Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 9 of 144
Found at i:2195046 original size:56 final size:56
Alignment explanation
Indices: 2194955--2195108 Score: 227
Period size: 56 Copynumber: 2.8 Consensus size: 56
2194945 TAAAAATAAG
* * * *
2194955 GAATCAAATTGCTAAAAAATAATATCTCATAATAATATCTTATAATATCTCATGAA
1 GAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAACATCCCATGAA
* * * *
2195011 GAATTAAATTGCTAAGAGATAATATCCCATAATAATATCCTATAACATCCCATTAA
1 GAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAACATCCCATGAA
*
2195067 GAATCAGATTGCTAAAAGATAATATCTCATAATAATATCCTA
1 GAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTA
2195109 ACACCCCTTC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (56 bp):
GAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAACATCCCATGAA
Found at i:2202092 original size:15 final size:16
Alignment explanation
Indices: 2202068--2202100 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2202058 ATATAGAAAC
*
2202068 AAGTTTAGAA-AAAAA
1 AAGTTAAGAAGAAAAA
2202083 AAGTTAAGAAGAAAAA
1 AAGTTAAGAAGAAAAA
2202099 AA
1 AA
2202101 CCATCAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAGTTAAGAAGAAAAA
Found at i:2205420 original size:28 final size:28
Alignment explanation
Indices: 2205388--2205442 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2205378 ATGAGTAATT
*
2205388 TTGATTCT-GACTTGGAAAGAGCGATATC
1 TTGATTCTAG-CTCGGAAAGAGCGATATC
*
2205416 TTGATTCTAGCTCGGATAGAGCGATAT
1 TTGATTCTAGCTCGGAAAGAGCGATAT
2205443 TCTAATTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (28 bp):
TTGATTCTAGCTCGGAAAGAGCGATATC
Found at i:2205450 original size:28 final size:28
Alignment explanation
Indices: 2205405--2205473 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2205395 TGACTTGGAA
* *
2205405 AGAGCGATA-TCTTGATTCTAGCTCGGAT
1 AGAGCGATATTC-TAATTCTAGCTCAGAT
*
2205433 AGAGCGATATTCTAATTCTGGCTCAGAT
1 AGAGCGATATTCTAATTCTAGCTCAGAT
*
2205461 AGAACGATATTCT
1 AGAGCGATATTCT
2205474 GTATTTTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (28 bp):
AGAGCGATATTCTAATTCTAGCTCAGAT
Found at i:2209014 original size:26 final size:26
Alignment explanation
Indices: 2208933--2209032 Score: 110
Period size: 26 Copynumber: 3.8 Consensus size: 26
2208923 ATTGTGTCTG
* * * *
2208933 GGCTCGTATAAGGTAAAGTCTGTCTA
1 GGCTCGTATGAGCTAAACTCTATCTA
* *
2208959 GACTCGTATGAGTTAAACTCTATCTA
1 GGCTCGTATGAGCTAAACTCTATCTA
* * *
2208985 GGCTCGTATGAGCTAAACTCTTTTTG
1 GGCTCGTATGAGCTAAACTCTATCTA
*
2209011 GGCTCATATGAGCTAAACTCTA
1 GGCTCGTATGAGCTAAACTCTA
2209033 CAATTTTGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (26 bp):
GGCTCGTATGAGCTAAACTCTATCTA
Found at i:2210629 original size:2 final size:2
Alignment explanation
Indices: 2210622--2210650 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2210612 ACATACATAT
2210622 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2210651 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2222717 original size:20 final size:20
Alignment explanation
Indices: 2222681--2222726 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
2222671 TCATTAAGCT
*
2222681 TTAATTAACCATTTTTA-ATC
1 TTAATTAACCATATTTATA-C
2222701 TTAATTAAACC-TATTTATAC
1 TTAATT-AACCATATTTATAC
2222721 TTAATT
1 TTAATT
2222727 TAACTCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAACCATATTTATAC
Found at i:2228326 original size:28 final size:30
Alignment explanation
Indices: 2228295--2228352 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2228285 CGGAGAAGAC
2228295 AATAAACAA-AGAAT-AA-ATATTAATATAT
1 AATAAACAATA-AATAAATATATTAATATAT
*
2228323 AATAAATAATAAATAAATATATTAATATAT
1 AATAAACAATAAATAAATATATTAATATAT
2228353 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 11 0.42
29 3 0.12
30 12 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (30 bp):
AATAAACAATAAATAAATATATTAATATAT
Found at i:2231729 original size:29 final size:29
Alignment explanation
Indices: 2231663--2231743 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
2231653 AATCTCAAAA
* *
2231663 TTATACAAGAATTTTAATTTTATGTGTAAT
1 TTATACATGAATTTTAA-TTTAGGTGTAAT
*
2231693 TTAATACATGAATTTTAATTT-GGTGTGAT
1 TT-ATACATGAATTTTAATTTAGGTGTAAT
*
2231722 TATATACATGAAACTTTAATTT
1 T-TATACATG-AATTTTAATTT
2231744 TAATTCAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 14 0.32
30 16 0.36
31 14 0.32
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (29 bp):
TTATACATGAATTTTAATTTAGGTGTAAT
Found at i:2239452 original size:92 final size:92
Alignment explanation
Indices: 2239295--2239478 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
2239285 ACCAACAACA
2239295 TTTGCATATGGCATCTTTGACATGTTTTCTCATTTTGCATCATTCTTTGGGGACATAGAGGCATT
1 TTTGCATATGGCATCTTTGACATGTTTTCTCATTTTGCATCATTCTTTGGGGACATAGAGGCATT
2239360 AAGCTTGAAATGAAGAGCAAGTGAGGT
66 AAGCTTGAAATGAAGAGCAAGTGAGGT
2239387 TTTGCATATGGCATCTTTGACATGTTTTCTCATTTTGCATCATTCTTTGGGGACATAGAGGCATT
1 TTTGCATATGGCATCTTTGACATGTTTTCTCATTTTGCATCATTCTTTGGGGACATAGAGGCATT
2239452 AAGCTTGAAATGAAGAGCAAGTGAGGT
66 AAGCTTGAAATGAAGAGCAAGTGAGGT
2239479 GCTAACAGGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (92 bp):
TTTGCATATGGCATCTTTGACATGTTTTCTCATTTTGCATCATTCTTTGGGGACATAGAGGCATT
AAGCTTGAAATGAAGAGCAAGTGAGGT
Found at i:2239969 original size:66 final size:67
Alignment explanation
Indices: 2239830--2240018 Score: 244
Period size: 62 Copynumber: 2.8 Consensus size: 67
2239820 TCTATTTTTC
*
2239830 TTATTATTTTTATTTATTTATTATTTTTATAAATATAAATAAATAAATATAAAATAATATTAATT
1 TTATTA-TTTTA-TTATTTATTA-TTTTATGAATATAAATAAATAAATATAAAATAATATTAATT
2239895 TTATT
63 TTATT
* * *
2239900 TTATTATTTTATTATTTATTATTGTATGAATATAAATAAATAAATGT-AAATAATATTAATTTTG
1 TTATTATTTTATTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTA
2239964 TT
66 TT
* * *
2239966 TTATTA---T-TTATTTATTATTTTATGAATATAGATAGATAAATAAATAAATAATA
1 TTATTATTTTATTATTTATTATTTTATGAATATAAATAAATAAATATA-AAATAATA
2240019 AACCCAAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
62 31 0.29
63 1 0.01
64 8 0.07
66 24 0.22
67 23 0.21
68 10 0.09
69 5 0.05
70 6 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (67 bp):
TTATTATTTTATTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTA
TT
Found at i:2240029 original size:13 final size:13
Alignment explanation
Indices: 2240011--2240039 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2240001 ATAAATAAAT
2240011 AAATAATAAACCC
1 AAATAATAAACCC
2240024 AAATAATAAACCC
1 AAATAATAAACCC
2240037 AAA
1 AAA
2240040 GTCCAAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAATAAACCC
Found at i:2242176 original size:30 final size:30
Alignment explanation
Indices: 2242140--2242235 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
2242130 TTTCTGGGGC
*
2242140 AAAAATGTAATTTTTGGTAAAATTAGGGTT
1 AAAAATGTAATTTTTGGTAAAATTGGGGTT
* *
2242170 AAAAATGGAA-TTTT-G-AAAAGTTTGGGGGT
1 AAAAATGTAATTTTTGGTAAAA--TTGGGGTT
* *
2242199 -AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAAAT-GTAATTTTTGGTAAAATTGGGGTT
2242229 AAAAATG
1 AAAAATG
2242236 GGATTTTGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 4 0.08
28 6 0.12
29 13 0.25
30 20 0.38
31 6 0.12
32 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGTAAAATTGGGGTT
Found at i:2242260 original size:29 final size:29
Alignment explanation
Indices: 2242164--2242329 Score: 125
Period size: 29 Copynumber: 5.7 Consensus size: 29
2242154 TGGTAAAATT
* *
2242164 AGGGTTAAAAATGGAATTTTGAAAAGTTTG
1 AGGG-TAAAAATGGAATTTTGGAAAGTTCG
*
2242194 GGGGT-AAAATGGTAATTTTTGGTGAAA--TCG
1 AGGGTAAAAATGG-AA-TTTT-G-GAAAGTTCG
*
2242224 -GGGTTAAAAATGGGATTTTGGAAAGTTCG
1 AGGG-TAAAAATGGAATTTTGGAAAGTTCG
*
2242253 AGGGT--AAATCGGTAATTTTTGGTGAAG-TCG
1 AGGGTAAAAAT-GG-AA-TTTTGG-AAAGTTCG
2242283 -GGGTAAAAATGGAATTTTGGAAAGTTCG
1 AGGGTAAAAATGGAATTTTGGAAAGTTCG
2242311 AGGGT-AAAATGGTAATTTT
1 AGGGTAAAAATGG-AATTTT
2242330 TTAAAAATTT
Statistics
Matches: 111, Mismatches: 7, Indels: 37
0.72 0.05 0.24
Matches are distributed among these distances:
27 11 0.10
28 26 0.23
29 31 0.28
30 25 0.23
31 15 0.14
32 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTGGAAAGTTCG
Found at i:2242331 original size:59 final size:59
Alignment explanation
Indices: 2242141--2242330 Score: 278
Period size: 59 Copynumber: 3.3 Consensus size: 59
2242131 TTCTGGGGCA
* ** * * *
2242141 AAAAT-GTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
*
2242199 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
*
2242258 -AAATCGGTAATTTTTGGTGAAGTCGGGG-TAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAAT-GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
2242316 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
2242331 TAAAAATTTT
Statistics
Matches: 120, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
58 48 0.40
59 72 0.60
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:2243132 original size:14 final size:14
Alignment explanation
Indices: 2243115--2243145 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2243105 CTTCTTATCC
2243115 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
*
2243129 TTTTCTTTTTTTCT
1 TTTTCTTTTCTTCT
2243143 TTT
1 TTT
2243146 AAAAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:2243517 original size:10 final size:10
Alignment explanation
Indices: 2243492--2243549 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
2243482 TTTCTATTTT
2243492 TTATTATT-A
1 TTATTATTAA
*
2243501 -TAATATTAA
1 TTATTATTAA
2243510 TTATTATT-A
1 TTATTATTAA
2243519 TTAATTATTAA
1 TT-ATTATTAA
* *
2243530 TAAATATTAA
1 TTATTATTAA
2243540 -TATTATTAA
1 TTATTATTAA
2243549 T
1 T
2243550 GCCTTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.16
9 11 0.29
10 19 0.50
11 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TTATTATTAA
Found at i:2243522 original size:13 final size:14
Alignment explanation
Indices: 2243494--2243528 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
2243484 TCTATTTTTT
2243494 ATTATTATAATATTA
1 ATTATTAT-ATATTA
2243509 ATTATTAT-TATTA
1 ATTATTATATATTA
2243522 ATTATTA
1 ATTATTA
2243529 ATAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTATATATTA
Found at i:2244466 original size:17 final size:17
Alignment explanation
Indices: 2244444--2244506 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
2244434 TCTTAAATGT
2244444 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
2244461 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
2244477 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
2244494 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
2244507 TCCAAGTTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:2244490 original size:27 final size:27
Alignment explanation
Indices: 2244447--2244499 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
2244437 TAAATGTATT
* *
2244447 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
**
2244474 TAAATTTAAAATTAATTCAAACTTAA
1 TAAATTTAAAACAAATTCAAACTTAA
2244500 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:2255820 original size:50 final size:49
Alignment explanation
Indices: 2255668--2255827 Score: 178
Period size: 50 Copynumber: 3.2 Consensus size: 49
2255658 TAGAACGATA
* * * *
2255668 AATCTTTTACCCCTAAAGCTGTAGAGGTGCAGATTGAAATCGCAATGGCA
1 AATCTTATACACCTAAAGCTGTAGAGGGGCAGATT-AAATCGCAATGGCG
* * * * *
2255718 AATCTCATACACCTAAAACTGTAGAGGGGCAGAATGAAACCGGAATGGCG
1 AATCTTATACACCTAAAGCTGTAGAGGGGCAG-ATTAAATCGCAATGGCG
* *
2255768 AATCTTATTCACCTAAAGCTGTAGAGGGGCAGATTAAAGTTGCAA-GGACG
1 AATCTTATACACCTAAAGCTGTAGAGGGGCAGATTAAA-TCGCAATGG-CG
2255818 AATCTTATAC
1 AATCTTATAC
2255828 TCTTGAAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
49 7 0.08
50 81 0.90
51 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (49 bp):
AATCTTATACACCTAAAGCTGTAGAGGGGCAGATTAAATCGCAATGGCG
Found at i:2255893 original size:40 final size:40
Alignment explanation
Indices: 2255843--2256149 Score: 263
Period size: 40 Copynumber: 7.8 Consensus size: 40
2255833 AAGCTGAAAT
* *
2255843 GGGCAAATTGAAGACCATCCGATCTCTTACCCCAACCATG
1 GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
* * *
2255883 GGGCAGATTGAAGACCATCCGATCTTTTACCCCGACCA-G
1 GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
*
2255922 AGGGCAGATTGAAGTCCATCCAATCTCTTACCCCGAA-CATG
1 -GGGCAGATTGAAGACCATCCAATCTCTTACCCC-AACCATG
* * * * *
2255963 GGGTAAATTG-AGGCAATCCAATCT-TTA-CCTAACCA-G
1 GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
* * * **
2255999 AGGGCTGATTAAAGACCATCCGATCTCTTACCCTGACCATG
1 -GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
* * * **
2256040 GGGCAGATTGAAG-CAATCCAATCTTTTA-CCCTACCTAAA
1 GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACC-ATG
* * * *
2256079 GGGCAGACTGAAGATCATCCGATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
* * *
2256119 GGACAGATTGAA-ACAATCCAATCTTTTACCC
1 GGGCAGATTGAAGACCATCCAATCTCTTACCC
2256150 TTAAAACTAT
Statistics
Matches: 212, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
36 3 0.01
37 10 0.05
38 19 0.09
39 56 0.26
40 115 0.54
41 9 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
GGGCAGATTGAAGACCATCCAATCTCTTACCCCAACCATG
Found at i:2256116 original size:79 final size:78
Alignment explanation
Indices: 2255843--2256150 Score: 395
Period size: 79 Copynumber: 3.9 Consensus size: 78
2255833 AAGCTGAAAT
* * * *
2255843 GGGCAAATTGAAGACCATCCGATCTCTTACCCCAACCATGGGGCAGATTGAAGACCATCCGATCT
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCCAATCT
*
2255908 TTTACCCCGACCAGA
65 TTTA-CCCTACCAGA
* * * * * *
2255923 GGGCAGATTGAAGTCCATCCAATCTCTTACCCCGAACATGGGGTAAATTGAGGCAATCCAATC-T
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTT
2255987 TTA-CCTAACCAGA
66 TTACCCT-ACCAGA
* * *
2256000 GGGCTGATTAAAGACCATCCGATCTCTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTT
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTT
*
2256065 TTACCCTACCTAAA
66 TTACCCTACC-AGA
* * * *
2256079 GGGCAGACTGAAGATCATCCGATCTCTTACCCCGACCATGGGACAGATTGAAACAATCCAATCTT
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTT
2256144 TTACCCT
66 TTACCCT
2256151 TAAAACTATA
Statistics
Matches: 196, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
76 2 0.01
77 60 0.31
78 11 0.06
79 78 0.40
80 45 0.23
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (78 bp):
GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTT
TTACCCTACCAGA
Found at i:2256138 original size:156 final size:157
Alignment explanation
Indices: 2255853--2256144 Score: 419
Period size: 156 Copynumber: 1.9 Consensus size: 157
2255843 GGGCAAATTG
* *
2255853 AAGACCATCCGATCTCTTACCCCAACCATGGGGCAGATTGAAGACCATCCGATCTTTTACCCCGA
1 AAGACCATCCGATCTCTTACCCCAACCATGGGGCAGATTGAAGACAATCCAATCTTTTACCCCGA
* * ** **
2255918 CCAGAGGGCAGATTGAAGTCCATCCAATCTCTTACCCCGAACATGGGGTAAATTGAGGCAATCCA
66 CCAAAGGGCAGACTGAAGTCCATCCAATCTCTTACCCCGAACATGGGACAAATTGAAACAATCCA
2255983 ATCTTTACCTAACCAGAGGGCTGATTA
131 ATCTTTACCTAACCAGAGGGCTGATTA
** *
2256010 AAGACCATCCGATCTCTTACCCTGACCATGGGGCAGATTGAAG-CAATCCAATCTTTTA-CCCTA
1 AAGACCATCCGATCTCTTACCCCAACCATGGGGCAGATTGAAGACAATCCAATCTTTTACCCCGA
* * *
2256073 CCTAAAGGGCAGACTGAAGAT-CATCCGATCTCTTACCCCGACCATGGGACAGATTGAAACAATC
66 CC-AAAGGGCAGACTGAAG-TCCATCCAATCTCTTACCCCGAACATGGGACAAATTGAAACAATC
2256137 CAATCTTT
129 CAATCTTT
2256145 TACCCTTAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
155 6 0.05
156 71 0.60
157 42 0.35
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (157 bp):
AAGACCATCCGATCTCTTACCCCAACCATGGGGCAGATTGAAGACAATCCAATCTTTTACCCCGA
CCAAAGGGCAGACTGAAGTCCATCCAATCTCTTACCCCGAACATGGGACAAATTGAAACAATCCA
ATCTTTACCTAACCAGAGGGCTGATTA
Found at i:2259316 original size:21 final size:22
Alignment explanation
Indices: 2259292--2259336 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2259282 CAAGGTTTTG
2259292 TTGTTCCA-TATGAGGGTTCTT
1 TTGTTCCATTATGAGGGTTCTT
* *
2259313 TTGTTTCATTATGAGGTTTCTT
1 TTGTTCCATTATGAGGGTTCTT
2259335 TT
1 TT
2259337 CTTATTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (22 bp):
TTGTTCCATTATGAGGGTTCTT
Found at i:2270995 original size:3 final size:3
Alignment explanation
Indices: 2270989--2271031 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
2270979 AAAACGAATA
*
2270989 GAT GAT GAT GAT GGT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2271032 GCATTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:2272384 original size:17 final size:17
Alignment explanation
Indices: 2272359--2272404 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
2272349 TTAAATAATT
*
2272359 ATTACAATT-TTTATTAA
1 ATTATAATTATTT-TTAA
2272376 ATTATAATTATTTTTAA
1 ATTATAATTATTTTTAA
2272393 ATGTATAATTAT
1 AT-TATAATTAT
2272405 CACAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTATAATTATTTTTAA
Found at i:2272487 original size:24 final size:23
Alignment explanation
Indices: 2272433--2272487 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
2272423 CTTTTTAAAC
*
2272433 TAATAATTTTAAATTAAATATTA
1 TAATATTTTTAAATTAAATATTA
*
2272456 TAATTATTTTTAAATATTAAT-TTAA
1 TAA-TATTTTTAAAT-TAAATATT-A
2272481 TAATATT
1 TAATATT
2272488 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.11
24 16 0.59
25 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATTTTTAAATTAAATATTA
Found at i:2273219 original size:246 final size:246
Alignment explanation
Indices: 2272770--2273220 Score: 634
Period size: 246 Copynumber: 1.8 Consensus size: 246
2272760 TAGAAACAAC
* * *
2272770 AAATTTAAAACACAAATGTGTCTTTGAAAATAACATACGATAAATAATAAAACTTATGATTTGAA
1 AAATTTAAAACACAAATATGTCTTTAAAAATAACATACAATAAATAATAAAACTTATGATTTGAA
2272835 ACTAATTAATAATAACACATGAAATATGCACATTATTAAAATAAAAAAATTAGATTAAATTATTT
66 ACTAATTAATAATAACACATGAAATATGCACATTATTAAAATAAAAAAATTAGATTAAATTATTT
* * *
2272900 ATCATGGTGTTGTCATCAATCTTGAGTAGGTGTCAAGTTAACTTATTACACCAACTCCATCAAAT
131 ATCATGGTGTTGTCATCAATCTTGAATAGGTGTCAAGTTAACTTATGACACCAACTCAATCAAAT
2272965 ACATTATTAAGACTAAAAATCTTATCACATGCATATGGATATGGAAACCAT
196 ACATTATTAAGACTAAAAATCTTATCACATGCATATGGATATGGAAACCAT
* * * * *
2273016 AAATTTAAAACTCAAATATTTGTTTAAAAATAACATATAATAAATAATGAAA-TGTATGATTTGA
1 AAATTTAAAACACAAATATGTCTTTAAAAATAACATACAATAAATAATAAAACT-TATGATTTGA
* * * * ** * * *
2273080 AATTAATTAATAATAATATATGAAATATGTATGTTATTAGAATGAAAAAATTAGATTAAATTGTT
65 AACTAATTAATAATAACACATGAAATATGCACATTATTAAAATAAAAAAATTAGATTAAATTATT
* ** * * * *
2273145 TATCATGGTGTTGTCATCAATCTTGAATTGGTGTGGAGTTAACTTGTGACACTAATTCAATTAAA
130 TATCATGGTGTTGTCATCAATCTTGAATAGGTGTCAAGTTAACTTATGACACCAACTCAATCAAA
*
2273210 TATATTATTAA
195 TACATTATTAA
2273221 TATTAGATTT
Statistics
Matches: 176, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
245 1 0.01
246 175 0.99
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (246 bp):
AAATTTAAAACACAAATATGTCTTTAAAAATAACATACAATAAATAATAAAACTTATGATTTGAA
ACTAATTAATAATAACACATGAAATATGCACATTATTAAAATAAAAAAATTAGATTAAATTATTT
ATCATGGTGTTGTCATCAATCTTGAATAGGTGTCAAGTTAACTTATGACACCAACTCAATCAAAT
ACATTATTAAGACTAAAAATCTTATCACATGCATATGGATATGGAAACCAT
Found at i:2282674 original size:38 final size:38
Alignment explanation
Indices: 2282630--2282706 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2282620 AAATGATGTA
2282630 TTCAATATTAGTTTTATTAAGTTTGCTAACCAATATTG
1 TTCAATATTAGTTTTATTAAGTTTGCTAACCAATATTG
2282668 TTCAATATTAGTTTTATTAAGTTTGCTAACCAATATTG
1 TTCAATATTAGTTTTATTAAGTTTGCTAACCAATATTG
2282706 T
1 T
2282707 CTGCTAGAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (38 bp):
TTCAATATTAGTTTTATTAAGTTTGCTAACCAATATTG
Found at i:2289314 original size:26 final size:25
Alignment explanation
Indices: 2289279--2289332 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
2289269 ATAATAAAAA
2289279 TAAATAATATTAGTCGA-GGATATTT
1 TAAATAATATTAGTCGATGG-TATTT
*
2289304 TAAAGTAATATTAGTGGATGGTATTT
1 TAAA-TAATATTAGTCGATGGTATTT
2289330 TAA
1 TAA
2289333 TCTTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 20 0.77
27 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.41
Consensus pattern (25 bp):
TAAATAATATTAGTCGATGGTATTT
Found at i:2289426 original size:172 final size:171
Alignment explanation
Indices: 2289103--2289435 Score: 445
Period size: 172 Copynumber: 1.9 Consensus size: 171
2289093 TTTTCGTATG
* * * * * *
2289103 AAAAATAAGTAATATTATTCAAAGATATTTTAAATTAATATTATTTGAGGGTACTTTGTCTTATC
1 AAAAATAAATAATATTAGTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTACTTTATCTTATC
* * * *
2289168 ACTTTAAAAAACCAAAGAAAATTATGAGAATGCCCTGCCCGTAATAAAAATAAGTAATATCATTT
66 ACTTAAAAAAACCAAAGAAAATTATGAGAATACCCTGCCCATAATAAAAATAAGTAATATCATTC
2289233 GAAGATATTTTGATCTTTTTACTTTAAAAAAAATCCATAAT
131 GAAGATATTTTGATCTTTTTACTTTAAAAAAAATCCATAAT
* * * * *
2289274 AAAAATAAATAATATTAGTCGAGGATATTTTAAAGTAATATTAGTGGATGGTATTTTAATCTTTT
1 AAAAATAAATAATATTAGTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTACTTT-ATCTTAT
* * *
2289339 CACTCTAAAAAAATCAAAGAAAATTATGAGAATACCCT-TCCATAATAAAAATAAGTAATATTAT
65 CACT-TAAAAAAACCAAAGAAAATTATGAGAATACCCTGCCCATAATAAAAATAAGTAATATCAT
* *
2289403 TCGAGGGTATTTT-AGTCTTTTTACTTTAAAAAA
129 TCGAAGATATTTTGA-TCTTTTTACTTTAAAAAA
2289436 CAATAAAAAT
Statistics
Matches: 139, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
171 49 0.35
172 60 0.43
173 30 0.22
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (171 bp):
AAAAATAAATAATATTAGTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTACTTTATCTTATC
ACTTAAAAAAACCAAAGAAAATTATGAGAATACCCTGCCCATAATAAAAATAAGTAATATCATTC
GAAGATATTTTGATCTTTTTACTTTAAAAAAAATCCATAAT
Found at i:2302223 original size:84 final size:84
Alignment explanation
Indices: 2302135--2302436 Score: 446
Period size: 84 Copynumber: 3.6 Consensus size: 84
2302125 TTGCATATGA
* * * * *
2302135 AAATTTGATAAATAATGTATTGTCAAATCAATATATTATTTTATAAAAATTATAATATAATAATA
1 AAATTTGATAAATAATATATTGTCAAATCAACAAATTATTTGATAAAAATTGTAATATAATAATA
2302200 GTTTTTTATTTAAATATTT
66 GTTTTTTATTTAAATATTT
* *
2302219 AAATTT-AGTAAATAATGTATTGTTAAATCAACAAATTATTTGATAAAAATTGTAATATAATAAT
1 AAATTTGA-TAAATAATATATTGTCAAATCAACAAATTATTTGATAAAAATTGTAATATAATAAT
**
2302283 AG-TTTTTATTTAAATATGA
65 AGTTTTTTATTTAAATATTT
* * *
2302302 AAATTTGATAAATAATATATTCTCAAATCAACACATTATTTGATAAAAATTGTAAGATAATAATA
1 AAATTTGATAAATAATATATTGTCAAATCAACAAATTATTTGATAAAAATTGTAATATAATAATA
*
2302367 ATTTTTTATTTAAATATTT
66 GTTTTTTATTTAAATATTT
* *
2302386 AAATTTAATAAATAATATATTGTCAAATCAACAAATTATTTGATAATAATT
1 AAATTTGATAAATAATATATTGTCAAATCAACAAATTATTTGATAAAAATT
2302437 TTTTATTTAA
Statistics
Matches: 196, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
83 74 0.38
84 122 0.62
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (84 bp):
AAATTTGATAAATAATATATTGTCAAATCAACAAATTATTTGATAAAAATTGTAATATAATAATA
GTTTTTTATTTAAATATTT
Found at i:2302416 original size:167 final size:167
Alignment explanation
Indices: 2302129--2302436 Score: 463
Period size: 167 Copynumber: 1.8 Consensus size: 167
2302119 TGGCCATTGC
* * * * *
2302129 ATATGAAAATTTGATAAATAATGTATTGTCAAATCAATATATTATTTTATAAAAATTATAATATA
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
* * * *
2302194 ATAATAGTTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTTAAATCAACAAATTATT
66 ATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATGTATTGTCAAATCAACATATTATT
*
2302259 TGATAAAAATTGTAATATAATAATAGTTTTTATTTAA
131 TGATAAAAATTGTAATATAATAATAATTTTTATTTAA
* * * *
2302296 ATATGAAAATTTGATAAATAATATATTCTCAAATCAACACATTATTTGATAAAAATTGTAAGATA
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
* *
2302361 ATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATATTGTCAAATCAACAAATTATT
66 ATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATGTATTGTCAAATCAACATATTATT
*
2302426 TGATAATAATT
131 TGATAAAAATT
2302437 TTTTATTTAA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
167 129 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (167 bp):
ATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
ATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATGTATTGTCAAATCAACATATTATT
TGATAAAAATTGTAATATAATAATAATTTTTATTTAA
Found at i:2302432 original size:67 final size:67
Alignment explanation
Indices: 2302361--2302503 Score: 223
Period size: 67 Copynumber: 2.1 Consensus size: 67
2302351 TTGTAAGATA
** *
2302361 ATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATATTGTCAAATCAACAAATTATT
1 ATAATAATTTTTTATTTAAATATAAAAATTTAATAAATAATATATTATCAAATCAACAAATTATT
2302426 TG
66 TG
* * *
2302428 ATAATAATTTTTTATTTAAATATAAAAATTTGATAAATAATGTATTATCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATAAAAATTTAATAAATAATATATTATCAAATCAACAAATTATT
2302493 TG
66 TG
*
2302495 ATAAAAATT
1 ATAATAATT
2302504 GTAATATAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (67 bp):
ATAATAATTTTTTATTTAAATATAAAAATTTAATAAATAATATATTATCAAATCAACAAATTATT
TG
Found at i:2302450 original size:151 final size:151
Alignment explanation
Indices: 2302275--2302587 Score: 536
Period size: 151 Copynumber: 2.1 Consensus size: 151
2302265 AAATTGTAAT
* *
2302275 ATAATAATAGTTTTTATTTAAATATGAAAATTTGATAAATAATATATTCTCAAATCAACACATTA
1 ATAATAAT--TTTTTATTTAAATATAAAAATTTGATAAATAATATATTATCAAATCAACACATTA
2302340 TTTGATAAAAATTGTAAGATAATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATA
64 TTTGATAAAAATTGTAAGATAATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATA
*
2302405 TTGTCAAATCAACAAATTATTTG
129 TTATCAAATCAACAAATTATTTG
*
2302428 ATAATAATTTTTTATTTAAATATAAAAATTTGATAAATAATGTATTATCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATAAAAATTTGATAAATAATATATTATCAAATCAACACATTATT
* *
2302493 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATATATT
66 TGATAAAAATTGTAAGATAATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATATT
*
2302558 ATCAAATCAACATATTATTTG
131 ATCAAATCAACAAATTATTTG
*
2302579 ATAAAAATT
1 ATAATAATT
2302588 ATAATATAAT
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
151 144 0.95
153 8 0.05
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (151 bp):
ATAATAATTTTTTATTTAAATATAAAAATTTGATAAATAATATATTATCAAATCAACACATTATT
TGATAAAAATTGTAAGATAATAATAATTTTTTATTTAAATATTTAAATTTAATAAATAATATATT
ATCAAATCAACAAATTATTTG
Found at i:2302495 original size:35 final size:34
Alignment explanation
Indices: 2302388--2302499 Score: 97
Period size: 35 Copynumber: 3.3 Consensus size: 34
2302378 AAATATTTAA
* *
2302388 ATTTAATAAATAATATATTGTCAAATCAACAAATT
1 ATTTGATAAATAATATATTATCAAATCAAC-AATT
* * * *
2302423 ATTTGAT-AATAATTTTTTATTTAAAT-ATA-AA-A
1 ATTTGATAAATAATATATTA-TCAAATCA-ACAATT
*
2302455 ATTTGATAAATAATGTATTATCAAATCAACACATT
1 ATTTGATAAATAATATATTATCAAATCAACA-ATT
2302490 ATTTGATAAA
1 ATTTGATAAA
2302500 AATTGTAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
32 13 0.22
33 14 0.23
34 11 0.18
35 22 0.37
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.41
Consensus pattern (34 bp):
ATTTGATAAATAATATATTATCAAATCAACAATT
Found at i:2302518 original size:84 final size:84
Alignment explanation
Indices: 2302428--2303960 Score: 2043
Period size: 84 Copynumber: 18.3 Consensus size: 84
2302418 AAATTATTTG
* *
2302428 ATAATAATTTTTTATTTAAATATAAAAATTT-GATAAATAATGTATTATCAAATCAACACATTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
2302492 TTGATAAAAATTGTAATATA
65 TTGATAAAAATTGTAATATA
* * * *
2302512 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATATATTATCAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
2302577 TGATAAAAATTATAATATA
66 TGATAAAAATTGTAATATA
* * * * * * * * *
2302596 ATAATAATTTGTAATTTAAGTATGAAAATTGAATAAATAATGTATTGTTAAATTGAACACAATAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAA-TCAACACATTAT
*
2302661 TTGATATAAATTGTAATATA
65 TTGATAAAAATTGTAATATA
* * * * * *
2302681 ATAATAATTTTTGATTTAAATATTTAAATTTAGTAATTAATTTATTGTTAAATCAATACATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
2302746 TGATACAAATTGTAATATA
66 TGATAAAAATTGTAATATA
* * * * *
2302765 ATAATAATTTTTTATTCAAATA-TAAAATTT-GATTAATAATATATTATCAAATCAACACGTTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
*
2302828 TTGATGAAAATTGTAATATA
65 TTGATAAAAATTGTAATATA
* * * *
2302848 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATTTATTGTTAAATCAATACATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
2302913 TGATACAAATTGTAATATA
66 TGATAAAAATTGTAATATA
* * * **
2302932 TTAATAATTTTTTATTCAAATA-TAAAATTT-GATTAATAATGTATTGTCAAATCAACACGCTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
*
2302995 TTGATAAAAATTATAATATA
65 TTGATAAAAATTGTAATATA
* * * *
2303015 ATAATAATTTTTTATTTGAATATGAAAATTT-GATAAATAATGTATTGTCAAATCAATATATTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
* * *
2303079 TTTATAAAAAGTATAATATA
65 TTGATAAAAATTGTAATATA
* * *
2303099 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTTAAATCAACAAATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
2303164 TGATAAAAATTGTAATATA
66 TGATAAAAATTGTAATATA
* * * *
2303183 ATAATAATTTTTTATTTAAATATGAAAATTT-GATAAATAATATATTATCAAATCAACATATTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
2303247 TTGATAAAAATTGTAATATA
65 TTGATAAAAATTGTAATATA
* *
2303267 ATAATAA-TTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTTTCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
2303331 TGATAAAAATTGTAATATA
66 TGATAAAAATTGTAATATA
* **
2303350 ATAATAATAATTTTTATTTAAATATGAAAATTT-GATAAATAATGTATTGTCAAATCAACATTTT
1 ATAATAAT--TTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATT
*
2303414 ATTTGATAAAAATTATAATATA
63 ATTTGATAAAAATTGTAATATA
* * * *
2303436 ATAATAATTTTTTATTTAAATATTTAAGTTTAGTAAATAATGTATTGTGAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* *
2303501 TGATAAAAATTATAATAAA
66 TGATAAAAATTGTAATATA
* * *
2303520 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTTAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
2303585 TGATAAAAATTGTAATAAA
66 TGATAAAAATTGTAATATA
* * * *
2303604 ATAATAA-TTTTTATTTAAATATTTAAATTTAGTAAATAATTTATTATCAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
2303668 TGATAAAAATTGTAATATA
66 TGATAAAAATTGTAATATA
* * * *
2303687 ATAATAATTTTTTATTTAATTATGAAAATTT-GATAAACAATGTATTGTTAAATCAACACATTAT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
2303751 TTGATAAAAATTGT-A-AT-
65 TTGATAAAAATTGTAATATA
*
2303768 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* *
2303833 TGATACAAATTATAATATA
66 TGATAAAAATTGTAATATA
* * * * *
2303852 ATAATAATTTGTAATTTAAATATAAAAATTT-GTTAAATAATGTATTGTCAAATTGAACACAATA
1 ATAATAATTTTTTATTTAAATATTAAAATTTAG-TAAATAATGTATTGTCAAA-TCAACACATTA
*
2303916 TTTGATATAAATTGTAATATA
64 TTTGATAAAAATTGTAATATA
2303937 ATAATAATTTTTTTTATTTAAATA
1 ATAATAA--TTTTTTATTTAAATA
2303961 ATGTTAAATT
Statistics
Matches: 1283, Mismatches: 141, Indels: 47
0.87 0.10 0.03
Matches are distributed among these distances:
81 69 0.05
82 6 0.00
83 300 0.23
84 709 0.55
85 110 0.09
86 76 0.06
87 13 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (84 bp):
ATAATAATTTTTTATTTAAATATTAAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
TGATAAAAATTGTAATATA
Found at i:2302891 original size:167 final size:168
Alignment explanation
Indices: 2302428--2303970 Score: 2070
Period size: 167 Copynumber: 9.2 Consensus size: 168
2302418 AAATTATTTG
** *
2302428 ATAATAATTTTTTATTTAAATATAAAAATTT-GATAAATAATGTATTATCAAATCAACACATTAT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
** *
2302492 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTT-AGTAAATAATATA
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTA
* *
2302556 TTATCAAATCAACATATTATTTGATAAAAATTATAATATA
129 TTGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* * * ** * * * * *
2302596 ATAATAATTTGTAATTTAAGTATGAAAATTGAATAAATAATGTATTGTTAAATTGAACACAATAT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAA-TCAACACATTAT
* * ** * *
2302661 TTGATATAAATTGTAATATAATAATAATTTTTGATTTAAATATTTAAATTT-AGTAATTAATTTA
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTA
* * * *
2302725 TTGTTAAATCAATACATTATTTGATACAAATTGTAATATA
129 TTGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* * * * * *
2302765 ATAATAATTTTTTATTCAAATA-TAAAATTT-GATTAATAATATATTATCAAATCAACACGTTAT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
* ** *
2302828 TTGATGAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTT-AGTAAATAATTTA
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTA
* * * *
2302892 TTGTTAAATCAATACATTATTTGATACAAATTGTAATATA
129 TTGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* * * * **
2302932 TTAATAATTTTTTATTCAAATA-TAAAATTT-GATTAATAATGTATTGTCAAATCAACACGCTAT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTAT
* *
2302995 TTGATAAAAATTATAATATAATAATAATTTTTTATTTGAATATGAAAATTTGATAAATAATGTAT
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTAT
* * * *
2303060 TGTCAAATCAATATATTATTTTATAAAAAGTATAATATA
130 TGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* *
2303099 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTTAAATCAACAAATTATT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
2303164 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATATATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATT
*
2303229 ATCAAATCAACATATTATTTGATAAAAATTGTAATATA
131 GTCAAATCAACATATTATTTGATAAAAATTGTAATATA
*
2303267 ATAATAA-TTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTTTCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
2303331 TGATAAAAATTGTAATATAATAATAATAATTTTTATTTAAATATGAAAATTTGATAAATAATGTA
66 TGATAAAAATTGTAATATAATAATAAT--TTTTTATTTAAATATGAAAATTTGATAAATAATGTA
* *
2303396 TTGTCAAATCAACATTTTATTTGATAAAAATTATAATATA
129 TTGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* * *
2303436 ATAATAATTTTTTATTTAAATATTTAAGTTTAGTAAATAATGTATTGTGAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* * **
2303501 TGATAAAAATTATAATAAAATAATAATTTTTTATTTAAATATTTAAATTT-AGTAAATAATGTAT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTAT
* *
2303565 TGTTAAATCAACATATTATTTGATAAAAATTGTAATAAA
130 TGTCAAATCAACATATTATTTGATAAAAATTGTAATATA
* * *
2303604 ATAATAA-TTTTTATTTAAATATTTAAATTTAGTAAATAATTTATTATCAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* *
2303668 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAATTATGAAAATTTGATAAACAATGTATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATT
* *
2303733 GTTAAATCAACACATTATTTGATAAAAATTGT-A-AT-
131 GTCAAATCAACATATTATTTGATAAAAATTGTAATATA
2303768 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* * * * * *
2303833 TGATACAAATTATAATATAATAATAATTTGTAATTTAAATATAAAAATTTGTTAAATAATGTATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATT
* * * *
2303898 GTCAAATTGAACACAATATTTGATATAAATTGTAATATA
131 GTCAAA-TCAACATATTATTTGATAAAAATTGTAATATA
2303937 ATAATAATTTTTTTTATTTAAATAATGTTAAATT
1 ATAATAA--TTTTTTATTTAAAT-AT-TTAAATT
2303971 AATTTTAAAT
Statistics
Matches: 1239, Mismatches: 116, Indels: 35
0.89 0.08 0.03
Matches are distributed among these distances:
164 7 0.01
165 117 0.09
166 24 0.02
167 502 0.41
168 279 0.23
169 209 0.17
170 78 0.06
171 14 0.01
172 2 0.00
173 7 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (168 bp):
ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATT
GTCAAATCAACATATTATTTGATAAAAATTGTAATATA
Found at i:2303098 original size:251 final size:252
Alignment explanation
Indices: 2302428--2303960 Score: 2093
Period size: 251 Copynumber: 6.1 Consensus size: 252
2302418 AAATTATTTG
* *
2302428 ATAATAATTTTTTATTTAAATATAAAAATTTGATAAATAATGTATTATCAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATT
*
2302493 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATATATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
* * * * * *
2302558 ATCAAATCAACATATTATTTGATAAAAATTATAATATAATAATAATTTGTAATTTAAGTATGAAA
131 GTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTAAA
* * * * * *
2302623 ATTGAATAAATAATGTATTGTTAAATTGAACACAATATTTGATATAAATTGTAATATA
196 ATTTAGTAAATAATGTATTGTCAAA-TCAACACATTATTTGATAAAAATTGTAATATA
* ** * * * *
2302681 ATAATAATTTTTGATTTAAATATTTAAATTT-AGTAATTAATTTATTGTTAAATCAATACATTAT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTATTGTCAAATCAACACATTAT
* * * * *
2302745 TTGATACAAATTGTAATATAATAATAATTTTTTATTCAAATA-TAAAATTT-GATTAATAATATA
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAG-TAAATAATGTA
* * * * *
2302808 TTATCAAATCAACACGTTATTTGATGAAAATTGTAATATAATAATAATTTTTTATTTAAATATTT
129 TTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTA
* * * *
2302873 AAATTTAGTAAATAATTTATTGTTAAATCAATACATTATTTGATACAAATTGTAATATA
194 AAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
* * * **
2302932 TTAATAATTTTTTATTCAAATAT-AAAATTTGATTAATAATGTATTGTCAAATCAACACGCTATT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATT
* * **
2302996 TGATAAAAATTATAATATAATAATAATTTTTTATTTGAATATGAAAATTT-GATAAATAATGTAT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAG-TAAATAATGTAT
* * * * *
2303060 TGTCAAATCAATATATTATTTTATAAAAAGTATAATATAATAATAATTTTTTATTTAAATATTTA
130 TGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTAA
* *
2303125 AATTTAGTAAATAATGTATTGTTAAATCAACAAATTATTTGATAAAAATTGTAATATA
195 AATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
* * *
2303183 ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATATATTATCAAATCAACATATTATT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATT
2303248 TGATAAAAATTGTAATATAATAATAA-TTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
* * *
2303312 TTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATAATTTTTATTTAAATATGA
131 GTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAAT--TTTTTATTTAAATATTA
** *
2303377 AAATTT-GATAAATAATGTATTGTCAAATCAACATTTTATTTGATAAAAATTATAATATA
194 AAATTTAG-TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
** * * *
2303436 ATAATAATTTTTTATTTAAATATTTAAGTTT-AGTAAATAATGTATTGTGAAATCAACATATTAT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGA-TAAATAATGTATTGTCAAATCAACACATTAT
* *
2303500 TTGATAAAAATTATAATAAAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTAT
65 TTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTAT
* * * * *
2303565 TGTTAAATCAACATATTATTTGATAAAAATTGTAATAAAATAATAA-TTTTTATTTAAATATTTA
130 TGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTAA
* * *
2303629 AATTTAGTAAATAATTTATTATCAAATCAACATATTATTTGATAAAAATTGTAATATA
195 AATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
* * *
2303687 ATAATAATTTTTTATTTAATTATGAAAATTTGATAAACAATGTATTGTTAAATCAACACATTATT
1 ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATT
2303752 TGATAAAAATTGT-A-AT-ATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
66 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
* * * *
2303814 GTCAAATCAACACATTATTTGATACAAATTATAATATAATAATAATTTGTAATTTAAATATAAAA
131 GTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTAAA
* * *
2303879 ATTT-GTTAAATAATGTATTGTCAAATTGAACACAATATTTGATATAAATTGTAATATA
196 ATTTAG-TAAATAATGTATTGTCAAA-TCAACACATTATTTGATAAAAATTGTAATATA
2303937 ATAATAATTTTTTTTATTTAAATA
1 ATAATAA--TTTTTTATTTAAATA
2303961 ATGTTAAATT
Statistics
Matches: 1137, Mismatches: 125, Indels: 37
0.88 0.10 0.03
Matches are distributed among these distances:
248 87 0.08
249 37 0.03
250 104 0.09
251 410 0.36
252 177 0.16
253 243 0.21
254 79 0.07
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (252 bp):
ATAATAATTTTTTATTTAAATATGAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATT
TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATT
GTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTAAA
ATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATA
Found at i:2304091 original size:12 final size:12
Alignment explanation
Indices: 2304074--2304122 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
2304064 AAACATGTTT
2304074 ATTAATTTTCAA
1 ATTAATTTTCAA
*
2304086 ATTAATTTCGATTGAA
1 ATTAA-TT---TTCAA
2304102 ATTAATTTTCAA
1 ATTAATTTTCAA
2304114 ATTAATTTT
1 ATTAATTTT
2304123 TACACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
15 2 0.06
16 9 0.29
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (12 bp):
ATTAATTTTCAA
Found at i:2304131 original size:28 final size:28
Alignment explanation
Indices: 2304074--2304131 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
2304064 AAACATGTTT
***
2304074 ATTAATTTTCAAATTAATTTCGATTGAA
1 ATTAATTTTCAAATTAATTTCGACACAA
**
2304102 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTTCAAATTAATTTCGACACAA
2304130 AT
1 AT
2304132 ATTCTTCATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (28 bp):
ATTAATTTTCAAATTAATTTCGACACAA
Found at i:2307987 original size:120 final size:121
Alignment explanation
Indices: 2307849--2308121 Score: 320
Period size: 120 Copynumber: 2.3 Consensus size: 121
2307839 AGGGAAAGTT
* * * *
2307849 GATGTCGACCATTACATGGTCAATACTAAAAAAATTTAA-TTTTTTGCCAAAT-AAAAAGGGAG-
1 GATGTCGACCATTACATGGCCAAAAC-AAAAAAA-ATAATTTTTTTACCAAATAAAAAAGGG-GT
* * * *
2307911 TGTCGGTCATGACATGACCGACACAAAAAA-ATTTGAATTTTTTATTTCACAAAAAGGG
63 TGTCGGCCATGACATGACCAACACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
* * *
2307969 GGTGTCGACCATTGCATGGCCAAAACAAAAAAAATAATTTTTTTACCAGATAAAAAAGGGGTTGT
1 GATGTCGACCATTACATGGCCAAAACAAAAAAAATAATTTTTTTACCAAATAAAAAAGGGGTTGT
* * * *
2308034 CGGCCATGGCATGGCCAAGACAAAAAATATTCGAATTTTTTATCTGACAAAAAGGG
66 CGGCCATGACATGACCAACACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
* * * *
2308090 GATGTCGGCCATAACATAGCCAACACAAAAAA
1 GATGTCGACCATTACATGGCCAAAACAAAAAA
2308122 TTTTAAATTT
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
118 3 0.02
119 19 0.15
120 55 0.43
121 51 0.40
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (121 bp):
GATGTCGACCATTACATGGCCAAAACAAAAAAAATAATTTTTTTACCAAATAAAAAAGGGGTTGT
CGGCCATGACATGACCAACACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
Found at i:2308096 original size:61 final size:61
Alignment explanation
Indices: 2307901--2308187 Score: 262
Period size: 60 Copynumber: 4.8 Consensus size: 61
2307891 TTTGCCAAAT
* * * * * * *
2307901 AAAAA-GGGAGTGTCGGTCATGACATGACCGACACAAAAAAATTTGAA-TTTTTTATTTCAC
1 AAAAAGGGGA-TGTCGGCCATGGCATGGCCAACACAAAAAAATTTGAATTTTTTTATCTGAA
* * * * * * *
2307961 AAAAAGGGGGTGTCGACCATTGCATGGCCAAAACAAAAAAA-AT-AATTTTTTTACCAGATA
1 AAAAAGGGGATGTCGGCCATGGCATGGCCAACACAAAAAAATTTGAATTTTTTTATCTGA-A
* * * *
2308021 AAAAAGGGGTTGTCGGCCATGGCATGGCCAAGACAAAAAATATTCGAA-TTTTTTATCTGAC
1 AAAAAGGGGATGTCGGCCATGGCATGGCCAACACAAAAAA-ATTTGAATTTTTTTATCTGAA
** * * *
2308082 AAAAAGGGGATGTCGGCCATAACATAGCCAACACAAAAAATTTTAAATTTTTTTATCTGAA
1 AAAAAGGGGATGTCGGCCATGGCATGGCCAACACAAAAAAATTTGAATTTTTTTATCTGAA
* * **
2308143 AAAAAGGGG-TGTCGACCATTGCATGGCCAACACCCAAAAATTTGA
1 AAAAAGGGGATGTCGGCCATGGCATGGCCAACACAAAAAAATTTGA
2308188 TTAAAAAAAA
Statistics
Matches: 180, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
58 2 0.01
59 9 0.05
60 97 0.54
61 60 0.33
62 10 0.06
63 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (61 bp):
AAAAAGGGGATGTCGGCCATGGCATGGCCAACACAAAAAAATTTGAATTTTTTTATCTGAA
Found at i:2308112 original size:121 final size:121
Alignment explanation
Indices: 2307849--2308172 Score: 309
Period size: 121 Copynumber: 2.7 Consensus size: 121
2307839 AGGGAAAGTT
* * * * * * *
2307849 GATGTCGACCATTACATGGTCAATACTAAAAAA-ATTTAA-TTTTTTGCCA-AATAAAAAGGGAG
1 GATGTCGACCATAACATAGCCAAAAC-AAAAAATAATAAATTTTTTTACCAGAA-AAAAAGGG-G
** * * * * * *
2307911 TGTCGGTCATGACATGACCGACACAAAAAA-ATTTGAATTTTTTATTTCACAAAAAGGG
63 TGTCGACCATGGCATGGCCAAGACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
* ** *
2307969 GGTGTCGACCATTGCATGGCCAAAACAAAAAA-AAT-AATTTTTTTACCAGATAAAAAAGGGGTT
1 GATGTCGACCATAACATAGCCAAAACAAAAAATAATAAATTTTTTTACCAGA-AAAAAAGGGG-T
* *
2308032 GTCGGCCATGGCATGGCCAAGACAAAAAATATTCGAATTTTTTATCTGACAAAAAGGG
64 GTCGACCATGGCATGGCCAAGACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
* * ** * *
2308090 GATGTCGGCCATAACATAGCCAACACAAAAAATTTTAAATTTTTTTATCTGAAAAAAAGGGGTGT
1 GATGTCGACCATAACATAGCCAAAACAAAAAATAATAAATTTTTTTACCAGAAAAAAAGGGGTGT
*
2308155 CGACCATTGCATGGCCAA
66 CGACCATGGCATGGCCAA
2308173 CACCCAAAAA
Statistics
Matches: 171, Mismatches: 26, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
118 2 0.01
119 18 0.11
120 56 0.33
121 71 0.42
122 11 0.06
123 13 0.08
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (121 bp):
GATGTCGACCATAACATAGCCAAAACAAAAAATAATAAATTTTTTTACCAGAAAAAAAGGGGTGT
CGACCATGGCATGGCCAAGACAAAAAATATTCGAATTTTTTATCTCACAAAAAGGG
Found at i:2308888 original size:60 final size:60
Alignment explanation
Indices: 2308790--2309447 Score: 487
Period size: 59 Copynumber: 10.9 Consensus size: 60
2308780 TTACCAAATG
* * * * *
2308790 AAAAGGGAGTGTTGACCATGGTATGACCAACACGAAAAAAATTTGAATTTTTTATTTCACA
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACAC-AAAAAAATTTGAATTTTTTATTTGACA
* * * * * *** *
2308851 AAAAGGGGGTGAT-GACCATTACATGGCCAACA-TAAAAAAGTTGATTTTTTTACCAGATAA
1 AAAAGGGAGTG-TCGACCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATTTGA-CA
* * ** * * * *
2308911 AAAAAGG-GTGTCGACCA-TGATATGAACAATACAAACAAATTTTGAATTTTTTATCTAACA
1 AAAAGGGAGTGTCGACCATTG-CATGGCCAACACAAA-AAAATTTGAATTTTTTATTTGACA
* * * *
2308971 AAAAAGGAGTGTCGGCCA-TGACATGGCCAACACAAAAAAATTTCGAAAATTTTTTTATTAGAAA
1 AAAAGGGAGTGTCGACCATTG-CATGGCCAACACAAAAAAATTT-G--AA-TTTTTTATTTGACA
* * *
2309035 AAAAGGG-GTGTCGATCATTGCATAGCCAACACAAAAAATTTTTGAAATTTTTTTATTTGA-A
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAA-ATTTG-AA-TTTTTTATTTGACA
* * ** * ** *
2309096 AAAAGGGGGTGTCGACCATTGTATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATA
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATTTGACA
* * * * *
2309156 AATA-GGAGTGTCGACCATTGCATGGCTAACACCAAAAAA-TTAAATTTTTTATCTGACA
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATTTGACA
* * *** *
2309214 AAAAGGGAGTGTCGGCCATTTGCATGACCAACACGAAAAGTTTTTGAAATTTTTTTATCTGA-A
1 AAAAGGGAGTGTCGACCA-TTGCATGGCCAACAC-AAAAAAATTTG-AA-TTTTTTATTTGACA
* ** * ** *
2309277 AAAAGGGAGTGTCGGCCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTTATCAGATA
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGA-ATTTTTTATTTGACA
* * *
2309338 AATAGGG-GTGTC-AGCCATTACATGGCCAACACCAAAAAA-TTGAATTTTTTATTTGACA
1 AAAAGGGAGTGTCGA-CCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATTTGACA
* * ** *
2309396 AAAAGGGAGAGTCGGCCATTGCATGGCCAACACCCAAAAATTTGATTTTTTT
1 AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAATTTTTT
2309448 TATCAAATTA
Statistics
Matches: 478, Mismatches: 92, Indels: 55
0.76 0.15 0.09
Matches are distributed among these distances:
58 37 0.08
59 117 0.24
60 91 0.19
61 93 0.19
62 58 0.12
63 49 0.10
64 33 0.07
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (60 bp):
AAAAGGGAGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATTTGACA
Found at i:2308927 original size:120 final size:120
Alignment explanation
Indices: 2308765--2309447 Score: 474
Period size: 120 Copynumber: 5.7 Consensus size: 120
2308755 TTGGCCATGT
* * * * * *
2308765 AAAAAATTT-AATTTTTTACCAAATGAAAAGGGAGTGTTGACCATGGTATGACCAACACGAAAAA
1 AAAAAATTTGATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGACCAACAC-AAAAA
* * *
2308829 AATTTGAATTTTTTATTTCACAAAAAGGGGGTGAT-GACCATTACATGGCCAACA-T
65 AATTTGAATTTTTTATCTGACAAAAAGGGGGTG-TCGACCATTACATGGCCAACACA
* ** * *
2308884 AAAAAAGTTGATTTTTTTACCAGATAAAAAAAGG-GTGTCGACCATGATATGAACAATACAAACA
1 AAAAAATTTGATTTTTTTACCAGAT-AAAAAAGGAGTGTCGACCATGGCATGACCAACACAAA-A
* * * * * *
2308948 AATTTTGAATTTTTTATCTAACAAAAAAGGAGTGTCGGCCATGACATGGCCAACACA
64 AAATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGACCATTACATGGCCAACACA
** * * *
2309005 AAAAAATTTCGAAAATTTTTTTATTAGA-AAAAAAGGGGTGTCGATCATTGCAT-AGCCAACACA
1 AAAAAATTT-G---ATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGA-CCAACACA
* * ** *
2309068 AAAAATTTTTGAAATTTTTTTATTTGA-AAAAAGGGGGTGTCGACCATTGTATGGCCAACACC
61 AAAAA-ATTTG-AA-TTTTTTATCTGACAAAAAGGGGGTGTCGACCATTACATGGCCAACACA
* * * * * * *
2309130 CAAAAATTTGATTTTTTTATCAGAT-AAATAGGAGTGTCGACCATTGCATGGCTAACACCAAAAA
1 AAAAAATTTGATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGACCAACACAAAAAA
* * * * *
2309194 A-TTAAATTTTTTATCTGACAAAAAGGGAGTGTCGGCCATTTGCATGACCAACACGA
66 ATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGACCA-TTACATGGCCAACAC-A
*** * * * * * * **
2309250 AAAGTTTTTGAAATTTTTTTATCTGA-AAAAAGGGAGTGTCGGCCATTGCATGGCCAACACCCAA
1 AAAAAATTTG--ATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGACCAACACAAAA
* * * * *
2309314 AAATTTGATTTTTTTTATCAGATAAATA-GGGGTGTC-AGCCATTACATGGCCAACACC
64 AAATTTGA-ATTTTTTATCTGACAAAAAGGGGGTGTCGA-CCATTACATGGCCAACACA
* *** * * * * * * **
2309371 AAAAAA-TTGAATTTTTTATTTGACAAAAAGGGAGAGTCGGCCATTGCATGGCCAACACCCAAAA
1 AAAAAATTTGATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGACCAACACAAAAAA
*
2309435 ATTTGATTTTTTT
66 ATTTGAATTTTTT
2309448 TATCAAATTA
Statistics
Matches: 461, Mismatches: 77, Indels: 53
0.78 0.13 0.09
Matches are distributed among these distances:
117 11 0.02
118 38 0.08
119 72 0.16
120 90 0.20
121 62 0.13
122 62 0.13
123 25 0.05
124 41 0.09
125 50 0.11
126 10 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (120 bp):
AAAAAATTTGATTTTTTTACCAGATAAAAAAGGAGTGTCGACCATGGCATGACCAACACAAAAAA
ATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGACCATTACATGGCCAACACA
Found at i:2309412 original size:182 final size:179
Alignment explanation
Indices: 2308975--2309438 Score: 626
Period size: 181 Copynumber: 2.5 Consensus size: 179
2308965 CTAACAAAAA
* * * *
2308975 AGGAGTGTCGGCCATGACATGGCCAACACAAAAAAATTTCGAAAATTTTTTTATTAGAAAAAAAG
1 AGGAGTGTC-GCCATTACATGGCCAACACCAAAAAA-TT-G--AA-TTTTTTATTTGACAAAAAG
** *
2309040 GG-GTGTCGATCATTGCAT-AGCCAACACAAAAAATTTTTGAAATTTTTTTATTTGAAAAAAGGG
60 GGAGTGTCGGCCATTGCATGA-CCAACACAAAAAATTTTTGAAATTTTTTTATCTGAAAAAAGGG
* *
2309103 GGTGTCGACCATTGTATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAAT
124 AGTGTCGACCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAAT
* * * *
2309159 AGGAGTGTCGACCATTGCATGGCTAACACCAAAAAATTAAATTTTTTATCTGACAAAAAGGGAGT
1 AGGAGTGTCG-CCATTACATGGCCAACACCAAAAAATTGAATTTTTTATTTGACAAAAAGGGAGT
* *
2309224 GTCGGCCATTTGCATGACCAACACGAAAAGTTTTTGAAATTTTTTTATCTGAAAAAAGGGAGTGT
65 GTCGGCCA-TTGCATGACCAACACAAAAAATTTTTGAAATTTTTTTATCTGAAAAAAGGGAGTGT
*
2309289 CGGCCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTTATCAGATAAAT
129 CGACCATTGCATGGCCAACACCCAAAAATTTGA-TTTTTTTATCAGATAAAT
* *
2309341 AGGGGTGTCAGCCATTACATGGCCAACACCAAAAAATTGAATTTTTTATTTGACAAAAAGGGAGA
1 AGGAGTGTC-GCCATTACATGGCCAACACCAAAAAATTGAATTTTTTATTTGACAAAAAGGGAGT
* *
2309406 GTCGGCCATTGCATGGCCAACACCCAAAAATTT
65 GTCGGCCATTGCATGACCAACA-CAAAAAATTT
2309439 GATTTTTTTT
Statistics
Matches: 248, Mismatches: 25, Indels: 16
0.86 0.09 0.06
Matches are distributed among these distances:
179 18 0.07
180 10 0.04
181 94 0.38
182 92 0.37
183 4 0.02
184 30 0.12
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (179 bp):
AGGAGTGTCGCCATTACATGGCCAACACCAAAAAATTGAATTTTTTATTTGACAAAAAGGGAGTG
TCGGCCATTGCATGACCAACACAAAAAATTTTTGAAATTTTTTTATCTGAAAAAAGGGAGTGTCG
ACCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAAT
Found at i:2310204 original size:62 final size:59
Alignment explanation
Indices: 2309944--2310426 Score: 326
Period size: 61 Copynumber: 8.0 Consensus size: 59
2309934 GTCGATCTTT
* * * **
2309944 ACATGGCCAACACAAAAAAAAATT-AATTTTTTACCAAATAAAAAGGGAGTGTCGACCATG
1 ACATGGCAAACAC-AAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGAGTGTCGACCATG
** * * *
2310004 GTATGACCAAA-ACGAAAAAAATTTGAATTTTTTATTTCATAAAAAGGGAGTGTCGACCATTG
1 ACATG-GCAAACAC-AAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGAGTGTCGACCA-TG
* * * *
2310066 -CATGGCCAACACAAAAAAA-TT-AATTTTTTTACCAGATAAAAAGAGG-GTGTCGGCCATG
1 ACATGGCAAACACAAAAAAATTTGAA-TTTTTTATCTGA-AAAAAG-GGAGTGTCGACCATG
* * *
2310124 ATATGGACAATACA-AAAAAATTTTGAATTTTTTATCTGACAAAAAAGGAGTGTCGACCATG
1 ACATGG-CAA-ACACAAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGAGTGTCGACCATG
* * *
2310185 ACATGGCAAACACAAAAAAATTTCAAAATTTTTTTAT-TAGAGAAAAGGGGGTGTCGACCATTG
1 ACATGGCAAACACAAAAAAATTT--GAA-TTTTTTATCT-GAAAAAAGGGAGTGTCGACCA-TG
* * *
2310248 -CATGGTC-AACATCAAAAAATTTTGAAATTTTTTTATCTGAAAAAAGGGGGTGTCGACTATTG
1 ACATGG-CAAACA-CAAAAAAATTTG-AA-TTTTTTATCTGAAAAAAGGGAGTGTCGACCA-TG
* ** * * * * *
2310310 -CATGGCCAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGG-GTGTCGGCCATT
1 ACATGGCAAACACAAAAAAATTTGA-ATTTTTTATCTGA-AAAAAGGGAGTGTCGACCATG
* * * * *
2310369 ACATGGCGAACACCAAAAAA-TTAAATTTTTTATTTGACAAAAAGGGAGTGTCGGCCAT
1 ACATGGCAAACACAAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGAGTGTCGACCAT
2310427 TGTATCGCCA
Statistics
Matches: 343, Mismatches: 53, Indels: 55
0.76 0.12 0.12
Matches are distributed among these distances:
58 21 0.06
59 48 0.14
60 85 0.25
61 91 0.27
62 74 0.22
63 24 0.07
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (59 bp):
ACATGGCAAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAGGGAGTGTCGACCATG
Found at i:2311092 original size:60 final size:60
Alignment explanation
Indices: 2310919--2311273 Score: 217
Period size: 60 Copynumber: 5.9 Consensus size: 60
2310909 AGGGAAAGTT
* * * * * * *
2310919 GGTGTCGATCATTACATGGCTAACACCAAAAAATTTAATTTTTTACCAAATAAAAAA---
1 GGTGTCGATCATTGCATGACCAACACAAAAAAATTGAATTTTTTATCAGATAAAAAAGGG
* * * * * *** *
2310976 GGAGT-GATCATGGTATGGCCAACATGAAAAAAATTTGAATTTTTTATTTCA-CAAAAAGGG
1 GGTGTCGATCATTGCATGACCAACA-CAAAAAAA-TTGAATTTTTTATCAGATAAAAAAGGG
* *
2311036 GGTGTCGATCATTGCATGACCAACACAAAAAAATTGATTTTTTTACCAGATAAAAAAGGG
1 GGTGTCGATCATTGCATGACCAACACAAAAAAATTGAATTTTTTATCAGATAAAAAAGGG
* * * * * * *
2311096 AGCGTCGACCATTGCATGACCAACACTAAAAAATTTTAAAATTTTTTTATCTG--AAAAAAGAG
1 GGTGTCGATCATTGCATGACCAACAC-AAAAAA-ATT-GAA-TTTTTTATCAGATAAAAAAGGG
* * * * * *
2311158 GGTGTCGACCATTGCATGACCAACACTCAAAAATTTGATTTTTTTTATCATAT-AAATA-GG
1 GGTGTCGATCATTGCATGACCAACAC-AAAAAAATTGA-ATTTTTTATCAGATAAAAAAGGG
* * * * * * *
2311218 AGTGTCG-GCAATTGCATGATCAACACCAAAAAATTAAATTTTTTATCTGACAAAAA
1 GGTGTCGATC-ATTGCATGACCAACACAAAAAAATTGAATTTTTTATCAGATAAAAA
2311274 GAGAGTGTCG
Statistics
Matches: 230, Mismatches: 52, Indels: 30
0.74 0.17 0.10
Matches are distributed among these distances:
56 15 0.07
57 15 0.07
58 22 0.10
59 25 0.11
60 74 0.32
61 29 0.13
62 40 0.17
63 1 0.00
64 9 0.04
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (60 bp):
GGTGTCGATCATTGCATGACCAACACAAAAAAATTGAATTTTTTATCAGATAAAAAAGGG
Found at i:2311165 original size:62 final size:61
Alignment explanation
Indices: 2311003--2311286 Score: 262
Period size: 60 Copynumber: 4.7 Consensus size: 61
2310993 GCCAACATGA
* * * * * *
2311003 AAAAAATTTGAA-TTTTTTATTTCACAAAAAGGGGGTGTCGATCATTGCATGACCAACAC-
1 AAAAAATTTAAATTTTTTTATCTGATAAAAAGAGGGTGTCGACCATTGCATGACCAACACT
* * * * *
2311062 AAAAAAATT-GATTTTTTTACCAGATAAAAA-AGGGAGCGTCGACCATTGCATGACCAACACT
1 AAAAAATTTAAATTTTTTTATCTGATAAAAAGA-GG-GTGTCGACCATTGCATGACCAACACT
2311123 AAAAAATTTTAAAATTTTTTTATCTGA-AAAAAGAGGGTGTCGACCATTGCATGACCAACACT
1 AAAAAA-TTT-AAATTTTTTTATCTGATAAAAAGAGGGTGTCGACCATTGCATGACCAACACT
* * * * * * * * *
2311185 CAAAAATTTGATTTTTTTTATCAT-ATAAATAG-GAGTGTCGGCAATTGCATGATCAACACC
1 AAAAAATTTAAATTTTTTTATC-TGATAAAAAGAGGGTGTCGACCATTGCATGACCAACACT
* *
2311245 AAAAAA-TTAAA-TTTTTTATCTGACAAAAAGAGAGTGTCGACC
1 AAAAAATTTAAATTTTTTTATCTGATAAAAAGAGGGTGTCGACC
2311287 TTTTTTATTA
Statistics
Matches: 182, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
57 1 0.01
58 16 0.09
59 35 0.19
60 63 0.35
61 15 0.08
62 32 0.18
63 7 0.04
64 13 0.07
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (61 bp):
AAAAAATTTAAATTTTTTTATCTGATAAAAAGAGGGTGTCGACCATTGCATGACCAACACT
Found at i:2311171 original size:122 final size:118
Alignment explanation
Indices: 2310919--2311286 Score: 370
Period size: 122 Copynumber: 3.1 Consensus size: 118
2310909 AGGGAAAGTT
* * * * * *
2310919 GGTGTCGATCATTACATGGCTAACACCAAAAAATTTAATTTTTTACCAAATAAAAAAGGA-GT-G
1 GGTGTCGACCATTGCATGACCAACACCAAAAAATTGATTTTTTTACCAAATAAAAAAGGAGGTCG
* * * * * * * *
2310982 ATCATGGTATGGCCAACA-TGAAAAAAATTTGAATTTTTTATTTCACAAAAAGGG
66 ACCATTGCATGACCAACACT--AAAAAATTTAAATTTTTTATCTGACAAAAAGAG
* * *
2311036 GGTGTCGATCATTGCATGACCAACACAAAAAAATTGATTTTTTTACCAGATAAAAAAGGGAGCGT
1 GGTGTCGACCATTGCATGACCAACACCAAAAAATTGATTTTTTTACCAAATAAAAAA-GGAG-GT
2311101 CGACCATTGCATGACCAACACTAAAAAATTTTAAAATTTTTTTATCTGA-AAAAAGAG
64 CGACCATTGCATGACCAACACTAAAAAA-TTT-AAA-TTTTTTATCTGACAAAAAGAG
* * * *
2311158 GGTGTCGACCATTGCATGACCAACACTCAAAAATTTGATTTTTTTTATCATAT-AAATAGGAGTG
1 GGTGTCGACCATTGCATGACCAACAC-CAAAAAATTGA-TTTTTTTACCAAATAAAAAAGGAG-G
* * * *
2311222 TCGGCAATTGCATGATCAACACCAAAAAA-TTAAATTTTTTATCTGACAAAAAGAG
63 TCGACCATTGCATGACCAACACTAAAAAATTTAAATTTTTTATCTGACAAAAAGAG
*
2311277 AGTGTCGACC
1 GGTGTCGACC
2311287 TTTTTTATTA
Statistics
Matches: 213, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
117 50 0.23
118 15 0.07
119 20 0.09
120 10 0.05
121 18 0.08
122 65 0.31
123 23 0.11
124 12 0.06
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (118 bp):
GGTGTCGACCATTGCATGACCAACACCAAAAAATTGATTTTTTTACCAAATAAAAAAGGAGGTCG
ACCATTGCATGACCAACACTAAAAAATTTAAATTTTTTATCTGACAAAAAGAG
Found at i:2325685 original size:24 final size:24
Alignment explanation
Indices: 2325653--2325699 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2325643 TGACTCAAAT
2325653 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
2325677 AAATAAACAGAGTTTAATTGAAA
1 AAATAAACAGAGTTTAATTGAAA
2325700 GATTATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (24 bp):
AAATAAACAGAGTTTAATTGAAAC
Found at i:2332133 original size:28 final size:28
Alignment explanation
Indices: 2332102--2332155 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2332092 ATCTTGGCAG
* *
2332102 ACTTCCATATATATGATTGTCCTTGCAT
1 ACTTCCACATATAAGATTGTCCTTGCAT
*
2332130 ACTTTCACATATAAGATTGTCCTTGC
1 ACTTCCACATATAAGATTGTCCTTGC
2332156 GGGCTTCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (28 bp):
ACTTCCACATATAAGATTGTCCTTGCAT
Found at i:2339384 original size:59 final size:57
Alignment explanation
Indices: 2339316--2339744 Score: 536
Period size: 59 Copynumber: 7.3 Consensus size: 57
2339306 ACTCGGGGGC
* * * *
2339316 AAAATGGTAATTTTGGTAAAATCGAAGTTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGTGAAATCG-GGGTTAAAAATGGAATTTTAGAAAGTT-GAGGGT
* *
2339375 ATAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT-GAGGGT
*
2339434 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATTGGAATTCTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAA-TGGAATTTTAGAAAG-TTGAGGGT
*
2339493 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTGA-GGGT
* * * * *
2339552 AAAATGGCAATTTTCGGTGAAATTGGGGTTGAAAATGAAATTTTGGAAAGATTG-GGAGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAG-TTGAGG-GT
* * * *
2339611 AAAACGGTAATTTTTGGTGAAACCGGGGTTAAGAATGGAATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTGA-GGGT
* **
2339670 AAAATAGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT-GAGGGT
2339729 AAAATGGTAATTTTGG
1 AAAATGGTAATTTTGG
2339745 ATTGTTTGGG
Statistics
Matches: 323, Mismatches: 34, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
58 41 0.13
59 234 0.72
60 48 0.15
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (57 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTGAGGGT
Found at i:2339390 original size:30 final size:27
Alignment explanation
Indices: 2339347--2339745 Score: 174
Period size: 29 Copynumber: 13.6 Consensus size: 27
2339337 TCGAAGTTTA
2339347 AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGAATTTTGGAAAGTTCG-GGGT
*
2339375 ATAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGG-T
*
2339405 AAAAATGGAATTTTAGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAAGTTC-GGGGT
2339434 AAAATGGTAATTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AATTTT-G-GAAAGTTCGGGG-T
* * *
2339463 AAAAATTGGAATTCTAGAAAGTTTGAGGGT
1 -AAAA-TGGAATTTTGGAAAGTTCG-GGGT
2339493 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGG-T
* *
2339523 AAAAATGGAATTTTAGAAAGTTTAGGGGT
1 -AAAATGGAATTTTGGAAAG-TTCGGGGT
2339552 AAAATGGCAATTTTCGGTGAAA-TT-GGGGTT
1 AAAATGG-AATTTT--G-GAAAGTTCGGGG-T
*
2339582 GAAAATGAAATTTTGGAAAGATT-GGGAGT
1 -AAAATGGAATTTTGGAAAG-TTCGGG-GT
* *
2339611 AAAACGGTAATTTTTGGTGAAA--CCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGG-T
* *
2339641 AAGAATGGAATTTTAGAAAGTTTAGGGGT
1 AA-AATGGAATTTTGGAAAG-TTCGGGGT
* * *
2339670 AAAATAGTAATTTTCGGTGAAA-TTAGGGTT
1 AAAAT-GGAATTTT--G-GAAAGTTCGGGGT
*
2339700 AAAAATGGAATTTTAGAAAGTTCGAGGGT
1 -AAAATGGAATTTTGGAAAGTTCG-GGGT
2339729 AAAATGGTAATTTTGGA
1 AAAATGG-AATTTTGGA
2339746 TTGTTTGGGG
Statistics
Matches: 288, Mismatches: 29, Indels: 107
0.68 0.07 0.25
Matches are distributed among these distances:
27 20 0.07
28 50 0.17
29 79 0.27
30 79 0.27
31 40 0.14
32 20 0.07
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (27 bp):
AAAATGGAATTTTGGAAAGTTCGGGGT
Found at i:2339403 original size:29 final size:28
Alignment explanation
Indices: 2339311--2339744 Score: 143
Period size: 30 Copynumber: 14.8 Consensus size: 28
2339301 TGGATACTCG
* *
2339311 GGGGCAAAATGGTAATTTTGGTAAAATC
1 GGGGTAAAATGGTAATTTTGGTGAAATC
**
2339339 GAAGTTTAAAAATGG-AATTTT-G-GAAAGTTC
1 G--GGGT-AAAATGGTAATTTTGGTGAAA--TC
*
2339369 GAGGGTATAATGGTAATTTTTGGTGAAATC
1 G-GGGTAAAATGGTAA-TTTTGGTGAAATC
*
2339399 GGGGTTAAAAATGG-AATTTT--AGAAAGTTC
1 GGGG-T-AAAATGGTAATTTTGGTGAAA--TC
2339428 GGGGGTAAAATGGTAATTTTGGTGAAATC
1 -GGGGTAAAATGGTAATTTTGGTGAAATC
* * *
2339457 GGGGTTAAAAATTGG-AATTCT--AGAAAGTTT
1 GGGG-T-AAAA-TGGTAATTTTGGTGAAA--TC
2339487 GAGGGTAAAATGGTAATTTTTGGTGAAATC
1 G-GGGTAAAATGGTAA-TTTTGGTGAAATC
* *
2339517 GGGGTTAAAAATGG-AATTTT--AGAAAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGTGAAA---TC
* *
2339547 GGGGTAAAATGGCAATTTTCGGTGAAATT
1 GGGGTAAAATGGTAATTTT-GGTGAAATC
* * *
2339576 GGGGTTGAAAAT-GAAATTTTGG-AAAGATT
1 GGGG-T-AAAATGGTAATTTTGGTGAA-ATC
* *
2339605 GGGAGTAAAACGGTAATTTTTGGTGAAACC
1 GGG-GTAAAATGGTAA-TTTTGGTGAAATC
* *
2339635 GGGGTTAAGAATGG-AATTTT--AGAAAGTTTA
1 GGGG-TAA-AATGGTAATTTTGGTGAAA---TC
* *
2339665 GGGGTAAAATAGTAATTTTCGGTGAAATTA
1 GGGGTAAAATGGTAATTTT-GGTGAAA-TC
* *
2339695 GGGTTAAAAATGG-AATTTT--AGAAAGTTC
1 GGGGT-AAAATGGTAATTTTGGTGAAA--TC
2339723 GAGGGTAAAATGGTAATTTTGG
1 G-GGGTAAAATGGTAATTTTGG
2339745 ATTGTTTGGG
Statistics
Matches: 310, Mismatches: 38, Indels: 113
0.67 0.08 0.25
Matches are distributed among these distances:
27 16 0.05
28 55 0.18
29 85 0.27
30 90 0.29
31 48 0.15
32 16 0.05
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGTGAAATC
Found at i:2339483 original size:118 final size:118
Alignment explanation
Indices: 2339311--2339742 Score: 602
Period size: 118 Copynumber: 3.7 Consensus size: 118
2339301 TGGATACTCG
* * * * *
2339311 GGGGCAAAATGGTAATTTT-GGTAAAATCGAAGTTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 GGGGTAAAATGGTAATTTTCGGTGAAATCG-GGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
* *
2339375 ATAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
65 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
* *
2339429 GGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATTGGAATTCTAGAAAGTTTGAGGGT
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAA-TGGAATTTTAGAAAGTTCGAGGGT
*
2339493 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTA
65 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
* * * * *
2339547 GGGGTAAAATGGCAATTTTCGGTGAAATTGGGGTTGAAAATGAAATTTTGGAAAGATT-G-GGAG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAG-TTCGAGG-G
* * * *
2339610 TAAAACGGTAATTTTTGGTGAAACCGGGGTTAAGAATGGAATTTTAGAAAGTTTA
64 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
* **
2339665 GGGGTAAAATAGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
2339730 AAATGGTAATTTT
66 AAATGGTAATTTT
2339743 GGATTGTTTG
Statistics
Matches: 282, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
117 12 0.04
118 248 0.88
119 22 0.08
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (118 bp):
GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
Found at i:2341329 original size:17 final size:17
Alignment explanation
Indices: 2341302--2341385 Score: 87
Period size: 17 Copynumber: 4.8 Consensus size: 17
2341292 TTAAATTTTC
2341302 ATTTCAAAATAAATTTAA
1 ATTT-AAAATAAATTTAA
2341320 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
* ** *
2341337 ACTCCAAATAAGTTTTAA
1 ATTTAAAATAA-ATTTAA
* *
2341355 ATTTATAACAAATTTAA
1 ATTTAAAATAAATTTAA
*
2341372 ATTTAAAATGAATT
1 ATTTAAAATAAATT
2341386 AAGAATCTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
17 37 0.71
18 15 0.29
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:2343687 original size:16 final size:17
Alignment explanation
Indices: 2343662--2343699 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2343652 GCCAAATCAC
2343662 AAAT-ATTTG-ATAATA
1 AAATAATTTGAATAATA
2343677 AAATAATTTGAATAATA
1 AAATAATTTGAATAATA
2343694 AAATAA
1 AAATAA
2343700 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 5 0.24
17 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATAATTTGAATAATA
Found at i:2350554 original size:18 final size:17
Alignment explanation
Indices: 2350523--2350557 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
2350513 GATTTAAGGT
2350523 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
2350540 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
2350558 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:2353339 original size:29 final size:29
Alignment explanation
Indices: 2353307--2353372 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
2353297 GAAGTCGAAC
*
2353307 TTTTGGAAAATTAAGGGTAAAATGGTAAT
1 TTTTGGAAAATCAAGGGTAAAATGGTAAT
* *** **
2353336 TTTTTGATGCTCGGGGGTAAAATGGTAAT
1 TTTTGGAAAATCAAGGGTAAAATGGTAAT
2353365 TTTTGGAA
1 TTTTGGAA
2353373 GTTCGGGGAC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (29 bp):
TTTTGGAAAATCAAGGGTAAAATGGTAAT
Found at i:2353378 original size:29 final size:29
Alignment explanation
Indices: 2353321--2353668 Score: 224
Period size: 29 Copynumber: 11.9 Consensus size: 29
2353311 GGAAAATTAA
* * *
2353321 GGGT-AAAATGGTAATTTTTTGATGCTCGG
1 GGGTAAAAAT-GTAATTTTTGGAAGTTCGG
2353350 GGGT-AAAATGGTAATTTTTGGAAGTTCGG
1 GGGTAAAAAT-GTAATTTTTGGAAGTTCGG
** * *
2353379 GGACAAAAATATAATTTTTGAGAAGTTCGA
1 GGGTAAAAATGTAATTTTTG-GAAGTTCGG
* * *
2353409 GGGTAAAAATATGATTTTTGGAAGTACGG
1 GGGTAAAAATGTAATTTTTGGAAGTTCGG
* * *
2353438 GAGTAAAAATGTGATTTTTGGAAGTT-TG
1 GGGTAAAAATGTAATTTTTGGAAGTTCGG
* ** *
2353466 CGGTAAAAATGTAATTTTTAAAAAGTTTGG
1 GGGTAAAAATGTAATTTTT-GGAAGTTCGG
* *
2353496 GGG--AAAATATAATTTTTGAGAAGTT-TG
1 GGGTAAAAATGTAATTTTTG-GAAGTTCGG
* * * *
2353523 AGGCAAAAATGTAATTTTTAAGAAGTTCGA
1 GGGTAAAAATGTAATTTTT-GGAAGTTCGG
* * * *
2353553 GGGTCAAAATGTAATTTTTAGAAAGTTTGA
1 GGGTAAAAATGTAATTTTT-GGAAGTTCGG
* ***
2353583 GGGTAAAAATGTGATTTTTGGAAGTTTAA
1 GGGTAAAAATGTAATTTTTGGAAGTTCGG
* * * ***
2353612 GGGT-AAAATATAATTTTTAGAAAATTTTT
1 GGGTAAAAATGTAATTTTT-GGAAGTTCGG
*
2353641 GGGTCAAAATGTAATTTTTGGATAGTTC
1 GGGTAAAAATGTAATTTTTGGA-AGTTC
2353669 AGGAACCTTC
Statistics
Matches: 255, Mismatches: 52, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
27 3 0.01
28 47 0.18
29 115 0.45
30 90 0.35
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAGTTCGG
Found at i:2353426 original size:59 final size:59
Alignment explanation
Indices: 2353350--2353668 Score: 257
Period size: 59 Copynumber: 5.5 Consensus size: 59
2353340 TGATGCTCGG
*
2353350 GGGT-AAAATGGTAATTTTTGGAAGTTCGGGGACAAAAATATAATTTTTGAGAAGTTCGA
1 GGGTAAAAAT-GTAATTTTTGGAAGTTCGGGGACAAAAATATAATTTTTGAGAAGTTTGA
* * * * * *
2353409 GGGTAAAAATATGATTTTTGGAAGTAC-GGGAGTAAAAATGTGATTTTTG-GAAGTTTG-
1 GGGTAAAAATGTAATTTTTGGAAGTTCGGGGA-CAAAAATATAATTTTTGAGAAGTTTGA
* ** * *
2353466 CGGTAAAAATGTAATTTTTAAAAAGTTTGGGG--GAAAATATAATTTTTGAGAAGTTTGA
1 GGGTAAAAATGTAATTTTT-GGAAGTTCGGGGACAAAAATATAATTTTTGAGAAGTTTGA
* * * *
2353524 -GGCAAAAATGTAATTTTTAAGAAGTTCGAGGGTC-AAAATGTAATTTTT-AGAAAGTTTGA
1 GGGTAAAAATGTAATTTTT-GGAAGTTCG-GGGACAAAAATATAATTTTTGAG-AAGTTTGA
* ** * * **
2353583 GGGTAAAAATGTGATTTTTGGAAGTTTAAGGG--TAAAATATAATTTTT-AGAAAATTTTT
1 GGGTAAAAATGTAATTTTTGGAAG-TTCGGGGACAAAAATATAATTTTTGAG-AAGTTTGA
*
2353641 GGGTCAAAATGTAATTTTTGGATAGTTC
1 GGGTAAAAATGTAATTTTTGGA-AGTTC
2353669 AGGAACCTTC
Statistics
Matches: 213, Mismatches: 33, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
56 13 0.06
57 49 0.23
58 63 0.30
59 65 0.31
60 23 0.11
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGGAAGTTCGGGGACAAAAATATAATTTTTGAGAAGTTTGA
Found at i:2353656 original size:30 final size:30
Alignment explanation
Indices: 2353462--2353659 Score: 115
Period size: 30 Copynumber: 6.7 Consensus size: 30
2353452 TTTTTGGAAG
* *
2353462 TTTGCGGTAAAAATGTAATTTTTA-AAAA-G
1 TTTG-GGTCAAAATGTAATTTTTAGAAAATT
** * * *
2353491 TTTGGGGGAAAATATAATTTTT-GAGAA-G
1 TTTGGGTCAAAATGTAATTTTTAGAAAATT
*
2353519 TTTGAGG-CAAAAATGTAATTTTTA-AGAAGTT
1 TTTG-GGTC-AAAATGTAATTTTTAGA-AAATT
*** *
2353550 CGAGGGTCAAAATGTAATTTTTAGAAAGTT
1 TTTGGGTCAAAATGTAATTTTTAGAAAATT
** * * * *
2353580 TGAGGGTAAAAATGTGATTTTT-GGAAGTT
1 TTTGGGTCAAAATGTAATTTTTAGAAAATT
** *
2353609 TAAGGGT-AAAATATAATTTTTAGAAAATT
1 TTTGGGTCAAAATGTAATTTTTAGAAAATT
2353638 TTTGGGTCAAAATGTAATTTTT
1 TTTGGGTCAAAATGTAATTTTT
2353660 GGATAGTTCA
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
28 35 0.26
29 42 0.31
30 55 0.41
31 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
TTTGGGTCAAAATGTAATTTTTAGAAAATT
Found at i:2354705 original size:15 final size:16
Alignment explanation
Indices: 2354666--2354711 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
2354656 TTCCTCTTTT
2354666 TTTATATTA-TTAATA
1 TTTATATTATTTAATA
2354681 -TTATTATTATTTAATA
1 TTTA-TATTATTTAATA
2354697 TTTAT-TTATTTAATA
1 TTTATATTATTTAATA
2354712 CGCTTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.11
15 15 0.54
16 7 0.25
17 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATATTATTTAATA
Found at i:2355369 original size:52 final size:52
Alignment explanation
Indices: 2355291--2355393 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
2355281 GACTTGTATG
*
2355291 TTGGACTTTTGAACTCAATTTAAAATGAAATTTAGAATAAATTTAAATTTAT
1 TTGGACTTTTAAACTCAATTTAAAATGAAATTTAGAATAAATTTAAATTTAT
2355343 TTGGACTTTTAAACTCAATTTAAAATGAAATTTAGAATAAATTTAAATTTA
1 TTGGACTTTTAAACTCAATTTAAAATGAAATTTAGAATAAATTTAAATTTA
2355394 AAATAAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (52 bp):
TTGGACTTTTAAACTCAATTTAAAATGAAATTTAGAATAAATTTAAATTTAT
Found at i:2355390 original size:17 final size:17
Alignment explanation
Indices: 2355370--2355449 Score: 142
Period size: 17 Copynumber: 4.6 Consensus size: 17
2355360 ATTTAAAATG
*
2355370 AAATTTAGAATAAATTT
1 AAATTTAAAATAAATTT
2355387 AAATTTAAAATAAATTT
1 AAATTTAAAATAAATTT
2355404 AAATTTAAAATAAATTT
1 AAATTTAAAATAAATTT
2355421 AAATTTAAAATAAATTT
1 AAATTTAAAATAAATTT
2355438 AAAATTTAAAAT
1 -AAATTTAAAAT
2355450 TAAAGATTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
17 50 0.82
18 11 0.18
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (17 bp):
AAATTTAAAATAAATTT
Found at i:2355391 original size:6 final size:6
Alignment explanation
Indices: 2355359--2355453 Score: 83
Period size: 6 Copynumber: 16.3 Consensus size: 6
2355349 TTTTAAACTC
* * *
2355359 AATTTA AAATGA AATTTA GAA--TA AATTTA AATTTA AA-ATA AATTTA
1 AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
2355405 AATTTA AA-ATA AATTTA AATTTA AA-ATA AATTTAA AATTTA AAATTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
2355452 AA
1 AA
2355454 GATTGAGTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.03
5 14 0.20
6 47 0.66
7 8 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (6 bp):
AATTTA
Found at i:2355434 original size:11 final size:11
Alignment explanation
Indices: 2355359--2355442 Score: 63
Period size: 11 Copynumber: 7.9 Consensus size: 11
2355349 TTTTAAACTC
2355359 AATTTAAAATGA
1 AATTTAAAAT-A
*
2355371 AATTTAGAATA
1 AATTTAAAATA
2355382 AA-TT----TA
1 AATTTAAAATA
2355388 AATTTAAAATA
1 AATTTAAAATA
*
2355399 AATTTAAATTTA
1 AATTTAAA-ATA
* *
2355411 AA-ATAAATTTA
1 AATTTAAA-ATA
2355422 AATTTAAAATA
1 AATTTAAAATA
2355433 AATTTAAAAT
1 AATTTAAAAT
2355443 TTAAAATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
6 4 0.07
7 2 0.03
10 2 0.03
11 35 0.58
12 17 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:2357388 original size:18 final size:19
Alignment explanation
Indices: 2357365--2357404 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2357355 TAAGAAATTG
*
2357365 TTGTAAAATGT-AACATGT
1 TTGTAAAATGTGAACAAGT
*
2357383 TTGTAACATGTGAACAAGT
1 TTGTAAAATGTGAACAAGT
2357402 TTG
1 TTG
2357405 GTTTCAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGTAAAATGTGAACAAGT
Found at i:2368604 original size:12 final size:12
Alignment explanation
Indices: 2368587--2368613 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2368577 GATTATCGAG
2368587 GCTTGTAAAGAA
1 GCTTGTAAAGAA
2368599 GCTTGTAAAGAA
1 GCTTGTAAAGAA
2368611 GCT
1 GCT
2368614 ATTTGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (12 bp):
GCTTGTAAAGAA
Found at i:2369954 original size:21 final size:20
Alignment explanation
Indices: 2369910--2369957 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2369900 AATTAAGATA
*
2369910 AATTAAAATTAAATATGATT
1 AATTAAAATTAAATATAATT
2369930 AATTAAAATATAAATA-AATT
1 AATTAAAAT-TAAATATAATT
2369950 GAATTAAA
1 -AATTAAA
2369958 TAATGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AATTAAAATTAAATATAATT
Found at i:2375522 original size:81 final size:81
Alignment explanation
Indices: 2375413--2375583 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
2375403 AATTGCGGTT
* * * * * * * *
2375413 TATCCGCTAGGCATTGGGTGTCAGGATTTGACGGATTATTTGTTGGTTAATCTAACTAGAGTTGG
1 TATCCGCTACGCATTGGGTGCCAAGATTTGACAGATTAGTTGTTGGTTAATCCAACTAGAGCTGA
*
2375478 GCTCACTTTTGCAGTA
66 ACTCACTTTTGCAGTA
* * *
2375494 TATCTGCTACGCATTGGGTGCCAAGATTTGACAGTTTAGTTGTTGGTTTATCCAACTAGAGCTGA
1 TATCCGCTACGCATTGGGTGCCAAGATTTGACAGATTAGTTGTTGGTTAATCCAACTAGAGCTGA
* *
2375559 ACTCACTTTTGCGGTT
66 ACTCACTTTTGCAGTA
2375575 TATCCGCTA
1 TATCCGCTA
2375584 GGCACTGAGT
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (81 bp):
TATCCGCTACGCATTGGGTGCCAAGATTTGACAGATTAGTTGTTGGTTAATCCAACTAGAGCTGA
ACTCACTTTTGCAGTA
Found at i:2375775 original size:82 final size:82
Alignment explanation
Indices: 2375636--2375870 Score: 330
Period size: 82 Copynumber: 2.9 Consensus size: 82
2375626 GGCGCAAAAC
* * *
2375636 CATTGGTTAATCTAACTAGAGTTGGACTCACTTATTGCGGTTTATCCGCTAGACACTGGGTGCTA
1 CATTGGTTAATCCAACTAGAGCTGGACTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCTA
2375701 GGAATTGACGG-AATTAT
66 GGAATTGA-GGAAATTAT
* *
2375718 CATTGGTTAATCCAACTAGAGCTGGACTCACTTATTGTGGTTTATCCGCTAGGCACTGGGTGCCA
1 CATTGGTTAATCCAACTAGAGCTGGACTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCTA
2375783 GGAATTGAGGAAATTAT
66 GGAATTGAGGAAATTAT
** * * * *
2375800 TGTTTGTTAATCCAAATAGAGCTAGG-CTCACTTATTACGGTTTATCCTCTAGGCACTGGGTGCT
1 CATTGGTTAATCCAACTAGAGCT-GGACTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCT
2375864 ATGGAAT
65 A-GGAAT
2375871 GACAAATTTA
Statistics
Matches: 137, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
81 2 0.01
82 128 0.93
83 7 0.05
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (82 bp):
CATTGGTTAATCCAACTAGAGCTGGACTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCTA
GGAATTGAGGAAATTAT
Found at i:2378650 original size:6 final size:6
Alignment explanation
Indices: 2378639--2378677 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2378629 TGATCAAAAT
* * *
2378639 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
2378678 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:2380041 original size:21 final size:22
Alignment explanation
Indices: 2380000--2380048 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
2379990 AGAGCATGGG
* *
2380000 CGTGTGTATGAGGATACACGAT
1 CGTGTGTATGAGGACACACGAC
*
2380022 CGTGTGTTTGA-GACACACGAC
1 CGTGTGTATGAGGACACACGAC
2380043 CGTGTG
1 CGTGTG
2380049 CCCCTGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (22 bp):
CGTGTGTATGAGGACACACGAC
Found at i:2384416 original size:30 final size:30
Alignment explanation
Indices: 2384381--2384722 Score: 164
Period size: 30 Copynumber: 11.5 Consensus size: 30
2384371 GAACTTCCCA
**
2384381 AAAATCATATTTTGATTTCTAAAC-TTTCT
1 AAAATCATATTTTGATCCCTAAACTTTTCT
2384410 AGAAATCATATTTTGATCCCTAAACTTTTCT
1 A-AAATCATATTTTGATCCCTAAACTTTTCT
*
2384441 AAAATTATATTTTGA-CCCTAAACTTCTTC-
1 AAAATCATATTTTGATCCCTAAACTT-TTCT
* * * * *
2384470 GAAATTACACTTT-AGCCCCTAAACTCTTT-T
1 AAAATCATATTTTGA-TCCCTAAACT-TTTCT
* * *
2384500 AAAATTACATTTT-AACCCTAAACCTTTTCT
1 AAAATCATATTTTGATCCCTAAA-CTTTTCT
*** * * * *
2384530 AAAATTGCATTTTGACCCCTTAACTTCTCA
1 AAAATCATATTTTGATCCCTAAACTTTTCT
* * * * *
2384560 AAAATTATACTTT-AGCCCCTAACCTTTTCC
1 AAAATCATATTTTGA-TCCCTAAACTTTTCT
* * *
2384590 AAAATTACATTTTGA-CACTTAAACTTTTCT
1 AAAATCATATTTTGATC-CCTAAACTTTTCT
* * *
2384620 AAAATTATA-TTTAACCCCTAAACTTTTCT
1 AAAATCATATTTTGATCCCTAAACTTTTCT
*** * * * *
2384649 AAAATTGCATTTTGATCCCCACACTTTACC
1 AAAATCATATTTTGATCCCTAAACTTTTCT
* * * * *
2384679 AAAATCACATTTTTA-CCCCAAACTTTCCC
1 AAAATCATATTTTGATCCCTAAACTTTTCT
* *
2384708 AAAACCACATTTTGA
1 AAAATCATATTTTGA
2384723 CACCAAACTT
Statistics
Matches: 254, Mismatches: 44, Indels: 30
0.77 0.13 0.09
Matches are distributed among these distances:
28 1 0.00
29 81 0.32
30 157 0.62
31 15 0.06
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
AAAATCATATTTTGATCCCTAAACTTTTCT
Found at i:2384594 original size:90 final size:88
Alignment explanation
Indices: 2384427--2384654 Score: 268
Period size: 90 Copynumber: 2.6 Consensus size: 88
2384417 ATATTTTGAT
* *
2384427 CCCTAAACTTTTCTAAAATTATATTTTGACCCTAAACTTCTTCGAAATTACACTTTAGCCCCTAA
1 CCCTAAACTTTTCTAAAATTACATTTTGACCCTAAACTTCTTCAAAATTACACTTTAGCCCCTAA
2384492 ACTCTTTTAAAATTACATTTTAA
66 ACTCTTTTAAAATTACATTTTAA
* * *
2384515 CCCTAAACCTTTTCTAAAATTGCATTTTGACCCCTTAACTTC-TCAAAAATTATACTTTAGCCCC
1 CCCTAAA-CTTTTCTAAAATTACATTTTGA-CCCTAAACTTCTTC-AAAATTACACTTTAGCCCC
*
2384579 T-AAC-CTTTTCCAAAATTACATTTTGA
63 TAAACTCTTTT--AAAATTACATTTTAA
* * *
2384605 CACTTAAACTTTTCTAAAATTATA-TTTAACCCCTAAACTT-TTCTAAAATT
1 C-CCTAAACTTTTCTAAAATTACATTTTGA-CCCTAAACTTCTTC-AAAATT
2384655 GCATTTTGAT
Statistics
Matches: 121, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
88 12 0.10
89 47 0.39
90 57 0.47
91 5 0.04
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (88 bp):
CCCTAAACTTTTCTAAAATTACATTTTGACCCTAAACTTCTTCAAAATTACACTTTAGCCCCTAA
ACTCTTTTAAAATTACATTTTAA
Found at i:2384653 original size:59 final size:60
Alignment explanation
Indices: 2384399--2384723 Score: 254
Period size: 59 Copynumber: 5.5 Consensus size: 60
2384389 ATTTTGATTT
* * * *
2384399 CTAAAC-TTTCTAGAAATCATATTTTGA-TCCCTAAACTTTTCTAAAATTATATTTTGACC
1 CTAAACTTTTCTA-AAATTACATTTTGACCCCCTAAACTTTTCTAAAATTATATTTTAACC
* * * *
2384458 CTAAACTTCTTC-GAAATTACACTTT-AGCCCCTAAACTCTTT-TAAAATTACATTTTAACC
1 CTAAACTT-TTCTAAAATTACATTTTGACCCCCTAAACT-TTTCTAAAATTATATTTTAACC
* * * * * *
2384517 CTAAACCTTTTCTAAAATTGCATTTTGA-CCCCTTAACTTCTCAAAAATTATACTTTAGCCC
1 CTAAA-CTTTTCTAAAATTACATTTTGACCCCCTAAACTTTTCTAAAATTATATTTTA-ACC
* * * *
2384578 CTAACCTTTTCCAAAATTACATTTTGA-CACTTAAACTTTTCTAAAATTATA-TTTAACCC
1 CTAAACTTTTCTAAAATTACATTTTGACCCCCTAAACTTTTCTAAAATTATATTTTAA-CC
* * * * * * * *
2384637 CTAAACTTTTCTAAAATTGCATTTTGATCCCC-ACACTTTACCAAAATCACATTTTTACC
1 CTAAACTTTTCTAAAATTACATTTTGACCCCCTAAACTTTTCTAAAATTATATTTTAACC
* * * **
2384696 CCAAACTTTCCCAAAACCACATTTTGAC
1 CTAAACTTTTCTAAAATTACATTTTGAC
2384724 ACCAAACTTT
Statistics
Matches: 211, Mismatches: 43, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
58 1 0.00
59 117 0.55
60 83 0.39
61 10 0.05
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (60 bp):
CTAAACTTTTCTAAAATTACATTTTGACCCCCTAAACTTTTCTAAAATTATATTTTAACC
Found at i:2384660 original size:29 final size:30
Alignment explanation
Indices: 2384399--2384704 Score: 241
Period size: 30 Copynumber: 10.3 Consensus size: 30
2384389 ATTTTGATTT
* * * *
2384399 CTAAAC-TTTCTAGAAATCATATTTTGATCC
1 CTAAACTTTTCTA-AAATTACATTTTAACCC
* *
2384429 CTAAACTTTTCTAAAATTATATTTTGA-CC
1 CTAAACTTTTCTAAAATTACATTTTAACCC
* * *
2384458 CTAAACTTCTTC-GAAATTACACTTTAGCCC
1 CTAAACTT-TTCTAAAATTACATTTTAACCC
2384488 CTAAACTCTTT-TAAAATTACATTTTAA-CC
1 CTAAACT-TTTCTAAAATTACATTTTAACCC
* *
2384517 CTAAACCTTTTCTAAAATTGCATTTTGACCC
1 CTAAA-CTTTTCTAAAATTACATTTTAACCC
* * * * * *
2384548 CTTAACTTCTCAAAAATTATACTTTAGCCC
1 CTAAACTTTTCTAAAATTACATTTTAACCC
* * * *
2384578 CTAACCTTTTCCAAAATTACATTTTGACAC
1 CTAAACTTTTCTAAAATTACATTTTAACCC
* *
2384608 TTAAACTTTTCTAAAATTATA-TTTAACCC
1 CTAAACTTTTCTAAAATTACATTTTAACCC
* *
2384637 CTAAACTTTTCTAAAATTGCATTTTGATCCC
1 CTAAACTTTTCTAAAATTACATTTT-AACCC
* * * * *
2384668 C-ACACTTTACCAAAATCACATTTTTACCC
1 CTAAACTTTTCTAAAATTACATTTTAACCC
2384697 C-AAACTTT
1 CTAAACTTT
2384705 CCCAAAACCA
Statistics
Matches: 220, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
29 64 0.29
30 138 0.63
31 18 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
CTAAACTTTTCTAAAATTACATTTTAACCC
Found at i:2384709 original size:29 final size:29
Alignment explanation
Indices: 2384583--2384788 Score: 110
Period size: 29 Copynumber: 7.0 Consensus size: 29
2384573 AGCCCCTAAC
* * **
2384583 CTTTTCCAAAATTACATTTTGACACTTAAA
1 CTTTCCCAAAATCACATTTTGAC-CCCAAA
* * * * *
2384613 CTTTTCTAAAATTATA-TTTAACCCCTAAA
1 CTTTCCCAAAATCACATTTTGACCCC-AAA
* * ** *
2384642 CTTTTCTAAAATTGCATTTTGATCCCCACA
1 CTTTCCCAAAATCACATTTTGA-CCCCAAA
* *
2384672 CTTTACCAAAATCACATTTTTACCCCAAA
1 CTTTCCCAAAATCACATTTTGACCCCAAA
* *
2384701 CTTTCCCAAAACCACATTTTGACACCAAA
1 CTTTCCCAAAATCACATTTTGACCCCAAA
*** * *
2384730 CTTTCTTGAAAT-AGCATTTTTACTCTCAAA
1 CTTTCCCAAAATCA-CATTTTGAC-CCCAAA
** * *
2384760 CTTTTTCAAAATTACGTTTTGACCCCAAA
1 CTTTCCCAAAATCACATTTTGACCCCAAA
2384789 TGCTCTAAAA
Statistics
Matches: 138, Mismatches: 32, Indels: 13
0.75 0.17 0.07
Matches are distributed among these distances:
28 2 0.01
29 74 0.54
30 57 0.41
31 5 0.04
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (29 bp):
CTTTCCCAAAATCACATTTTGACCCCAAA
Found at i:2387302 original size:6 final size:6
Alignment explanation
Indices: 2387276--2387379 Score: 60
Period size: 6 Copynumber: 17.8 Consensus size: 6
2387266 GCTTGGGCTC
* *
2387276 TTAAAGT TTAAA- TTAATT TTAAAT TT-ATT TTAAAT TTAAAT TT--AT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * * *
2387321 CCTAAAT TTAAAT TCACTTAT TTAAAT TT-ATT TTAGAT TTAAAT TT-AA-
1 -TTAAAT TTAAAT TTA--AAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
2387369 TTAAAT TTAAA
1 TTAAAT TTAAA
2387380 AATAATATTA
Statistics
Matches: 73, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
4 4 0.05
5 17 0.23
6 41 0.56
7 7 0.10
8 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:2387308 original size:17 final size:16
Alignment explanation
Indices: 2387288--2387367 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
2387278 AAAGTTTAAA
*
2387288 TTAATTTTAAATTTATT
1 TTAA-TTTAAATTTATC
2387305 TTAAATTTAAATTTATCC
1 TT-AATTTAAATTTAT-C
* *
2387323 TAAATTTAAATTCA-C
1 TTAATTTAAATTTATC
*
2387338 TT-ATTTAAATTTATT
1 TTAATTTAAATTTATC
2387353 TTAGATTTAAATTTA
1 TTA-ATTTAAATTTA
2387368 ATTAAATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 10 0.19
15 4 0.08
17 35 0.67
18 3 0.06
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAATTTAAATTTATC
Found at i:2387312 original size:11 final size:11
Alignment explanation
Indices: 2387282--2387313 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2387272 GCTCTTAAAG
*
2387282 TTTAAATTAAT
1 TTTAAATTTAT
2387293 TTTAAATTTAT
1 TTTAAATTTAT
2387304 TTTAAATTTA
1 TTTAAATTTA
2387314 AATTTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:2387326 original size:28 final size:29
Alignment explanation
Indices: 2387276--2387330 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
2387266 GCTTGGGCTC
**
2387276 TTAAAGTTTAAATTAATTTTAAATTTATT
1 TTAAAGTTTAAATTAATCCTAAATTTATT
*
2387305 TTAAA-TTTAAATTTATCCTAAATTTA
1 TTAAAGTTTAAATTAATCCTAAATTTA
2387331 AATTCACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (29 bp):
TTAAAGTTTAAATTAATCCTAAATTTATT
Found at i:2389368 original size:29 final size:29
Alignment explanation
Indices: 2389326--2389446 Score: 99
Period size: 29 Copynumber: 4.1 Consensus size: 29
2389316 GCTTATAGGT
*
2389326 CCCTAAATAGTCCAAAAATTA-CATTTTGA
1 CCCTAAAAAGTCCAAAAATTACCATTTT-A
2389355 CCCTAAAAAGTCCAAAAATTACCATTTTA
1 CCCTAAAAAGTCCAAAAATTACCATTTTA
***
2389384 CCTCTAAACTTTCC-AAAATT-CCATTTTTAA
1 CC-CTAAAAAGTCCAAAAATTACCA-TTTT-A
**
2389414 CCCT--AATTTCACAAAAAATTACCATTTTA
1 CCCTAAAAAGTC-C-AAAAATTACCATTTTA
2389443 CCCT
1 CCCT
2389447 CGAACTTTCC
Statistics
Matches: 79, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.06
28 4 0.05
29 40 0.51
30 27 0.34
31 3 0.04
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCTAAAAAGTCCAAAAATTACCATTTTA
Found at i:2389431 original size:59 final size:59
Alignment explanation
Indices: 2389366--2389557 Score: 291
Period size: 58 Copynumber: 3.3 Consensus size: 59
2389356 CCTAAAAAGT
* *
2389366 CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCTCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
2389425 CAAAAAATTACCATTTTACC-CTCGAACTTTCCAAAATTCCA-TTTTAGCCCCGATTTCA
1 CCAAAAATTACCATTTTACCTCT-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
2389483 CCAAAAATTACCATTTTACCTC-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCTCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
2389541 CCGAAATTTACCATTTT
1 CCAAAAATTACCATTTT
2389558 GCCCCCGAGA
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
57 18 0.15
58 65 0.54
59 37 0.31
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCTCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:2389552 original size:116 final size:117
Alignment explanation
Indices: 2389366--2389592 Score: 334
Period size: 116 Copynumber: 1.9 Consensus size: 117
2389356 CCTAAAAAGT
*
2389366 CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACAAAAA
1 CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACAAAAA
* * *
2389431 ATTACCATTTTACCCTCGA-ACTTTCCAAAATT-CCATTTTAGCCCCGATTTCA
66 ATTACCATTTTACCCCCGAGA--GTCCAAAATTACCATTTTACCCCCGATTTCA
* **
2389483 CCAAAAATTACCATTTTACCTC-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCGAAA
1 CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACAAAAA
* *
2389547 TTTACCATTTTGCCCCCGAGAGTCCAAAATTACCATTTTACCCCCG
66 ATTACCATTTTACCCCCGAGAGTCCAAAATTACCATTTTACCCCCG
2389593 GGTATCCAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
115 9 0.09
116 67 0.68
117 23 0.23
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACAAAAA
ATTACCATTTTACCCCCGAGAGTCCAAAATTACCATTTTACCCCCGATTTCA
Found at i:2389586 original size:58 final size:57
Alignment explanation
Indices: 2389366--2389585 Score: 255
Period size: 58 Copynumber: 3.8 Consensus size: 57
2389356 CCTAAAAAGT
* * *
2389366 CCAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTCCCTC-GAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
2389425 CAAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAGCCCCGATTTCA
1 CCAAAAATTACCATTTT-CCCTCGAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
*
2389483 CCAAAAATTACCATTTTACCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTCCCTCGAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * *
2389541 CCGAAATTTACCATTTTGCCCCCGAGA-GTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTT-CCCTCGA-ACTTCCAAAATT-CCATTTT
2389586 ACCCCCGGGT
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
57 22 0.16
58 69 0.49
59 45 0.32
60 5 0.04
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (57 bp):
CCAAAAATTACCATTTTCCCTCGAACTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:2391118 original size:16 final size:17
Alignment explanation
Indices: 2391097--2391129 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2391087 ATAATTGTAA
2391097 TTTAAAT-TGTAATTAT
1 TTTAAATATGTAATTAT
*
2391113 TTTAAATATGTAGTTAT
1 TTTAAATATGTAATTAT
2391130 CTCAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTTAAATATGTAATTAT
Found at i:2391146 original size:43 final size:44
Alignment explanation
Indices: 2391098--2391186 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
2391088 TAATTGTAAT
* * * *
2391098 TTAAATTGTAATTA-TTTTAAATATGTAGTTATCTCAACTTTTA
1 TTAAATTATAATTATTTTTAAATATATAATTATCACAACTTTTA
*
2391141 TTAAATTATAATTATTTTTAAATATATAATTATCACCACTTTTA
1 TTAAATTATAATTATTTTTAAATATATAATTATCACAACTTTTA
2391185 TT
1 TT
2391187 TTTATTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 13 0.32
44 27 0.68
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATATATAATTATCACAACTTTTA
Found at i:2393924 original size:34 final size:33
Alignment explanation
Indices: 2393880--2393949 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
2393870 AAAATATAAA
* * *
2393880 AAGTTGAGGAAGATGAAAAGTTAAAGGTCAAGAG
1 AAGTTAAGGAAGATGAAAAATTAAAAGTCAAG-G
2393914 AAGTTAAGGAAGATGAAAAATTAAAAGTCAAGG
1 AAGTTAAGGAAGATGAAAAATTAAAAGTCAAGG
2393947 AAG
1 AAG
2393950 ATGAAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.51, C:0.03, G:0.29, T:0.17
Consensus pattern (33 bp):
AAGTTAAGGAAGATGAAAAATTAAAAGTCAAGG
Found at i:2405350 original size:24 final size:26
Alignment explanation
Indices: 2405295--2405343 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
2405285 TTCTCAATTT
*
2405295 AAATTTTCTATAGAATTGTTATATAG
1 AAATTTTCTATAGAATTATTATATAG
2405321 AAATTTTCTA-A-AATTATTATATA
1 AAATTTTCTATAGAATTATTATATA
2405344 AATATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (26 bp):
AAATTTTCTATAGAATTATTATATAG
Found at i:2406926 original size:19 final size:19
Alignment explanation
Indices: 2406904--2406942 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2406894 ATAAAAATTG
*
2406904 AATTTCTTTTCAAAAACTT
1 AATTTCTTTGCAAAAACTT
*
2406923 AATTTCTTTGCAAAAGCTT
1 AATTTCTTTGCAAAAACTT
2406942 A
1 A
2406943 GAAAACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
AATTTCTTTGCAAAAACTT
Found at i:2408423 original size:4 final size:4
Alignment explanation
Indices: 2408403--2408434 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2408393 CCATGTGTCT
2408403 TAAA -AAA TAAA -AAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
2408435 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.23
4 20 0.77
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:2409476 original size:17 final size:18
Alignment explanation
Indices: 2409447--2409490 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
2409437 GGCCCAAACC
*
2409447 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
2409464 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
2409481 ATTTTGAATT
1 ATTTTGAATT
2409491 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:2409503 original size:17 final size:17
Alignment explanation
Indices: 2409483--2409519 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2409473 TTAAATTTAT
2409483 TTTGAATTCAATTTGAA
1 TTTGAATTCAATTTGAA
*
2409500 TTTGAATTTAATTTGAA
1 TTTGAATTCAATTTGAA
2409517 TTT
1 TTT
2409520 AACATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (17 bp):
TTTGAATTCAATTTGAA
Found at i:2409512 original size:11 final size:11
Alignment explanation
Indices: 2409492--2409521 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
2409482 TTTTGAATTC
2409492 AATTTGAATTTG
1 AATTT-AATTTG
2409504 AATTTAATTTG
1 AATTTAATTTG
2409515 AATTTAA
1 AATTTAA
2409522 CATTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
AATTTAATTTG
Found at i:2410247 original size:18 final size:20
Alignment explanation
Indices: 2410226--2410275 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2410216 ATAATAATGA
*
2410226 TAATAATAATAAA-G-GTTT
1 TAATAATAATAAATGTATTT
2410244 TAATAATAATAAATGTATTT
1 TAATAATAATAAATGTATTT
*
2410264 TAATAATGATAA
1 TAATAATAATAA
2410276 TAATAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.46
19 1 0.04
20 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (20 bp):
TAATAATAATAAATGTATTT
Found at i:2410923 original size:23 final size:22
Alignment explanation
Indices: 2410881--2410923 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2410871 TGATTTTTTT
*
2410881 AAAAAAAAGAATGAGATAATGA
1 AAAAAAAAGAATGAAATAATGA
*
2410903 AAAAAAAAGAATTAAAGTAAT
1 AAAAAAAAGAATGAAA-TAAT
2410924 ATTTATACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (22 bp):
AAAAAAAAGAATGAAATAATGA
Found at i:2411390 original size:30 final size:30
Alignment explanation
Indices: 2411356--2411606 Score: 196
Period size: 30 Copynumber: 8.4 Consensus size: 30
2411346 AAACTGTCCA
* *
2411356 AAAATTATATTTTAACCCTAAAACTTTTAC
1 AAAATTACATTTTAACCCTAAAACTTTTCC
2411386 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTTCC
* ** * *
2411416 ATAATTACATTTTGGCCCTTAAACTTTTTGC
1 AAAATTACATTTTAACCCTAAAAC-TTTTCC
* *
2411447 AAAATTACATTTTGA-CCTCAAAACTTCTCC
1 AAAATTACATTTTAACCCT-AAAACTTTTCC
* * *
2411477 AAAATTATATTTTAACCTCGAAAA--TTTCA
1 AAAATTACATTTTAACC-CTAAAACTTTTCC
*
2411506 AAAATTACCATTTTACCCCT-AAAC-TTTCC
1 AAAATTA-CATTTTAACCCTAAAACTTTTCC
* * **
2411535 AAAATTCCATTTTTAACCC--CAACTTCACC
1 AAAATTACA-TTTTAACCCTAAAACTTTTCC
*
2411564 AAAAATTACCATTTTACCCCT-AAAC-TTTCC
1 -AAAATTA-CATTTTAACCCTAAAACTTTTCC
* *
2411594 AAGATTTCATTTT
1 AAAATTACATTTT
2411607 TAGCCCCGAT
Statistics
Matches: 177, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
28 14 0.08
29 37 0.21
30 93 0.53
31 32 0.18
32 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTAAAACTTTTCC
Found at i:2411422 original size:60 final size:60
Alignment explanation
Indices: 2411356--2411553 Score: 201
Period size: 61 Copynumber: 3.3 Consensus size: 60
2411346 AAACTGTCCA
2411356 AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTTCC
* * ** * * * *
2411416 ATAATTACATTTTGGCCCTTAAACTTTTTGCAAAATTACATTTTGA-CCTCAAAACTTCTCC
1 AAAATTATATTTTAACCCTAAAAC-TTTTACAAAATTACATTTTAACCCT-AAAACTTTTCC
* * *
2411477 AAAATTATATTTTAACCTCGAAAA-TTTCA-AAAATTACCATTTTACCCCT-AAAC-TTTCC
1 AAAATTATATTTTAACC-CTAAAACTTTTACAAAATTA-CATTTTAACCCTAAAACTTTTCC
2411535 AAAATTCCAT-TTTTAACCC
1 AAAATT--ATATTTTAACCC
2411554 CAACTTCACC
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
58 11 0.10
59 19 0.17
60 33 0.29
61 45 0.40
62 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (60 bp):
AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTTCC
Found at i:2411518 original size:91 final size:89
Alignment explanation
Indices: 2411356--2411553 Score: 206
Period size: 91 Copynumber: 2.2 Consensus size: 89
2411346 AAACTGTCCA
* * * * *
2411356 AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTTCCATAAT
1 AAAATTACATTTTAACCCTAAAACTTCTACAAAATTACATTTTAACCCGAAAAC-TTTCAAAAAT
* *
2411421 TACATTTTGGCCCTTAAACTTTTTGC
65 TACATTTT-ACCCCTAAACTTTTTGC
* * *
2411447 AAAATTACATTTTGA-CCTCAAAACTTCTCCAAAATTATATTTTAACCTCGAAAA-TTTCAAAAA
1 AAAATTACATTTTAACCCT-AAAACTTCTACAAAATTACATTTTAACC-CGAAAACTTTCAAAAA
*
2411510 TTACCATTTTACCCCTAAAC--TTTCC
64 TTA-CATTTTACCCCTAAACTTTTTGC
*
2411535 AAAATTCCATTTTTAACCC
1 AAAATTACA-TTTTAACCC
2411554 CAACTTCACC
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
88 12 0.13
89 5 0.06
90 23 0.26
91 44 0.49
92 5 0.06
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (89 bp):
AAAATTACATTTTAACCCTAAAACTTCTACAAAATTACATTTTAACCCGAAAACTTTCAAAAATT
ACATTTTACCCCTAAACTTTTTGC
Found at i:2411549 original size:59 final size:57
Alignment explanation
Indices: 2411447--2411665 Score: 196
Period size: 59 Copynumber: 3.7 Consensus size: 57
2411437 AACTTTTTGC
* *
2411447 AAAATTA-CATTTTGACCTCAAAACTTCTCCAAAATT--ATATTTTAACCTCGAAAATTTCA
1 AAAATTACCATTTT-ACCCCTAAACTT-TCCAAAATTCCAT-TTTTAACC-CG-AAATTTCA
* * *
2411506 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAACTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCGAAATT--TCA
* * *
2411565 AAAATTACCATTTTACCCCTAAACTTTCCAAGATTTCATTTTTAGCCCCG--ATTTCACA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTA-ACCCGAAATTT--CA
* ** *
2411623 AAAATAACCATTTTACCCCCGAACCTTCCAAAATTACCATTTT
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATT-CCATTTT
2411666 GCCCTCATGT
Statistics
Matches: 134, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
57 4 0.03
58 44 0.33
59 75 0.56
60 11 0.08
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCGAAATTTCA
Found at i:2411653 original size:58 final size:59
Alignment explanation
Indices: 2411504--2411665 Score: 227
Period size: 59 Copynumber: 2.7 Consensus size: 59
2411494 TCGAAAATTT
2411504 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAACTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAACTTCAC
* * * * *
2411563 CAAAAATTACCATTTTACCCCTAAACTTTCCAAGATTTCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAACTTCAC
* ** *
2411621 CAAAAATAACCATTTTACCCCCGAACCTTCCAAAATTACCATTTT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATT-CCATTTT
2411666 GCCCTCATGT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
58 32 0.35
59 59 0.65
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAACTTCAC
Found at i:2418416 original size:51 final size:50
Alignment explanation
Indices: 2418360--2418507 Score: 133
Period size: 51 Copynumber: 2.9 Consensus size: 50
2418350 CAGAAGCATG
*
2418360 GAAGGGAAGGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACA-
1 GAAGGGAAGGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACAC
* * * ** *
2418409 GAAAAGGGAAAGG-TCTAAG-TCGCAACGACGGA-CTGTGTACCTCAAAAGACAC
1 G--AAGGG-AAGGATCTAAGACCGCAACGGCAGATC-CAGTACCGCAAAA-ACAC
* * *
2418461 GACGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACTGCAAAAA
1 GAAGGGAAGGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAA
2418508 GACAAAAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
49 5 0.07
50 30 0.41
51 33 0.45
52 6 0.08
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.11
Consensus pattern (50 bp):
GAAGGGAAGGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACAC
Found at i:2418477 original size:101 final size:101
Alignment explanation
Indices: 2418312--2418507 Score: 286
Period size: 101 Copynumber: 1.9 Consensus size: 101
2418302 AAAACACTAT
* * * * *
2418312 AGGGAAAGGTCTAAGTCGCAATGGCAGACCGTGTACCTCAGAAGCATGGAAGGGAAGGATCTAAG
1 AGGGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAAAAGCATCGAAGGGAAAGATCTAAG
*
2418377 ACCGCAATGGCAGATCCAGTACCGCAAAAACAGAAA
66 ACCGCAACGGCAGATCCAGTACCGCAAAAACAGAAA
* * *
2418413 AGGGAAAGGTCTAAGTCGCAACGACGGACTGTGTACCTCAAAAGACA-CGACGGGAAAGATCTAA
1 AGGGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAAAAG-CATCGAAGGGAAAGATCTAA
*
2418477 GACCGCAACGGCAGATCCAGTACTGCAAAAA
65 GACCGCAACGGCAGATCCAGTACCGCAAAAA
2418508 GACAAAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 82 0.98
102 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.13
Consensus pattern (101 bp):
AGGGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAAAAGCATCGAAGGGAAAGATCTAAG
ACCGCAACGGCAGATCCAGTACCGCAAAAACAGAAA
Found at i:2418811 original size:40 final size:40
Alignment explanation
Indices: 2418767--2419013 Score: 133
Period size: 40 Copynumber: 5.6 Consensus size: 40
2418757 ATATCATTTC
2418767 TTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
1 TTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
* *** *
2418807 TTATCC-CTCTGAAGTT-ATAGTAAGAGCAAGATAAAGCATCAAATATCATT
1 TTATCCTCT-TGAAATTGA-AGTAA-AGTTGGAT--AG---C-AA-GTC--T
2418857 TCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
1 T--TATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
* * *
2418899 TTAT-CTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCAT
1 TTATCCTCT-TGAAATTGAAGTAA-AGTTGGAT--AG---C-AA-GTC-T
*
2418948 TTCCAATCCTCTTGAAATTAAAGTAAAGTTGGATAGCAAGTCT
1 TT---ATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
2418991 TTAT-CTCTTTGAAATTGAAGTAA
1 TTATCCTC-TTGAAATTGAAGTAA
2419014 GAGCTAGATA
Statistics
Matches: 158, Mismatches: 18, Indels: 62
0.66 0.08 0.26
Matches are distributed among these distances:
39 10 0.06
40 50 0.32
41 11 0.07
42 2 0.01
43 7 0.04
44 4 0.03
45 4 0.03
46 4 0.03
47 4 0.03
48 4 0.03
49 7 0.04
50 2 0.01
51 11 0.07
52 31 0.20
53 7 0.04
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (40 bp):
TTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCT
Found at i:2418829 original size:92 final size:92
Alignment explanation
Indices: 2418521--2420223 Score: 2744
Period size: 92 Copynumber: 18.5 Consensus size: 92
2418511 AAAAAAAGAA
* * ** * * **
2418521 AAGTCTTTATCTCTCTGAAGTT-ATAGTAAGAGCAAGATAAAGTTTTAAATGTCAATTTTTTATC
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCTAGATAAAGCATCAAATATC-ATTTCCTATC
2418585 CTCTTGAAATTGAAGTAAAGTTGGATAGC
64 CTCTTGAAATTGAAGTAAAGTTGGATAGC
2418614 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATAATATCATTTCCTAT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATC--A-AATATCATTTCCTAT
* *
2418679 CATCTTGAAATTGAAGTATAGTTGGATAGC
63 CCTCTTGAAATTGAAGTAAAGTTGGATAGC
*
2418709 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCTTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2418774 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* * *
2418801 AAGTCTTTATCCCTCTGAAGTT-ATAGTAAGAGCAAGATAAAGCATCAAATATCATTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCC
2418865 TCTTGAAATTGAAGTAAAGTTGGATAGC
65 TCTTGAAATTGAAGTAAAGTTGGATAGC
*
2418893 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCAATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
*
2418958 CTTGAAATTAAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* *
2418985 AAGTCTTTATCTCTTTGAAATTGAAGTAAGAGCTAGATAAAACATCAAATATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
* *
2419050 CTTGAAATTGAAGTAAAGTAGGATACC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* * * *
2419077 AAGTCTTTATCTCTTTGAAATTTAAGTAAGAGCTAGATAAAGCATTATTAAACATCATTTCCTAT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGC---ATCAAATATCATTTCCTAT
2419142 CCTCTTGAAATTGAAGTAAAGTTGGATAGC
63 CCTCTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419172 AAGTCTTTATCCCTCTGAAGTT-ATAGTAAGAG---G---AAG-A-CAAATATCATTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCC
2419228 TCTTGAAATTGAAGTAAAGTTGGATAGC
65 TCTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419256 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGTATCAAATATCATTTTCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2419321 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419348 AAGTTTTTATCTCTCTGAAATTGAAGTAAGAACTAGATAAAGCATCAAATATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
*
2419413 TTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
*
2419440 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGTATCAAATATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2419505 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
2419532 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2419597 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419624 AAGTCTTTATCTCTCCGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2419689 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419716 AAGTCTTTATCTCTCCGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
*
2419781 CCTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* *
2419808 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAATATCATTTCATATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
2419873 CTTGAAATTGAAGTAAAGTTGGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* * * *
2419900 AAGCCTTTATCTCTTTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
*
2419965 CTTGAAATTGAAGTAAAGTTTGATAGC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
*
2419992 AAGCCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
* **
2420057 CTTGAAATTGAAGTAAAGTAGGATAAT
66 CTTGAAATTGAAGTAAAGTTGGATAGC
*
2420084 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTCCTATCCT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
* *
2420149 CTTGAAATTGAAGTAAAGTAGGATAAC
66 CTTGAAATTGAAGTAAAGTTGGATAGC
* * * *
2420176 AAGTCTTTATTTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCCTCAA
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAA
2420224 CATCAAACCC
Statistics
Matches: 1512, Mismatches: 79, Indels: 39
0.93 0.05 0.02
Matches are distributed among these distances:
84 73 0.05
85 2 0.00
87 1 0.00
89 3 0.00
90 3 0.00
91 2 0.00
92 1226 0.81
93 41 0.03
94 2 0.00
95 154 0.10
96 5 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAATATCATTTCCTATCCT
CTTGAAATTGAAGTAAAGTTGGATAGC
Found at i:2420497 original size:17 final size:18
Alignment explanation
Indices: 2420468--2420511 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
2420458 GGCCCAAACC
*
2420468 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
2420485 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
2420502 ATTTTGAATT
1 ATTTTGAATT
2420512 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:2422384 original size:30 final size:29
Alignment explanation
Indices: 2422340--2422656 Score: 354
Period size: 30 Copynumber: 10.7 Consensus size: 29
2422330 CTCTATAGGT
* **
2422340 CCCT-AAACTATCCAAAAATTTTATTTTGA
1 CCCTAAAACTTTCC-AAAATTACATTTTGA
2422369 CCCTAAAACTTTCCAAAATTACATTTTGA
1 CCCTAAAACTTTCCAAAATTACATTTTGA
2422398 CCCTAAAACTTTTCCAAAATTACATTTTGA
1 CCCTAAAAC-TTTCCAAAATTACATTTTGA
* *
2422428 CCTTAAAATATTTCCAAAATTACATTTTGA
1 CCCTAAAA-CTTTCCAAAATTACATTTTGA
*
2422458 CCCTAAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAAAC-TTTCCAAAATTACATTTTGA
* *
2422488 CCCCAAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAAAC-TTTCCAAAATTACATTTTGA
* * *
2422518 CCCTAAAATTTTTCCAATATTACATTTTAA
1 CCCTAAAA-CTTTCCAAAATTACATTTTGA
* *
2422548 CCCTTAAACTTTTCGAAAATTACATTTTGA
1 CCCTAAAAC-TTTCCAAAATTACATTTTGA
* *
2422578 -CCTCAAAACTTCTCCAAAATTATATTTTAA
1 CCCT-AAAACTT-TCCAAAATTACATTTTGA
* *
2422608 CCCCAAAACTTTCAAAAATTACCATTTT-A
1 CCCTAAAACTTTCCAAAATTA-CATTTTGA
2422637 CCCCT-AAACTTTCCAAAATT
1 -CCCTAAAACTTTCCAAAATT
2422657 CCCTTTTTAA
Statistics
Matches: 251, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
29 55 0.22
30 194 0.77
31 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAAACTTTCCAAAATTACATTTTGA
Found at i:2422503 original size:90 final size:89
Alignment explanation
Indices: 2422362--2422656 Score: 398
Period size: 90 Copynumber: 3.3 Consensus size: 89
2422352 CAAAAATTTT
* *
2422362 ATTTTGACCCTAAAACTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTG
1 ATTTTGACCCTAAAACTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTA
*
2422427 ACCTTAAAATATTTCCAAAATTAC
66 ACCCTAAAATATTTCCAAAATTAC
*
2422451 ATTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTT
1 ATTTTGACCCTAAAAC-TTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
* *
2422516 AACCCTAAAATTTTTCCAATATTAC
65 AACCCTAAAATATTTCCAAAATTAC
* * * * * *
2422541 ATTTTAACCCTTAAACTTTTCGAAAATTACATTTTGACCTCAAAACTTCTCCAAAATTATATTTT
1 ATTTTGACCCTAAAAC-TTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
* * *
2422606 AACCCCAAAA-CTTTCAAAAATTACC
65 AACCCTAAAATATTTCCAAAATTA-C
2422631 ATTTT-ACCCCT-AAACTTTCCAAAATT
1 ATTTTGA-CCCTAAAACTTTCCAAAATT
2422657 CCCTTTTTAA
Statistics
Matches: 185, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
88 10 0.05
89 31 0.17
90 144 0.78
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (89 bp):
ATTTTGACCCTAAAACTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTA
ACCCTAAAATATTTCCAAAATTAC
Found at i:2422676 original size:28 final size:29
Alignment explanation
Indices: 2422340--2422782 Score: 275
Period size: 30 Copynumber: 14.9 Consensus size: 29
2422330 CTCTATAGGT
* ** *
2422340 CCCTAAACTATCCAAAAATT-TTATTTTGA
1 CCCTAAACTTTCC-AAAATTACCATTTTAA
*
2422369 CCCTAAAACTTTCCAAAATTA-CATTTTGA
1 CCCT-AAACTTTCCAAAATTACCATTTTAA
*
2422398 CCCTAAAACTTTTCCAAAATTA-CATTTTGA
1 CCCT-AAAC-TTTCCAAAATTACCATTTTAA
* * *
2422428 CCTTAAAATATTTCCAAAATTA-CATTTTGA
1 CCCT-AAA-CTTTCCAAAATTACCATTTTAA
2422458 CCCTAAAACTTTTCCAAAATTA-CATTTTAA
1 CCCT-AAAC-TTTCCAAAATTACCATTTTAA
*
2422488 CCCCAAAACTTTTCCAAAATTA-CATTTTAA
1 -CCCTAAAC-TTTCCAAAATTACCATTTTAA
* *
2422518 CCCTAAAATTTTTCCAATATTA-CATTTTAA
1 CCCT-AAA-CTTTCCAAAATTACCATTTTAA
* *
2422548 CCCTTAAACTTTTCGAAAATTA-CATTTTGA
1 CCC-TAAAC-TTTCCAAAATTACCATTTTAA
* *
2422578 CCTCAAAACTTCTCCAAAATTA-TATTTTAA
1 CC-CTAAACTT-TCCAAAATTACCATTTTAA
* * *
2422608 CCCCAAAACTTTCAAAAATTACCATTTTAC
1 -CCCTAAACTTTCCAAAATTACCATTTTAA
* *
2422638 CCCTAAACTTTCCAAAATTCCCTTTTTAA
1 CCCTAAACTTTCCAAAATTACCATTTTAA
* *
2422667 CCCT-GACTTTACCAAAAATTACCACTTT-A
1 CCCTAAACTTT-CC-AAAATTACCATTTTAA
* * * *
2422696 CCCTCGAACTTTCCAAGATT-TCATTTTTAG
1 CCCT-AAACTTTCCAAAATTACCA-TTTTAA
** * *
2422726 CCC-CGA-TTTCAAAAAAAATTACCATTTTAC
1 CCCTAAACTTTC---CAAAATTACCATTTTAA
* *
2422756 CCCCAAACCTTCCAAAATTACCATTTT
1 CCCTAAACTTTCCAAAATTACCATTTT
2422783 GCCCCTGGGT
Statistics
Matches: 342, Mismatches: 46, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.01
28 8 0.02
29 97 0.28
30 215 0.63
31 15 0.04
32 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACCATTTTAA
Found at i:2426053 original size:33 final size:33
Alignment explanation
Indices: 2426011--2426081 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
2426001 GAAGTTTCCA
*
2426011 AATTGGTTAATTGGTATAGAGTAATGGGTATTG
1 AATTGGTTAATTGGTATAAAGTAATGGGTATTG
2426044 AATTGGTTAATTGGTATAAAGTAATGGGTATTG
1 AATTGGTTAATTGGTATAAAGTAATGGGTATTG
2426077 AATTG
1 AATTG
2426082 ACTACAGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.39
Consensus pattern (33 bp):
AATTGGTTAATTGGTATAAAGTAATGGGTATTG
Found at i:2436574 original size:21 final size:19
Alignment explanation
Indices: 2436534--2436575 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
2436524 ACATCATAAC
*
2436534 CAAATAAGTTAACAAGTTA
1 CAAATAAATTAACAAGTTA
2436553 CAAACTAAATTAACATAGTTA
1 CAAA-TAAATTAACA-AGTTA
2436574 CA
1 CA
2436576 TTGAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (19 bp):
CAAATAAATTAACAAGTTA
Found at i:2437688 original size:21 final size:19
Alignment explanation
Indices: 2437648--2437689 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
2437638 ACATCATAAC
*
2437648 CAAATAAGTTAACAAGTTA
1 CAAATAAATTAACAAGTTA
2437667 CAAACTAAATTAACATAGTTA
1 CAAA-TAAATTAACA-AGTTA
2437688 CA
1 CA
2437690 TTGAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (19 bp):
CAAATAAATTAACAAGTTA
Found at i:2439771 original size:29 final size:30
Alignment explanation
Indices: 2439729--2439786 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2439719 TTGGATCAAA
* * *
2439729 TTAGTTCCTCTACTATTAAATA-AATTAAT
1 TTAGTCCCTATACTATTAAAAAGAATTAAT
2439758 TTAGTCCCTATACTATTAAAAAGAATTAA
1 TTAGTCCCTATACTATTAAAAAGAATTAA
2439787 ACAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (30 bp):
TTAGTCCCTATACTATTAAAAAGAATTAAT
Found at i:2446211 original size:679 final size:679
Alignment explanation
Indices: 2444914--2446951 Score: 4067
Period size: 679 Copynumber: 3.0 Consensus size: 679
2444904 GGTTTTGAGG
2444914 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
1 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
2444979 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
66 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
2445044 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
131 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
2445109 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
196 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
2445174 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
261 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
2445239 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
326 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
2445304 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
391 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
2445369 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
456 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
2445434 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
521 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
2445499 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
586 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
2445564 AGTGGAACAGCTGACTTGGTGGGTTATTC
651 AGTGGAACAGCTGACTTGGTGGGTTATTC
2445593 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
1 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
2445658 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
66 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
2445723 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
131 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
2445788 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
196 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
2445853 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
261 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
2445918 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
326 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
2445983 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
391 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
2446048 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
456 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
2446113 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
521 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
2446178 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
586 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
2446243 AGTGGAACAGCTGACTTGGTGGGTTATTC
651 AGTGGAACAGCTGACTTGGTGGGTTATTC
2446272 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
1 TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
2446337 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
66 GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
2446402 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
131 CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
2446467 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
196 TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
2446532 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
261 AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
2446597 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
326 GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
2446662 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
391 CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
*
2446727 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTACTACCCTACAATATGTGTGCATCAGTAG
456 CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
2446792 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
521 TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
2446857 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
586 AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
2446922 AGTGGAACAGCTGACTTGGTGGGTTATTC
651 AGTGGAACAGCTGACTTGGTGGGTTATTC
2446951 T
1 T
2446952 GATACAGATT
Statistics
Matches: 1358, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
679 1358 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (679 bp):
TTTGAGATAGCACTGGGAACCAACTTGTGTGCAGACTGAATAAAGCTCTTTATGGATTAAAAGAG
GCACCTCGGGCCTTGTTTCATACTCAAAGAAGACATTTGGTTGAGAAGCTTGGATTTAGTGCATC
CAAGTTTGACTCTTCTCTGTTTATTCGCATGGGGCATAACAGTTCAGTTTTTCTTATGGCATACG
TTGATTATATAATTTTGACTGGTAATTCAGAAGCTGAGGTGGATGATGTTGTCAAGCAGCTTCAT
AGTCAGTTCTCTTTGAAGGACATAGGTGATTTGCATTTCTTTATGGGCATAGAGGTTCAACTGGT
GTCTCAGGGATTAGTGCTTACACAAAGAAAGTATGTTACTGAGCTTCTCGATAAAGCTGGTTTGG
CAGACTCTTCTCCAACTCCTACTCCTATGGTTGGTATGCCTAAACTCATGGCAACAAGTGGTAAG
CCATTTGGAGATGTGCAACTTTACATAAGTATTATTGCTACCCTACAATATGTGTGCATCAGTAG
TCCTGATATAGCATTTTGTGTGAATAAATTGAGCTAGTTTACGAAAGCACCGTATGATGTGCATT
AGAGAGTTGTTAAGAGAGTGCTCAGGTATCTCAAGGGTACTCTGGACCTTGGTTTGTATTTTACG
AGTGGAACAGCTGACTTGGTGGGTTATTC
Found at i:2453296 original size:17 final size:17
Alignment explanation
Indices: 2453268--2453343 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
2453258 AATGGGATAT
2453268 AATTTAATTTTAAAATTA
1 AATTT-ATTTTAAAATTA
* *
2453286 GATTTATTTTAAATTTA
1 AATTTATTTTAAAATTA
**
2453303 AATTTA-CATAAAATTTA
1 AATTTATTTTAAAA-TTA
* * *
2453320 AGTTTATTATAAATTTA
1 AATTTATTTTAAAATTA
2453337 AATTTAT
1 AATTTAT
2453344 AAATTAAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
16 4 0.09
17 33 0.72
18 9 0.20
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAAATTA
Done.