Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003696.1 Hibiscus syriacus cultivar Beakdansim tig00007902_pilon, 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: 251402
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
File 3 of 4
Found at i:183515 original size:21 final size:21
Alignment explanation
Indices: 183468--183535 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
183458 TTTAGGTTTT
*
183468 GGTTTTGAGTTTCAAGTTTCA
1 GGTTTTGGGTTTCAAGTTTCA
** *
183489 AATTTTGGGTTTCAGGTTTCA
1 GGTTTTGGGTTTCAAGTTTCA
*
183510 GGTTTTGGGTTTCGAA-TTTTA
1 GGTTTTGGGTTTC-AAGTTTCA
183531 GGTTT
1 GGTTT
183536 CACCTTTCGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.26, T:0.50
Consensus pattern (21 bp):
GGTTTTGGGTTTCAAGTTTCA
Found at i:183520 original size:14 final size:14
Alignment explanation
Indices: 183503--183563 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
183493 TTGGGTTTCA
*
183503 GGTTTCAGGTTTTG
1 GGTTTCAGATTTTG
*
183517 GGTTTC-GAATTTTA
1 GGTTTCAG-ATTTTG
** *
183531 GGTTTCACCTTTCG
1 GGTTTCAGATTTTG
*
183545 GGTTTCAGTTTTTG
1 GGTTTCAGATTTTG
183559 GGTTT
1 GGTTT
183564 TGTTTTTTGT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
13 1 0.03
14 35 0.97
ACGTcount: A:0.10, C:0.11, G:0.28, T:0.51
Consensus pattern (14 bp):
GGTTTCAGATTTTG
Found at i:183570 original size:14 final size:14
Alignment explanation
Indices: 183553--183593 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
183543 CGGGTTTCAG
183553 TTTTTGGGTTTTGT
1 TTTTTGGGTTTTGT
*
183567 TTTTTGTGTTTTGT
1 TTTTTGGGTTTTGT
*
183581 GTTTTGGGTTTTG
1 TTTTTGGGTTTTG
183594 GGCTTCAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (14 bp):
TTTTTGGGTTTTGT
Found at i:183647 original size:21 final size:21
Alignment explanation
Indices: 183623--183662 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
183613 CGGTTTTTAG
* *
183623 TTTTTGGGTTCATGTTTCAAA
1 TTTTAGGGTTCAGGTTTCAAA
*
183644 TTTTAGGTTTCAGGTTTCA
1 TTTTAGGGTTCAGGTTTCA
183663 TGTTTCGGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (21 bp):
TTTTAGGGTTCAGGTTTCAAA
Found at i:183745 original size:21 final size:21
Alignment explanation
Indices: 183721--183774 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
183711 AAATTTCGGG
183721 TTTTGGGTTTCAGGTTTCAAA
1 TTTTGGGTTTCAGGTTTCAAA
* * *
183742 TTTTGGGTATCAGGTTTCGAG
1 TTTTGGGTTTCAGGTTTCAAA
183763 TTTTGGGTTTCA
1 TTTTGGGTTTCA
183775 AATTTTGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.09, G:0.28, T:0.48
Consensus pattern (21 bp):
TTTTGGGTTTCAGGTTTCAAA
Found at i:183755 original size:98 final size:97
Alignment explanation
Indices: 183624--183886 Score: 267
Period size: 98 Copynumber: 2.7 Consensus size: 97
183614 GGTTTTTAGT
* * *
183624 TTTTGGG-TTCATGTTTCAAATTTTAGGTTTCAGGTTTCATGTTTCGGGTTTCAAATTTTAGGTT
1 TTTTGGGTTTCAAGTTTCAAATTTTGGGTTTCAGGTTTCA-GTTTAGGGTTTCAAATTTTAGGTT
* ** * * * * *
183688 TCGTGTTTTTGTTTTCGATTTTTAAATTTCGGG
65 TCGGGTTTGGGGTTTCAAGTTTTAAATTTCAGC
* * * *
183721 TTTTGGGTTTCAGGTTTCAAATTTTGGGTATCAGGTTTCGAGTTTTGGGTTTCAAATTTTGGGTT
1 TTTTGGGTTTCAAGTTTCAAATTTTGGGTTTCAGGTTTC-AGTTTAGGGTTTCAAATTTTAGGTT
* * *
183786 TAGGGTTTGGGGTTTCAAGTTTTAGATTTTAGC
65 TCGGGTTTGGGGTTTCAAGTTTTAAATTTCAGC
* * ** * **
183819 TTTTAGGTTTCAAGTTTCAAGTTTTGGGTTTCAAATTTCGGGTAAAGGGTTTCAAATTTTAGGTT
1 TTTTGGGTTTCAAGTTTCAAATTTTGGGTTTCAGGTTTC-AGTTTAGGGTTTCAAATTTTAGGTT
183884 TCG
65 TCG
183887 AGATTAAAAT
Statistics
Matches: 136, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
97 7 0.05
98 128 0.94
99 1 0.01
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.49
Consensus pattern (97 bp):
TTTTGGGTTTCAAGTTTCAAATTTTGGGTTTCAGGTTTCAGTTTAGGGTTTCAAATTTTAGGTTT
CGGGTTTGGGGTTTCAAGTTTTAAATTTCAGC
Found at i:183785 original size:28 final size:28
Alignment explanation
Indices: 183754--183808 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
183744 TTGGGTATCA
* *
183754 GGTTTCGAGTTTTGGGTTTCAAATTTTG
1 GGTTTAGAGTTTGGGGTTTCAAATTTTG
* *
183782 GGTTTAGGGTTTGGGGTTTCAAGTTTT
1 GGTTTAGAGTTTGGGGTTTCAAATTTT
183809 AGATTTTAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (28 bp):
GGTTTAGAGTTTGGGGTTTCAAATTTTG
Found at i:183852 original size:14 final size:14
Alignment explanation
Indices: 183754--183835 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
183744 TTGGGTATCA
*
183754 GGTTTCGAGTTTTG
1 GGTTTCAAGTTTTG
*
183768 GGTTTCAAATTTTG
1 GGTTTCAAGTTTTG
* *
183782 GGTTT-AGGGTTTGG
1 GGTTTCA-AGTTTTG
*
183796 GGTTTCAAGTTTTA
1 GGTTTCAAGTTTTG
* * *
183810 GATTT-TAGCTTTTA
1 GGTTTCAAG-TTTTG
183824 GGTTTCAAGTTT
1 GGTTTCAAGTTT
183836 CAAGTTTTGG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
13 3 0.06
14 46 0.88
15 3 0.06
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (14 bp):
GGTTTCAAGTTTTG
Found at i:183946 original size:42 final size:42
Alignment explanation
Indices: 183900--183982 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
183890 TTAAAATTTT
* **
183900 GGGTTTTAAGTTTTATGTTTTAGATTTT-ATGTTTCGGGTTTC
1 GGGTTTCAAGTTTTAAATTTTAGATTTTGA-GTTTCGGGTTTC
* *
183942 GGGTTTCGAGTTTTAAATTTTAGATTTTGAGTTTTGGGTTT
1 GGGTTTCAAGTTTTAAATTTTAGATTTTGAGTTTCGGGTTT
183983 TAGGGTTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.25, T:0.55
Consensus pattern (42 bp):
GGGTTTCAAGTTTTAAATTTTAGATTTTGAGTTTCGGGTTTC
Found at i:184010 original size:14 final size:14
Alignment explanation
Indices: 183993--184027 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
183983 TAGGGTTCTA
183993 GTTTCAAGTTTTGG
1 GTTTCAAGTTTTGG
*
184007 GTTTCAGGTTTTGG
1 GTTTCAAGTTTTGG
184021 GTTTCAA
1 GTTTCAA
184028 ATTTCAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.29, T:0.49
Consensus pattern (14 bp):
GTTTCAAGTTTTGG
Found at i:184024 original size:28 final size:28
Alignment explanation
Indices: 183973--184108 Score: 94
Period size: 28 Copynumber: 5.1 Consensus size: 28
183963 AGATTTTGAG
* * *
183973 TTTTGGGTTTTAGGGTTCT-AGTTTCAAG
1 TTTTGGGTTTCA-GGTTTTGAGTTTCAAA
*
184001 TTTTGGGTTTCAGGTTTTGGGTTTCAAA
1 TTTTGGGTTTCAGGTTTTGAGTTTCAAA
184029 -------TTTCAGGTTTT-AGGTTTCAAA
1 TTTTGGGTTTCAGGTTTTGA-GTTTCAAA
* * *
184050 TTTTAGGTTTCAGGTTTCGAGTTTAAAA
1 TTTTGGGTTTCAGGTTTTGAGTTTCAAA
**
184078 TTTTGGGTTTC-GAGTTTCAAGTTTCAAA
1 TTTTGGGTTTCAG-GTTTTGAGTTTCAAA
184106 TTT
1 TTT
184109 CGATTTTCTG
Statistics
Matches: 87, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
21 19 0.22
27 6 0.07
28 61 0.70
29 1 0.01
ACGTcount: A:0.19, C:0.08, G:0.24, T:0.49
Consensus pattern (28 bp):
TTTTGGGTTTCAGGTTTTGAGTTTCAAA
Found at i:184032 original size:21 final size:21
Alignment explanation
Indices: 184008--184067 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
183998 AAGTTTTGGG
*
184008 TTTCAGGTTTTGGGTTTCAAA
1 TTTCAGGTTTTAGGTTTCAAA
184029 TTTCAGGTTTTAGGTTTCAAA
1 TTTCAGGTTTTAGGTTTCAAA
* *
184050 TTTTAGGTTTCAGGTTTC
1 TTTCAGGTTTTAGGTTTC
184068 GAGTTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.18, C:0.10, G:0.22, T:0.50
Consensus pattern (21 bp):
TTTCAGGTTTTAGGTTTCAAA
Found at i:184046 original size:14 final size:14
Alignment explanation
Indices: 184029--184066 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
184019 GGGTTTCAAA
184029 TTTCAGGTTTTAGG
1 TTTCAGGTTTTAGG
**
184043 TTTCAAATTTTAGG
1 TTTCAGGTTTTAGG
184057 TTTCAGGTTT
1 TTTCAGGTTT
184067 CGAGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.53
Consensus pattern (14 bp):
TTTCAGGTTTTAGG
Found at i:184067 original size:7 final size:7
Alignment explanation
Indices: 184006--184067 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
183996 TCAAGTTTTG
184006 GGTTTCA
1 GGTTTCA
**
184013 GGTTTTG
1 GGTTTCA
184020 GGTTTCA
1 GGTTTCA
**
184027 AATTTCA
1 GGTTTCA
*
184034 GGTTTTA
1 GGTTTCA
184041 GGTTTCA
1 GGTTTCA
** *
184048 AATTTTA
1 GGTTTCA
184055 GGTTTCA
1 GGTTTCA
184062 GGTTTC
1 GGTTTC
184068 GAGTTTAAAA
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (7 bp):
GGTTTCA
Found at i:184201 original size:21 final size:21
Alignment explanation
Indices: 184177--184222 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
184167 GGGTTTCAAA
* *
184177 TTTTAGGTTTTGGGTTTTGGG
1 TTTTAGGTTTCGAGTTTTGGG
*
184198 TTTTTGGTTTCGAGTTTTGGG
1 TTTTAGGTTTCGAGTTTTGGG
184219 TTTT
1 TTTT
184223 GAATTTACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.02, G:0.33, T:0.61
Consensus pattern (21 bp):
TTTTAGGTTTCGAGTTTTGGG
Found at i:184204 original size:8 final size:7
Alignment explanation
Indices: 184177--184223 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
184167 GGGTTTCAAA
*
184177 TTTTAGG
1 TTTTGGG
184184 TTTTGGG
1 TTTTGGG
184191 TTTTGGG
1 TTTTGGG
*
184198 TTTTTGG
1 TTTTGGG
* *
184205 TTTCGAG
1 TTTTGGG
184212 TTTTGGG
1 TTTTGGG
184219 TTTTG
1 TTTTG
184224 AATTTACGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.04, C:0.02, G:0.34, T:0.60
Consensus pattern (7 bp):
TTTTGGG
Found at i:184236 original size:21 final size:20
Alignment explanation
Indices: 184190--184242 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
184180 TAGGTTTTGG
*
184190 GTTTTGGGTTTTTGGTTTCGA
1 GTTTTGGG-TTTTGATTTCGA
184211 GTTTTGGGTTTTGAATTTACGA
1 GTTTTGGGTTTTG-ATTT-CGA
*
184233 -TTTTGAGTTT
1 GTTTTGGGTTT
184243 CAAATTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 20 0.71
22 3 0.11
ACGTcount: A:0.11, C:0.04, G:0.28, T:0.57
Consensus pattern (20 bp):
GTTTTGGGTTTTGATTTCGA
Found at i:184298 original size:34 final size:35
Alignment explanation
Indices: 184163--184304 Score: 114
Period size: 35 Copynumber: 4.1 Consensus size: 35
184153 ATGTTTTTAT
* ** *
184163 TTTTGGGTTTCAAATTTTAGGTTTTGGGTTTTGGG
1 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
* * * *
184198 TTTTTG-GTTTCGAGTTTTGGGTTTTGAA-TTTAC-GA
1 -TTTTGAGTTTCAAATTTTAGGTTTT-AAGTTT-CGGG
184233 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
1 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
* * *
184268 TTTTGGGTTTC-AATTTT-TGTTTTCATGTTTCGGG
1 TTTTGAGTTTCAAATTTTAGGTTTT-AAGTTTCGGG
184302 TTT
1 TTT
184305 CAAATTTCGG
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
33 5 0.06
34 26 0.30
35 50 0.58
36 5 0.06
ACGTcount: A:0.13, C:0.06, G:0.25, T:0.56
Consensus pattern (35 bp):
TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
Found at i:184318 original size:21 final size:21
Alignment explanation
Indices: 184294--184396 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
184284 TTGTTTTCAT
184294 GTTTCGGGTTTCAAATTTCGG
1 GTTTCGGGTTTCAAATTTCGG
**
184315 GTTTCGGGTTTCAAATTTTAG
1 GTTTCGGGTTTCAAATTTCGG
* *
184336 GTTTCGGGTTT--TAGTT---
1 GTTTCGGGTTTCAAATTTCGG
* *
184352 -TTT-GGTTTTCAAATTTTGG
1 GTTTCGGGTTTCAAATTTCGG
*
184371 GTTTTGGGTTTCAAATTTCGG
1 GTTTCGGGTTTCAAATTTCGG
184392 GTTTC
1 GTTTC
184397 AGTTTTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 3 0.05
19 3 0.05
20 3 0.05
21 48 0.74
ACGTcount: A:0.14, C:0.10, G:0.26, T:0.50
Consensus pattern (21 bp):
GTTTCGGGTTTCAAATTTCGG
Found at i:184373 original size:49 final size:49
Alignment explanation
Indices: 184320--184423 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 49
184310 TTCGGGTTTC
* ** * * *
184320 GGGTTTCAAATTTTAGGTTTCGGGTTTTAGTTTTTGGTTTTCAAATTTT
1 GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTA
****
184369 GGGTTTTGGGTTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTA
1 GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTA
184418 GGGTTT
1 GGGTTT
184424 TCGGTTTCGA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (49 bp):
GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTA
Found at i:184395 original size:14 final size:14
Alignment explanation
Indices: 184376--184423 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
184366 TTTGGGTTTT
*
184376 GGGTTTCAAATTTC
1 GGGTTTCAAATTTA
** *
184390 GGGTTTCAGTTTTT
1 GGGTTTCAAATTTA
184404 GGGTTTCAAATTTA
1 GGGTTTCAAATTTA
184418 GGGTTT
1 GGGTTT
184424 TCGGTTTCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.17, C:0.08, G:0.27, T:0.48
Consensus pattern (14 bp):
GGGTTTCAAATTTA
Found at i:184397 original size:35 final size:35
Alignment explanation
Indices: 184316--184410 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
184306 AAATTTCGGG
* * **
184316 TTTCGGGTTTCAAATTTTAGGTTTCGGGTTTTAGT
1 TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
* * *
184351 TTTTGGTTTTCAAATTTTGGGTTTTGGGTTTCAAA
1 TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
**
184386 TTTCGGGTTTCAGTTTTTGGGTTTC
1 TTTCGGGTTTCAAATTTTGGGTTTC
184411 AAATTTAGGG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.13, C:0.08, G:0.25, T:0.54
Consensus pattern (35 bp):
TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
Found at i:184437 original size:28 final size:28
Alignment explanation
Indices: 184378--184439 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
184368 TGGGTTTTGG
* * * *
184378 GTTTCAAATTTCGGGTTTCAGTTTTTGG
1 GTTTCAAATTTAGGGTTTCAGGTTTCGA
184406 GTTTCAAATTTAGGGTTTTC-GGTTTCGA
1 GTTTCAAATTTAGGG-TTTCAGGTTTCGA
184434 GTTTCA
1 GTTTCA
184440 GGTTTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.48
Consensus pattern (28 bp):
GTTTCAAATTTAGGGTTTCAGGTTTCGA
Found at i:184443 original size:21 final size:21
Alignment explanation
Indices: 184386--184445 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
184376 GGGTTTCAAA
* * *
184386 TTTCGGGTTTCAGTTTTTGGG
1 TTTCGAGTTTCAGGTTTTCGG
* *
184407 TTTCAAATTT-AGGGTTTTCGG
1 TTTCGAGTTTCA-GGTTTTCGG
184428 TTTCGAGTTTCAGGTTTT
1 TTTCGAGTTTCAGGTTTT
184446 AAACTTTCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.12, C:0.10, G:0.27, T:0.52
Consensus pattern (21 bp):
TTTCGAGTTTCAGGTTTTCGG
Found at i:184444 original size:49 final size:49
Alignment explanation
Indices: 184336--184444 Score: 155
Period size: 49 Copynumber: 2.2 Consensus size: 49
184326 CAAATTTTAG
* * * *
184336 GTTTCGGGTTTTAGTTTTTGGTTTTCAAATTTTGGGTTTTGGGTTTCAA
1 GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTAGGGTTTTCGGTTTCAA
* *
184385 ATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTAGGGTTTTCGGTTTCGA
1 GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTAGGGTTTTCGGTTTCAA
*
184434 GTTTCAGGTTT
1 GTTTCGGGTTT
184445 TAAACTTTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.13, C:0.08, G:0.27, T:0.52
Consensus pattern (49 bp):
GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTAGGGTTTTCGGTTTCAA
Found at i:184503 original size:21 final size:21
Alignment explanation
Indices: 184450--184502 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
184440 GGTTTTAAAC
*
184450 TTTCAAGTTTTGGGTTTTTGGT
1 TTTC-AGTTTTTGGTTTTTGGT
184472 TTTCAGTTTTTGGTTTTAT-GT
1 TTTCAGTTTTTGGTTTT-TGGT
184493 TTT-AGTTTTT
1 TTTCAGTTTTT
184503 TAATTTAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.09, C:0.04, G:0.21, T:0.66
Consensus pattern (21 bp):
TTTCAGTTTTTGGTTTTTGGT
Found at i:184591 original size:7 final size:7
Alignment explanation
Indices: 184576--184676 Score: 103
Period size: 7 Copynumber: 14.4 Consensus size: 7
184566 TTGGTTCAAA
*
184576 TTTTAGG
1 TTTTGGG
184583 TTTTGGG
1 TTTTGGG
*
184590 TTTTGGT
1 TTTTGGG
*
184597 TTTTAGG
1 TTTTGGG
184604 TTTTGGG
1 TTTTGGG
184611 TTTTGGG
1 TTTTGGG
*
184618 TTTCGGG
1 TTTTGGG
184625 TTTTGGG
1 TTTTGGG
* *
184632 TTTAGAG
1 TTTTGGG
*
184639 TTTTGTG
1 TTTTGGG
**
184646 TTTTAAG
1 TTTTGGG
*
184653 TTTTAGG
1 TTTTGGG
*
184660 TTTTAGG
1 TTTTGGG
184667 TTTTGGG
1 TTTTGGG
184674 TTT
1 TTT
184677 CAAGTTTCGA
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 79 1.00
ACGTcount: A:0.08, C:0.01, G:0.33, T:0.58
Consensus pattern (7 bp):
TTTTGGG
Found at i:184683 original size:14 final size:14
Alignment explanation
Indices: 184610--184698 Score: 72
Period size: 14 Copynumber: 6.4 Consensus size: 14
184600 TAGGTTTTGG
**
184610 GTTTTGGGTTTCGG
1 GTTTTGGGTTTCAA
184624 GTTTTGGGTTT-AGA
1 GTTTTGGGTTTCA-A
* *
184638 GTTTTGTGTTTTAA
1 GTTTTGGGTTTCAA
* * *
184652 GTTTTAGGTTTTAG
1 GTTTTGGGTTTCAA
184666 GTTTTGGGTTTCAA
1 GTTTTGGGTTTCAA
* *
184680 GTTTCGAGTTTCAA
1 GTTTTGGGTTTCAA
*
184694 ATTTT
1 GTTTT
184699 CAATTTTTGG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
14 59 0.98
15 1 0.02
ACGTcount: A:0.13, C:0.04, G:0.28, T:0.54
Consensus pattern (14 bp):
GTTTTGGGTTTCAA
Found at i:184683 original size:21 final size:20
Alignment explanation
Indices: 184556--184683 Score: 78
Period size: 21 Copynumber: 6.1 Consensus size: 20
184546 AGTTTATTGG
* * *
184556 TTTAGGTTTATTGGTTCAAAT
1 TTTAGGTTT-TGGGTTTAAGT
**
184577 TTTAGGTTTTGGGTTTTGGTT
1 TTTAGGTTTTGGGTTTAAG-T
**
184598 TTTAGGTTTTGGGTTTTGGGT
1 TTTAGGTTTTGGG-TTTAAGT
**
184619 TTCGGGTTTTGGGTTTAGAGT
1 TTTAGGTTTTGGGTTTA-AGT
* * *
184640 TTT-GTGTTTTAAGTTTTAGGT
1 TTTAG-GTTTT-GGGTTTAAGT
184661 TTTAGGTTTTGGGTTTCAAGT
1 TTTAGGTTTTGGGTTT-AAGT
184682 TT
1 TT
184684 CGAGTTTCAA
Statistics
Matches: 83, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
20 13 0.16
21 59 0.71
22 11 0.13
ACGTcount: A:0.12, C:0.02, G:0.30, T:0.56
Consensus pattern (20 bp):
TTTAGGTTTTGGGTTTAAGT
Found at i:184860 original size:21 final size:21
Alignment explanation
Indices: 184834--184930 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
184824 TAAGCTTTGG
* * *
184834 GGGTTTTAGGTTTCATATTTT
1 GGGTTTTAGGTTTTAAATTTC
* *
184855 GGGTTTTGGGTTTTAAATTTT
1 GGGTTTTAGGTTTTAAATTTC
*
184876 GTGTTTT-GGATTTTAAATTTC
1 GGGTTTTAGG-TTTTAAATTTC
* * * *
184897 CGATTTCAGGTTTTATATTTC
1 GGGTTTTAGGTTTTAAATTTC
*
184918 GGGTTTTGGGTTT
1 GGGTTTTAGGTTT
184931 CAGGTTTTGG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.25, T:0.56
Consensus pattern (21 bp):
GGGTTTTAGGTTTTAAATTTC
Found at i:184971 original size:21 final size:20
Alignment explanation
Indices: 184843--184987 Score: 67
Period size: 21 Copynumber: 7.0 Consensus size: 20
184833 GGGGTTTTAG
* *
184843 GTTTCATATTTTGGGTTTTGG
1 GTTTCAAATTTT-GGTTTTGA
*
184864 GTTTTAAATTTTGTGTTTTG-
1 GTTTCAAATTTTG-GTTTTGA
* ** * *
184884 GATTTTAAATTTCCGATTTCA
1 G-TTTCAAATTTTGGTTTTGA
* * * *
184905 GGTTTTATATTTCGGGTTTTGG
1 -GTTTCAAATTT-TGGTTTTGA
** * *
184927 GTTTCAGGTTTTGGTTTCGT
1 GTTTCAAATTTTGGTTTTGA
184947 GTTTCAAATTTTAGGTTTTGA
1 GTTTCAAATTTT-GGTTTTGA
*
184968 GTTTAAAATTTTTGGTTTTG
1 GTTTCAAA-TTTTGGTTTTG
184988 GGTTCGGGTT
Statistics
Matches: 94, Mismatches: 23, Indels: 14
0.72 0.18 0.11
Matches are distributed among these distances:
20 22 0.23
21 63 0.67
22 9 0.10
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.56
Consensus pattern (20 bp):
GTTTCAAATTTTGGTTTTGA
Found at i:185047 original size:14 final size:15
Alignment explanation
Indices: 185029--185063 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
185019 TCAGGCTTCG
185029 GGATTTTAGGTTTCA
1 GGATTTTAGGTTTCA
*
185044 -GATTTTGGGTTTCA
1 GGATTTTAGGTTTCA
185058 GGATTT
1 GGATTT
185064 GGGATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.49
Consensus pattern (15 bp):
GGATTTTAGGTTTCA
Found at i:185154 original size:14 final size:14
Alignment explanation
Indices: 185116--185146 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
185106 GTGTTTCAAA
185116 TTTCAAATTTTGGG
1 TTTCAAATTTTGGG
185130 TTTCAAATTTTGGG
1 TTTCAAATTTTGGG
185144 TTT
1 TTT
185147 TAGGTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (14 bp):
TTTCAAATTTTGGG
Found at i:185165 original size:21 final size:21
Alignment explanation
Indices: 185141--185181 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
185131 TTCAAATTTT
* * *
185141 GGGTTTTAGGTTTTAGGTTTG
1 GGGTTTCAAGTTTCAGGTTTG
185162 GGGTTTCAAGTTTCAGGTTT
1 GGGTTTCAAGTTTCAGGTTT
185182 TAAATTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (21 bp):
GGGTTTCAAGTTTCAGGTTTG
Found at i:185189 original size:21 final size:21
Alignment explanation
Indices: 185165--185212 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
185155 AGGTTTGGGG
185165 TTTCAAGTTTCAGGTTTTAAA
1 TTTCAAGTTTCAGGTTTTAAA
* * *
185186 TTTCATGTTTCGGGTTTTGAA
1 TTTCAAGTTTCAGGTTTTAAA
185207 TTTCAA
1 TTTCAA
185213 ATTTTGACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTCAAGTTTCAGGTTTTAAA
Found at i:185231 original size:21 final size:21
Alignment explanation
Indices: 185207--185258 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
185197 GGGTTTTGAA
*
185207 TTTCAAATTTTGACTTTTTGG
1 TTTCAAATTTTGACTTTTGGG
* * **
185228 TTTCGAGTTTTGGGTTTTGGG
1 TTTCAAATTTTGACTTTTGGG
185249 TTTCAAATTT
1 TTTCAAATTT
185259 AAGGTTTTTG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (21 bp):
TTTCAAATTTTGACTTTTGGG
Found at i:185243 original size:42 final size:42
Alignment explanation
Indices: 185192--185277 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
185182 TAAATTTCAT
*
185192 GTTTCGGGTTTTGAATTTCAAATTT-TGACTTTTTGGTTTCGA
1 GTTTCGGGTTTTGAATTTCAAATTTAAG-CTTTTTGGTTTCGA
* ** *
185234 GTTTTGGGTTTTGGGTTTCAAATTTAAGGTTTTTGGTTTCGA
1 GTTTCGGGTTTTGAATTTCAAATTTAAGCTTTTTGGTTTCGA
185276 GT
1 GT
185278 ATCAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (42 bp):
GTTTCGGGTTTTGAATTTCAAATTTAAGCTTTTTGGTTTCGA
Found at i:185484 original size:28 final size:27
Alignment explanation
Indices: 185450--185535 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
185440 AAAAAAATTC
*
185450 GGGTTTCAGGTTTAGACTTTCAAATTTT
1 GGGTTTCA-GTTTAGAATTTCAAATTTT
* *
185478 GGGTTTCACGTTTCAG-GTTTCAAATTTC
1 GGGTTTCA-GTTT-AGAATTTCAAATTTT
* *
185506 GGTTTTCTAGTTTCGAATTTCAAATTTT
1 GGGTTTC-AGTTTAGAATTTCAAATTTT
185534 GG
1 GG
185536 ATTTTGGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 44 0.92
29 3 0.06
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.47
Consensus pattern (27 bp):
GGGTTTCAGTTTAGAATTTCAAATTTT
Found at i:185573 original size:69 final size:70
Alignment explanation
Indices: 185487--185631 Score: 177
Period size: 69 Copynumber: 2.1 Consensus size: 70
185477 TGGGTTTCAC
* * * * *
185487 GTTTCAGGTTTCAAATTTCGGTTTTCTAGTTTC-GAATTTCAAATTTTGGATTTTGGGTTTTGAG
1 GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAG-ACTTCAAATTTTGGATTTTAGGTTTTGAG
185551 TTTTA-
65 TTTTAG
* * * * *
185556 GTTTCGGGTTTTAAATTTCGGGTATCGGGTTTCAGACTTCAAATTTTGGGTTTTAGGTTTTGGGT
1 GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAGACTTCAAATTTTGGATTTTAGGTTTTGAGT
185621 TTTAG
66 TTTAG
185626 GTTTCA
1 GTTTCA
185632 AATTTTAGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
69 57 0.90
70 6 0.10
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (70 bp):
GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAGACTTCAAATTTTGGATTTTAGGTTTTGAGT
TTTAG
Found at i:185618 original size:14 final size:14
Alignment explanation
Indices: 185599--185629 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
185589 AGACTTCAAA
185599 TTTTGGGTTTTAGG
1 TTTTGGGTTTTAGG
185613 TTTTGGGTTTTAGG
1 TTTTGGGTTTTAGG
185627 TTT
1 TTT
185630 CAAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.32, T:0.61
Consensus pattern (14 bp):
TTTTGGGTTTTAGG
Found at i:185637 original size:21 final size:21
Alignment explanation
Indices: 185613--185728 Score: 75
Period size: 21 Copynumber: 5.9 Consensus size: 21
185603 GGGTTTTAGG
185613 TTTTGGGTTTTAGGTTTCAAA
1 TTTTGGGTTTTAGGTTTCAAA
* * * *
185634 TTTTAGTTTTTGGGTTTAAAA
1 TTTTGGGTTTTAGGTTTCAAA
*
185655 TTTTGGGTTAT-GG------A
1 TTTTGGGTTTTAGGTTTCAAA
* * * *
185669 TTTCGAGTTTCAGATTTCAAA
1 TTTTGGGTTTTAGGTTTCAAA
* *
185690 TTTTGAGTTTTGGGTTTCAAA
1 TTTTGGGTTTTAGGTTTCAAA
*
185711 TTTTAGGTTTTAGGTTTC
1 TTTTGGGTTTTAGGTTTC
185729 GGGTTTTGAA
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
14 8 0.12
15 1 0.01
20 2 0.03
21 58 0.84
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.53
Consensus pattern (21 bp):
TTTTGGGTTTTAGGTTTCAAA
Found at i:185853 original size:14 final size:14
Alignment explanation
Indices: 185836--185889 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
185826 TAGGTTTGAT
*
185836 GTTTTAAATTTCGG
1 GTTTCAAATTTCGG
*
185850 GTTTCAAATTTCAG
1 GTTTCAAATTTCGG
*
185864 GTTTCAAGTTTCGG
1 GTTTCAAATTTCGG
*
185878 GTTTCGAATTTC
1 GTTTCAAATTTC
185890 AAATTTCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.46
Consensus pattern (14 bp):
GTTTCAAATTTCGG
Found at i:185867 original size:28 final size:28
Alignment explanation
Indices: 185836--185909 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
185826 TAGGTTTGAT
*
185836 GTTTTAAATTTCGGGTTTCAAATTTCAG
1 GTTTCAAATTTCGGGTTTCAAATTTCAG
* * *
185864 GTTTCAAGTTTCGGGTTTCGAATTTCAA
1 GTTTCAAATTTCGGGTTTCAAATTTCAG
* **
185892 ATTTCAGGTTTCGGGTTT
1 GTTTCAAATTTCGGGTTT
185910 GGATATTCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (28 bp):
GTTTCAAATTTCGGGTTTCAAATTTCAG
Found at i:185882 original size:21 final size:20
Alignment explanation
Indices: 185858--185905 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
185848 GGGTTTCAAA
* *
185858 TTTCAGGTTTCAAGTTTCGGG
1 TTTC-GGTTTCAAATTTCAGG
*
185879 TTTCGAATTTCAAATTTCAGG
1 TTTCG-GTTTCAAATTTCAGG
185900 TTTCGG
1 TTTCGG
185906 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.44
Consensus pattern (20 bp):
TTTCGGTTTCAAATTTCAGG
Found at i:185918 original size:28 final size:28
Alignment explanation
Indices: 185844--185909 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
185834 ATGTTTTAAA
* **
185844 TTTCGGGTTTCAAATTTCAGGTTTCAAG
1 TTTCGGGTTTCGAATTTCAAATTTCAAG
*
185872 TTTCGGGTTTCGAATTTCAAATTTCAGG
1 TTTCGGGTTTCGAATTTCAAATTTCAAG
185900 TTTCGGGTTT
1 TTTCGGGTTT
185910 GGATATTCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.23, T:0.45
Consensus pattern (28 bp):
TTTCGGGTTTCGAATTTCAAATTTCAAG
Found at i:185939 original size:21 final size:21
Alignment explanation
Indices: 185893--185972 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
185883 GAATTTCAAA
*
185893 TTTCAGGTTTCGGG-TT-TGG
1 TTTCAGGTTTTGGGTTTCTGG
185912 ATATTCAGGTTTTGGGTTTCTGG
1 -T-TTCAGGTTTTGGGTTTCTGG
** *
185935 TTTCAATTTTTGAGTTTCTGG
1 TTTCAGGTTTTGGGTTTCTGG
*
185956 TTT-TGAGTTTTGGGTTT
1 TTTCAG-GTTTTGGGTTT
185973 TAAATTTTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 41 0.85
22 3 0.06
23 3 0.06
ACGTcount: A:0.10, C:0.07, G:0.29, T:0.54
Consensus pattern (21 bp):
TTTCAGGTTTTGGGTTTCTGG
Found at i:185958 original size:35 final size:35
Alignment explanation
Indices: 185915--186010 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 35
185905 GGTTTGGATA
*
185915 TTCAGGTTTTGGGTTTCT-GGTTTCAATTTTTGAGT
1 TTCAGGTTTTGGGTTT-TAGGTTTCAAATTTTGAGT
* * * * *
185950 TTCTGGTTTTGAGTTTTGGGTTTTAAATTTTGGGT
1 TTCAGGTTTTGGGTTTTAGGTTTCAAATTTTGAGT
**
185985 TTCAAATTTTGGGTTTTAGGTTTCAA
1 TTCAGGTTTTGGGTTTTAGGTTTCAA
186011 GATTCGGGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
34 1 0.02
35 48 0.98
ACGTcount: A:0.15, C:0.06, G:0.25, T:0.54
Consensus pattern (35 bp):
TTCAGGTTTTGGGTTTTAGGTTTCAAATTTTGAGT
Found at i:185971 original size:14 final size:14
Alignment explanation
Indices: 185963--186002 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
185953 TGGTTTTGAG
185963 TTTTGGGTTTTAAA
1 TTTTGGGTTTTAAA
*
185977 TTTTGGGTTTCAAA
1 TTTTGGGTTTTAAA
185991 TTTTGGGTTTTA
1 TTTTGGGTTTTA
186003 GGTTTCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (14 bp):
TTTTGGGTTTTAAA
Found at i:185985 original size:28 final size:28
Alignment explanation
Indices: 185954--186088 Score: 97
Period size: 28 Copynumber: 5.1 Consensus size: 28
185944 TTGAGTTTCT
* *
185954 GGTTTTGAGTTTTGGGTTTTAAATTTTG
1 GGTTTTAAGTTTCGGGTTTTAAATTTTG
* * *
185982 GGTTTCAAATTTTGGGTTTT--A-----
1 GGTTTTAAGTTTCGGGTTTTAAATTTTG
* * *
186003 GGTTTCAAGATTCGGGTTTTAAATTTAG
1 GGTTTTAAGTTTCGGGTTTTAAATTTTG
* **
186031 GGTTTTAAGTTTCAGGTTTTGGATTTTG
1 GGTTTTAAGTTTCGGGTTTTAAATTTTG
*
186059 GGTTTCT-GGTTTCGGGTTTTAAATTTTG
1 GGTTT-TAAGTTTCGGGTTTTAAATTTTG
186087 GG
1 GG
186089 CTTCGGGATT
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 17 0.20
23 1 0.01
26 1 0.01
28 63 0.76
29 1 0.01
ACGTcount: A:0.16, C:0.04, G:0.28, T:0.51
Consensus pattern (28 bp):
GGTTTTAAGTTTCGGGTTTTAAATTTTG
Found at i:186019 original size:21 final size:21
Alignment explanation
Indices: 185977--186023 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
185967 GGGTTTTAAA
* * *
185977 TTTTGGGTTTCAAATTTTGGG
1 TTTTAGGTTTCAAAATTCGGG
*
185998 TTTTAGGTTTCAAGATTCGGG
1 TTTTAGGTTTCAAAATTCGGG
186019 TTTTA
1 TTTTA
186024 AATTTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (21 bp):
TTTTAGGTTTCAAAATTCGGG
Found at i:186057 original size:21 final size:21
Alignment explanation
Indices: 186033--186080 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
186023 AAATTTAGGG
*
186033 TTTTAAGTTTCAGGTTTTGGA
1 TTTTAAGTTTCAGGTTTCGGA
** * *
186054 TTTTGGGTTTCTGGTTTCGGG
1 TTTTAAGTTTCAGGTTTCGGA
186075 TTTTAA
1 TTTTAA
186081 ATTTTGGGCT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.27, T:0.54
Consensus pattern (21 bp):
TTTTAAGTTTCAGGTTTCGGA
Found at i:186104 original size:28 final size:28
Alignment explanation
Indices: 186039--186164 Score: 92
Period size: 28 Copynumber: 4.5 Consensus size: 28
186029 AGGGTTTTAA
*** * *
186039 GTTTCAGGTTTTGGATTTTGGGTTTCTG
1 GTTTCAGGTTTCAAATTTTGGGCTTCGG
* *
186067 GTTTCGGGTTTTAAATTTTGGGCTTCGG
1 GTTTCAGGTTTCAAATTTTGGGCTTCGG
* ** *
186095 GATTT-AGGTTCCAAATTTCAGGTTTCGG
1 G-TTTCAGGTTTCAAATTTTGGGCTTCGG
* * *
186123 GTTTCATGTTTCAAATTTTGGGTTTCAG
1 GTTTCAGGTTTCAAATTTTGGGCTTCGG
**
186151 GTTTTGGGTTTCAA
1 GTTTCAGGTTTCAA
186165 GTTTCGGGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 3 0.04
28 71 0.92
29 3 0.04
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.48
Consensus pattern (28 bp):
GTTTCAGGTTTCAAATTTTGGGCTTCGG
Found at i:186147 original size:14 final size:14
Alignment explanation
Indices: 186130--186190 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
186120 CGGGTTTCAT
186130 GTTTCAAATTTTGG
1 GTTTCAAATTTTGG
**
186144 GTTTCAGGTTTTGG
1 GTTTCAAATTTTGG
* *
186158 GTTTCAAGTTTCGG
1 GTTTCAAATTTTGG
* *
186172 GATTCAAATTTTTG
1 GTTTCAAATTTTGG
186186 GTTTC
1 GTTTC
186191 TAGTTTCTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.16, C:0.10, G:0.25, T:0.49
Consensus pattern (14 bp):
GTTTCAAATTTTGG
Found at i:186160 original size:35 final size:35
Alignment explanation
Indices: 186110--186292 Score: 120
Period size: 35 Copynumber: 5.0 Consensus size: 35
186100 AGGTTCCAAA
186110 TTTCAGGTTTCGGGTTTCATGTTTCAAATTTTGGG
1 TTTCAGGTTTCGGGTTTCATGTTTCAAATTTTGGG
* * *
186145 TTTCAGGTTTTGGGTTTCAAGTTTCGGGATTCAAATTTTTGG
1 TTTCAGGTTTCGGGTTTC-A---T---GTTTCAAATTTTGGG
** * * *
186187 TTTCTA-GTTTCTAGTTTTAGGTTTCAAATTTTTGG
1 TTTC-AGGTTTCGGGTTTCATGTTTCAAATTTTGGG
* * * *
186222 TTTTAGGTTTGGGGTTTTGA-GTTTCAAATTTTAGG
1 TTTCAGGTTTCGGG-TTTCATGTTTCAAATTTTGGG
* **
186257 TTTTAGGTTTCGGGTTTCAAT-TTTCAGTTTTTGGG
1 TTTCAGGTTTCGGGTTTC-ATGTTTCAAATTTTGGG
186292 T
1 T
186293 GTAAAATTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
34 4 0.03
35 79 0.68
36 5 0.04
39 1 0.01
41 1 0.01
42 25 0.22
43 1 0.01
ACGTcount: A:0.15, C:0.08, G:0.25, T:0.52
Consensus pattern (35 bp):
TTTCAGGTTTCGGGTTTCATGTTTCAAATTTTGGG
Found at i:186265 original size:28 final size:27
Alignment explanation
Indices: 186222--186280 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
186212 AAATTTTTGG
* *
186222 TTTTAGGTTTGGGGTTTTGAGTTTCAAA
1 TTTTAGGTTTGAGGTTTCGAGTTTC-AA
* *
186250 TTTTAGGTTTTAGGTTTCGGGTTTCAA
1 TTTTAGGTTTGAGGTTTCGAGTTTCAA
186277 TTTT
1 TTTT
186281 CAGTTTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.15, C:0.05, G:0.25, T:0.54
Consensus pattern (27 bp):
TTTTAGGTTTGAGGTTTCGAGTTTCAA
Found at i:186492 original size:35 final size:35
Alignment explanation
Indices: 186451--186580 Score: 109
Period size: 35 Copynumber: 3.7 Consensus size: 35
186441 TTTGAGTTTT
*
186451 GGTTTCGGGTTTTAAATTTCGGGTTTTAAATTTCG
1 GGTTTCGGGTTTTAAATTTCGGGTTTCAAATTTCG
** ** *
186486 GGTTTCGGGTTTTAGGTTTCGGACTTCAAATTTTG
1 GGTTTCGGGTTTTAAATTTCGGGTTTCAAATTTCG
** *** *
186521 GGTTTTAGGTTTTGGGTTTTGGGTTTCAAATTTC-
1 GGTTTCGGGTTTTAAATTTCGGGTTTCAAATTTCG
* **
186555 AGTTTTTGGTTTTAAAATTTCGGGTT
1 GGTTTCGGGTTTT-AAATTTCGGGTT
186581 ATGGGTTTTT
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 11 0.15
35 64 0.85
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (35 bp):
GGTTTCGGGTTTTAAATTTCGGGTTTCAAATTTCG
Found at i:186566 original size:7 final size:7
Alignment explanation
Indices: 186516--186546 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
186506 GGACTTCAAA
186516 TTTTGGG
1 TTTTGGG
*
186523 TTTTAGG
1 TTTTGGG
186530 TTTTGGG
1 TTTTGGG
186537 TTTTGGG
1 TTTTGGG
186544 TTT
1 TTT
186547 CAAATTTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.00, G:0.35, T:0.61
Consensus pattern (7 bp):
TTTTGGG
Found at i:186646 original size:37 final size:37
Alignment explanation
Indices: 186555--186648 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
186545 TTCAAATTTC
* * **
186555 AGTTTTTGGTTTTAAAATTTCGGGTTATGGGTTTTTG
1 AGTTTTAGGTTTTAAAATTTCGGATTATGGGTTTAAG
* * * *
186592 AGTTTTA-GATTTCAAATTTTGTATTATAGGGTTTAAG
1 AGTTTTAGGTTTTAAAATTTCGGATTAT-GGGTTTAAG
186629 -GTTTTAGGTTTTAAAATTTC
1 AGTTTTAGGTTTTAAAATTTC
186649 AGTTTTTAGG
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
36 21 0.48
37 23 0.52
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.52
Consensus pattern (37 bp):
AGTTTTAGGTTTTAAAATTTCGGATTATGGGTTTAAG
Found at i:186675 original size:28 final size:28
Alignment explanation
Indices: 186643--186745 Score: 75
Period size: 28 Copynumber: 3.7 Consensus size: 28
186633 TAGGTTTTAA
*
186643 AATTTCAGTTTTTAGGTTTTGGGTTTCG
1 AATTTCAGGTTTTAGGTTTTGGGTTTCG
** ** ** *
186671 AATTTTGGGTTTGGGGTTTTATGTTTCA
1 AATTTCAGGTTTTAGGTTTTGGGTTTCG
* * *
186699 AATTTTAGGTTCTGGGTTTTGGGTTTCG
1 AATTTCAGGTTTTAGGTTTTGGGTTTCG
*
186727 TATTTC-GTGTTTTA-GTTTT
1 AATTTCAG-GTTTTAGGTTTT
186746 CAAATTTTGG
Statistics
Matches: 56, Mismatches: 18, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
27 6 0.11
28 50 0.89
ACGTcount: A:0.13, C:0.06, G:0.26, T:0.55
Consensus pattern (28 bp):
AATTTCAGGTTTTAGGTTTTGGGTTTCG
Found at i:186761 original size:28 final size:28
Alignment explanation
Indices: 186729--186787 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
186719 GGGTTTCGTA
*
186729 TTTCGTGTTTT-AGTTTTCAAATTTTGGG
1 TTTCGGGTTTTAAG-TTTCAAATTTTGGG
186757 TTTCGGGTTTTAAGTTTCAAATTTTGGG
1 TTTCGGGTTTTAAGTTTCAAATTTTGGG
186785 TTT
1 TTT
186788 TAAATTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (28 bp):
TTTCGGGTTTTAAGTTTCAAATTTTGGG
Found at i:186788 original size:49 final size:49
Alignment explanation
Indices: 186684--186789 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
186674 TTTGGGTTTG
** **
186684 GGGTTTTATGTTTCAAATTTTAGGTTCTGGGTTTTGGGTTTCGTATTTC
1 GGGTTTTATGTTTCAAATTTTAGGTTCTGGGTTTTAAGTTTCAAATTTC
* * *
186733 GTGTTTTA-GTTTTCAAATTTTGGGTT-TCGGGTTTTAAGTTTCAAATTTT
1 GGGTTTTATG-TTTCAAATTTTAGGTTCT-GGGTTTTAAGTTTCAAATTTC
186782 GGGTTTTA
1 GGGTTTTA
186790 AATTTTAGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
48 2 0.04
49 45 0.96
ACGTcount: A:0.15, C:0.07, G:0.25, T:0.54
Consensus pattern (49 bp):
GGGTTTTATGTTTCAAATTTTAGGTTCTGGGTTTTAAGTTTCAAATTTC
Found at i:186795 original size:28 final size:28
Alignment explanation
Indices: 186743--186803 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
186733 GTGTTTTAGT
***
186743 TTTCAAATTTTGGGTTTCGGGTTTTAAG
1 TTTCAAATTTTGGGTTTCAAATTTTAAG
* *
186771 TTTCAAATTTTGGGTTTTAAATTTTAGG
1 TTTCAAATTTTGGGTTTCAAATTTTAAG
186799 TTTCA
1 TTTCA
186804 GGTTTTGAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.20, T:0.52
Consensus pattern (28 bp):
TTTCAAATTTTGGGTTTCAAATTTTAAG
Found at i:186809 original size:14 final size:14
Alignment explanation
Indices: 186736--186803 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
186726 GTATTTCGTG
*
186736 TTTTAGTTTTCAAA
1 TTTTAGGTTTCAAA
* ***
186750 TTTTGGGTTTCGGG
1 TTTTAGGTTTCAAA
*
186764 TTTTAAGTTTCAAA
1 TTTTAGGTTTCAAA
* *
186778 TTTTGGGTTTTAAA
1 TTTTAGGTTTCAAA
186792 TTTTAGGTTTCA
1 TTTTAGGTTTCA
186804 GGTTTTGAGT
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.54
Consensus pattern (14 bp):
TTTTAGGTTTCAAA
Found at i:186897 original size:7 final size:7
Alignment explanation
Indices: 186882--186963 Score: 65
Period size: 7 Copynumber: 11.7 Consensus size: 7
186872 CTTGTTTCGA
*
186882 GTTTCGG
1 GTTTTGG
186889 GTTTTGG
1 GTTTTGG
**
186896 GTTTTAA
1 GTTTTGG
186903 GTTTTGG
1 GTTTTGG
* *
186910 GTCTCGG
1 GTTTTGG
***
186917 GTTTCAA
1 GTTTTGG
*
186924 ATTTTGG
1 GTTTTGG
186931 GTTTTGG
1 GTTTTGG
186938 GTTTTGG
1 GTTTTGG
*
186945 GTTTTAG
1 GTTTTGG
*
186952 TTTTTGG
1 GTTTTGG
186959 GTTTT
1 GTTTT
186964 TAAATTCAGG
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.07, C:0.05, G:0.33, T:0.55
Consensus pattern (7 bp):
GTTTTGG
Found at i:186949 original size:21 final size:21
Alignment explanation
Indices: 186881--186963 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
186871 TCTTGTTTCG
*
186881 AGTTTCGGGTTTTGGGTTTTA
1 AGTTTTGGGTTTTGGGTTTTA
* * *
186902 AGTTTTGGGTCTCGGGTTTCA
1 AGTTTTGGGTTTTGGGTTTTA
* *
186923 AATTTTGGGTTTTGGGTTTTG
1 AGTTTTGGGTTTTGGGTTTTA
* * *
186944 GGTTTTAGTTTTTGGGTTTT
1 AGTTTTGGGTTTTGGGTTTT
186964 TAAATTCAGG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.08, C:0.05, G:0.33, T:0.54
Consensus pattern (21 bp):
AGTTTTGGGTTTTGGGTTTTA
Found at i:187011 original size:21 final size:20
Alignment explanation
Indices: 186961--187011 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
186951 GTTTTTGGGT
*
186961 TTTTAAATTCAGGTTTTAGC
1 TTTTAAATTTAGGTTTTAGC
186981 TTTTAAATTTAGGGTTTCTAG-
1 TTTTAAATTTA-GGTTT-TAGC
187002 TTTTAAATTT
1 TTTTAAATTT
187012 CAATTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.36
21 15 0.54
22 3 0.11
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (20 bp):
TTTTAAATTTAGGTTTTAGC
Found at i:187019 original size:63 final size:64
Alignment explanation
Indices: 186952--187089 Score: 147
Period size: 63 Copynumber: 2.2 Consensus size: 64
186942 TGGGTTTTAG
* *
186952 TTTTTGGGTTTTT-AAATTCAGGTTTTAG-CTTTTAAATTTAGGGTTTCTAGTTTTAAATTTCAA
1 TTTTTGGGTTTTTGAAATTCAGG-TTTAGACTTTTAAATATAAGGTTTCTAGTTTTAAATTTCAA
* ** ** * * *
187015 TTTTT-TGTTTTTGAGTTTTTGGTTTCGATTTTTGAATATAAGGTTTCTAGTTTTAAATTTCAA
1 TTTTTGGGTTTTTGAAATTCAGGTTTAGACTTTTAAATATAAGGTTTCTAGTTTTAAATTTCAA
*
187078 ATTTTGGGTTTT
1 TTTTTGGGTTTT
187090 AGATTTTTGT
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
62 10 0.17
63 45 0.75
64 5 0.08
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (64 bp):
TTTTTGGGTTTTTGAAATTCAGGTTTAGACTTTTAAATATAAGGTTTCTAGTTTTAAATTTCAA
Found at i:187158 original size:33 final size:32
Alignment explanation
Indices: 187105--187169 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
187095 TTTGTTTTAA
* *
187105 GTTTTGGGTTTCAAAATTTAGGTTTTTAGTTT
1 GTTTTGGGTTCCAAAATTTAGGGTTTTAGTTT
* *
187137 GTTTTAGGGTTCCAAATTTTAGGGTTTTGGTTT
1 GTTTT-GGGTTCCAAAATTTAGGGTTTTAGTTT
187170 TGAGTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.54
Consensus pattern (32 bp):
GTTTTGGGTTCCAAAATTTAGGGTTTTAGTTT
Found at i:187212 original size:21 final size:21
Alignment explanation
Indices: 187159--187260 Score: 73
Period size: 21 Copynumber: 4.9 Consensus size: 21
187149 CAAATTTTAG
*
187159 GGTTTT-GGTTTTGAGTTTCA
1 GGTTTTAGGTTTTGGGTTTCA
* * **
187179 AGTTTCAAATTTTGGGTTTCA
1 GGTTTTAGGTTTTGGGTTTCA
187200 GGTTTTAGGTTTTGGGTTTC-
1 GGTTTTAGGTTTTGGGTTTCA
* ** * *
187220 GAATTTTAGGTTTCAGCTTTCG
1 G-GTTTTAGGTTTTGGGTTTCA
* *
187242 GGTTTCAGTTTTTGGGTTT
1 GGTTTTAGGTTTTGGGTTT
187261 TGTTTTTGTG
Statistics
Matches: 60, Mismatches: 19, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
20 5 0.08
21 54 0.90
22 1 0.02
ACGTcount: A:0.13, C:0.08, G:0.27, T:0.52
Consensus pattern (21 bp):
GGTTTTAGGTTTTGGGTTTCA
Found at i:187219 original size:35 final size:35
Alignment explanation
Indices: 187137--187235 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 35
187127 TTTTTAGTTT
* *
187137 GTTTTAGGGTTCCAAATTTTAGGGTTT-TGGTTTTGA
1 GTTTT-GGGTTTCAAATTTT-GGGTTTCAGGTTTTGA
***
187173 GTTTCAAGTTTCAAATTTTGGGTTTCAGGTTTT-A
1 GTTTTGGGTTTCAAATTTTGGGTTTCAGGTTTTGA
* *
187207 GGTTTTGGGTTTCGAATTTTAGGTTTCAG
1 -GTTTTGGGTTTCAAATTTTGGGTTTCAG
187236 CTTTCGGGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
34 7 0.14
35 40 0.78
36 4 0.08
ACGTcount: A:0.17, C:0.07, G:0.26, T:0.49
Consensus pattern (35 bp):
GTTTTGGGTTTCAAATTTTGGGTTTCAGGTTTTGA
Found at i:187267 original size:6 final size:7
Alignment explanation
Indices: 187251--187289 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
187241 GGGTTTCAGT
*
187251 TTTTGGG
1 TTTTGTG
187258 TTTTGT-
1 TTTTGTG
187264 TTTTGTG
1 TTTTGTG
187271 TTTTGTG
1 TTTTGTG
*
187278 TTTTGGG
1 TTTTGTG
187285 TTTTG
1 TTTTG
187290 GGCTTCAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (7 bp):
TTTTGTG
Found at i:187267 original size:13 final size:13
Alignment explanation
Indices: 187249--187289 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
187239 TCGGGTTTCA
187249 GTTTTTGGGTTTT
1 GTTTTTGGGTTTT
*
187262 GTTTTTGTGTTTT
1 GTTTTTGGGTTTT
187275 GTGTTTTGGGTTTT
1 GT-TTTTGGGTTTT
187289 G
1 G
187290 GGCTTCAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (13 bp):
GTTTTTGGGTTTT
Found at i:187315 original size:34 final size:34
Alignment explanation
Indices: 187277--187384 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 34
187267 TGTGTTTTGT
*
187277 GTTTTGGGTTTTGGGCTTCAGGTTTCAAATTTC-G
1 GTTTTAGGTTTTGGG-TTCAGGTTTCAAATTTCAG
* *
187311 GTTTTTAGTTTTTGGGTTCATGTTTCAAATTTCAG
1 G-TTTTAGGTTTTGGGTTCAGGTTTCAAATTTCAG
* * * *
187346 GTTTCAGGTTTCAT-GTTTCGGGTTTCAAATTTTAG
1 GTTTTAGGTTT--TGGGTTCAGGTTTCAAATTTCAG
187381 GTTT
1 GTTT
187385 CGTGTTTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
34 25 0.41
35 35 0.57
36 1 0.02
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.51
Consensus pattern (34 bp):
GTTTTAGGTTTTGGGTTCAGGTTTCAAATTTCAG
Found at i:187351 original size:21 final size:21
Alignment explanation
Indices: 187327--187372 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
187317 AGTTTTTGGG
*
187327 TTCATGTTTCAAATTTCAGGT
1 TTCAGGTTTCAAATTTCAGGT
** *
187348 TTCAGGTTTCATGTTTCGGGT
1 TTCAGGTTTCAAATTTCAGGT
187369 TTCA
1 TTCA
187373 AATTTTAGGT
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:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (21 bp):
TTCAGGTTTCAAATTTCAGGT
Found at i:187441 original size:21 final size:21
Alignment explanation
Indices: 187417--187475 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
187407 AAATTTCGGG
187417 TTTTGGGTTTCAGGTTTCAAA
1 TTTTGGGTTTCAGGTTTCAAA
* * **
187438 TTTTGGGTTTCTGCTTTCAGT
1 TTTTGGGTTTCAGGTTTCAAA
*
187459 TTTTGGGTTTTAGGTTT
1 TTTTGGGTTTCAGGTTT
187476 AAGGTTTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.10, C:0.08, G:0.25, T:0.56
Consensus pattern (21 bp):
TTTTGGGTTTCAGGTTTCAAA
Found at i:187503 original size:35 final size:35
Alignment explanation
Indices: 187464--187552 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 35
187454 TCAGTTTTTG
187464 GGTTTTAGGTTTAAGGTTTCAAATTTTGGGTATCA
1 GGTTTTAGGTTTAAGGTTTCAAATTTTGGGTATCA
* ** *
187499 GG-TTTCGAGTTTTGGGTTTCAAATTTTGGGTTTCA
1 GGTTTTAG-GTTTAAGGTTTCAAATTTTGGGTATCA
**
187534 AATTTTAGGTTTAAGGTTT
1 GGTTTTAGGTTTAAGGTTT
187553 GGGGTTTAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
34 4 0.09
35 35 0.81
36 4 0.09
ACGTcount: A:0.20, C:0.06, G:0.26, T:0.48
Consensus pattern (35 bp):
GGTTTTAGGTTTAAGGTTTCAAATTTTGGGTATCA
Found at i:187518 original size:14 final size:14
Alignment explanation
Indices: 187508--187545 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
187498 AGGTTTCGAG
187508 TTTTGGGTTTCAAA
1 TTTTGGGTTTCAAA
187522 TTTTGGGTTTCAAA
1 TTTTGGGTTTCAAA
*
187536 TTTTAGGTTT
1 TTTTGGGTTT
187546 AAGGTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.55
Consensus pattern (14 bp):
TTTTGGGTTTCAAA
Found at i:187531 original size:49 final size:49
Alignment explanation
Indices: 187332--187622 Score: 183
Period size: 49 Copynumber: 5.9 Consensus size: 49
187322 TTGGGTTCAT
* *
187332 GTTTCAAATTTCAGGTTTCAGGTTTC-ATGTTTCGGGTTTCAAATTTTAG
1 GTTTCAAATTTTAGGTTTCAGGTTTCGA-GTTTTGGGTTTCAAATTTTAG
*** * * * ** * * **** *
187381 GTTTCGTGTTTTTGTTTTC-GATTTTTAAATTTCGGGTTTTGGGTTTCAG
1 GTTTCAAATTTTAGGTTTCAG-GTTTCGAGTTTTGGGTTTCAAATTTTAG
* * * * ** *
187430 GTTTCAAATTTTGGGTTTCTGCTTTC-AGTTTTTGGGTTTTAGGTTTAAG
1 GTTTCAAATTTTAGGTTTCAGGTTTCGAG-TTTTGGGTTTCAAATTTTAG
* * *
187479 GTTTCAAATTTTGGGTATCAGGTTTCGAGTTTTGGGTTTCAAATTTTGG
1 GTTTCAAATTTTAGGTTTCAGGTTTCGAGTTTTGGGTTTCAAATTTTAG
* * * * * *
187528 GTTTCAAATTTTAGGTTTAAGGTTTGGGGTTTAGGGTTTCGAGTTTTAG
1 GTTTCAAATTTTAGGTTTCAGGTTTCGAGTTTTGGGTTTCAAATTTTAG
* * ** * *
187577 ATTTTAGGTTTTAGGTTTCAAGTTTCAAGTTTTGGGTTTCAAATTT
1 GTTTCAAATTTTAGGTTTCAGGTTTCGAGTTTTGGGTTTCAAATTT
187623 CGGGTAAAGG
Statistics
Matches: 183, Mismatches: 54, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
48 2 0.01
49 177 0.97
50 4 0.02
ACGTcount: A:0.17, C:0.08, G:0.24, T:0.51
Consensus pattern (49 bp):
GTTTCAAATTTTAGGTTTCAGGTTTCGAGTTTTGGGTTTCAAATTTTAG
Found at i:187551 original size:21 final size:21
Alignment explanation
Indices: 187522--187833 Score: 96
Period size: 21 Copynumber: 14.5 Consensus size: 21
187512 GGGTTTCAAA
*
187522 TTTTGGGTTTCAAATTTTAGG
1 TTTTAGGTTTCAAATTTTAGG
* ****
187543 TTTAAGGTTT-GGGGTTTAGG
1 TTTTAGGTTTCAAATTTTAGG
* * * *
187563 GTTTCGAGTTTTAGATTTTAGG
1 TTTTAG-GTTTCAAATTTTAGG
* * *
187585 TTTTAGGTTTCAAGTTTCAAG
1 TTTTAGGTTTCAAATTTTAGG
* *
187606 TTTTGGGTTTCAAA-TTTCGG
1 TTTTAGGTTTCAAATTTTAGG
* **
187626 GTAAAGGGTTTCAAATTTTAGG
1 TTTTA-GGTTTCAAATTTTAGG
* * *
187648 -TTTCGAGATTCAAATTTTGGG
1 TTTTAG-GTTTCAAATTTTAGG
* * *
187669 TTTTAGGTTTTATATTTTAGA
1 TTTTAGGTTTCAAATTTTAGG
* ***
187690 TTTTATGTTTCGGGTTTT-GG
1 TTTTAGGTTTCAAATTTTAGG
* * * *
187710 GTTTCGAGTTTTAAATTTTAGA
1 TTTTAG-GTTTCAAATTTTAGG
****
187732 TTTT-GAGTTTTGGGTTTTAGGG
1 TTTTAG-GTTTCAAATTTTA-GG
* *
187754 TTCTA-GTTTCAAGTTTTGGGTTTCAGG
1 TTTTAGGTTTCAA---AT---TTT-AGG
* *
187781 TTTTGGGTTTCAAATTTCAGG
1 TTTTAGGTTTCAAATTTTAGG
187802 TTTTAGGTTTCAAATTTTAGG
1 TTTTAGGTTTCAAATTTTAGG
*
187823 TTTCAGGTTTC
1 TTTTAGGTTTC
187834 GAGTTTAAAA
Statistics
Matches: 202, Mismatches: 71, Indels: 36
0.65 0.23 0.12
Matches are distributed among these distances:
20 18 0.09
21 136 0.67
22 30 0.15
24 1 0.00
25 1 0.00
27 8 0.04
28 8 0.04
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTTAGGTTTCAAATTTTAGG
Found at i:187565 original size:35 final size:35
Alignment explanation
Indices: 187526--187650 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 35
187516 TTCAAATTTT
*
187526 GGGTTTCAAATTTTAGGTTTAAGGTTTGGGGTTTA
1 GGGTTTCAAATTTTAGGTTTAAGGTTTCGGGTTTA
* * * * **
187561 GGGTTTCGAGTTTTAGATTTTAGGTTTTAGGTTTCA
1 GGGTTTCAAATTTTAGGTTTAAGGTTTCGGGTTT-A
* * * * **
187597 -AGTTTCAAGTTTTGGGTTTCAA-ATTTCGGGTAAA
1 GGGTTTCAAATTTTAGGTTT-AAGGTTTCGGGTTTA
187631 GGGTTTCAAATTTTAGGTTT
1 GGGTTTCAAATTTTAGGTTT
187651 CGAGATTCAA
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
34 1 0.01
35 65 0.96
36 2 0.03
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.46
Consensus pattern (35 bp):
GGGTTTCAAATTTTAGGTTTAAGGTTTCGGGTTTA
Found at i:187677 original size:7 final size:7
Alignment explanation
Indices: 187662--187832 Score: 51
Period size: 7 Copynumber: 24.4 Consensus size: 7
187652 GAGATTCAAA
*
187662 TTTTGGG
1 TTTTAGG
187669 TTTTAGG
1 TTTTAGG
**
187676 TTTTATA
1 TTTTAGG
*
187683 TTTTAGA
1 TTTTAGG
*
187690 TTTTATG
1 TTTTAGG
**
187697 TTTCGGG
1 TTTTAGG
187704 TTTT-GG
1 TTTTAGG
* *
187710 GTTTCGAG
1 TTTTAG-G
**
187718 TTTTAAA
1 TTTTAGG
*
187725 TTTTAGA
1 TTTTAGG
187732 TTTT-GAG
1 TTTTAG-G
*
187739 TTTTGGG
1 TTTTAGG
187746 TTTTAGGG
1 TTTTA-GG
*
187754 TTCTA-G
1 TTTTAGG
* *
187760 TTTCAAG
1 TTTTAGG
*
187767 TTTTGGG
1 TTTTAGG
*
187774 TTTCAGG
1 TTTTAGG
*
187781 TTTTGGG
1 TTTTAGG
* **
187788 TTTCAAA
1 TTTTAGG
*
187795 TTTCAGG
1 TTTTAGG
187802 TTTTAGG
1 TTTTAGG
* **
187809 TTTCAAA
1 TTTTAGG
187816 TTTTAGG
1 TTTTAGG
*
187823 TTTCAGG
1 TTTTAGG
187830 TTT
1 TTT
187833 CGAGTTTAAA
Statistics
Matches: 116, Mismatches: 42, Indels: 12
0.68 0.25 0.07
Matches are distributed among these distances:
6 10 0.09
7 95 0.82
8 11 0.09
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.54
Consensus pattern (7 bp):
TTTTAGG
Found at i:187678 original size:42 final size:42
Alignment explanation
Indices: 187557--187688 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 42
187547 AGGTTTGGGG
* * * *
187557 TTTAGGGTTTCGAGTTTTAGATTTTAGGTTTTAGGTTTCAAGT
1 TTTA-GGTTTCGAGTTTCAAATTTTGGGTTTTAGGTTTCAAAT
* * * * * **
187600 TTCAAGTTTTGGGTTTCAAATTTCGGG-TAAAGGGTTTCAAAT
1 TTTAGGTTTCGAGTTTCAAATTTTGGGTTTTA-GGTTTCAAAT
* * *
187642 TTTAGGTTTCGAGATTCAAATTTTGGGTTTTAGGTTTTATAT
1 TTTAGGTTTCGAGTTTCAAATTTTGGGTTTTAGGTTTCAAAT
187684 TTTAG
1 TTTAG
187689 ATTTTATGTT
Statistics
Matches: 66, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
41 2 0.03
42 59 0.89
43 5 0.08
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.48
Consensus pattern (42 bp):
TTTAGGTTTCGAGTTTCAAATTTTGGGTTTTAGGTTTCAAAT
Found at i:187762 original size:42 final size:41
Alignment explanation
Indices: 187662--187762 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 41
187652 GAGATTCAAA
* *
187662 TTTTGGGTTTTAGGTTTTATATTTTAGATTTTATGTTTCGGG
1 TTTTGGGTTCTA-GTTTTAAATTTTAGATTTTATGTTTCGGG
* *
187704 TTTTGGGTTTCGAGTTTTAAATTTTAGATTTTGA-GTTTTGGG
1 TTTTGGG-TTCTAGTTTTAAATTTTAGATTTT-ATGTTTCGGG
187746 TTTTAGGGTTCTAGTTT
1 TTTT-GGGTTCTAGTTT
187763 CAAGTTTTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 44 0.86
43 7 0.14
ACGTcount: A:0.15, C:0.03, G:0.25, T:0.57
Consensus pattern (41 bp):
TTTTGGGTTCTAGTTTTAAATTTTAGATTTTATGTTTCGGG
Found at i:187776 original size:14 final size:14
Alignment explanation
Indices: 187759--187793 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
187749 TAGGGTTCTA
187759 GTTTCAAGTTTTGG
1 GTTTCAAGTTTTGG
*
187773 GTTTCAGGTTTTGG
1 GTTTCAAGTTTTGG
187787 GTTTCAA
1 GTTTCAA
187794 ATTTCAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.29, T:0.49
Consensus pattern (14 bp):
GTTTCAAGTTTTGG
Found at i:187790 original size:28 final size:28
Alignment explanation
Indices: 187739--187854 Score: 88
Period size: 28 Copynumber: 4.4 Consensus size: 28
187729 AGATTTTGAG
* * *
187739 TTTTGGGTTTTAGGGTTCT-AGTTTCAAG
1 TTTTGGGTTTCA-GGTTTTGAGTTTCAAA
*
187767 TTTTGGGTTTCAGGTTTTGGGTTTCAAA
1 TTTTGGGTTTCAGGTTTTGAGTTTCAAA
187795 -------TTTCAGGTTTT-AGGTTTCAAA
1 TTTTGGGTTTCAGGTTTTGA-GTTTCAAA
* * *
187816 TTTTAGGTTTCAGGTTTCGAGTTTAAAA
1 TTTTGGGTTTCAGGTTTTGAGTTTCAAA
187844 TTTTGGGTTTC
1 TTTTGGGTTTC
187855 GAATTTCAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
21 19 0.27
27 5 0.07
28 45 0.64
29 1 0.01
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (28 bp):
TTTTGGGTTTCAGGTTTTGAGTTTCAAA
Found at i:187812 original size:14 final size:14
Alignment explanation
Indices: 187795--187832 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
187785 GGGTTTCAAA
187795 TTTCAGGTTTTAGG
1 TTTCAGGTTTTAGG
**
187809 TTTCAAATTTTAGG
1 TTTCAGGTTTTAGG
187823 TTTCAGGTTT
1 TTTCAGGTTT
187833 CGAGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.53
Consensus pattern (14 bp):
TTTCAGGTTTTAGG
Found at i:187833 original size:7 final size:7
Alignment explanation
Indices: 187772--187833 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
187762 TCAAGTTTTG
187772 GGTTTCA
1 GGTTTCA
**
187779 GGTTTTG
1 GGTTTCA
187786 GGTTTCA
1 GGTTTCA
**
187793 AATTTCA
1 GGTTTCA
*
187800 GGTTTTA
1 GGTTTCA
187807 GGTTTCA
1 GGTTTCA
** *
187814 AATTTTA
1 GGTTTCA
187821 GGTTTCA
1 GGTTTCA
187828 GGTTTC
1 GGTTTC
187834 GAGTTTAAAA
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (7 bp):
GGTTTCA
Found at i:187861 original size:28 final size:28
Alignment explanation
Indices: 187808--187874 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
187798 CAGGTTTTAG
* *
187808 GTTTCAAATTTTAGGTTTCAGGTTTCGA
1 GTTTCAAATTTTAGGTTTCAGATTTCAA
* *
187836 GTTTAAAATTTTGGGTTTC-GAATTTCAA
1 GTTTCAAATTTTAGGTTTCAG-ATTTCAA
187864 GTTTCAAATTT
1 GTTTCAAATTT
187875 CGATTTTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (28 bp):
GTTTCAAATTTTAGGTTTCAGATTTCAA
Found at i:187967 original size:21 final size:21
Alignment explanation
Indices: 187943--187988 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
187933 GGGTTTCAAA
* *
187943 TTTTAGGTTTTGGGTTTTGGG
1 TTTTAGGTTTCGAGTTTTGGG
*
187964 TTTTTGGTTTCGAGTTTTGGG
1 TTTTAGGTTTCGAGTTTTGGG
187985 TTTT
1 TTTT
187989 GAATTTACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.02, G:0.33, T:0.61
Consensus pattern (21 bp):
TTTTAGGTTTCGAGTTTTGGG
Found at i:187970 original size:8 final size:7
Alignment explanation
Indices: 187943--187989 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
187933 GGGTTTCAAA
*
187943 TTTTAGG
1 TTTTGGG
187950 TTTTGGG
1 TTTTGGG
187957 TTTTGGG
1 TTTTGGG
*
187964 TTTTTGG
1 TTTTGGG
* *
187971 TTTCGAG
1 TTTTGGG
187978 TTTTGGG
1 TTTTGGG
187985 TTTTG
1 TTTTG
187990 AATTTACGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.04, C:0.02, G:0.34, T:0.60
Consensus pattern (7 bp):
TTTTGGG
Found at i:188002 original size:21 final size:20
Alignment explanation
Indices: 187956--188008 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
187946 TAGGTTTTGG
*
187956 GTTTTGGGTTTTTGGTTTCGA
1 GTTTTGGG-TTTTGATTTCGA
187977 GTTTTGGGTTTTGAATTTACGA
1 GTTTTGGGTTTTG-ATTT-CGA
*
187999 -TTTTGAGTTT
1 GTTTTGGGTTT
188009 CAAATTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 20 0.71
22 3 0.11
ACGTcount: A:0.11, C:0.04, G:0.28, T:0.57
Consensus pattern (20 bp):
GTTTTGGGTTTTGATTTCGA
Found at i:188064 original size:34 final size:35
Alignment explanation
Indices: 187929--188070 Score: 114
Period size: 35 Copynumber: 4.1 Consensus size: 35
187919 AGGTTTTTAT
* ** *
187929 TTTTGGGTTTCAAATTTTAGGTTTTGGGTTTTGGG
1 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
* * * *
187964 TTTTTG-GTTTCGAGTTTTGGGTTTTGAA-TTTAC-GA
1 -TTTTGAGTTTCAAATTTTAGGTTTT-AAGTTT-CGGG
187999 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
1 TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
* * *
188034 TTTTGGGTTTC-AATTTT-TGTTTTCATGTTTCGGG
1 TTTTGAGTTTCAAATTTTAGGTTTT-AAGTTTCGGG
188068 TTT
1 TTT
188071 CAAATTTCGG
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
33 5 0.06
34 26 0.30
35 50 0.58
36 5 0.06
ACGTcount: A:0.13, C:0.06, G:0.25, T:0.56
Consensus pattern (35 bp):
TTTTGAGTTTCAAATTTTAGGTTTTAAGTTTCGGG
Found at i:188084 original size:21 final size:21
Alignment explanation
Indices: 188060--188162 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
188050 TTGTTTTCAT
188060 GTTTCGGGTTTCAAATTTCGG
1 GTTTCGGGTTTCAAATTTCGG
**
188081 GTTTCGGGTTTCAAATTTTAG
1 GTTTCGGGTTTCAAATTTCGG
* *
188102 GTTTCGGGTTT--TAGTT---
1 GTTTCGGGTTTCAAATTTCGG
* *
188118 -TTT-GGTTTTCAAATTTTGG
1 GTTTCGGGTTTCAAATTTCGG
*
188137 GTTTTGGGTTTCAAATTTCGG
1 GTTTCGGGTTTCAAATTTCGG
188158 GTTTC
1 GTTTC
188163 AGTTTTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 3 0.05
19 3 0.05
20 3 0.05
21 48 0.74
ACGTcount: A:0.14, C:0.10, G:0.26, T:0.50
Consensus pattern (21 bp):
GTTTCGGGTTTCAAATTTCGG
Found at i:188139 original size:49 final size:49
Alignment explanation
Indices: 188086--188189 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
188076 TTCGGGTTTC
* ** * *
188086 GGGTTTCAAATTTTAGGTTTCGGGTTTTAGTTTTTGGTTTTCAAATTTT
1 GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTT
****
188135 GGGTTTTGGGTTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTT
1 GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTT
188184 GGGTTT
1 GGGTTT
188190 TCGGTTTCGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.53
Consensus pattern (49 bp):
GGGTTTCAAATTTCAAATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTT
Found at i:188161 original size:14 final size:14
Alignment explanation
Indices: 188138--188189 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
188128 AAATTTTGGG
188138 TTTTGGGTTTCAAA
1 TTTTGGGTTTCAAA
* **
188152 TTTCGGGTTTCAGT
1 TTTTGGGTTTCAAA
188166 TTTTGGGTTTCAAA
1 TTTTGGGTTTCAAA
188180 TTTTGGGTTT
1 TTTTGGGTTT
188190 TCGGTTTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.13, C:0.08, G:0.25, T:0.54
Consensus pattern (14 bp):
TTTTGGGTTTCAAA
Found at i:188163 original size:35 final size:35
Alignment explanation
Indices: 188082--188176 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
188072 AAATTTCGGG
* * **
188082 TTTCGGGTTTCAAATTTTAGGTTTCGGGTTTTAGT
1 TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
* * *
188117 TTTTGGTTTTCAAATTTTGGGTTTTGGGTTTCAAA
1 TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
**
188152 TTTCGGGTTTCAGTTTTTGGGTTTC
1 TTTCGGGTTTCAAATTTTGGGTTTC
188177 AAATTTTGGG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.13, C:0.08, G:0.25, T:0.54
Consensus pattern (35 bp):
TTTCGGGTTTCAAATTTTGGGTTTCGGGTTTCAAA
Found at i:188203 original size:28 final size:28
Alignment explanation
Indices: 188144--188205 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
188134 TGGGTTTTGG
* * *
188144 GTTTCAAATTTCGGGTTTCAGTTTTTGG
1 GTTTCAAATTTCGGGTTTCAGGTTTCGA
*
188172 GTTTCAAATTTTGGGTTTTC-GGTTTCGA
1 GTTTCAAATTTCGGG-TTTCAGGTTTCGA
188200 GTTTCA
1 GTTTCA
188206 GGTTTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.15, C:0.11, G:0.24, T:0.50
Consensus pattern (28 bp):
GTTTCAAATTTCGGGTTTCAGGTTTCGA
Found at i:188209 original size:21 final size:21
Alignment explanation
Indices: 188152--188211 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
188142 GGGTTTCAAA
* * *
188152 TTTCGGGTTTCAGTTTTTGGG
1 TTTCGAGTTTCAGGTTTTCGG
* * **
188173 TTTCAAATTTTGGGTTTTCGG
1 TTTCGAGTTTCAGGTTTTCGG
188194 TTTCGAGTTTCAGGTTTT
1 TTTCGAGTTTCAGGTTTT
188212 AAACTTTCAA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.10, C:0.10, G:0.27, T:0.53
Consensus pattern (21 bp):
TTTCGAGTTTCAGGTTTTCGG
Found at i:188210 original size:49 final size:49
Alignment explanation
Indices: 188102--188210 Score: 164
Period size: 49 Copynumber: 2.2 Consensus size: 49
188092 CAAATTTTAG
* * *
188102 GTTTCGGGTTTTAGTTTTTGGTTTTCAAATTTTGGGTTTTGGGTTTCAA
1 GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTTGGGTTTTCGGTTTCAA
* *
188151 ATTTCGGGTTTCAGTTTTTGGGTTTCAAATTTTGGGTTTTCGGTTTCGA
1 GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTTGGGTTTTCGGTTTCAA
*
188200 GTTTCAGGTTT
1 GTTTCGGGTTT
188211 TAAACTTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.12, C:0.08, G:0.27, T:0.53
Consensus pattern (49 bp):
GTTTCGGGTTTCAGTTTTTGGGTTTCAAATTTTGGGTTTTCGGTTTCAA
Found at i:188268 original size:21 final size:21
Alignment explanation
Indices: 188216--188267 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
188206 GGTTTTAAAC
188216 TTTCAAGTTTTGGGTTTTTGGT
1 TTTC-AGTTTTGGGTTTTTGGT
188238 TTTCAGTTTTGGGTTTTAT-GT
1 TTTCAGTTTTGGGTTTT-TGGT
188259 TTT-AGTTTT
1 TTTCAGTTTT
188268 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.21
21 18 0.62
22 5 0.17
ACGTcount: A:0.10, C:0.04, G:0.23, T:0.63
Consensus pattern (21 bp):
TTTCAGTTTTGGGTTTTTGGT
Found at i:188357 original size:7 final size:7
Alignment explanation
Indices: 188342--188449 Score: 117
Period size: 7 Copynumber: 15.4 Consensus size: 7
188332 TTGGTTCAAA
*
188342 TTTTAGG
1 TTTTGGG
188349 TTTTGGG
1 TTTTGGG
*
188356 TTTTGGT
1 TTTTGGG
*
188363 TTTTAGG
1 TTTTGGG
188370 TTTTGGG
1 TTTTGGG
188377 TTTTGGG
1 TTTTGGG
188384 TTTTGGG
1 TTTTGGG
*
188391 TTTCGGG
1 TTTTGGG
*
188398 TTTCGGG
1 TTTTGGG
*
188405 TTTAGGG
1 TTTTGGG
*
188412 TTTTGTG
1 TTTTGGG
**
188419 TTTTAAG
1 TTTTGGG
*
188426 TTTTAGG
1 TTTTGGG
*
188433 TTTTAGG
1 TTTTGGG
188440 TTTTGGG
1 TTTTGGG
188447 TTT
1 TTT
188450 CAAGTTTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 88 1.00
ACGTcount: A:0.06, C:0.02, G:0.34, T:0.57
Consensus pattern (7 bp):
TTTTGGG
Found at i:188524 original size:7 final size:7
Alignment explanation
Indices: 188503--188568 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
188493 TTGATTTCGA
188503 TTTTGGG
1 TTTTGGG
**
188510 TTCCGGG
1 TTTTGGG
188517 TTTTGGG
1 TTTTGGG
***
188524 TTTTAAA
1 TTTTGGG
*
188531 TTTTAGG
1 TTTTGGG
188538 TTTTGGG
1 TTTTGGG
*
188545 TTTTGAG
1 TTTTGGG
188552 TTTTAGGG
1 TTTT-GGG
*
188560 TTTAGGG
1 TTTTGGG
188567 TT
1 TT
188569 CAATTTTTAA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
7 40 0.89
8 5 0.11
ACGTcount: A:0.11, C:0.03, G:0.33, T:0.53
Consensus pattern (7 bp):
TTTTGGG
Found at i:188533 original size:28 final size:28
Alignment explanation
Indices: 188502--188556 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
188492 TTTGATTTCG
* *
188502 ATTTTGGGTTCCGGGTTTTGGGTTTTAA
1 ATTTTAGGTTCCGGGTTTTGAGTTTTAA
**
188530 ATTTTAGGTTTTGGGTTTTGAGTTTTA
1 ATTTTAGGTTCCGGGTTTTGAGTTTTA
188557 GGGTTTAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.29, T:0.55
Consensus pattern (28 bp):
ATTTTAGGTTCCGGGTTTTGAGTTTTAA
Found at i:188539 original size:21 final size:22
Alignment explanation
Indices: 188514--188568 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
188504 TTTGGGTTCC
188514 GGGTTTTGGGTTTTAAATTTTA
1 GGGTTTTGGGTTTTAAATTTTA
* *
188536 -GGTTTTGGGTTTTGAGTTTTA
1 GGGTTTTGGGTTTTAAATTTTA
*
188557 GGGTTTAGGGTT
1 GGGTTTTGGGTT
188569 CAATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.53
Consensus pattern (22 bp):
GGGTTTTGGGTTTTAAATTTTA
Found at i:188647 original size:21 final size:21
Alignment explanation
Indices: 188623--188771 Score: 102
Period size: 21 Copynumber: 7.1 Consensus size: 21
188613 GGGGTTTCAA
*
188623 GTTTCATATTTTGGGTTTTGG
1 GTTTCAAATTTTGGGTTTTGG
* *
188644 GTTTTAAATTTTGTGTTTTGG
1 GTTTCAAATTTTGGGTTTTGG
* * ** **
188665 ATTTTAAATTTCCGGTTTCAG
1 GTTTCAAATTTTGGGTTTTGG
* * *
188686 GTTTTATATTTCGGGTTTTGG
1 GTTTCAAATTTTGGGTTTTGG
** * * *
188707 GTTTC-AGGTTTCGGTTTCGT
1 GTTTCAAATTTTGGGTTTTGG
* *
188727 GTTTCAAATTTTAGGTTTTGA
1 GTTTCAAATTTTGGGTTTTGG
* *
188748 GTTTAAAATTTTTGGTTTTGG
1 GTTTCAAATTTTGGGTTTTGG
188769 GTT
1 GTT
188772 CGGGTTTTAA
Statistics
Matches: 97, Mismatches: 30, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
20 13 0.13
21 84 0.87
ACGTcount: A:0.15, C:0.06, G:0.24, T:0.55
Consensus pattern (21 bp):
GTTTCAAATTTTGGGTTTTGG
Found at i:188932 original size:21 final size:21
Alignment explanation
Indices: 188908--188956 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
188898 TCAAATTTTG
*
188908 GGTTTCAAATTTTGGGTTTCA
1 GGTTTCAAATTTGGGGTTTCA
* **
188929 GGTTTTAGGTTTGGGGTTTCA
1 GGTTTCAAATTTGGGGTTTCA
*
188950 AGTTTCA
1 GGTTTCA
188957 GGTTTTAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.08, G:0.29, T:0.47
Consensus pattern (21 bp):
GGTTTCAAATTTGGGGTTTCA
Found at i:188934 original size:14 final size:14
Alignment explanation
Indices: 188896--188928 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
188886 GTGTTTCAAA
188896 TTTCAAATTTTGGG
1 TTTCAAATTTTGGG
188910 TTTCAAATTTTGGG
1 TTTCAAATTTTGGG
188924 TTTCA
1 TTTCA
188929 GGTTTTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (14 bp):
TTTCAAATTTTGGG
Found at i:188939 original size:14 final size:14
Alignment explanation
Indices: 188903--188963 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
188893 AAATTTCAAA
* **
188903 TTTTGGGTTTCAAA
1 TTTTAGGTTTCAGG
*
188917 TTTTGGGTTTCAGG
1 TTTTAGGTTTCAGG
**
188931 TTTTAGGTTTGGGG
1 TTTTAGGTTTCAGG
* *
188945 TTTCAAGTTTCAGG
1 TTTTAGGTTTCAGG
188959 TTTTA
1 TTTTA
188964 AATTTCATGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.15, C:0.07, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTTAGGTTTCAGG
Found at i:188959 original size:21 final size:21
Alignment explanation
Indices: 188921--188961 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
188911 TTCAAATTTT
* *
188921 GGGTTTCAGGTTTTAGGTTTG
1 GGGTTTCAAGTTTCAGGTTTG
188942 GGGTTTCAAGTTTCAGGTTT
1 GGGTTTCAAGTTTCAGGTTT
188962 TAAATTTCAT
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:0.12, C:0.07, G:0.34, T:0.46
Consensus pattern (21 bp):
GGGTTTCAAGTTTCAGGTTTG
Found at i:188969 original size:14 final size:14
Alignment explanation
Indices: 188923--188975 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
188913 CAAATTTTGG
*
188923 GTTTCAGGTTTTAG
1 GTTTCAGGTTTTAA
** *
188937 GTTTGGGGTTTCAA
1 GTTTCAGGTTTTAA
188951 GTTTCAGGTTTTAA
1 GTTTCAGGTTTTAA
* *
188965 ATTTCATGTTT
1 GTTTCAGGTTT
188976 CGGGTTTTGA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.51
Consensus pattern (14 bp):
GTTTCAGGTTTTAA
Found at i:188969 original size:21 final size:21
Alignment explanation
Indices: 188945--188992 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
188935 AGGTTTGGGG
188945 TTTCAAGTTTCAGGTTTTAAA
1 TTTCAAGTTTCAGGTTTTAAA
* * *
188966 TTTCATGTTTCGGGTTTTGAA
1 TTTCAAGTTTCAGGTTTTAAA
188987 TTTCAA
1 TTTCAA
188993 ATTTTGACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTCAAGTTTCAGGTTTTAAA
Found at i:189032 original size:21 final size:20
Alignment explanation
Indices: 189008--189074 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
188998 GACTTTTTGG
189008 TTTCGAGTTTTGGGTTTCAAA
1 TTTC-AGTTTTGGGTTTCAAA
* *
189029 TTTCAGGTTTTTGGTTTCAAG
1 TTTCA-GTTTTGGGTTTCAAA
* * *
189050 TATCAAATTTTGGGTTTTAAA
1 TTTC-AGTTTTGGGTTTCAAA
189071 TTTC
1 TTTC
189075 TGGTTTCTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTCAGTTTTGGGTTTCAAA
Found at i:189257 original size:28 final size:26
Alignment explanation
Indices: 189223--189308 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 26
189213 AAAAAAATTC
189223 GGGTTTCAGGTTTGGACTTTCAAATTTT
1 GGGTTTCA-GTTTGGA-TTTCAAATTTT
*
189251 GGGTTTCACGTTTCAGG-TTTCAAATTTC
1 GGGTTTCA-GTTT--GGATTTCAAATTTT
* *
189279 GGTTTTCTAGTTTCGAATTTCAAATTTT
1 GGGTTTC-AGTTT-GGATTTCAAATTTT
189307 GG
1 GG
189309 ATTTTGGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.02
28 44 0.92
29 1 0.02
30 2 0.04
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.47
Consensus pattern (26 bp):
GGGTTTCAGTTTGGATTTCAAATTTT
Found at i:189346 original size:69 final size:70
Alignment explanation
Indices: 189260--189404 Score: 177
Period size: 69 Copynumber: 2.1 Consensus size: 70
189250 TGGGTTTCAC
* * * * *
189260 GTTTCAGGTTTCAAATTTCGGTTTTCTAGTTTC-GAATTTCAAATTTTGGATTTTGGGTTTTGAG
1 GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAG-ACTTCAAATTTTGGATTTTAGGTTTTGAG
189324 TTTTA-
65 TTTTAG
* * * * *
189329 GTTTCGGGTTTTAAATTTCGGGTATCGGGTTTCAGACTTCAAATTTTGGGTTTTAGGTTTTGGGT
1 GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAGACTTCAAATTTTGGATTTTAGGTTTTGAGT
189394 TTTAG
66 TTTAG
189399 GTTTCA
1 GTTTCA
189405 AATTTTAGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
69 57 0.90
70 6 0.10
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (70 bp):
GTTTCAGGTTTCAAATTTCGGGTATCGAGTTTCAGACTTCAAATTTTGGATTTTAGGTTTTGAGT
TTTAG
Found at i:189391 original size:14 final size:14
Alignment explanation
Indices: 189372--189402 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
189362 AGACTTCAAA
189372 TTTTGGGTTTTAGG
1 TTTTGGGTTTTAGG
189386 TTTTGGGTTTTAGG
1 TTTTGGGTTTTAGG
189400 TTT
1 TTT
189403 CAAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.32, T:0.61
Consensus pattern (14 bp):
TTTTGGGTTTTAGG
Found at i:189410 original size:21 final size:21
Alignment explanation
Indices: 189386--189501 Score: 70
Period size: 21 Copynumber: 5.9 Consensus size: 21
189376 GGGTTTTAGG
*
189386 TTTTGGGTTTTAGGTTTCAAA
1 TTTTAGGTTTTAGGTTTCAAA
* * *
189407 TTTTAGTTTTTGGGTTTAAAA
1 TTTTAGGTTTTAGGTTTCAAA
*
189428 TTTTAGGTTAT-GG------A
1 TTTTAGGTTTTAGGTTTCAAA
* * *
189442 TTTCGA-GTTTCAGATTTCAAA
1 TTT-TAGGTTTTAGGTTTCAAA
*
189463 TTTTGA-GTTTTGGGTTTCAAA
1 TTTT-AGGTTTTAGGTTTCAAA
189484 TTTTAGGTTTTAGGTTTC
1 TTTTAGGTTTTAGGTTTC
189502 GGGTTTTGAA
Statistics
Matches: 70, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.10
15 2 0.03
20 3 0.04
21 58 0.83
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.53
Consensus pattern (21 bp):
TTTTAGGTTTTAGGTTTCAAA
Found at i:189515 original size:56 final size:56
Alignment explanation
Indices: 189366--189508 Score: 191
Period size: 56 Copynumber: 2.6 Consensus size: 56
189356 GGTTTCAGAC
* * *
189366 TTCAAATTTTGGGTTTTAGGTTTTGGGTTTTAGGTTTCAAATTTTAGTTTTTGGGT
1 TTCAAATTTTAGGTTTTAGGTTTCGGGTTTTAGATTTCAAATTTTAGTTTTTGGGT
* * * *
189422 TTAAAATTTTAGGTTAT-GGATTTCGAGTTTCAGATTTCAAATTTTGAG-TTTTGGGT
1 TTCAAATTTTAGGTTTTAGG-TTTCGGGTTTTAGATTTCAAATTTT-AGTTTTTGGGT
189478 TTCAAATTTTAGGTTTTAGGTTTCGGGTTTT
1 TTCAAATTTTAGGTTTTAGGTTTCGGGTTTT
189509 GAATTTCGGG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 2 0.03
56 67 0.92
57 4 0.05
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (56 bp):
TTCAAATTTTAGGTTTTAGGTTTCGGGTTTTAGATTTCAAATTTTAGTTTTTGGGT
Found at i:189597 original size:28 final size:28
Alignment explanation
Indices: 189561--189655 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 28
189551 GGGTTTTTGG
* *
189561 TTTCAGGTTTCAGGTTTTA-GTTTTCAAA
1 TTTCGGGTTTCAGGTTTGATGTTTT-AAA
** *
189589 TTTTTGGTTTTAGGTTTGATGTTTTAAA
1 TTTCGGGTTTCAGGTTTGATGTTTTAAA
** * * * *
189617 TTTCGGGTTTCAAATTTCAGGTTTCAAG
1 TTTCGGGTTTCAGGTTTGATGTTTTAAA
189645 TTTCGGGTTTC
1 TTTCGGGTTTC
189656 GAATTTCAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 48 0.91
29 5 0.09
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.52
Consensus pattern (28 bp):
TTTCGGGTTTCAGGTTTGATGTTTTAAA
Found at i:189599 original size:6 final size:7
Alignment explanation
Indices: 189540--189605 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
189530 GTGTTTTAAA
189540 TTTTAGG
1 TTTTAGG
*
189547 TTTTGGG
1 TTTTAGG
*
189554 TTTTTGG
1 TTTTAGG
*
189561 TTTCAGG
1 TTTTAGG
*
189568 TTTCAGG
1 TTTTAGG
189575 TTTTA-G
1 TTTTAGG
**
189581 TTTTCAAA
1 TTTT-AGG
*
189589 TTTTTGG
1 TTTTAGG
189596 TTTTAGG
1 TTTTAGG
189603 TTT
1 TTT
189606 GATGTTTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
6 5 0.11
7 38 0.81
8 4 0.09
ACGTcount: A:0.12, C:0.05, G:0.24, T:0.59
Consensus pattern (7 bp):
TTTTAGG
Found at i:189626 original size:14 final size:14
Alignment explanation
Indices: 189609--189662 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
189599 TAGGTTTGAT
*
189609 GTTTTAAATTTCGG
1 GTTTCAAATTTCGG
*
189623 GTTTCAAATTTCAG
1 GTTTCAAATTTCGG
*
189637 GTTTCAAGTTTCGG
1 GTTTCAAATTTCGG
*
189651 GTTTCGAATTTC
1 GTTTCAAATTTC
189663 AAATTTCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.46
Consensus pattern (14 bp):
GTTTCAAATTTCGG
Done.