTT-AATTATTTATTAATAATTTTA
1 AAGATTTTTTAAAGTATTT-TTAAGGATTTTT
* *
42315 AAGATTTTTTAAAGCT-TTTTTAATGAGTTTT
1 AAGATTTTTTAAAG-TATTTTTAAGGATTTTT
* * *
42346 AGGGTCTTTTTAAAG-ATGTTTAAGG
1 AAGAT-TTTTTAAAGTATTTTTAAGG
42371 TCATACTAAG
Statistics
Matches: 110, Mismatches: 25, Indels: 23
0.70 0.16 0.15
Matches are distributed among these distances:
27 2 0.02
28 10 0.09
29 4 0.04
30 18 0.16
31 50 0.45
32 24 0.22
33 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (31 bp):
AAGATTTTTTAAAGTATTTTTAAGGATTTTT
Found at i:42503 original size:21 final size:21
Alignment explanation
Indices: 42479--42525 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
42469 TGTAAGTCAT
42479 TTTTAAAAGATTTTTAA-AGTC
1 TTTTAAAAGATTTTTAATA-TC
* **
42500 TTTTTAGGGATTTTTAATATC
1 TTTTAAAAGATTTTTAATATC
42521 TTTTA
1 TTTTA
42526 TGGATTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTTAAAAGATTTTTAATATC
Found at i:42556 original size:21 final size:21
Alignment explanation
Indices: 42531--42571 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42521 TTTTATGGAT
* *
42531 TTTTAAGTATGTTTAAGGTTA
1 TTTTAAGGATATTTAAGGTTA
42552 TTTTAAGGATATTTAAGGTT
1 TTTTAAGGATATTTAAGGTT
42572 TTTAGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTTAAGGATATTTAAGGTTA
Found at i:42691 original size:9 final size:10
Alignment explanation
Indices: 42659--42924 Score: 53
Period size: 11 Copynumber: 25.6 Consensus size: 10
42649 AATTTTAAAT
42659 ATTTTTAAGG
1 ATTTTTAAGG
*
42669 CATTTTTAATG
1 -ATTTTTAAGG
42680 ATTTTT-AGG
1 ATTTTTAAGG
42689 ATTTTTTTAAGG
1 A--TTTTTAAGG
*
42701 ATGTTTAAGG
1 ATTTTTAAGG
** **
42711 -TGATGCTAATC
1 AT--TTTTAAGG
*
42722 ATTTTTTAAGT
1 A-TTTTTAAGG
* *
42733 TTTTTTCATGG
1 ATTTTT-AAGG
** *
42744 ATTTGAAAAG
1 ATTTTTAAGG
42754 ATTTTTAAGG
1 ATTTTTAAGG
* *
42764 TATTTTCAACG
1 -ATTTTTAAGG
*
42775 ATTTTCAAAGG
1 ATTTT-TAAGG
*
42786 A-TTTTATGG
1 ATTTTTAAGG
42795 ATTTTT-AGG
1 ATTTTTAAGG
* *
42804 GTTTTGTAAGTC
1 ATTTT-TAAG-G
**
42816 ATTTTTAAAA
1 ATTTTTAAGG
**
42826 ATATTTTAAATT
1 AT-TTTT-AAGG
* * *
42838 CTTTTTTAGT
1 ATTTTTAAGG
42848 ATTTTTAAGG
1 ATTTTTAAGG
*
42858 TGTTTTTAATGG
1 -ATTTTTAA-GG
*
42870 ATTTTTAAGC
1 ATTTTTAAGG
42880 A--TTTAAGG
1 ATTTTTAAGG
42888 -TCCTTTTAAGG
1 AT--TTTTAAGG
*
42899 ATATTTAAGG
1 ATTTTTAAGG
*
42909 -TTTTTTAGAG
1 ATTTTTAAG-G
42919 ATTTTT
1 ATTTTT
42925 CAAAGTATTT
Statistics
Matches: 180, Mismatches: 50, Indels: 50
0.64 0.18 0.18
Matches are distributed among these distances:
8 6 0.03
9 20 0.11
10 62 0.34
11 77 0.43
12 14 0.08
13 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.52
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:42694 original size:10 final size:10
Alignment explanation
Indices: 42396--42924 Score: 97
Period size: 10 Copynumber: 51.5 Consensus size: 10
42386 TTTAGGGTTT
42396 TTTTTAAGGA
1 TTTTTAAGGA
** *
42406 TTTCAAAGAA
1 TTTTTAAGGA
42416 TTTTTAAGG-
1 TTTTTAAGGA
*
42425 TCTTTTCAATGA
1 T-TTTT-AAGGA
*
42437 TTTTCAAGGGA
1 TTTTTAA-GGA
*
42448 -TTTTATGGA
1 TTTTTAAGGA
*
42457 TTTTTAATG-
1 TTTTTAAGGA
* *
42466 TTCTGTAAGTCA
1 TT-TTTAAG-GA
*
42478 TTTTTAAAAGA
1 TTTTT-AAGGA
**
42489 TTTTTAAAGTC
1 TTTTT-AAGGA
*
42500 TTTTTAGGGA
1 TTTTTAAGGA
*
42510 TTTTTAA-TA
1 TTTTTAAGGA
*
42519 TCTTTTATGGA
1 T-TTTTAAGGA
*
42530 TTTTTAAGTA
1 TTTTTAAGGA
* *
42540 TGTTTAAGGT
1 TTTTTAAGGA
42550 TATTTTAAGGA
1 T-TTTTAAGGA
*
42561 TATTTAAGG-
1 TTTTTAAGGA
42570 TTTTT-AGAGA
1 TTTTTAAG-GA
42580 TTTTTGAAGGA
1 TTTTT-AAGGA
* * *
42591 ATTTGAAAGA
1 TTTTTAAGGA
* *
42601 TTTTTGA-CA
1 TTTTTAAGGA
42610 TTTTTAAGAGA
1 TTTTTAAG-GA
42621 TTTTT-A--A
1 TTTTTAAGGA
**
42628 TTTCCTTAATTA
1 TTT--TTAAGGA
*
42640 TTTATT-ACGA
1 TTT-TTAAGGA
* **
42650 ATTTTAAATA
1 TTTTTAAGGA
42660 TTTTTAAGGCA
1 TTTTTAAGG-A
*
42671 TTTTTAATGA
1 TTTTTAAGGA
42681 TTTTT-AGGA
1 TTTTTAAGGA
42690 TTTTTTTAAGGA
1 --TTTTTAAGGA
*
42702 TGTTTAAGG-
1 TTTTTAAGGA
** **
42711 TGATGCTAATCA
1 T--TTTTAAGGA
**
42723 TTTTTTAAGTT
1 -TTTTTAAGGA
*
42734 TTTTTCATGGA
1 TTTTT-AAGGA
** *
42745 TTTGAAAAGA
1 TTTTTAAGGA
42755 TTTTTAAGGTA
1 TTTTTAAGG-A
* *
42766 TTTTCAACGA
1 TTTTTAAGGA
*
42776 TTTTCAAAGGA
1 TTTT-TAAGGA
*
42787 -TTTTATGGA
1 TTTTTAAGGA
*
42796 TTTTT-AGGG
1 TTTTTAAGGA
*
42805 TTTTGTAAGTCA
1 TTTT-TAAG-GA
**
42817 TTTTTAAAAA
1 TTTTTAAGGA
***
42827 TATTTTAAATTC
1 T-TTTT-AAGGA
* *
42839 TTTTTTAGTA
1 TTTTTAAGGA
*
42849 TTTTTAAGGTG
1 TTTTTAAGG-A
42860 TTTTTAATGGA
1 TTTTTAA-GGA
*
42871 TTTTTAAGCA
1 TTTTTAAGGA
42881 --TTTAAGG-
1 TTTTTAAGGA
42888 TCCTTTTAAGGA
1 T--TTTTAAGGA
*
42900 TATTTAAGG-
1 TTTTTAAGGA
*
42909 TTTTTTAGAGA
1 TTTTTAAG-GA
42920 TTTTT
1 TTTTT
42925 CAAAGTATTT
Statistics
Matches: 363, Mismatches: 106, Indels: 99
0.64 0.19 0.17
Matches are distributed among these distances:
7 4 0.01
8 8 0.02
9 44 0.12
10 157 0.43
11 124 0.34
12 25 0.07
13 1 0.00
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.51
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:43133 original size:31 final size:31
Alignment explanation
Indices: 43074--43131 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
43064 GATTTTAAAA
*
43074 GATTTTTAAGGTGTTTTCAAGGGATTTTATG
1 GATTTTTAAGGTGTTTTCAAGGCATTTTATG
*
43105 GATTTTTAAGGT-TTTTCAAGTCATTTT
1 GATTTTTAAGGTGTTTTCAAGGCATTTT
43132 TAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.22, C:0.05, G:0.21, T:0.52
Consensus pattern (31 bp):
GATTTTTAAGGTGTTTTCAAGGCATTTTATG
Found at i:43148 original size:23 final size:21
Alignment explanation
Indices: 43116--43189 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
43106 ATTTTTAAGG
*
43116 TTTTTCAAGTCATTTTTAAAATA
1 TTTTTAAAGTC-TTTTT-AAATA
*
43139 TTTTTAAAGTCTTTTTAATTA
1 TTTTTAAAGTCTTTTTAAATA
* * * *
43160 TTTTTAAGGTTTTTTTCATTGA
1 TTTTTAAAGTCTTTTTAAAT-A
43182 TTTTTAAA
1 TTTTTAAA
43190 CATTTTTAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 21 0.48
22 13 0.30
23 10 0.23
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTAAAGTCTTTTTAAATA
Found at i:43163 original size:53 final size:51
Alignment explanation
Indices: 43098--43226 Score: 141
Period size: 53 Copynumber: 2.5 Consensus size: 51
43088 TTTCAAGGGA
* * *
43098 TTTTATGGATTTTTAAGGTTTTTCAAGTCATTTTTAAAATATTTTTAAAGTCT
1 TTTTAAGGATTTTTAAGGTTTTTC-AGTCATTTTT-AAACATTTTTAAAGTCC
** * * *
43151 TTTTAATTATTTTTAAGGTTTTTTTCATTGATTTTTAAACATTTTTAAGGTCC
1 TTTTAAGGATTTTTAAGG--TTTTTCAGTCATTTTTAAACATTTTTAAAGTCC
*
43204 TTTTAAGGATATTTAAGGTTTTT
1 TTTTAAGGATTTTTAAGGTTTTT
43227 TAGTGATTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
51 5 0.08
53 44 0.70
54 8 0.13
55 6 0.10
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (51 bp):
TTTTAAGGATTTTTAAGGTTTTTCAGTCATTTTTAAACATTTTTAAAGTCC
Found at i:43174 original size:21 final size:21
Alignment explanation
Indices: 43128--43189 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
43118 TTTCAAGTCA
* *
43128 TTTTTAAAATATTTTTAAAGT
1 TTTTTTAATTATTTTTAAAGT
* *
43149 CTTTTTAATTATTTTTAAGGT
1 TTTTTTAATTATTTTTAAAGT
*
43170 TTTTTTCATTGATTTTTAAA
1 TTTTTTAATT-ATTTTTAAA
43190 CATTTTTAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTTTTAATTATTTTTAAAGT
Found at i:43228 original size:10 final size:11
Alignment explanation
Indices: 43075--43228 Score: 65
Period size: 11 Copynumber: 14.6 Consensus size: 11
43065 ATTTTAAAAG
43075 ATTTTTAAGGT
1 ATTTTTAAGGT
* * *
43086 GTTTTCAAGGG
1 ATTTTTAAGGT
*
43097 A-TTTTATGG-
1 ATTTTTAAGGT
43106 ATTTTTAAGGT
1 ATTTTTAAGGT
*
43117 -TTTTCAA-GT
1 ATTTTTAAGGT
**
43126 CATTTTTAAAAT
1 -ATTTTTAAGGT
*
43138 ATTTTTAAAGT
1 ATTTTTAAGGT
* *
43149 CTTTTTAA-TT
1 ATTTTTAAGGT
43159 ATTTTTAAGGT
1 ATTTTTAAGGT
* * *
43170 TTTTTTCA-TT
1 ATTTTTAAGGT
**
43180 GATTTTTAA-AC
1 -ATTTTTAAGGT
43191 ATTTTTAAGGT
1 ATTTTTAAGGT
**
43202 CCTTTTAAGG-
1 ATTTTTAAGGT
*
43212 ATATTTAAGGT
1 ATTTTTAAGGT
43223 -TTTTTA
1 ATTTTTA
43229 GTGATTATTC
Statistics
Matches: 104, Mismatches: 30, Indels: 19
0.68 0.20 0.12
Matches are distributed among these distances:
9 3 0.03
10 48 0.46
11 52 0.50
12 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (11 bp):
ATTTTTAAGGT
Found at i:43287 original size:20 final size:21
Alignment explanation
Indices: 43245--43290 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
43235 ATTCAAGGAA
*
43245 TTTAAAAGATTTTTTTATGTT
1 TTTAAAAGATTTTTTAATGTT
* *
43266 TTTAACAGA-TTTTTAATTTT
1 TTTAAAAGATTTTTTAATGTT
43286 TTTAA
1 TTTAA
43291 TTATTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTAAAAGATTTTTTAATGTT
Found at i:43381 original size:10 final size:10
Alignment explanation
Indices: 43368--43432 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
43358 TTTAAAGTTT
*
43368 TTTTCATGGA
1 TTTTCAAGGA
*
43378 TTTTAAAGGA
1 TTTTCAAGGA
* *
43388 TTTTTAAGGTG
1 TTTTCAAGG-A
43399 TTTTCAAGGA
1 TTTTCAAGGA
43409 TTTTCCAAGGA
1 TTTT-CAAGGA
* *
43420 ATTT-ATGGA
1 TTTTCAAGGA
43429 TTTT
1 TTTT
43433 TTAGGTTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
9 7 0.16
10 20 0.45
11 17 0.39
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (10 bp):
TTTTCAAGGA
Found at i:43392 original size:11 final size:10
Alignment explanation
Indices: 43375--43548 Score: 56
Period size: 10 Copynumber: 16.9 Consensus size: 10
43365 TTTTTTTCAT
*
43375 GGATTTTAAA
1 GGATTTTTAA
43385 GGATTTTTAA
1 GGATTTTTAA
43395 GG-TGTTTTCAA
1 GGAT-TTTT-AA
*
43406 GGATTTTCCAA
1 GGATTTT-TAA
* *
43417 GGA-ATTTAT
1 GGATTTTTAA
*
43426 GGATTTTTTA
1 GGATTTTTAA
43436 GG-TTTTGTAA
1 GGATTTT-TAA
*
43446 GTTATTTTTAAA
1 G-GATTTTT-AA
*
43458 AGA-TTTTAA
1 GGATTTTTAA
*
43467 -AATCTTTTGAA
1 GGAT-TTTT-AA
*
43478 GCATTTTTAA
1 GGATTTTTAA
*
43488 -GATTTTTTCAT
1 GGA-TTTTT-AA
43499 GGATTTTTAA
1 GGATTTTTAA
**
43509 ACATTTTTAA
1 GGATTTTTAA
43519 GG-TCTTGTTAA
1 GGAT-TT-TTAA
* *
43530 AGATATTTAA
1 GGATTTTTAA
*
43540 AGATTTTTA
1 GGATTTTTA
43549 GAAATTTTTC
Statistics
Matches: 121, Mismatches: 24, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
8 1 0.01
9 13 0.11
10 63 0.52
11 32 0.26
12 12 0.10
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (10 bp):
GGATTTTTAA
Found at i:43565 original size:12 final size:12
Alignment explanation
Indices: 43548--43579 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43538 AAAGATTTTT
43548 AGAAATTTTTCA
1 AGAAATTTTTCA
43560 AGAAATTTTTCA
1 AGAAATTTTTCA
43572 AGAAATTT
1 AGAAATTT
43580 GAAGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (12 bp):
AGAAATTTTTCA
Found at i:43604 original size:20 final size:20
Alignment explanation
Indices: 43581--43621 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43571 AAGAAATTTG
43581 AAGTATTTTTAATATTTTTA
1 AAGTATTTTTAATATTTTTA
*
43601 AAGTATTTTTAATTTTTTTA
1 AAGTATTTTTAATATTTTTA
43621 A
1 A
43622 TTATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
AAGTATTTTTAATATTTTTA
Found at i:43640 original size:41 final size:42
Alignment explanation
Indices: 43595--43683 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
43585 ATTTTTAATA
* *
43595 TTTTTAAAG-TATTTTTAATTTTTTTAATTATTTATTACGAT-
1 TTTTTAAAGATATTTTTAATTTTTTAAATGATTT-TTACGATC
* * *
43636 TTTTT-AGGATTTTTTTAATTTTTTAAATGATTTTTAGGATC
1 TTTTTAAAGATATTTTTAATTTTTTAAATGATTTTTACGATC
43677 TTTTTAA
1 TTTTTAA
43684 GGATGCTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 8 0.20
41 31 0.77
42 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (42 bp):
TTTTTAAAGATATTTTTAATTTTTTAAATGATTTTTACGATC
Found at i:43656 original size:9 final size:9
Alignment explanation
Indices: 43586--43659 Score: 51
Period size: 10 Copynumber: 7.4 Consensus size: 9
43576 ATTTGAAGTA
43586 TTTTTAATAT
1 TTTTTAAT-T
* *
43596 TTTTAAAGTA
1 TTTTTAA-TT
43606 TTTTTAATT
1 TTTTTAATT
43615 TTTTTAATT
1 TTTTTAATT
43624 ATTTATTACGA-T
1 -TTT-TTA--ATT
43636 TTTTTAGGATT
1 TTTTTA--ATT
43647 TTTTTAATT
1 TTTTTAATT
43656 TTTT
1 TTTT
43660 AAATGATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 17 0.32
10 20 0.38
11 14 0.26
12 1 0.02
13 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTAATT
Found at i:43669 original size:20 final size:20
Alignment explanation
Indices: 43586--43670 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
43576 ATTTGAAGTA
43586 TTTTTAATATTTTTAAA-G-T
1 TTTTTAAT-TTTTTAAATGAT
* *
43605 ATTTTTAATTTTTTTAATTAT
1 -TTTTTAATTTTTTAAATGAT
* *
43626 TTATTACGATTTTTT--AGGATT
1 TTTTTA--ATTTTTTAAATGA-T
43647 TTTTTAATTTTTTAAATGAT
1 TTTTTAATTTTTTAAATGAT
43667 TTTT
1 TTTT
43671 AGGATCTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
19 14 0.27
20 20 0.39
21 10 0.20
22 7 0.14
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTTTAAATGAT
Found at i:43670 original size:30 final size:29
Alignment explanation
Indices: 43586--43683 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 29
43576 ATTTGAAGTA
43586 TTTTTAATATTTTTAAAGTATTTTTA--ATT
1 TTTTTAAT-TTTTTAAAG-ATTTTTAGGATT
* *
43615 TTTTTAATTATTTATTACGATTTTTTAGGATT
1 TTTTTAATT-TTT-TAAAGA-TTTTTAGGATT
*
43647 TTTTTAATTTTTTAAATGATTTTTAGGATC
1 TTTTTAATTTTTTAAA-GATTTTTAGGATT
43677 TTTTTAA
1 TTTTTAA
43684 GGATGCTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 1 0.02
29 12 0.21
30 28 0.48
31 5 0.09
32 12 0.21
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTTAATTTTTTAAAGATTTTTAGGATT
Found at i:43817 original size:21 final size:21
Alignment explanation
Indices: 43793--43838 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
43783 TGTAAGTTAT
43793 TTTTAAAACATTTTTAAAGTC
1 TTTTAAAACATTTTTAAAGTC
* ** *
43814 TTTTGAAGTATTTTTAAAGTT
1 TTTTAAAACATTTTTAAAGTC
43835 TTTT
1 TTTT
43839 TCATGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTAAAACATTTTTAAAGTC
Found at i:44802 original size:10 final size:10
Alignment explanation
Indices: 44787--44820 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
44777 TTATGCTTAT
44787 TTTATTTTTA
1 TTTATTTTTA
44797 TTTATTTTTA
1 TTTATTTTTA
*
44807 TATATTTTTTA
1 TTTA-TTTTTA
44818 TTT
1 TTT
44821 TCATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:44803 original size:15 final size:14
Alignment explanation
Indices: 44783--44861 Score: 59
Period size: 16 Copynumber: 5.1 Consensus size: 14
44773 AAGTTTATGC
44783 TTATTTTATTTTTAT
1 TTATTTTATTTTT-T
44798 TTATTTTTATATATTTT
1 TTA-TTTTAT-T-TTTT
44815 TTATTTTCATTTTTT
1 TTATTTT-ATTTTTT
* *
44830 TCATTTTATCTATTTA
1 TTATTTTAT-T-TTTT
*
44846 TTGTTTTATTATTTT
1 TTATTTTATT-TTTT
44861 T
1 T
44862 CTTATTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.04
15 20 0.38
16 21 0.40
17 7 0.13
18 3 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (14 bp):
TTATTTTATTTTTT
Found at i:44844 original size:31 final size:31
Alignment explanation
Indices: 44783--44862 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
44773 AAGTTTATGC
* *
44783 TTATTTTATTTTTATTTATTTTTATATATTTT
1 TTATTTTATTTTT-TTCATTTTTATATATTTA
*
44815 TTATTTTCATTTTTTTCA-TTTTATCTATTTA
1 TTATTTT-ATTTTTTTCATTTTTATATATTTA
*
44846 TTGTTTTATTATTTTTC
1 TTATTTTATT-TTTTTC
44863 TTATTTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.07
31 23 0.55
32 10 0.24
33 6 0.14
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (31 bp):
TTATTTTATTTTTTTCATTTTTATATATTTA
Found at i:44853 original size:8 final size:8
Alignment explanation
Indices: 44783--44860 Score: 51
Period size: 8 Copynumber: 9.9 Consensus size: 8
44773 AAGTTTATGC
44783 TTATTTTA
1 TTATTTTA
44791 -T-TTTTA
1 TTATTTTA
44797 TTTATTTTTA
1 -TTA-TTTTA
44807 TATATTTT-
1 T-TATTTTA
44815 TTATTTTCA
1 TTATTTT-A
44824 TT-TTTT-
1 TTATTTTA
*
44830 TCATTTTA
1 TTATTTTA
44838 TCTA-TTTA
1 T-TATTTTA
*
44846 TTGTTTTA
1 TTATTTTA
44854 TTATTTT
1 TTATTTT
44861 TCTTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
6 6 0.11
7 12 0.22
8 22 0.40
9 8 0.15
10 7 0.13
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:46757 original size:14 final size:14
Alignment explanation
Indices: 46739--46771 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
46729 TTTTTAATTC
46739 ATTTTTG-TTTATG
1 ATTTTTGTTTTATG
46752 ATTTTTGTTTTATG
1 ATTTTTGTTTTATG
46766 ATTTTT
1 ATTTTT
46772 TTATTTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (14 bp):
ATTTTTGTTTTATG
Found at i:47010 original size:3 final size:3
Alignment explanation
Indices: 46998--47035 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
46988 CATCATCATC
* *
46998 ATT ATC ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47036 CATCATCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:47010 original size:9 final size:9
Alignment explanation
Indices: 46992--47047 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
46982 CACCATCATC
*
46992 ATCATCATT
1 ATCATTATT
47001 ATCATTATT
1 ATCATTATT
47010 A-CTATTATT
1 ATC-ATTATT
*
47019 ATTATTATT
1 ATCATTATT
* *
47028 ATTATTATC
1 ATCATTATT
*
47037 ATCATCATT
1 ATCATTATT
47046 AT
1 AT
47048 TGTAAAAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 1 0.03
9 38 0.97
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (9 bp):
ATCATTATT
Found at i:51152 original size:2 final size:2
Alignment explanation
Indices: 51145--51230 Score: 129
Period size: 2 Copynumber: 43.0 Consensus size: 2
51135 TCGTTCCTCC
*
51145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NT -T ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* *
51187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51229 AT
1 AT
51231 TTGAGCTGGA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
1 1 0.01
2 74 0.96
3 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100250 original size:77 final size:74
Alignment explanation
Indices: 100123--100274 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 74
100113 CAGATCTTCG
*
100123 AACTACAATTCCCTACACAAACCATCAACAGATGCTTAGTGGCCTTGAAAAGTAGAGATCAATAG
1 AACTACAATTCCCTACACAAACCATCAACAGATGCTTAGTGGCCTTGAAAA-TAGAGATC--CAG
*
100188 AGGACAGAGGGT
63 AGGACAGAAGGT
100200 AACTACAATTCCCTACACAAACCATCAACAGATGCTTCA-TGGCCTTGAAAATAGAGATCCAGAG
1 AACTACAATTCCCTACACAAACCATCAACAGATGCTT-AGTGGCCTTGAAAATAGAGATCCAGAG
100264 GACAGAAGGT
65 GACAGAAGGT
100274 A
1 A
100275 GCTTACTTAC
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
74 14 0.19
76 8 0.11
77 49 0.68
78 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (74 bp):
AACTACAATTCCCTACACAAACCATCAACAGATGCTTAGTGGCCTTGAAAATAGAGATCCAGAGG
ACAGAAGGT
Found at i:107285 original size:31 final size:31
Alignment explanation
Indices: 107250--107311 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
107240 ATGAAATGGA
107250 CAGATATTGCTACCTAAACTGAATTAAATGC
1 CAGATATTGCTACCTAAACTGAATTAAATGC
* *
107281 CAGATATTGCTATCTATACTGAATTAAATGC
1 CAGATATTGCTACCTAAACTGAATTAAATGC
107312 TTCTTTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (31 bp):
CAGATATTGCTACCTAAACTGAATTAAATGC
Found at i:111662 original size:20 final size:20
Alignment explanation
Indices: 111637--111680 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
111627 AAAGTCATCG
*
111637 AAAAAGTATCGGATTTAAAT
1 AAAAAGTACCGGATTTAAAT
111657 AAAAAGTACCGGATTTAAAT
1 AAAAAGTACCGGATTTAAAT
111677 AAAA
1 AAAA
111681 GGTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (20 bp):
AAAAAGTACCGGATTTAAAT
Found at i:111914 original size:37 final size:38
Alignment explanation
Indices: 111871--111943 Score: 121
Period size: 37 Copynumber: 1.9 Consensus size: 38
111861 CTACTTAATC
*
111871 CCACTAACTTAAACGTAATAA-TAAACTGATTTTAACT
1 CCACTAACTTAAACGTAATAAGTAAACTGACTTTAACT
*
111908 CCACTAACTTAAACGTGATAAGTAAACTGACTTTAA
1 CCACTAACTTAAACGTAATAAGTAAACTGACTTTAA
111944 TAAAACTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 20 0.61
38 13 0.39
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (38 bp):
CCACTAACTTAAACGTAATAAGTAAACTGACTTTAACT
Found at i:111943 original size:38 final size:37
Alignment explanation
Indices: 111856--111943 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
111846 TTTAAAACTT
111856 ATAAACT-AC-TTAA-TCCCACTAACTTAAACGTAATA
1 ATAAACTGACTTTAACT-CCACTAACTTAAACGTAATA
* *
111891 ATAAACTGATTTTAACTCCACTAACTTAAACGTGATA
1 ATAAACTGACTTTAACTCCACTAACTTAAACGTAATA
111928 AGTAAACTGACTTTAA
1 A-TAAACTGACTTTAA
111944 TAAAACTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 7 0.15
36 1 0.02
37 24 0.52
38 14 0.30
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (37 bp):
ATAAACTGACTTTAACTCCACTAACTTAAACGTAATA
Found at i:117496 original size:5 final size:5
Alignment explanation
Indices: 117486--117512 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
117476 TTCAAATAAC
117486 AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AA
117513 CAGGAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:118188 original size:3 final size:3
Alignment explanation
Indices: 118180--118217 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
118170 ATTCTTTTAC
118180 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
118218 GTTTAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:119999 original size:26 final size:26
Alignment explanation
Indices: 119969--120032 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
119959 ACTCGAAGAA
* *
119969 ATAAGGAAGAGTCAAACGCCATAGAG
1 ATAAGGAAGAGTCAAAAGCCAGAGAG
119995 ATAAGGAAGAGTCAAAAGCCAGAGAG
1 ATAAGGAAGAGTCAAAAGCCAGAGAG
*
120021 ATAAGAAAGAGT
1 ATAAGGAAGAGT
120033 TAGATAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.50, C:0.11, G:0.28, T:0.11
Consensus pattern (26 bp):
ATAAGGAAGAGTCAAAAGCCAGAGAG
Found at i:127521 original size:25 final size:25
Alignment explanation
Indices: 127481--127545 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
127471 TTTTGGCTTT
* *
127481 TTCTCCTT-TTCTCACCTTGCCTTC
1 TTCTCCTTCTTCTCACCTCGCCGTC
127505 TTCTCCTTCTTCTCACCTCGCCGTC
1 TTCTCCTTCTTCTCACCTCGCCGTC
127530 TTCTCCTTCTTCTCAC
1 TTCTCCTTCTTCTCAC
127546 TACCCGTGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 8 0.21
25 30 0.79
ACGTcount: A:0.05, C:0.45, G:0.05, T:0.46
Consensus pattern (25 bp):
TTCTCCTTCTTCTCACCTCGCCGTC
Done.