Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_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: 3098974
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 16
Found at i:2703463 original size:2 final size:2
Alignment explanation
Indices: 2703458--2703524 Score: 100
Period size: 2 Copynumber: 33.0 Consensus size: 2
2703448 GTATATAAAC
2703458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2703500 TA TA CA TA TA GTA TA TGA -A TA TA TA
1 TA TA TA TA TA -TA TA T-A TA TA TA TA
2703525 CAATCTATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 1 0.02
2 56 0.93
3 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2704183 original size:14 final size:14
Alignment explanation
Indices: 2704161--2704217 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
2704151 TCGATTATAT
*
2704161 GTTCCTTTATGTTC
1 GTTCATTTATGTTC
2704175 GTTCATTTATGTTC
1 GTTCATTTATGTTC
* *
2704189 ATTCATTTATGTTT
1 GTTCATTTATGTTC
*
2704203 ATTCATTTATGTTC
1 GTTCATTTATGTTC
2704217 G
1 G
2704218 AACAAAGGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:2704419 original size:23 final size:23
Alignment explanation
Indices: 2704401--2704469 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
2704391 GTGTTTGTGT
2704401 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
*
2704424 TGTTCGTTTATGTTAGTTCT-TTCG
1 TGTTCGTTTATGTTCGTT-TATT-G
* *
2704448 TGTTTGTTTCTGTTCGTTTATT
1 TGTTCGTTTATGTTCGTTTATT
2704470 TATTAAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:2705599 original size:33 final size:33
Alignment explanation
Indices: 2705499--2705591 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2705489 TTCTCTCAAA
2705499 TTCTCTGTTTTTGGTTGATATTCGAATAATTTT
1 TTCTCTGTTTTTGGTTGATATTCGAATAATTTT
*
2705532 TTCTCTGTTTTTGGTTGATATTCGAATATTTTT
1 TTCTCTGTTTTTGGTTGATATTCGAATAATTTT
*
2705565 TTCTCTGTTTTTGGTTGATATTTGAAT
1 TTCTCTGTTTTTGGTTGATATTCGAAT
2705592 CCTTTTTTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (33 bp):
TTCTCTGTTTTTGGTTGATATTCGAATAATTTT
Found at i:2705957 original size:102 final size:99
Alignment explanation
Indices: 2705773--2706001 Score: 325
Period size: 102 Copynumber: 2.3 Consensus size: 99
2705763 AAGAGGTAAC
* *
2705773 TAAAATGTTTAATTTGTTGCTACTGTTGATTTGTTTGTTTTGGTTTTTCATTCAGATTACTTCTA
1 TAAACTGTTTAATTTGTTGCTACTGTTGATTTGTTTGTTTTGGTTGTTCATTCAGATTACTTCTA
*
2705838 TAAGGTTGTTAGATGTCTTTATTTAGAGTTTAAA
66 TAAGGTTGTTAGATGTCTTTATTTACAGTTTAAA
* **
2705872 TAAACTGTTCAATTTGTTGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTC-GAATTGTT
1 TAAACTGTTTAATTTGTTGCTACTGTTGATTTG-TT-TGTT-TTGGTTGTTCATTCAG-ATTACT
* *
2705936 TTTATAAGGTTGTTAGCTGTCTTTATTTACAGTTTAAA
62 TCTATAAGGTTGTTAGATGTCTTTATTTACAGTTTAAA
* *
2705974 TAAACTGTTTAATTTATTGCTATTGTTG
1 TAAACTGTTTAATTTGTTGCTACTGTTG
2706002 GTTGTTCATT
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
99 31 0.27
100 2 0.02
101 5 0.04
102 77 0.67
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.52
Consensus pattern (99 bp):
TAAACTGTTTAATTTGTTGCTACTGTTGATTTGTTTGTTTTGGTTGTTCATTCAGATTACTTCTA
TAAGGTTGTTAGATGTCTTTATTTACAGTTTAAA
Found at i:2707619 original size:24 final size:24
Alignment explanation
Indices: 2707592--2707643 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
2707582 CGTTCGTGAA
** *
2707592 CGTTCGGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTCATTTACGTT
2707616 CGTTCGGTTATGTTCATTTACGTT
1 CGTTCGGTTATGTTCATTTACGTT
2707640 CGTT
1 CGTT
2707644 TATTTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.54
Consensus pattern (24 bp):
CGTTCGGTTATGTTCATTTACGTT
Found at i:2708053 original size:32 final size:32
Alignment explanation
Indices: 2707996--2708057 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2707986 CAATATTTAT
* *
2707996 GTTCGTTTGTGTTTGTATTCATTTATGTTCAA
1 GTTCGTTTATGTTCGTATTCATTTATGTTCAA
* *
2708028 GTTCGTTTATGTTCGTGTTCGTTTATGTTC
1 GTTCGTTTATGTTCGTATTCATTTATGTTC
2708058 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.56
Consensus pattern (32 bp):
GTTCGTTTATGTTCGTATTCATTTATGTTCAA
Found at i:2708058 original size:16 final size:16
Alignment explanation
Indices: 2707995--2708059 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
2707985 CCAATATTTA
* *
2707995 TGTTCGTTTGTGTTTG
1 TGTTCGTTTATGTTCG
* * *
2708011 TATTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
*
2708027 AGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2708043 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2708059 T
1 T
2708060 TTATTTATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2708150 original size:16 final size:16
Alignment explanation
Indices: 2708129--2708161 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2708119 AAAAAAATTT
*
2708129 TGTTCGTTTATGTTCG
1 TGTTCGCTTATGTTCG
2708145 TGTTCGCTTATGTTCG
1 TGTTCGCTTATGTTCG
2708161 T
1 T
2708162 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGCTTATGTTCG
Found at i:2708527 original size:21 final size:21
Alignment explanation
Indices: 2708498--2708545 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
2708488 TCTAGTTGAA
*
2708498 TTTTAATTTATCT-ATTTCCTG
1 TTTTTATTTA-CTAATTTCCTG
*
2708519 TTTTTATTTACTAATTTCTTG
1 TTTTTATTTACTAATTTCCTG
2708540 TCTTTT
1 T-TTTT
2708546 GTTTTTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.17, C:0.12, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTATTTACTAATTTCCTG
Found at i:2709373 original size:14 final size:14
Alignment explanation
Indices: 2709356--2709400 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
2709346 TTGTTGCCTG
*
2709356 CTGCTTGCTGCTTG
1 CTGCTTGCTGCTTC
*
2709370 CTGCTTCCTGCTTC
1 CTGCTTGCTGCTTC
2709384 CTGC-TGCTTGCTTC
1 CTGCTTGC-TGCTTC
2709398 CTG
1 CTG
2709401 TTGTTGCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 2 0.07
14 25 0.93
ACGTcount: A:0.00, C:0.36, G:0.22, T:0.42
Consensus pattern (14 bp):
CTGCTTGCTGCTTC
Found at i:2709380 original size:21 final size:21
Alignment explanation
Indices: 2709356--2709400 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2709346 TTGTTGCCTG
*
2709356 CTGCTTGCTGCTTGC-TGCTTC
1 CTGCTTCCTGC-TGCTTGCTTC
2709377 CTGCTTCCTGCTGCTTGCTTC
1 CTGCTTCCTGCTGCTTGCTTC
2709398 CTG
1 CTG
2709401 TTGTTGCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.00, C:0.36, G:0.22, T:0.42
Consensus pattern (21 bp):
CTGCTTCCTGCTGCTTGCTTC
Found at i:2709395 original size:7 final size:7
Alignment explanation
Indices: 2709354--2709388 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
2709344 TGTTGTTGCC
2709354 TGCTGCT
1 TGCTGCT
2709361 TGCTGCT
1 TGCTGCT
2709368 TGCTGCT
1 TGCTGCT
*
2709375 TCCTGCT
1 TGCTGCT
*
2709382 TCCTGCT
1 TGCTGCT
2709389 GCTTGCTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.34, G:0.23, T:0.43
Consensus pattern (7 bp):
TGCTGCT
Found at i:2709983 original size:14 final size:14
Alignment explanation
Indices: 2709964--2710010 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2709954 ATTTTTTCTT
2709964 TATATAAATTAAAC
1 TATATAAATTAAAC
2709978 TATAT-AATT----
1 TATATAAATTAAAC
2709987 TATATAAATTAAAC
1 TATATAAATTAAAC
*
2710001 TATATTAATT
1 TATATAAATT
2710011 TTCCTTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:2709988 original size:23 final size:24
Alignment explanation
Indices: 2709962--2710011 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
2709952 TTATTTTTTC
2709962 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
2709985 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
2710009 TTT
1 TTT
2710012 TCCTTCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:2710282 original size:16 final size:16
Alignment explanation
Indices: 2710261--2710311 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
2710251 CGGATCATTT
*
2710261 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
2710277 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
* *
2710293 ACAAGTCGGGTTGAAA
1 ACAGGTCAGGTTGAAA
2710309 ACA
1 ACA
2710312 AGTCGGGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:2710312 original size:16 final size:16
Alignment explanation
Indices: 2710269--2710319 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
2710259 TTACAGGTCA
* * *
2710269 GGTTAAAAACAGGTCA
1 GGTTGAAAACAAGTCG
2710285 GGTTGAAAACAAGTCG
1 GGTTGAAAACAAGTCG
2710301 GGTTGAAAACAAGTCG
1 GGTTGAAAACAAGTCG
2710317 GGT
1 GGT
2710320 AATACCAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (16 bp):
GGTTGAAAACAAGTCG
Found at i:2711099 original size:146 final size:146
Alignment explanation
Indices: 2710846--2711220 Score: 412
Period size: 146 Copynumber: 2.6 Consensus size: 146
2710836 GATCTGGGCC
* * * * * * * * **
2710846 TCCGATCAACATTTCGAACGGTCAAACGTTGCGCAATGACAACACGAATAACATACTGAAAAATC
1 TCCGATCAACATTCCAAACGGTCAAAAGTTGTGCAAGGTCAACAAGAACAACATACTGAAATTTC
* * * * * *
2710911 AAGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGACGGTTTTTGACCTCTT
66 AGGACGATCGGACGGTGGACGGTGACGAATCGGAGAAAACAAATCCAGACAGTTTTTGACCTCTC
* *
2710976 GCCGGCGATCGAGATC-
131 CCCGGCGATCG-GAACG
** ** * * * *
2710992 TCCGATCAACATTTTAAACGGTGTAAAGTTTTTTC-ATGTCAACAAGAACAATATACTGAAATTT
1 TCCGATCAACATTCCAAACGGTCAAAAG-TTGTGCAAGGTCAACAAGAACAACATACTGAAATTT
* ** ** *
2711056 CAGGATGATCGGACGGTGGACGGTGGTGAATCGGAGAAAACAAATTTAGACAGTTTTTGGCCTCT
65 CAGGACGATCGGACGGTGGACGGTGACGAATCGGAGAAAACAAATCCAGACAGTTTTTGACCTCT
2711121 CCCCGGCGATCGGAACG
130 CCCCGGCGATCGGAACG
*
2711138 TCCGATCAACATTCCAAACGGTCAAAAGTTGTGCAAGGTCAACAAGAACAACATACTAAAATTTC
1 TCCGATCAACATTCCAAACGGTCAAAAGTTGTGCAAGGTCAACAAGAACAACATACTGAAATTTC
*
2711203 AGGACGATCGTACGGTGG
66 AGGACGATCGGACGGTGG
2711221 CATGGCAGCG
Statistics
Matches: 187, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
145 7 0.04
146 177 0.95
147 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (146 bp):
TCCGATCAACATTCCAAACGGTCAAAAGTTGTGCAAGGTCAACAAGAACAACATACTGAAATTTC
AGGACGATCGGACGGTGGACGGTGACGAATCGGAGAAAACAAATCCAGACAGTTTTTGACCTCTC
CCCGGCGATCGGAACG
Found at i:2711417 original size:29 final size:29
Alignment explanation
Indices: 2711368--2711502 Score: 125
Period size: 30 Copynumber: 4.6 Consensus size: 29
2711358 TTGATATTTT
2711368 AGTTTATGTTATTT--TATTTTAGTCAC-TTA
1 AGTTTATGTT-TTTGCTA-TTTAGTC-CTTTA
*
2711397 AGTTTCTGTTTTTGCTATTTATGTCCTTTA
1 AGTTTATGTTTTTGCTATTTA-GTCCTTTA
* *
2711427 AATTTATGTTTTAGCTATTTTAG-CCTTTA
1 AGTTTATGTTTTTGCTA-TTTAGTCCTTTA
* * *
2711456 GAGTTTATGTTTTTACCATTTAATCCTTTA
1 -AGTTTATGTTTTTGCTATTTAGTCCTTTA
*
2711486 AGTTCATGTTTTTGCTA
1 AGTTTATGTTTTTGCTA
2711503 GATCTATTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
28 3 0.03
29 38 0.44
30 42 0.48
31 4 0.05
ACGTcount: A:0.21, C:0.11, G:0.12, T:0.56
Consensus pattern (29 bp):
AGTTTATGTTTTTGCTATTTAGTCCTTTA
Found at i:2714815 original size:15 final size:15
Alignment explanation
Indices: 2714783--2714830 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2714773 GAAAGAAAAG
* *
2714783 AAAAGAACAATGATCA
1 AAAAGAA-AATAAACA
2714799 AAAAGAAAATAAACA
1 AAAAGAAAATAAACA
* *
2714814 AAGAGGAAATAAACA
1 AAAAGAAAATAAACA
2714829 AA
1 AA
2714831 GGAAAATGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.08
Consensus pattern (15 bp):
AAAAGAAAATAAACA
Found at i:2715735 original size:21 final size:20
Alignment explanation
Indices: 2715703--2715745 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2715693 AAACTTTTGA
2715703 TTAAACATTTTTCAAAATCTT
1 TTAAACATTTTTCAAAA-CTT
*
2715724 TTAATACA-TTTTCAGAACTT
1 TTAA-ACATTTTTCAAAACTT
2715744 TT
1 TT
2715746 GGAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAAACATTTTTCAAAACTT
Found at i:2715929 original size:32 final size:32
Alignment explanation
Indices: 2715893--2715966 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
2715883 GCATCTTTAA
*
2715893 AGATTCAACAGAAAATGTTGGGGCATATTTGG
1 AGATTCAACAGAAAATATTGGGGCATATTTGG
***
2715925 AGATTCAACATTGAATATTGGGGCATATTTGG
1 AGATTCAACAGAAAATATTGGGGCATATTTGG
*
2715957 GGATTCAACA
1 AGATTCAACA
2715967 TCCTGATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (32 bp):
AGATTCAACAGAAAATATTGGGGCATATTTGG
Found at i:2716312 original size:64 final size:64
Alignment explanation
Indices: 2716199--2716354 Score: 226
Period size: 64 Copynumber: 2.5 Consensus size: 64
2716189 TGATGGATGC
** *
2716199 TCAACTTCACAGCGAAGGAGCGTT-T-GTCAACAAACAACTTTCCAATTTCATTCAGAGTCAATT
1 TCAACTTCACAGCGAAGGA-TATTGTACTCAACAAACAACTTTCCAATTTCATTCAGAGTCAATT
* *
2716262 TCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTTCAATTTCATTCAGAGTCAATT
1 TCAACTTCACAGCGAAGGATATTGTACTCAACAAACAACTTTCCAATTTCATTCAGAGTCAATT
* *
2716326 TCAACTTCACAGCAAAGGATATTGAACTC
1 TCAACTTCACAGCGAAGGATATTGTACTC
2716355 GAAACGACAC
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
62 2 0.02
63 20 0.24
64 62 0.74
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (64 bp):
TCAACTTCACAGCGAAGGATATTGTACTCAACAAACAACTTTCCAATTTCATTCAGAGTCAATT
Found at i:2716608 original size:43 final size:43
Alignment explanation
Indices: 2716560--2716643 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
2716550 CGAAGGGGCT
2716560 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACGG
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACGG
* *
2716603 ATCCACGATTTCAACTCCACGATGGAGGATATCGTGCCCAC
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCAC
2716644 ACAACCACAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.20
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACGG
Found at i:2716658 original size:43 final size:42
Alignment explanation
Indices: 2716562--2716690 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
2716552 AAGGGGCTAT
* * * *
2716562 CCACGATTTCAACTCCACGACGGAGGATATCGTACCCACGGAT
1 CCACGATTTCAACTCCACGATGGAGGATATCGTGCCCAC-CAA
2716605 CCACGATTTCAACTCCACGATGGAGGATATCGTGCCCACACAA
1 CCACGATTTCAACTCCACGATGGAGGATATCGTGCCCAC-CAA
* * *
2716648 CCAC-AGTTTCAACTTCACGATGAAGGGA-ATCGTGTCCACCAA
1 CCACGA-TTTCAACTCCACGATGGA-GGATATCGTGCCCACCAA
2716690 C
1 C
2716691 AAAATACAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.07
43 68 0.89
44 3 0.04
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (42 bp):
CCACGATTTCAACTCCACGATGGAGGATATCGTGCCCACCAA
Found at i:2716804 original size:206 final size:206
Alignment explanation
Indices: 2716443--2717010 Score: 764
Period size: 206 Copynumber: 2.7 Consensus size: 206
2716433 AAGGGGTCAT
* * ** *
2716443 CCACAGTTTCAACTTCATGATGAAGGGAATCGTGTTCACCCGTAACATACAATACTTAGATTTCA
1 CCACAGTTTCAACTTCACGATGAAGGGAATCGTGTACACCAATAAAATACAATACTTAGATTTCA
* * * *
2716508 ACTTCATGACGAA-GATATTCAAGTCAAGGCTCAACTTCATGACGAAGGGGCTATCCACGATTTC
66 ACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAAGGGCCATCCACGATTTC
* **
2716572 AACTCCACGACGGAGGATATCGTACCCACGGATCCACGATTTCAACTCCACGATGGAGGATATCG
131 AACTCCACGACGGAGGATATCGTACCCACGGATCCACGATTTCAACTCCACAACAGAGGATATCG
2716637 TGCCCACACAA
196 TGCCCACACAA
* * *
2716648 CCACAGTTTCAACTTCACGATGAAGGGAATCGTGTCCACCAACAAAATACAATACTTGGATTTCA
1 CCACAGTTTCAACTTCACGATGAAGGGAATCGTGTACACCAATAAAATACAATACTTAGATTTCA
*
2716713 ACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACAAAAGGGCCATCCACGATTTC
66 ACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAAGGGCCATCCACGATTTC
*
2716778 AACTCCACGACGGAGGATATCGTACCCATGGATCCACGATTTCAACTCCACAACAGAGGATATCG
131 AACTCCACGACGGAGGATATCGTACCCACGGATCCACGATTTCAACTCCACAACAGAGGATATCG
* *
2716843 TGCCTACACAT
196 TGCCCACACAA
* * ** *
2716854 CCACAGTTTCAACTTCACGACGAAGGGAATC--GTACACACAAGTAACATTCATCTTTAAATTAG
1 CCACAGTTTCAACTTCACGATGAAGGGAATCGTGTACAC-CAA-TAA-AAT-A-CAAT-ACTTAG
* * * * * *
2716917 ATTTCAACTTCACGATGAAGGATATACAATTCGAGGCTCGACTTCACGACGAATGGGCCATCCAC
60 ATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAAGGGCCATCCAC
* * *
2716982 GATTTCAACTTCACGATGAAGGATATCGT
125 GATTTCAACTCCACGACGGAGGATATCGT
2717011 GTCCATCAGC
Statistics
Matches: 320, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
204 5 0.02
205 73 0.23
206 149 0.47
207 2 0.01
208 1 0.00
209 2 0.01
210 88 0.28
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (206 bp):
CCACAGTTTCAACTTCACGATGAAGGGAATCGTGTACACCAATAAAATACAATACTTAGATTTCA
ACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAAGGGCCATCCACGATTTC
AACTCCACGACGGAGGATATCGTACCCACGGATCCACGATTTCAACTCCACAACAGAGGATATCG
TGCCCACACAA
Found at i:2716856 original size:43 final size:43
Alignment explanation
Indices: 2716765--2716867 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
2716755 ACAAAAGGGC
* * **
2716765 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCATG
1 CATCCACGATTTCAACTCCACAACAGAGGATATCGTACCCACA
* * *
2716808 GATCCACGATTTCAACTCCACAACAGAGGATATCGTGCCTACA
1 CATCCACGATTTCAACTCCACAACAGAGGATATCGTACCCACA
2716851 CATCCAC-AGTTTCAACT
1 CATCCACGA-TTTCAACT
2716868 TCACGACGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACAACAGAGGATATCGTACCCACA
Found at i:2717071 original size:124 final size:124
Alignment explanation
Indices: 2716851--2717104 Score: 363
Period size: 124 Copynumber: 2.0 Consensus size: 124
2716841 CGTGCCTACA
*
2716851 CATCCACAGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGTAACATTCATCTTTAAATTA
1 CATCCACAGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAAATTA
* * *
2716916 GATTTCAACTTCACGATGAAGGATATACAATTCGAGGCTCGACTTCACGACGAATGGGC
66 GATTTCAACTTCACGACGAAGAATATACAATTCGAGGCTCGACTTCACGACGAAGGGGC
* *
2716975 CATCCAC-GATTTCAACTTCACGATGAA-GGATATCGTGTC-CATC-AGCAACATTCATCTTTAA
1 CATCCACAG-TTTCAACTTCACGACGAAGGGA-ATCGT-ACACA-CAAGCAACATTCATCTTTAA
* * *
2717036 ATTGGATTTCAACTTCACGACGAATAATATCCAATTCGAGGCTCGACTTCACGACGAAGGGGC
62 ATTAGATTTCAACTTCACGACGAAGAATATACAATTCGAGGCTCGACTTCACGACGAAGGGGC
2717099 CATCCA
1 CATCCA
2717105 TGAAATAAAT
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
123 4 0.03
124 111 0.95
125 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (124 bp):
CATCCACAGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAAATTA
GATTTCAACTTCACGACGAAGAATATACAATTCGAGGCTCGACTTCACGACGAAGGGGC
Found at i:2717465 original size:84 final size:84
Alignment explanation
Indices: 2717324--2717577 Score: 409
Period size: 84 Copynumber: 3.0 Consensus size: 84
2717314 CATCCCTAAT
** *
2717324 GATGACCTGCCATCCTCATCACGTAGGAACTATGTCATCACCTGACCTGATCTCCTCATCACGTA
1 GATGACCTGCCATCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTA
*
2717389 GGAGTCATGTCAACCCTTA
66 GGAGTCGTGTCAACCCTTA
2717408 GATGACCTGCCATCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTA
1 GATGACCTGCCATCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTA
2717473 GGAGTCGTGTCAACCCTTA
66 GGAGTCGTGTCAACCCTTA
* * * * * * *
2717492 GATGACCTGCCGTCCTCACCATGTAGGAATCGTGTCATCACCCGATCTGACCTCCTCGTCACGTA
1 GATGACCTGCCATCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTA
2717557 GGAGTCGTGTCAACCCTTA
66 GGAGTCGTGTCAACCCTTA
2717576 GA
1 GA
2717578 CGATCCGATC
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 159 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (84 bp):
GATGACCTGCCATCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTA
GGAGTCGTGTCAACCCTTA
Found at i:2717482 original size:40 final size:40
Alignment explanation
Indices: 2717327--2717568 Score: 167
Period size: 40 Copynumber: 5.8 Consensus size: 40
2717317 CCCTAATGAT
* * *
2717327 GACCTG-CCATCCTCATCACGTAGGA-ACTATGTCATCACCT
1 GACCTGACC-TCCTCATCACGTAGGAGTC-GTGTCATCACCC
* *
2717367 GACCTGATCTCCTCATCACGTAGGAGTCATGTCA--ACCC
1 GACCTGACCTCCTCATCACGTAGGAGTCGTGTCATCACCC
**
2717405 TTAGATGACCTG-CCATCCTCATCACGTAGGAACCGTGTCATCACCC
1 ------GACCTGACC-TCCTCATCACGTAGGAGTCGTGTCATCACCC
*
2717451 GACCTGATCTCCTCATCACGTAGGAGTCGTGTCA--ACCC
1 GACCTGACCTCCTCATCACGTAGGAGTCGTGTCATCACCC
* * *
2717489 TTAGATGACCTG-CCGTCCTCACCATGTAGGAATCGTGTCATCACCC
1 ------GACCTGACC-TCCTCATCACGTAGGAGTCGTGTCATCACCC
* *
2717535 GATCTGACCTCCTCGTCACGTAGGAGTCGTGTCA
1 GACCTGACCTCCTCATCACGTAGGAGTCGTGTCA
2717569 ACCCTTAGAC
Statistics
Matches: 161, Mismatches: 19, Indels: 44
0.72 0.08 0.20
Matches are distributed among these distances:
38 7 0.04
40 83 0.52
41 5 0.03
43 2 0.01
44 56 0.35
46 8 0.05
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (40 bp):
GACCTGACCTCCTCATCACGTAGGAGTCGTGTCATCACCC
Found at i:2719111 original size:17 final size:17
Alignment explanation
Indices: 2719091--2719142 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
2719081 GGAAGTCAAC
2719091 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
2719108 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
2719125 GGT---CAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
2719139 GGTC
1 GGTC
2719143 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.41
17 20 0.59
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.19
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:2719124 original size:5 final size:5
Alignment explanation
Indices: 2719116--2719152 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
2719106 CGGGTCAACA
*
2719116 GTCGG GTCGG GTC-A GTCGG GTCGG GTCGG GTCGG GTC
1 GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG GTC
2719153 AGACCGGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.03, C:0.22, G:0.54, T:0.22
Consensus pattern (5 bp):
GTCGG
Found at i:2719161 original size:24 final size:24
Alignment explanation
Indices: 2719116--2719161 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2719106 CGGGTCAACA
* *
2719116 GTCGGGTCGGGTCAGTCGGGTCGG
1 GTCGGGTCGGGTCAGACCGGTCGG
2719140 GTCGGGTCGGGTCAGACCGGTC
1 GTCGGGTCGGGTCAGACCGGTC
2719162 AAATCGGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.07, C:0.24, G:0.50, T:0.20
Consensus pattern (24 bp):
GTCGGGTCGGGTCAGACCGGTCGG
Found at i:2719168 original size:19 final size:19
Alignment explanation
Indices: 2719146--2719229 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
2719136 TCGGGTCGGG
*
2719146 TCGGGTCAGACCGGTCAAA
1 TCGGTTCAGACCGGTCAAA
*
2719165 TCGGTTCAGACCAGTCAAA
1 TCGGTTCAGACCGGTCAAA
2719184 -CTGGTTCAGACCGGTCAGAA
1 TC-GGTTCAGACCGGTCA-AA
* * *
2719204 CCGGTTGAAAACCGGTCAAA
1 TCGGTT-CAGACCGGTCAAA
*
2719224 CCGGTT
1 TCGGTT
2719230 TCCAACTATC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
18 1 0.02
19 31 0.55
20 14 0.25
21 10 0.18
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.19
Consensus pattern (19 bp):
TCGGTTCAGACCGGTCAAA
Found at i:2719168 original size:24 final size:24
Alignment explanation
Indices: 2719108--2719168 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
2719098 AGTCGGGTCG
* *
2719108 GGTCAACAGTCGGGTCGGGTCAGTCG
1 GGTCAA-A-TCGGGTCGGGTCAGACC
***
2719134 GGTCGGGTCGGGTCGGGTCAGACC
1 GGTCAAATCGGGTCGGGTCAGACC
2719158 GGTCAAATCGG
1 GGTCAAATCGG
2719169 TTCAGACCAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
24 23 0.85
26 4 0.15
ACGTcount: A:0.15, C:0.23, G:0.44, T:0.18
Consensus pattern (24 bp):
GGTCAAATCGGGTCGGGTCAGACC
Found at i:2719226 original size:9 final size:9
Alignment explanation
Indices: 2719149--2719228 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
2719139 GGTCGGGTCG
*
2719149 GGTCAGACC
1 GGTCAAACC
*
2719158 GGTCAAATC
1 GGTCAAACC
*
2719167 GGTTCAGACC
1 GG-TCAAACC
* *
2719177 AGTCAAACT
1 GGTCAAACC
*
2719186 GGTTCAGACC
1 GG-TCAAACC
2719196 GGTCAGAACC
1 GGTCA-AACC
*
2719206 GGTTGAAAACC
1 GG-T-CAAACC
2719217 GGTCAAACC
1 GGTCAAACC
2719226 GGT
1 GGT
2719229 TTCCAACTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
9 26 0.49
10 19 0.36
11 7 0.13
12 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2725715 original size:17 final size:17
Alignment explanation
Indices: 2725687--2725744 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
2725677 AACGGTCAAC
2725687 GGTCGCGGTCAACAGTCG
1 GGTCG-GGTCAACAGTCG
2725705 GGTCGGGTCAAC-GATCG
1 GGTCGGGTCAACAG-TCG
*
2725722 GGTCAGGT---CAGTCG
1 GGTCGGGTCAACAGTCG
2725736 GGTCGGGTC
1 GGTCGGGTC
2725745 GGGTCGGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 1 0.03
17 17 0.49
18 5 0.14
ACGTcount: A:0.14, C:0.24, G:0.43, T:0.19
Consensus pattern (17 bp):
GGTCGGGTCAACAGTCG
Found at i:2725798 original size:19 final size:19
Alignment explanation
Indices: 2725749--2725794 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2725739 CGGGTCGGGT
2725749 CGGTTCAGACCGATCAAAC
1 CGGTTCAGACCGATCAAAC
2725768 CGGTTCAGACCGATCAAAC
1 CGGTTCAGACCGATCAAAC
2725787 CGG-TCAGA
1 CGGTTCAGA
2725795 ACCGGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.15
Consensus pattern (19 bp):
CGGTTCAGACCGATCAAAC
Found at i:2726676 original size:3 final size:3
Alignment explanation
Indices: 2726670--2726707 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2726660 ACATTATTAG
2726670 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
2726708 CTAATTAATA
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:2726950 original size:3 final size:3
Alignment explanation
Indices: 2726942--2726968 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2726932 ACGGGGGGAG
2726942 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
2726969 AACCCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:2731513 original size:139 final size:141
Alignment explanation
Indices: 2731199--2731561 Score: 382
Period size: 139 Copynumber: 2.6 Consensus size: 141
2731189 CGATTTGGGC
* * * * **
2731199 CTCCGATCGACATCCCAAACGGTCAAAAGTTGTGCAATGACAACACGAACAACATACTGAAAAAT
1 CTCCAATCAACATTCCAAACGGTCAAAAGTTGTGCAATGTCAACACGAACAACATACTGAAATTT
* *
2731264 CA-AGACGATTGGACGGTGGACGGTGATGGATCAGAGAAAACAAATCTGGATGATTTTTGGCCTC
66 CAGA-ACGATCGGAC---GGACGGTGA--GATCAGAGAAAACAAATCTGGACGATTTTTGGCCTC
*
2731328 TTGCCAACGATCGGGAT
125 TCGCCAACGATCGGGAT
*
2731345 CTCCGATCAACATTCCAAACAGCGT--AAAGTTGTGTC-ATGTCAACACGAACAACATACTGAAA
1 CTCCAATCAACATTCCAAAC-G-GTCAAAAGTTGTG-CAATGTCAACACGAACAACATACTGAAA
* * *
2731407 TTTTAGAACGATCGGAC-GATGGTGA-ATCGGAGAAAACAAAT-TCGGACGATTTTTGGCCTCTC
63 TTTCAGAACGATCGGACGGACGGTGAGATCAGAGAAAACAAATCT-GGACGATTTTTGGCCTCTC
**
2731469 GCCGGCGATCGGGA-
127 GCCAACGATCGGGAT
* * * * *
2731483 CTTCCAATCAACATTTCGAACGGTCAAAAGTTGCGCAAGGTCAACAAGAACAACATACTGAAATT
1 C-TCCAATCAACATTCCAAACGGTCAAAAGTTGTGCAATGTCAACACGAACAACATACTGAAATT
*
2731548 TCAGAATGATCGGA
65 TCAGAACGATCGGA
2731562 TGGTGACATG
Statistics
Matches: 187, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 2 0.01
138 4 0.02
139 106 0.57
142 7 0.04
146 63 0.34
147 3 0.02
148 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (141 bp):
CTCCAATCAACATTCCAAACGGTCAAAAGTTGTGCAATGTCAACACGAACAACATACTGAAATTT
CAGAACGATCGGACGGACGGTGAGATCAGAGAAAACAAATCTGGACGATTTTTGGCCTCTCGCCA
ACGATCGGGAT
Found at i:2731720 original size:29 final size:28
Alignment explanation
Indices: 2731688--2731752 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
2731678 TGAATATATA
* *
2731688 TGTTTTTCTGATTTT-GACACTTTAGTTTT
1 TGTTTTT-T-ATTTTAGACACTTAAGTTTC
*
2731717 TGTTATTTTATTTTAGTCACTTAAGTTTC
1 TGTT-TTTTATTTTAGACACTTAAGTTTC
2731746 TGTTTTT
1 TGTTTTT
2731753 GCTATTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.26
29 20 0.65
30 3 0.10
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.63
Consensus pattern (28 bp):
TGTTTTTTATTTTAGACACTTAAGTTTC
Found at i:2731780 original size:30 final size:29
Alignment explanation
Indices: 2731728--2731789 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
2731718 GTTATTTTAT
* * *
2731728 TTTAGTCACTTAAGTTTCTGTTTTTGCTA
1 TTTAGTCACTTAAATTTATGTTTTAGCTA
*
2731757 TTTATGTCATTTAAATTTATGTTTTAGCTA
1 TTTA-GTCACTTAAATTTATGTTTTAGCTA
2731787 TTT
1 TTT
2731790 TAGCCTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (29 bp):
TTTAGTCACTTAAATTTATGTTTTAGCTA
Found at i:2737692 original size:4 final size:4
Alignment explanation
Indices: 2737683--2737716 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
2737673 AGGAAAATGG
2737683 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
2737717 AATGGTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:2738098 original size:2 final size:2
Alignment explanation
Indices: 2738091--2738117 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2738081 TTTAATTAAG
2738091 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2738118 ATTTGAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2738292 original size:14 final size:15
Alignment explanation
Indices: 2738251--2738296 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2738241 AATTACTAGA
2738251 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
* **
2738266 ACAGGAATTTGAATT
1 ACTGGAAAATGAATT
2738281 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
2738295 AC
1 AC
2738297 ATTTATGGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:2738560 original size:31 final size:33
Alignment explanation
Indices: 2738516--2738580 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 33
2738506 ATTAAATATT
*
2738516 ATTTTTATAATTTTA-T-TAATAAAA-ATAATA
1 ATTTTTATAATTTTAGTGAAATAAAATATAATA
*
2738546 ATTTTTGTATATTTTAGTGAAATAAAATATAATA
1 ATTTTTATA-ATTTTAGTGAAATAAAATATAATA
2738580 A
1 A
2738581 AATATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 8 0.28
31 6 0.21
32 1 0.03
33 7 0.24
34 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (33 bp):
ATTTTTATAATTTTAGTGAAATAAAATATAATA
Found at i:2738653 original size:23 final size:23
Alignment explanation
Indices: 2738609--2738671 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
2738599 AGTGTTATAT
* *
2738609 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAATATATTAATTAA
* *
2738632 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAATATATTAATTAA
*
2738655 AATATTATTAAATATAT
1 TATATT-TTAAATATAT
2738672 AATAGTATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATTTTAAATATATTAATTAA
Found at i:2738664 original size:11 final size:12
Alignment explanation
Indices: 2738609--2738671 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 12
2738599 AGTGTTATAT
2738609 TATATT-TTAAA
1 TATATTATTAAA
* *
2738620 AATATTAATT-AG
1 TATATT-ATTAAA
2738632 TATATT-TTAAA
1 TATATTATTAAA
*
2738643 TATCTTTATTAAA
1 TAT-ATTATTAAA
2738656 -ATATTATTAAA
1 TATATTATTAAA
2738667 TATAT
1 TATAT
2738672 AATAGTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
10 2 0.05
11 17 0.43
12 14 0.35
13 7 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TATATTATTAAA
Found at i:2738787 original size:14 final size:14
Alignment explanation
Indices: 2738768--2738807 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2738758 GATTATTTTA
2738768 TATAATATTAAAAT
1 TATAATATTAAAAT
**
2738782 TATAATATTATTAT
1 TATAATATTAAAAT
2738796 TATAAATATTAA
1 TAT-AATATTAA
2738808 TAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATAATATTAAAAT
Found at i:2738817 original size:29 final size:29
Alignment explanation
Indices: 2738749--2738817 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
2738739 TATTTATTAT
2738749 AATATAATTGATTATTTTATATAATATTAAA
1 AATATAA-T-ATTATTTTATATAATATTAAA
*
2738780 ATTATAATATTATTATTATA-AATATTAATA
1 AATATAATATTATT-TTATATAATATTAA-A
2738810 AATA-AATA
1 AATATAATA
2738818 AATAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 18 0.53
30 10 0.29
31 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AATATAATATTATTTTATATAATATTAAA
Found at i:2739058 original size:42 final size:42
Alignment explanation
Indices: 2739004--2739119 Score: 162
Period size: 42 Copynumber: 2.8 Consensus size: 42
2738994 ATTACATTCA
* *
2739004 GGAAAACCAATTACGTAAAACAAACAC-AGGAAAACATTTTTC
1 GGAAAACGAATTACGTAAAACAAAAACGA-GAAAACATTTTTC
* *
2739046 GGAAAACGAATTACGTAAAATAAAAACGAGAAAATATTTTTC
1 GGAAAACGAATTACGTAAAACAAAAACGAGAAAACATTTTTC
* *
2739088 GGAAAACGAATTACGTGAAACAAATACGAGAA
1 GGAAAACGAATTACGTAAAACAAAAACGAGAA
2739120 TTCAGGGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 65 0.98
43 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.19
Consensus pattern (42 bp):
GGAAAACGAATTACGTAAAACAAAAACGAGAAAACATTTTTC
Found at i:2740182 original size:24 final size:25
Alignment explanation
Indices: 2740146--2740208 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
2740136 TTAAATTTAT
*
2740146 AATA-TTTTATATATTAACTTA-GA
1 AATATTTTTTTATATTAACTTATGA
* *
2740169 AATATTTTTTTATATTCACTTATTA
1 AATATTTTTTTATATTAACTTATGA
2740194 AATATATTTTATTAT
1 AATAT-TTTT-TTAT
2740209 CAACTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 15 0.45
25 6 0.18
26 4 0.12
27 4 0.12
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (25 bp):
AATATTTTTTTATATTAACTTATGA
Found at i:2753448 original size:15 final size:15
Alignment explanation
Indices: 2753424--2753454 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2753414 AACACCTTTG
*
2753424 GTTTAGATAACGAGA
1 GTTTAAATAACGAGA
2753439 GTTTAAATAACGAGA
1 GTTTAAATAACGAGA
2753454 G
1 G
2753455 AGAGATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (15 bp):
GTTTAAATAACGAGA
Found at i:2775274 original size:16 final size:16
Alignment explanation
Indices: 2775250--2775281 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2775240 CATCGCCAAC
*
2775250 CAAATTTTACTATTCA
1 CAAAATTTACTATTCA
2775266 CAAAATTTACTATTCA
1 CAAAATTTACTATTCA
2775282 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
CAAAATTTACTATTCA
Found at i:2776578 original size:16 final size:16
Alignment explanation
Indices: 2776557--2776589 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2776547 CCTCTTGCTC
2776557 TCATTAGAATATTAGA
1 TCATTAGAATATTAGA
2776573 TCATTAGAATATTAGA
1 TCATTAGAATATTAGA
2776589 T
1 T
2776590 TGATCATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TCATTAGAATATTAGA
Found at i:2789827 original size:61 final size:62
Alignment explanation
Indices: 2789730--2789853 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 62
2789720 TTTTATATAA
2789730 TTTATGTTGATATGCATCTGAGGAATTATTGGAAGTTGAATTGAAGATCAAAGGCGTTTGAAT
1 TTTATGTTGA-ATGCATCTGAGGAATTATTGGAAGTTGAATTGAAGATCAAAGGCGTTTGAAT
2789793 TTTATGTTG-ATGCATCTGAGGAATTATTGGAAGTTGAATTGAAGATCAAAGGCGTTTGAAT
1 TTTATGTTGAATGCATCTGAGGAATTATTGGAAGTTGAATTGAAGATCAAAGGCGTTTGAAT
2789854 GGAATTTTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 52 0.85
63 9 0.15
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (62 bp):
TTTATGTTGAATGCATCTGAGGAATTATTGGAAGTTGAATTGAAGATCAAAGGCGTTTGAAT
Found at i:2791921 original size:57 final size:57
Alignment explanation
Indices: 2791835--2792176 Score: 533
Period size: 57 Copynumber: 6.0 Consensus size: 57
2791825 AGTTGGAGGA
**
2791835 GAATACTTGCAGG-TCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGAA
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* *
2791891 GAATACTTGCATGTTCCTCAGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
2791948 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
*
2792005 GAATACTTTCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * *
2792062 GATTACTTACAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTTGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * ** * * * *
2792119 GATTACTTGCAGATTCCTTAGCTTTGTGCTCAGGGCCTTACTATTCATGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
2792176 G
1 G
2792177 TATGGTTATG
Statistics
Matches: 266, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
56 12 0.05
57 254 0.95
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
Found at i:2792662 original size:23 final size:23
Alignment explanation
Indices: 2792636--2792683 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2792626 ATAAAGTACA
*
2792636 ATAACATACTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
** *
2792659 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
2792682 AT
1 AT
2792684 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:2793196 original size:23 final size:23
Alignment explanation
Indices: 2793167--2793223 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
2793157 ATATAACACT
2793167 ACCTATTACATTATATAAACGAA
1 ACCTATTACATTATATAAACGAA
* **
2793190 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAACGAA
2793213 ACCTATTACAT
1 ACCTATTACAT
2793224 CATTTTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGAA
Found at i:2793604 original size:22 final size:22
Alignment explanation
Indices: 2793577--2793647 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
2793567 GATACTTTAC
2793577 ATATAACCACTACTATTACATT
1 ATATAACCACTACTATTACATT
*
2793599 ATATAAACGA-TACTATTACATT
1 ATAT-AACCACTACTATTACATT
* * *
2793621 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTA-CTATTACATT
2793644 ATAT
1 ATAT
2793648 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.05
22 22 0.54
23 17 0.41
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACCACTACTATTACATT
Found at i:2793641 original size:23 final size:22
Alignment explanation
Indices: 2793587--2793647 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
2793577 ATATAACCAC
2793587 TACTATTACATTATATAAACGA
1 TACTATTACATTATATAAACGA
* *
2793609 TACTATTACATTATATAAGCGC
1 TACTATTACATTATATAAACGA
*
2793631 TACCTATTACATCATAT
1 TA-CTATTACATTATAT
2793648 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (22 bp):
TACTATTACATTATATAAACGA
Found at i:2794043 original size:23 final size:23
Alignment explanation
Indices: 2794015--2794074 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
2794005 TATAACACTA
2794015 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
* *
2794038 CTATTACATTATATAAGCGCTAC
1 CTATTACATTATATAAACGATAC
*
2794061 CTATTACATCATAT
1 CTATTACATTATAT
2794075 TTTACCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:2794267 original size:22 final size:26
Alignment explanation
Indices: 2794232--2794282 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
2794222 ATTATTTTAT
*
2794232 TATTTTGATATTTT-A-TAA-AATAA
1 TATTTAGATATTTTAATTAATAATAA
2794255 TATTTAGA-ATTTTAATTAATAATAA
1 TATTTAGATATTTTAATTAATAATAA
2794280 TAT
1 TAT
2794283 ATATCGTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.21
23 8 0.33
24 3 0.12
25 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TATTTAGATATTTTAATTAATAATAA
Found at i:2794462 original size:23 final size:23
Alignment explanation
Indices: 2794436--2794498 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2794426 CTATAACAAC
2794436 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2794459 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2794482 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2794499 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2794549 original size:425 final size:428
Alignment explanation
Indices: 2792994--2795609 Score: 4379
Period size: 425 Copynumber: 6.2 Consensus size: 428
2792984 ATGTTTATTG
2792994 TTTTTAATT--TAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTAATAATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
2793057 AAA-TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAAG
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
2793121 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAA-CACTACCTATTACATTATATAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTAC-ATATAACCACTA-CTATTACATTATATAA
*
2793185 ACGAAACCTATTACATTATATAAGCGCTACCTATTACATC--ATTTTTACCTATTATATTGAAAG
193 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
2793248 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
258 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
2793313 TTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAA
323 TTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
2793377 ATTA-TTGATTG-TTTGATATTTTATAAAATAATATTTAGAA
387 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
2793417 TTTTTAATTTAATAAAAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAA-TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
2793481 --ATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATG-TTTCCACAG-GAAAAAAA
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAA
*
2793541 GTATAGACACTTTTATAAAAATGATAGATACTTTACATATAACCACTACTATTACATTATATAAA
129 GTATAGACACTTTTATAAAAAGGATAGATACTTTACATATAACCACTACTATTACATTATATAAA
*
2793606 CGATA-CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAGGT
194 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
2793670 GTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
259 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
*
2793734 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACACAAAAAAT
324 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
2793799 TATTTGATTGTTTTGATA-TTTATAAAAATAATA-TTAGAA
389 TATTTGATTGTTTTGATATTTTAT-AAAATAATATTTAGAA
*
2793838 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA-GAATCATTAGACGCCTATAATTACT
1 TTTTTAA-TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
2793902 AAATTAATATCTTAAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAA
65 AAATTAATATCTT-AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
2793967 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAA-CACTACTATTACATTATATAA
129 GTATAGACACTTTTATAAAAAGGATAGATACTTTAC-ATATAACCACTACTATTACATTATATAA
2794031 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAG
193 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
2794095 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTAATTT
258 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
2794160 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAA-TTCATTTGCACAAAAAA
323 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
2794223 TTATTTTATTATTTTGATATTTTATAAAATAATATTTAGAA
388 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
2794264 -TTTTAATTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
2794328 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAG
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAAG
*
2794393 TATAGACACTTTTAT-AAAAGGATAGATACTTTAC-TATAACAACTACCTATTACATTATATAAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTACATATAACCACTA-CTATTACATTATATAAA
2794456 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
194 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
*
2794521 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTG
259 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
*
2794585 TTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
324 TTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
2794649 -TATTTGATTGTTTTGATATTTTAT-AAATAATATTTAGAA
388 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
2794688 TTTTTAATTTAATAATAATATATA-CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAA-TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
2794752 AAATT-ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG-GAAAAAAA
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAA
*
2794815 GTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACTATTACATTATATAA
129 GTATAGACACTTTTATAAAAAGGATAGATACTTTAC-ATATAACCACTACTATTACATTATATAA
*
2794880 ACGATACCTATTACATTATATAAG-GCTACCTATTACATCATA-TTTTACCTATTATATTGAAGG
193 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
2794943 TGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
258 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
2795007 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACAC-AAAAA
323 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
2795071 TTA-TTGATTGTTTTGATA-TTTATAAAATAATA-TTAGAA
388 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
2795109 TTTTT--TT-ATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
2795171 AATTAATATCTTAAAAACTCACTCAAAAGATAACCTT--A--AA-----T-CACAGTGAAAAAAG
66 AATTAATATCTT-AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
2795226 TATAGACAC-TTTATAAAAAGGATAGATACTTTACA-ATAACCACTACCTATTACA-T-TATAAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTACATATAACCACTA-CTATTACATTATATAAA
*
2795287 CCATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
194 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
*
2795352 GTCCATACTTTTTATAAAAAAGATCGATACTT-TGTTTAAAG-TATGTAATTTATGTTTCAATTT
259 GTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATTT
*
2795415 TTTTTAATAGTGTTTCATGTTTTCCACCTACACTATTAATTTAATAATTTCATTTACACAAAAAA
323 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
2795480 ATTATTTGA-TGTTTTGATATTTTATAAAATAATATTTAGAA
387 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
2795521 -TTTTAATT--TAATAATAATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTAATAATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
2795583 AAATTAATATCTTAAAACTCACTCAAA
65 AAATTAATATCTTAAAACTCACTCAAA
2795610 GATGTATATA
Statistics
Matches: 2098, Mismatches: 37, Indels: 127
0.93 0.02 0.06
Matches are distributed among these distances:
406 28 0.01
407 29 0.01
408 118 0.06
409 53 0.03
410 39 0.02
411 24 0.01
412 27 0.01
413 61 0.03
416 2 0.00
417 13 0.01
418 47 0.02
419 42 0.02
420 170 0.08
421 175 0.08
422 130 0.06
423 152 0.07
424 331 0.16
425 349 0.17
426 176 0.08
427 132 0.06
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (428 bp):
TTTTTAATTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATAGACACTTTTATAAAAAGGATAGATACTTTACATATAACCACTACTATTACATTATATAAACG
ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:2794703 original size:847 final size:850
Alignment explanation
Indices: 2792994--2795609 Score: 4503
Period size: 847 Copynumber: 3.1 Consensus size: 850
2792984 ATGTTTATTG
2792994 TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
1 TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
2793059 A-TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAAGTA
66 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAAGTA
2793123 TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACACTACCTATTACATTATATAAACG
131 TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACACTA-CTATTACATTATATAAACG
*
2793188 AAACCTATTACATTATATAAGCGCTACCTATTACATCAT-TTTTACCTATTATATTGAAAGTGTC
195 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTGTC
2793252 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
260 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
2793317 TAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
325 TAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
* *
2793381 TTGATTGTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAAAATATATATCGTA
389 TTGATTTTTTGATATTTTATAAAATAATATTTAGAA-TTTTAA-TTAATAATAATATATATCGTA
2793446 ACGT-AAAAATAAATCATTAGACGCCTATAATTACT--ATTAATATCTTAAAACTCACTC-AAAG
452 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
*
2793507 ATAACCTTAAATTAATGTTTCCACAG-GAAAAAAAGTATAGACACTTTTATAAAAATGATAGATA
517 ATAACCTTAAATTAATGTTTCCACAGTGAAAAAAAGTATAGACACTTTTATAAAAAGGATAGATA
2793571 CTTTACATATAACCACTA-CTATTACATTATATAAACGATA-CTATTACATTATATAAGCGCTAC
582 CTTTAC-TATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
2793634 CTATTACATCATATTTTTACCTATTATATTGAAGGTGTCCATAC-TTTTATAAAAAGGATCGATA
646 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
2793698 CTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
711 CTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
* *
2793763 CAATATTAATTTAATAATTTTATTTACACAAAAAATTATTTGATTGTTTTGATATTTATAAAAAT
776 CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT-TATAAAT
2793828 AATA-TTAGAA
840 AATATTTAGAA
*
2793838 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA-GAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
2793902 AAATTAATATCTTAAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAA
64 AAATTAATATCTT-AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAA
2793967 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACACTACTATTACATTATATAAA
128 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACACTACTATTACATTATATAAA
2794032 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTG
193 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTG
*
2794097 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTAATTTTT
258 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
2794162 TTTAATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAA-TTCATTTGCACAAAAAATT
323 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
*
2794225 ATTTTATTATTTTGATATTTTATAAAATAATATTTAGAATTTTAATTAATAATAATATATATCGT
388 A-TTGATT-TTTTGATATTTTATAAAATAATATTTAGAATTTTAATTAATAATAATATATATCGT
2794290 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
451 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
2794355 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAGTATAGACACTTTTAT-AAAAGGATAGA
516 GATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAAGTATAGACACTTTTATAAAAAGGATAGA
*
2794419 TACTTTACTATAACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
580 TACTTTACTATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
2794484 CCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
645 CCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
*
2794549 ACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTGTTTTAAGTA-TGTTTCATGTTTTCCACC
710 ACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAA-TAGTGTTTCATGTTTTCCACC
*
2794612 TACAATATTAATTTAATAATTTCATTTGCACAAAAAA-TATTTGATTGTTTTGATATTTTATAAA
774 TACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAA
2794676 TAATATTTAGAA
839 TAATATTTAGAA
2794688 TTTTTAATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTTAATAATAATATAT-CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
*
2794753 AATT-ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACA-GGAAAAAAAG
65 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTG-AAAAAAG
*
2794816 TATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACTATTACATTATATAAA
129 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAA-CACTACTATTACATTATATAAA
*
2794881 CGATACCTATTACATTATATAAG-GCTACCTATTACATCATATTTTACCTATTATATTGAAGGTG
193 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTG
2794945 TCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
258 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
* *
2795009 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACAC-AAAAATT
323 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
*
2795073 ATTGATTGTTTTGATA-TTTATAAAATAATA-TTAGAATTTT--TTTATAATAATATATATCGTA
388 ATTGATT-TTTTGATATTTTATAAAATAATATTTAGAATTTTAATTAATAATAATATATATCGTA
*
2795134 ACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAACTCACTCAAAA
452 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-AAAACTCACTCAAAA
2795199 GATAACCTT--A--AA----T-CACAGTG-AAAAAAGTATAGACAC-TTTATAAAAAGGATAGAT
516 GATAACCTTAAATTAATGTTTCCACAGTGAAAAAAAGTATAGACACTTTTATAAAAAGGATAGAT
* *
2795253 ACTTTACAATAACCACTACCTATTACA-T-TATAAACCATACCTATTACATTATATAAGCGCTAC
581 ACTTTACTATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
2795316 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATA
646 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
2795381 CTT-TGTTTAAAG-TATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
711 CTTCT-TTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
*
2795444 ACACTATTAATTTAATAATTTCATTTACACAAAAAAATTATTTGA-TGTTTTGATATTTTATAAA
775 ACAATATTAATTTAATAATTTCATTTACAC-AAAAAATTATTTGATTGTTTTGATATTTTAT-AA
2795508 ATAATATTTAGAA
838 ATAATATTTAGAA
*
2795521 -TTTTAATTTAATAATAATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAA
1 TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
2795585 ATTAATATCTTAAAACTCACTCAAA
66 ATTAATATCTTAAAACTCACTCAAA
2795610 GATGTATATA
Statistics
Matches: 1706, Mismatches: 32, Indels: 80
0.94 0.02 0.04
Matches are distributed among these distances:
830 22 0.01
831 207 0.12
832 71 0.04
833 75 0.04
834 7 0.00
835 1 0.00
840 2 0.00
842 1 0.00
843 68 0.04
844 40 0.02
845 82 0.05
846 155 0.09
847 348 0.20
848 184 0.11
849 117 0.07
850 121 0.07
851 151 0.09
852 54 0.03
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (850 bp):
TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACACTGAAAAAAGTA
TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACACTACTATTACATTATATAAACGA
TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTGTCC
ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
GATTTTTTGATATTTTATAAAATAATATTTAGAATTTTAATTAATAATAATATATATCGTAACGT
AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAA
CCTTAAATTAATGTTTCCACAGTGAAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTT
ACTATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
ACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCT
TTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAATAATATT
TAGAA
Found at i:2794912 original size:22 final size:23
Alignment explanation
Indices: 2794864--2794922 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
2794854 ATAACCACTA
2794864 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
* *
2794887 CTATTACATTATAT-AAGGCTAC
1 CTATTACATTATATAAACGATAC
*
2794909 CTATTACATCATAT
1 CTATTACATTATAT
2794923 TTTACCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:2795245 original size:20 final size:20
Alignment explanation
Indices: 2795220--2795258 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2795210 ATCACAGTGA
*
2795220 AAAAAGTATAGACACTTTAT
1 AAAAAGGATAGACACTTTAT
*
2795240 AAAAAGGATAGATACTTTA
1 AAAAAGGATAGACACTTTA
2795259 CAATAACCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2795293 original size:21 final size:22
Alignment explanation
Indices: 2795261--2795329 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 22
2795251 ATACTTTACA
2795261 ATAACCACTACCTATTACATTAT
1 ATAACCA-TACCTATTACATTAT
2795284 A-AACCATACCTATTACATTAT
1 ATAACCATACCTATTACATTAT
*
2795305 ATAAGCGC-TACCTATTACATCAT
1 ATAA-C-CATACCTATTACATTAT
2795328 AT
1 AT
2795330 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 16 0.38
22 7 0.17
23 18 0.43
24 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (22 bp):
ATAACCATACCTATTACATTAT
Found at i:2795652 original size:24 final size:24
Alignment explanation
Indices: 2795611--2795674 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
2795601 TCACTCAAAG
*
2795611 ATGTATATACCTAAATATGTAGTT
1 ATGTACATACCTAAATATGTAGTT
2795635 ATTGTACATA-CTAAATATGTAGTT
1 A-TGTACATACCTAAATATGTAGTT
2795659 ATGTACATACCTAAAT
1 ATGTACATACCTAAAT
2795675 TTAATGATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 8 0.22
24 22 0.59
25 7 0.19
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (24 bp):
ATGTACATACCTAAATATGTAGTT
Found at i:2798657 original size:21 final size:21
Alignment explanation
Indices: 2798627--2798697 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
2798617 GATAGATACT
*
2798627 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
2798648 TTACATTATAAACCA-TACCTA
1 TTACATTAT-AACCACTACCTA
* *
2798669 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAACCACTACCTA
2798692 TTACAT
1 TTACAT
2798698 CATATTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 19 0.44
22 10 0.23
23 14 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:2798689 original size:23 final size:21
Alignment explanation
Indices: 2798632--2798702 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 21
2798622 ATACTTTACA
2798632 ATATAACCACTACCTATTACATT
1 ATATAA-C-CTACCTATTACATT
2798655 ATA-AACCATACCTATTACATT
1 ATATAACC-TACCTATTACATT
*
2798676 ATATAAGCGCTACCTATTACATC
1 ATATAA-C-CTACCTATTACATT
2798699 ATAT
1 ATAT
2798703 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.02
21 17 0.40
22 4 0.09
23 20 0.47
24 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (21 bp):
ATATAACCTACCTATTACATT
Found at i:2799086 original size:23 final size:23
Alignment explanation
Indices: 2799060--2799122 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2799050 ATATAACAAC
2799060 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2799083 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2799106 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2799123 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2799515 original size:23 final size:23
Alignment explanation
Indices: 2799489--2799551 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2799479 ATATAACCAC
2799489 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2799512 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2799535 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2799552 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2799935 original size:23 final size:23
Alignment explanation
Indices: 2799899--2799971 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
2799889 ATACTTTACA
2799899 ATAT-AACCACTACCTATTACATT
1 ATATAAACCA-TACCTATTACATT
2799922 ATATAAACCATACCTATTACATT
1 ATATAAACCATACCTATTACATT
* *
2799945 ATATAAGCGC-TACCTATTACATC
1 ATATAAAC-CATACCTATTACATT
2799968 ATAT
1 ATAT
2799972 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 40 0.87
24 6 0.13
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAACCATACCTATTACATT
Found at i:2799983 original size:849 final size:849
Alignment explanation
Indices: 2798299--2800260 Score: 3614
Period size: 849 Copynumber: 2.3 Consensus size: 849
2798289 TTATAATATG
*
2798299 TTGAAAGTGTCCATACTTTTTATAAAAAGGATTGATACTTCTTTT-AA---A-G----TTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2798355 TCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2798420 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTTAATTTAAT-ATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
2798483 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
2798548 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
2798613 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATAAACCATACCTATTACATTAT
326 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATAAACCATACCTATTACATTAT
2798678 ATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTATAAAA
391 ATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTATAAAA
*
2798743 AGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTTAATAGTGTTTCATGT
456 AGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGT
* *
2798808 TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTTATTATTTTGATAT
521 TTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTTGATAT
*
2798873 TTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAAT
586 TTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAAT
2798938 CATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATCAC
651 CATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATCAC
2799003 AGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACAACTACCTATT
716 AGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACAACTACCTATT
*
2799068 ACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
781 ACATTATATAAACCATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
2799133 TATA
846 TATA
2799137 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2799202 TCAATTTGTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2799267 C-AAAAATTATTTGATTG-TTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
2799330 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
2799395 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG-GAAAAAAAGTATAGACACTTTTATA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAAGTATAGACACTTTTATA
* *
2799459 AAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
325 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-T-TATAAACCATACCTATTACAT
*
2799524 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAGGTGTCCATACTTTTATA
388 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTATA
2799589 AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCA
453 AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCA
* *
2799654 TGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACACAAAAAATTATTTGATTGTTTTGA
518 TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTTGA
2799719 TATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGA
583 TATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGA
2799784 AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAAT
648 AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAAT
*
2799849 CACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCT
713 CACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACAACTACCT
2799914 ATTACATTATATAAACCATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
778 ATTACATTATATAAACCATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2799979 TATTATA
843 TATTATA
*
2799986 TTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTT-TGTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGT
*
2800050 TTCAATTTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
65 TTCAATTTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTG
2800114 CACAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATA
129 CAC-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATA
*
2800179 ATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
193 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
2800244 AAACTCACTCAAAAGAT
258 AAACTCACTCAAAAGAT
2800261 GTATATACCT
Statistics
Matches: 1088, Mismatches: 17, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
838 44 0.04
839 2 0.00
842 1 0.00
843 1 0.00
845 29 0.03
846 29 0.03
847 242 0.22
848 4 0.00
849 596 0.55
851 16 0.01
852 124 0.11
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (849 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATAAACCATACCTATTACATTAT
ATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTATAAAA
AGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGT
TTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTTGATAT
TTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAAT
CATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATCAC
AGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACAACTACCTATT
ACATTATATAAACCATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
TATA
Found at i:2799998 original size:420 final size:425
Alignment explanation
Indices: 2798299--2800260 Score: 3424
Period size: 420 Copynumber: 4.6 Consensus size: 425
2798289 TTATAATATG
*
2798299 TTGAAAGTGTCCATACTTTTTATAAAAAGGATTGATACTTCTTTT-AA---A-G----TTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2798355 TCAATTTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TCAATTTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
2798419 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTTAATTTAAT-AT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
2798482 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
195 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
2798547 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
260 ACTCACTCAAAAGATAACCTT-AA-TAA----TTCCACAGTGAAAAAAGTATAGACACTTTTATA
2798612 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-T-TATAAACCATACCTATTACAT
319 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACAT
2798675 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
384 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
2798717 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2798781 TTAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* *
2798846 CAAAAAATTATTTTATTATTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
2798911 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
2798976 CTCACTCAAAAGATAACCTT-A-AA-T-CACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGA
261 CTCACTCAAAAGATAACCTTAATAATTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGA
* *
2799037 TAGATACTTTACAATATAACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
326 TAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACATTATATAA
2799102 GCGCTACCTATTACATCATATTTTTACCTATTATA
391 GCGCTACCTATTACATCATATTTTTACCTATTATA
2799137 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2799202 TCAATTTGTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TCAATTTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
2799266 AC-AAAAATTATTTGATTG-TTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
2799329 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
195 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
2799394 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG-GAAAAAAAGTATAGACACTTTTAT
260 ACTCACTCAAAAGATAACCTT-AA-TAA----TTCCACAGTG-AAAAAAGTATAGACACTTTTAT
* *
2799458 AAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
318 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACA
2799523 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
383 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
2799566 TTGAAGGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
* *
2799630 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2799695 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
*
2799760 ATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
2799825 CTCACTCAAAAGATAACCTT-A-AA-T-CACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGA
261 CTCACTCAAAAGATAACCTTAATAATTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGA
2799886 TAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACATTATATAA
326 TAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACATTATATAA
2799951 GCGCTACCTATTACATCATATTTTTACCTATTATA
391 GCGCTACCTATTACATCATATTTTTACCTATTATA
*
2799986 TTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTT-TGTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGT
*
2800050 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
2800115 ACAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAA
130 AC-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAA
*
2800180 TAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
194 TAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
2800245 AACTCACTCAAAAGAT
259 AACTCACTCAAAAGAT
2800261 GTATATACCT
Statistics
Matches: 1488, Mismatches: 22, Indels: 64
0.95 0.01 0.04
Matches are distributed among these distances:
417 27 0.02
418 88 0.06
419 133 0.09
420 241 0.16
421 223 0.15
422 146 0.10
423 2 0.00
424 2 0.00
425 2 0.00
426 117 0.08
427 14 0.01
428 199 0.13
429 164 0.11
430 130 0.09
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (425 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
CTCACTCAAAAGATAACCTTAATAATTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2800288 original size:25 final size:25
Alignment explanation
Indices: 2800260--2800324 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
2800250 ACTCAAAAGA
*
2800260 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
2800285 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
2800310 TGTACATACCTAAAT
1 TGTACATACCTAAAT
2800325 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:2803321 original size:23 final size:23
Alignment explanation
Indices: 2803285--2803357 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
2803275 ATACTTTACA
2803285 ATAT-AACCACTACCTATTACATT
1 ATATAAACCA-TACCTATTACATT
2803308 ATATAAACCATACCTATTACATT
1 ATATAAACCATACCTATTACATT
* *
2803331 ATATAAGCGC-TACCTATTACATC
1 ATATAAAC-CATACCTATTACATT
2803354 ATAT
1 ATAT
2803358 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 40 0.87
24 6 0.13
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAACCATACCTATTACATT
Found at i:2803748 original size:23 final size:23
Alignment explanation
Indices: 2803722--2803784 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2803712 ATATAACTAC
2803722 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2803745 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2803768 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2803785 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2804171 original size:23 final size:23
Alignment explanation
Indices: 2804143--2804215 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2804133 ATACTTTACA
2804143 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
* *
2804166 TTATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
2804189 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
2804212 ATAT
1 ATAT
2804216 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.85
24 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:2804236 original size:431 final size:430
Alignment explanation
Indices: 2802950--2804421 Score: 2688
Period size: 429 Copynumber: 3.5 Consensus size: 430
2802940 TTATAATATG
2802950 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AA---A-G----TTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2803006 TCAATTTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TCAA-TTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
2803070 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
2803135 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
194 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
2803200 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
259 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
*
2803265 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACCATACCTATTACAT
324 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
2803330 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
389 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
2803372 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2803437 TTAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
2803502 AAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAA
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAA
2803567 TATATATCGTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
196 TATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
2803631 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG--TAGACACTTTTATAAA
261 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAA
*
2803694 AAGGATAGATACTTTACAATATAACTACTACCTATTACATTATATAAACGATACCTATTACATTA
326 AAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
2803759 TATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
391 TATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
2803799 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2803864 TCAATTTGTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TCAATTT-TTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
2803928 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
2803993 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
194 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
* *
2804058 ACTCACTCAAAAAATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATAGACACTTTTATA
259 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
*
2804123 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTTTATAAACGATACCTATTACAT
324 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
2804188 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
389 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
2804230 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2804295 TCAATTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
* * *
2804359 AAAAAATTATTTGATTGTTTTGATATTTTATGAAATAATATTTAGAA-TTTAAATTTAACAATA
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
2804422 TTAACCAAAG
Statistics
Matches: 1019, Mismatches: 15, Indels: 26
0.96 0.01 0.02
Matches are distributed among these distances:
422 45 0.04
423 2 0.00
426 1 0.00
427 191 0.19
428 154 0.15
429 268 0.26
430 158 0.16
431 200 0.20
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAA
TATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAA
AAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
TATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2805822 original size:12 final size:12
Alignment explanation
Indices: 2805805--2805928 Score: 140
Period size: 12 Copynumber: 10.3 Consensus size: 12
2805795 GTTTGGATCA
* *
2805805 TCATCATCATCT
1 TCATCTTCATCG
* * *
2805817 TCATCATCGTCA
1 TCATCTTCATCG
2805829 TCATCTTCATCG
1 TCATCTTCATCG
*
2805841 TCAGCTTCATCG
1 TCATCTTCATCG
* *
2805853 TCATCATCATCA
1 TCATCTTCATCG
2805865 TCATCTTCATCG
1 TCATCTTCATCG
*
2805877 TCAGCTTCATCG
1 TCATCTTCATCG
*
2805889 TCATCATCATCG
1 TCATCTTCATCG
2805901 TCATCTTCATCG
1 TCATCTTCATCG
* *
2805913 TCAGCTTCATCT
1 TCATCTTCATCG
2805925 TCAT
1 TCAT
2805929 TGACCGCTTG
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 94 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:2805851 original size:36 final size:36
Alignment explanation
Indices: 2805811--2805928 Score: 200
Period size: 36 Copynumber: 3.3 Consensus size: 36
2805801 ATCATCATCA
* *
2805811 TCATCTTCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
2805847 TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
1 TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
*
2805883 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
*
2805919 TCATCTTCAT
1 TCATCGTCAT
2805929 TGACCGCTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 78 1.00
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.38
Consensus pattern (36 bp):
TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
Found at i:2805926 original size:6 final size:6
Alignment explanation
Indices: 2805805--2805928 Score: 104
Period size: 6 Copynumber: 20.7 Consensus size: 6
2805795 GTTTGGATCA
* * * * * * *
2805805 TCATCA TCATCT TCATCA TCGTCA TCATCT TCATCG TCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * * *
2805853 TCATCA TCATCA TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
2805901 TCATCT TCATCG TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCAT
2805929 TGACCGCTTG
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 94 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:2807754 original size:199 final size:199
Alignment explanation
Indices: 2807396--2808563 Score: 2041
Period size: 199 Copynumber: 5.9 Consensus size: 199
2807386 AATTAGTATT
*
2807396 GACACAAAAT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
2807460 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
* *
2807525 ACTTTTTATATATGGATCGACACCTTATGGTTGCACACTGTTTTCCATTCATTCTGGACCAAAAA
131 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
2807590 TATC
196 TATC
**** * ** *
2807594 GACACTTTTTTAAATGGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
*
2807659 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATCTTTTTGGGATCGAC
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
*
2807724 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTTATTCTGGACCAAAAA
131 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
2807789 TATC
196 TATC
**** * **
2807793 GACACTTTTTTAAATGGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
*
2807858 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATCTTTTTGGGATCGAC
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
2807923 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
131 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
2807988 TATC
196 TATC
*
2807992 GACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
*
2808057 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGCC
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
*
2808122 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGCTTTCCATTCATTCTGGACCAAAAA
131 ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
2808187 TATC
196 TATC
2808191 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
2808256 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGA
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCGA
*
2808321 CACTCTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
130 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
2808386 ATATC
195 ATATC
* *
2808391 GATACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTG
1 GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
2808456 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGA
66 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCGA
* * *
2808521 CACTTTTTATATATGGTTCGACACTTTATAGTTGCACCTTGTT
130 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2808564 GGTCATATTG
Statistics
Matches: 934, Mismatches: 34, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
198 6 0.01
199 674 0.72
200 254 0.27
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (199 bp):
GACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTG
TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGAC
ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAA
TATC
Found at i:2808728 original size:19 final size:19
Alignment explanation
Indices: 2808682--2808730 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2808672 TTATATTCAC
*
2808682 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2808701 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2808720 ATACAAAATTA
1 ATACAAAATTA
2808731 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2810546 original size:33 final size:33
Alignment explanation
Indices: 2810509--2810574 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2810499 CATCTTAATA
* *
2810509 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACACCAACTTCTTTCACCACT
* *
2810542 TCACCCCTCAACACATCTACTTCTTTCACCACT
1 TCACCCCTCAACACACCAACTTCTTTCACCACT
2810575 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACACCAACTTCTTTCACCACT
Found at i:2810633 original size:21 final size:21
Alignment explanation
Indices: 2810608--2810651 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2810598 CCCCTTATGC
2810608 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
2810629 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
2810650 CT
1 CT
2810652 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:2812712 original size:24 final size:24
Alignment explanation
Indices: 2812675--2812727 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2812665 CCGTTCTATC
2812675 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
2812699 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
2812723 TATTT
1 TATTT
2812728 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:2812918 original size:20 final size:19
Alignment explanation
Indices: 2812872--2812918 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2812862 TCTGGTATCA
*
2812872 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
2812891 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
2812912 TTTTACC
1 TTTTACC
2812919 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:2813143 original size:181 final size:182
Alignment explanation
Indices: 2812839--2813311 Score: 725
Period size: 181 Copynumber: 2.6 Consensus size: 182
2812829 CGTACTTACG
* * * *
2812839 AAAGTATCGACACTTTCAATATATCTGGTATCATTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGATTT
* *
2812904 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
2812969 AGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2813020 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGATTT
* * * *
2813085 TATCATATTTTTACATGGTATATAGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
2813150 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
2813202 AAAGTACCGACACTTTAAATGTATCCGGTAACGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGATT
* *
2813266 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
2813312 AATTTGGATA
Statistics
Matches: 265, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 165 0.62
182 99 0.37
183 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGATTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2817387 original size:166 final size:166
Alignment explanation
Indices: 2817113--2817444 Score: 610
Period size: 166 Copynumber: 2.0 Consensus size: 166
2817103 AAGTTCACGA
*
2817113 ATTAGAGATTGAAAGTGAGGAAGCCAAAATGTTTTCGTCATGATTCATGGGTTTTATGACATTTT
1 ATTAGAGATTGAAAGTGAGGAAGCCAAAACGTTTTCGTCATGATTCATGGGTTTTATGACATTTT
2817178 CTTGTGAAACAATCACTAGATTTGAACTTAAGGGGTCGAGACAAATTGACCAATGAGATTTGGGA
66 CTTGTGAAACAATCACTAGATTTGAACTTAAGGGGTCGAGACAAATTGACCAATGAGATTTGGGA
2817243 CCGAAAGACCACCATCTACAGCGGTCGACAGTGGCC
131 CCGAAAGACCACCATCTACAGCGGTCGACAGTGGCC
2817279 ATTAGAGATTGAAAGTGAGGAAGCCAAAACGTTTTCGTCATGATTCATGGGTTTTATGACATTTT
1 ATTAGAGATTGAAAGTGAGGAAGCCAAAACGTTTTCGTCATGATTCATGGGTTTTATGACATTTT
* *
2817344 CTTGTGAAATAATCACTAGATTTGAACTTAAGGGGTCGAGACAAATTGACCCATGAGATTTGGGA
66 CTTGTGAAACAATCACTAGATTTGAACTTAAGGGGTCGAGACAAATTGACCAATGAGATTTGGGA
* * *
2817409 CCGAAAGACTACCATCTATAGCGGTCGACGGTGGCC
131 CCGAAAGACCACCATCTACAGCGGTCGACAGTGGCC
2817445 GACAGTGGTG
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 160 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (166 bp):
ATTAGAGATTGAAAGTGAGGAAGCCAAAACGTTTTCGTCATGATTCATGGGTTTTATGACATTTT
CTTGTGAAACAATCACTAGATTTGAACTTAAGGGGTCGAGACAAATTGACCAATGAGATTTGGGA
CCGAAAGACCACCATCTACAGCGGTCGACAGTGGCC
Found at i:2825828 original size:21 final size:22
Alignment explanation
Indices: 2825804--2825854 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
2825794 TTTTGAACAA
2825804 TTATATACATATTTT-TTTGGG
1 TTATATACATATTTTCTTTGGG
2825825 TTATATACATATTTTCTTTGGG
1 TTATATACATATTTTCTTTGGG
2825847 TTATATAC
1 TTATATAC
2825855 TCAATTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (22 bp):
TTATATACATATTTTCTTTGGG
Found at i:2829544 original size:2 final size:2
Alignment explanation
Indices: 2829532--2829584 Score: 54
Period size: 2 Copynumber: 26.0 Consensus size: 2
2829522 AAAATATCTA
* * *
2829532 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT TT A-
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2829574 AT AT ACT AT AT
1 AT AT A-T AT AT
2829585 GTACTTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
1 1 0.02
2 37 0.88
3 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2829653 original size:2 final size:2
Alignment explanation
Indices: 2829641--2829681 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
2829631 TTAATATTTA
2829641 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2829682 TAAATTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2830152 original size:20 final size:20
Alignment explanation
Indices: 2830116--2830158 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2830106 TGTATTAAAT
*
2830116 TAAATATTTTATTAAAATATA
1 TAAATATTTTATCAAAATA-A
2830137 TAAATA-TTTATCAAAATAA
1 TAAATATTTTATCAAAATAA
2830156 TAA
1 TAA
2830159 TATCACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATATTTTATCAAAATAA
Found at i:2833901 original size:2 final size:2
Alignment explanation
Indices: 2833894--2833929 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2833884 ATTCAAAGTA
2833894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2833930 GAGATAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2840864 original size:20 final size:20
Alignment explanation
Indices: 2840839--2840880 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2840829 TCAATAATGG
2840839 TATTGAACCCTTAGTATCGA
1 TATTGAACCCTTAGTATCGA
*
2840859 TATTGAACCCTTGGTATCGA
1 TATTGAACCCTTAGTATCGA
2840879 TA
1 TA
2840881 CCCACCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
TATTGAACCCTTAGTATCGA
Found at i:2841883 original size:7 final size:7
Alignment explanation
Indices: 2841871--2841920 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
2841861 GATTGCAAGG
2841871 GAATGAA
1 GAATGAA
2841878 GAATGAA
1 GAATGAA
2841885 TG-ATGAA
1 -GAATGAA
2841892 GAATGAA
1 GAATGAA
2841899 TG-ATGAA
1 -GAATGAA
2841906 GAATGAA
1 GAATGAA
2841913 GAA-GAA
1 GAATGAA
2841919 GA
1 GA
2841921 GACAAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.18
7 30 0.77
8 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.30, T:0.16
Consensus pattern (7 bp):
GAATGAA
Found at i:2841892 original size:14 final size:14
Alignment explanation
Indices: 2841873--2841912 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
2841863 TTGCAAGGGA
2841873 ATGAAGAATGAATG
1 ATGAAGAATGAATG
2841887 ATGAAGAATGAATG
1 ATGAAGAATGAATG
2841901 ATGAAGAATGAA
1 ATGAAGAATGAA
2841913 GAAGAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.20
Consensus pattern (14 bp):
ATGAAGAATGAATG
Found at i:2851810 original size:21 final size:20
Alignment explanation
Indices: 2851768--2851807 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2851758 AAACTTCCCT
2851768 TTTAGTACCAATATTGAACC
1 TTTAGTACCAATATTGAACC
* *
2851788 TTTAGTATCGATATTGAACC
1 TTTAGTACCAATATTGAACC
2851808 CTTGCTATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
TTTAGTACCAATATTGAACC
Found at i:2851816 original size:20 final size:20
Alignment explanation
Indices: 2851778--2851820 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2851768 TTTAGTACCA
*
2851778 ATATTGAACCTTTAGTATCG
1 ATATTGAACCCTTAGTATCG
2851798 ATATTGAACCCTT-GCTATCG
1 ATATTGAACCCTTAG-TATCG
2851818 ATA
1 ATA
2851821 CCCATCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
ATATTGAACCCTTAGTATCG
Found at i:2851836 original size:20 final size:20
Alignment explanation
Indices: 2851813--2851867 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2851803 GAACCCTTGC
*
2851813 TATCGATACCCATCTGTTTG
1 TATCGATACCCATCTGTTTA
*
2851833 TATCGATACCCATATGTTTA
1 TATCGATACCCATCTGTTTA
2851853 TATCGATACCC-TCTG
1 TATCGATACCCATCTG
2851868 ACTGACATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (20 bp):
TATCGATACCCATCTGTTTA
Found at i:2855388 original size:267 final size:267
Alignment explanation
Indices: 2854913--2855442 Score: 963
Period size: 267 Copynumber: 2.0 Consensus size: 267
2854903 CGTGTGTGTT
* *
2854913 TGTGTGAAAATATATAATTTTTCATGTCTAATAAGCGAAAACGAGCTAATTACTCAATTCGATAT
1 TGTGTGAAAATATATAATTTTTCACGTCTAATAAGCGAAAACGAGCTAATTACTCAATTCAATAT
2854978 TGAAAATAAGTTATGTGTTAATTTAAAAATGAAAAATAAAAAATTGAAACACTTTTAAATTTATA
66 TGAAAATAAGTTATGTGTTAATTTAAAAATGAAAAATAAAAAATTGAAACACTTTTAAATTTATA
* *
2855043 ATTATAATGAATTCTTAGTTATTAGTTTAGTTTTAAGTATAACTCTCATGTCATAGATTTTGTAC
131 ATTATAATGAATTCTTAGTTATTAGTTTAGTTTTAAGTATAACTCTCATGGCATAGATTATGTAC
* * *
2855108 TCGAGTCGAGCTTAAGTATTGTTGAGCTCAACTCGAC-TCGAAAACTCGCGAGTCTAAATTTTTT
196 TCGAGTCGAGCTTAAGTATTGTGGAGCTCAACTCGACTTC-AAAACTCGCGAGCCTAAAATTTTT
2855172 AAGCCATG
260 AAGCCATG
2855180 TGTGTGAAAATATATAATTTTTCACGTCTAATAAGCGAAAACGAGCTAATTACTCAATTCAATAT
1 TGTGTGAAAATATATAATTTTTCACGTCTAATAAGCGAAAACGAGCTAATTACTCAATTCAATAT
*
2855245 TGAAAATAAGTTATGTGTTAATTTAAAAGTGAAAAATAAAAAATTGAAACACTTTTAAATTTATA
66 TGAAAATAAGTTATGTGTTAATTTAAAAATGAAAAATAAAAAATTGAAACACTTTTAAATTTATA
2855310 ATTATAATGAATTCTTAGTTATTAGTTTAGTTTTAAGTATAACTCTCATGGCATAGATTATGTAC
131 ATTATAATGAATTCTTAGTTATTAGTTTAGTTTTAAGTATAACTCTCATGGCATAGATTATGTAC
*
2855375 TCGAGTTGAGCTTAAGTATTGTGGAGCTCAACTCGACTTCAAAACTCGCGAGCCTAAAATTTTTA
196 TCGAGTCGAGCTTAAGTATTGTGGAGCTCAACTCGACTTCAAAACTCGCGAGCCTAAAATTTTTA
2855440 AGC
261 AGC
2855443 TCGGCTCGAA
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
267 251 0.99
268 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (267 bp):
TGTGTGAAAATATATAATTTTTCACGTCTAATAAGCGAAAACGAGCTAATTACTCAATTCAATAT
TGAAAATAAGTTATGTGTTAATTTAAAAATGAAAAATAAAAAATTGAAACACTTTTAAATTTATA
ATTATAATGAATTCTTAGTTATTAGTTTAGTTTTAAGTATAACTCTCATGGCATAGATTATGTAC
TCGAGTCGAGCTTAAGTATTGTGGAGCTCAACTCGACTTCAAAACTCGCGAGCCTAAAATTTTTA
AGCCATG
Found at i:2857756 original size:21 final size:22
Alignment explanation
Indices: 2857710--2857757 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
2857700 GAAAAATATT
*
2857710 TTCTATTGAAAATAAGCATTTT
1 TTCTATTGAAAATAAGCATTTA
*
2857732 TTCTATT-AAATTAAGC-TTTAA
1 TTCTATTGAAAATAAGCATTT-A
2857753 TTCTA
1 TTCTA
2857758 AAATAGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
22 7 0.30
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (22 bp):
TTCTATTGAAAATAAGCATTTA
Found at i:2858989 original size:19 final size:20
Alignment explanation
Indices: 2858954--2858991 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2858944 TATATTTTTA
2858954 ATATTTCTAATAATATAATT
1 ATATTTCTAATAATATAATT
*
2858974 ATATTT-TAATATTATAAT
1 ATATTTCTAATAATATAAT
2858992 AAAATAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTCTAATAATATAATT
Found at i:2859194 original size:23 final size:22
Alignment explanation
Indices: 2859168--2859211 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2859158 AATAATATTT
2859168 TAATAAATATATTTAAAATATAC
1 TAATAAATAT-TTTAAAATATAC
* *
2859191 TAATTAATATTTTTAAATATA
1 TAATAAATATTTTAAAATATA
2859212 ATATAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATATTTTAAAATATAC
Found at i:2859368 original size:22 final size:24
Alignment explanation
Indices: 2859324--2859388 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
2859314 TAGTTTAATA
2859324 ATAAATAA-ATATATTAATATTTTA-
1 ATAAATAATA-ATATT-ATATTTTAG
*
2859348 A-AAATAATAATATTATGTTTTATG
1 ATAAATAATAATATTATATTTTA-G
*
2859372 ATAAATAATATTATTAT
1 ATAAATAATAATATTAT
2859389 TTTATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 7 0.20
23 11 0.31
24 3 0.09
25 14 0.40
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (24 bp):
ATAAATAATAATATTATATTTTAG
Found at i:2859906 original size:68 final size:68
Alignment explanation
Indices: 2859834--2859983 Score: 171
Period size: 68 Copynumber: 2.2 Consensus size: 68
2859824 ATATTTTTGG
** * * *
2859834 TTTGAATATTAGTATGATAATTAT-TA-TTTGAATATGTCAAATTAAAATATATTTATTATTTAT
1 TTTGAATATTAG-AAAACAATTATATACTTTGAATATGTCAAATTAAAAGATATTT-TTATCTAT
*
2859897 TTAAC
64 TTAAA
* *
2859902 TTTGAATATTA-AAAACAATTATATACTTTTGAATATTTTAAATTAAAAGATATTTTTATCTATT
1 TTTGAATATTAGAAAACAATTATATAC-TTTGAATATGTCAAATTAAAAGATATTTTTATCTATT
2859966 TAAA
65 TAAA
*
2859970 TTTAAATATTAGAA
1 TTTGAATATTAGAA
2859984 GATATCTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
66 8 0.12
67 2 0.03
68 32 0.46
69 27 0.39
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (68 bp):
TTTGAATATTAGAAAACAATTATATACTTTGAATATGTCAAATTAAAAGATATTTTTATCTATTT
AAA
Found at i:2860357 original size:21 final size:21
Alignment explanation
Indices: 2860333--2860375 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2860323 CCTTTTGATT
2860333 TTATAATGATATTGTATATTA
1 TTATAATGATATTGTATATTA
* * * *
2860354 TTATCATTATTTTTTATATTA
1 TTATAATGATATTGTATATTA
2860375 T
1 T
2860376 ACTTGGATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATAATGATATTGTATATTA
Found at i:2860614 original size:50 final size:50
Alignment explanation
Indices: 2860560--2860679 Score: 168
Period size: 50 Copynumber: 2.4 Consensus size: 50
2860550 TGGTACCTAT
* * *
2860560 AATTACTATGCATTGGGTATCATATGTACATATAATAATAGGATACATGA
1 AATTACTATGCATTAGGTATCATATGTACAAATAATAATAGGATACATAA
* * * *
2860610 AATTACTATACATCAGGTATCATATGTAGAAATAATAATAGGATACCTAA
1 AATTACTATGCATTAGGTATCATATGTACAAATAATAATAGGATACATAA
*
2860660 AATCACTATGCATTAGGTAT
1 AATTACTATGCATTAGGTAT
2860680 TATAGATAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (50 bp):
AATTACTATGCATTAGGTATCATATGTACAAATAATAATAGGATACATAA
Found at i:2861941 original size:29 final size:29
Alignment explanation
Indices: 2861899--2861959 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
2861889 ATCAATTTGG
2861899 TGTTGTGAATGATATCTTCGACTTTCAAA
1 TGTTGTGAATGATATCTTCGACTTTCAAA
2861928 TGTTGTGAATGATATCTTCGACTTTCAAA
1 TGTTGTGAATGATATCTTCGACTTTCAAA
2861957 TGT
1 TGT
2861960 CTGGTTGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (29 bp):
TGTTGTGAATGATATCTTCGACTTTCAAA
Found at i:2863765 original size:18 final size:18
Alignment explanation
Indices: 2863742--2863776 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2863732 AGGGATTATC
2863742 AGTGGT-CTTTCGGGACAT
1 AGTGGTCCTTT-GGGACAT
2863760 AGTGGTCCTTTGGGACA
1 AGTGGTCCTTTGGGACA
2863777 AATATTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTTGGGACAT
Found at i:2864794 original size:16 final size:16
Alignment explanation
Indices: 2864775--2864807 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2864765 AAGGAGTTGA
2864775 AGGGTTTGGGAGCACC
1 AGGGTTTGGGAGCACC
2864791 AGGGTTTGGGAGCACC
1 AGGGTTTGGGAGCACC
2864807 A
1 A
2864808 TATTTTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.42, T:0.18
Consensus pattern (16 bp):
AGGGTTTGGGAGCACC
Found at i:2870049 original size:18 final size:18
Alignment explanation
Indices: 2870026--2870066 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2870016 GGATTATCAA
2870026 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
2870044 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
2870062 TGGTC
1 TGGTC
2870067 ATTCAGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.34, T:0.29
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAG
Found at i:2872251 original size:22 final size:22
Alignment explanation
Indices: 2872225--2872281 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
2872215 CTCAGAGGGA
2872225 ACCGATTCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCAAGGGGGT
2872247 ACCGATTCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCAAGGGGGT
2872269 ACCGATTCCCCCC
1 ACCGATTCCCCCC
2872282 TGAATGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.14
Consensus pattern (22 bp):
ACCGATTCCCCCCCAAGGGGGT
Found at i:2878171 original size:21 final size:21
Alignment explanation
Indices: 2878145--2878184 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2878135 CCCCCTTTGA
*
2878145 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2878166 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2878185 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2881559 original size:2 final size:2
Alignment explanation
Indices: 2881552--2881581 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2881542 TTAACTCAAC
2881552 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2881582 ACTATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.