Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2138091 original size:36 final size:37
Alignment explanation
Indices: 2138051--2138122 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
2138041 CGTCTTCGTT
2138051 CCCGTTTAACATAAACG-GTTTTTCCCCGTCCCCGTC
1 CCCGTTTAACATAAACGAGTTTTTCCCCGTCCCCGTC
* * *
2138087 CCCGTTTAGCATAAACGATTTTTTTCCCGTCCCCGT
1 CCCGTTTAACATAAACGAGTTTTTCCCCGTCCCCGT
2138123 TTAATTCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.17, C:0.36, G:0.14, T:0.33
Consensus pattern (37 bp):
CCCGTTTAACATAAACGAGTTTTTCCCCGTCCCCGTC
Found at i:2141403 original size:42 final size:42
Alignment explanation
Indices: 2141338--2141455 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
2141328 AACCTGAATA
2141338 CATCAAGAGGTC--ATACCAGCGAGGAATCGTTCAAGAAATT
1 CATCAAGAGGTCGTATACCAGCGAGGAATCGTTCAAGAAATT
2141378 CATCAAGAGGTCGTATACCAGCGAGGAATCGTTCAAGAAATT
1 CATCAAGAGGTCGTATACCAGCGAGGAATCGTTCAAGAAATT
*
2141420 CATCAAGAGGTCGTATACCAACGAGGAATCGTTCAA
1 CATCAAGAGGTCGTATACCAGCGAGGAATCGTTCAA
2141456 TTGAGACGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 12 0.16
42 63 0.84
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (42 bp):
CATCAAGAGGTCGTATACCAGCGAGGAATCGTTCAAGAAATT
Found at i:2149914 original size:33 final size:33
Alignment explanation
Indices: 2149872--2149967 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
2149862 TGACAATGCA
* *
2149872 CATGCTCCAACGGCTCCACCAACACATGTCGTG
1 CATGCTCCAAAGGCTCCACCAACACATGTCGCG
2149905 CATGCTCCAAAGGCTCCACCAACACATGTCGCG
1 CATGCTCCAAAGGCTCCACCAACACATGTCGCG
* *
2149938 CATGCTCGAATGGCTCCACCAACACATGTC
1 CATGCTCCAAAGGCTCCACCAACACATGTC
2149968 ACCCCTACTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.26, C:0.39, G:0.18, T:0.18
Consensus pattern (33 bp):
CATGCTCCAAAGGCTCCACCAACACATGTCGCG
Found at i:2157404 original size:3 final size:3
Alignment explanation
Indices: 2157396--2157421 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2157386 ACAAGAGTAA
2157396 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
2157422 ATATGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2158208 original size:25 final size:25
Alignment explanation
Indices: 2158177--2158249 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
2158167 CTTTTGGCAA
2158177 TTTAGTGGGTGCTTTATAAATTAT-
1 TTTAGTGGGTGCTTTATAAATTATG
* *
2158201 TTTGAGTGGATGCTTTATAAACTATG
1 TTT-AGTGGGTGCTTTATAAATTATG
*
2158227 TTTAGTGGGTGATTTATAAATTA
1 TTTAGTGGGTGCTTTATAAATTA
2158250 ATTTAGGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.07
25 36 0.86
26 3 0.07
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (25 bp):
TTTAGTGGGTGCTTTATAAATTATG
Found at i:2160395 original size:120 final size:117
Alignment explanation
Indices: 2160178--2160685 Score: 604
Period size: 117 Copynumber: 4.3 Consensus size: 117
2160168 TCATTCGCTG
* * * * **
2160178 TGAATTGGATATCCTTCGTTGTGAAGTTTAAATCCAATCTAGAGATGGATGTTACTTGTAGGTTC
1 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTA-A-A--GA--TAAC-TGTGGGCAC
* * * *
2160243 GATATCATTCGTCGTGAAATTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCCT
59 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCT
* * * ** **
2160302 TGAATCGGTTATCCTTCGTTGTGAAGTTGAAATCCAAAAGATAAACG-TTGCTGGTGGGCACGAT
1 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCC--AATCTAAA-GATAACT-GTGGGCACGAT
* *
2160366 ATCATTCGTCGTGAAGTTGAAATCGTGGATTACCCTTTCGTTGTGAAGTTGAGCCT
62 ATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCT
* *
2160422 TGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATAACTGTGGGCACGATATCC
1 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAACTGTGGGCACGATATCA
* * * *
2160487 TTCTTCGTGAAGTTAAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCCT
66 TTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCT
* *
2160539 TGAATTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATAAATGTGGGCACGATATCA
1 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAACTGTGGGCACGATATCA
* * * **
2160604 TTCGTCGCGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGATACT
66 TTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCT
* *
2160656 TGAATTGGATATCCTTCGTTGTAAAGTTGA
1 TGAATTGGATATCCTTCGTCGTGAAGTTGA
2160686 GCCTTGAATT
Statistics
Matches: 334, Mismatches: 46, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
117 192 0.57
118 9 0.03
119 1 0.00
120 93 0.28
123 1 0.00
124 33 0.10
125 1 0.00
126 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (117 bp):
TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAACTGTGGGCACGATATCA
TTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCT
Found at i:2160674 original size:34 final size:34
Alignment explanation
Indices: 2160634--2160706 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
2160624 GTGGATGGCC
*
2160634 CCTTCGTTGTAAAGTTGATACTTGAATTGGATAT
1 CCTTCGTTGTAAAGTTGAGACTTGAATTGGATAT
*
2160668 CCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
1 CCTTCGTTGTAAAGTTGAGACTTGAATTGGATAT
2160702 CCTTC
1 CCTTC
2160707 ATCGTGAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (34 bp):
CCTTCGTTGTAAAGTTGAGACTTGAATTGGATAT
Found at i:2160697 original size:151 final size:151
Alignment explanation
Indices: 2160517--2160825 Score: 474
Period size: 151 Copynumber: 2.0 Consensus size: 151
2160507 ATGGATGACC
* * **
2160517 CCTTCATTGTGAAGTTGAGCCTTGAATTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAA
1 CCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAA
* * *
2160582 GATAAATGTGGGCACGATATCATTCGTCGCGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAA
66 GATAAATGTGGGCACGATATCATTCGTCACGAAGTTGAAATCGTGGATGGCCCCTTCATCGTAAA
* *
2160647 GTTGATACTTGAATTGGATAT
131 GTTGAGACTCGAATTGGATAT
2160668 CCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAA
1 CCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAA
* * * * * *
2160733 GATAAATGTGGGCATGATATCATTCTTCATGAAGTTGAAATCGTGGATGGCCCTTTTATCGTGAA
66 GATAAATGTGGGCACGATATCATTCGTCACGAAGTTGAAATCGTGGATGGCCCCTTCATCGTAAA
*
2160798 GTTGAGCCTCGAATTGGATAT
131 GTTGAGACTCGAATTGGATAT
2160819 CCTTCGT
1 CCTTCGT
2160826 CGTGAATTTG
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 142 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (151 bp):
CCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAA
GATAAATGTGGGCACGATATCATTCGTCACGAAGTTGAAATCGTGGATGGCCCCTTCATCGTAAA
GTTGAGACTCGAATTGGATAT
Found at i:2160717 original size:34 final size:34
Alignment explanation
Indices: 2160642--2160719 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
2160632 CCCCTTCGTT
* * *
2160642 GTAAAGTTGATACTTGAATTGGATATCCTTCGTT
1 GTAAAGTTGAGACTTGAATTGGATATCCTTCATC
*
2160676 GTAAAGTTGAGCCTTGAATTGGATATCCTTCATC
1 GTAAAGTTGAGACTTGAATTGGATATCCTTCATC
*
2160710 GTGAAGTTGA
1 GTAAAGTTGA
2160720 AATCCAATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (34 bp):
GTAAAGTTGAGACTTGAATTGGATATCCTTCATC
Found at i:2162335 original size:9 final size:9
Alignment explanation
Indices: 2162321--2162362 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
2162311 TTGCTTTTTC
2162321 TTTTTTCTT
1 TTTTTTCTT
2162330 TTTTTTCTT
1 TTTTTTCTT
2162339 TGCTTTTT-TT
1 T--TTTTTCTT
2162349 TCTTTTTCTT
1 T-TTTTTCTT
2162359 TTTT
1 TTTT
2162363 GCTCTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 19 0.63
10 6 0.20
11 5 0.17
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:2162340 original size:27 final size:29
Alignment explanation
Indices: 2162304--2162362 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2162294 TTATTGTCCC
*
2162304 TTTTTGTTTGC-TTTTTCT-TTTTTCTTT
1 TTTTTCTTTGCTTTTTTCTCTTTTTCTTT
*
2162331 TTTTTCTTTGCTTTTTTTTCTTTTTCTTT
1 TTTTTCTTTGCTTTTTTCTCTTTTTCTTT
2162360 TTT
1 TTT
2162363 GCTCTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 12 0.43
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (29 bp):
TTTTTCTTTGCTTTTTTCTCTTTTTCTTT
Found at i:2162344 original size:14 final size:14
Alignment explanation
Indices: 2162304--2162353 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
2162294 TTATTGTCCC
*
2162304 TTTTTGTTTGCTTT
1 TTTTTCTTTGCTTT
2162318 TTCTTT-TTT-CTTT
1 TT-TTTCTTTGCTTT
2162331 TTTTTCTTTGCTTT
1 TTTTTCTTTGCTTT
2162345 TTTTTCTTT
1 TTTTTCTTT
2162354 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.09
13 9 0.27
14 18 0.55
15 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTGCTTT
Found at i:2162347 original size:23 final size:23
Alignment explanation
Indices: 2162321--2162365 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2162311 TTGCTTTTTC
2162321 TTTTTTCTTTTT-TTTCTTTGCTT
1 TTTTTTCTTTTTCTTT-TTTGCTT
2162344 TTTTTTCTTTTTCTTTTTTGCT
1 TTTTTTCTTTTTCTTTTTTGCT
2162366 CTTTGTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTTGCTT
Found at i:2162360 original size:14 final size:14
Alignment explanation
Indices: 2162315--2162362 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
2162305 TTTTGTTTGC
2162315 TTTTTCTTTTTTCTT
1 TTTTTC-TTTTTCTT
*
2162330 TTTTT-TCTTTGCTTT
1 TTTTTCT-TTTTC-TT
2162345 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
2162359 TTTT
1 TTTT
2162363 GCTCTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:2162382 original size:36 final size:34
Alignment explanation
Indices: 2162316--2162396 Score: 72
Period size: 36 Copynumber: 2.2 Consensus size: 34
2162306 TTTGTTTGCT
* * *
2162316 TTTTCTTTTTTCTTTTTTTTCTTTGCTTTTTTTTCT
1 TTTTCTTTTTTCTTTTGTTGCTCT--TTTTTTTTCT
*
2162352 TTTTCTTTTTTGCTCTTTGTTGCTCTTTTTTATTCT
1 TTTTCTTTTTT-CT-TTTGTTGCTCTTTTTTTTTCT
*
2162388 CTTTGCTTT
1 -TTTTCTTT
2162397 AATTTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
36 20 0.54
37 9 0.24
38 8 0.22
ACGTcount: A:0.01, C:0.16, G:0.06, T:0.77
Consensus pattern (34 bp):
TTTTCTTTTTTCTTTTGTTGCTCTTTTTTTTTCT
Found at i:2164762 original size:19 final size:19
Alignment explanation
Indices: 2164738--2164774 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2164728 CATCGAATGC
2164738 AAGTAGTGCATCGATGCAT
1 AAGTAGTGCATCGATGCAT
2164757 AAGTAGTGCATCGATGCA
1 AAGTAGTGCATCGATGCA
2164775 CCCCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
AAGTAGTGCATCGATGCAT
Found at i:2166436 original size:23 final size:23
Alignment explanation
Indices: 2166410--2166495 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
2166400 GACATTATAT
2166410 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
2166433 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
2166456 GGCACTATGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
*
2166479 GGCACTTCGGTGCATTT
1 GGCACTACGGTGCATTT
2166496 ATATGAGCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:2166859 original size:23 final size:23
Alignment explanation
Indices: 2166829--2166885 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
2166819 AAGGTGTGTG
*
2166829 ATTTTGTATGAAATTGTTATGTA
1 ATTTTGTATGAAATTGTTATATA
*
2166852 ATTTTGTATGAAATTGTTATATG
1 ATTTTGTATGAAATTGTTATATA
2166875 ATTTTGTATGA
1 ATTTTGTATGA
2166886 TAAGTTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.53
Consensus pattern (23 bp):
ATTTTGTATGAAATTGTTATATA
Found at i:2166866 original size:12 final size:12
Alignment explanation
Indices: 2166829--2166885 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 12
2166819 AAGGTGTGTG
2166829 ATTTTGTATGAA
1 ATTTTGTATGAA
* *
2166841 ATTGT-TATGTA
1 ATTTTGTATGAA
2166852 ATTTTGTATGAA
1 ATTTTGTATGAA
*
2166864 ATTGTTATATG--
1 ATT-TTGTATGAA
2166875 ATTTTGTATGA
1 ATTTTGTATGA
2166886 TAAGTTAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
10 6 0.17
11 12 0.33
12 12 0.33
13 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.53
Consensus pattern (12 bp):
ATTTTGTATGAA
Found at i:2190734 original size:4 final size:4
Alignment explanation
Indices: 2190725--2190751 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2190715 CACGGGACAG
2190725 GGAA GGAA GGAA GGAA GGAA GGAA GGA
1 GGAA GGAA GGAA GGAA GGAA GGAA GGA
2190752 GGGACGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (4 bp):
GGAA
Found at i:2193911 original size:390 final size:382
Alignment explanation
Indices: 2193143--2193929 Score: 948
Period size: 390 Copynumber: 2.0 Consensus size: 382
2193133 AAGAATCAAG
* * *
2193143 AGTTGATGGCACATCAGCAAAAACATTTGATTAAAATAAATAAGTCATAACGTCAAGGAATATTT
1 AGTTGATGGCACATCAGCAAAAACAATTGATTAAAATAAATAAGGCATAACGTCAAGGAATATTG
*
2193208 CCTTAACGTTTGATTAAATAATTATTTCGATTTATATTTGTTGAAGTATTTTGACTCGCGAAGCT
66 CCTTAAC-------T-AATAATTATTTCGATTTATATTTGTTGAAGTATTTCGACTCGCGAAGCT
* *
2193273 TTATTTTAAAAAAAATCATAACATTACTAAATAGTCATTTTAACTCTTATTCTTTTTGAAGTATT
123 TCATTTTAAAAAAAATCATAACATTACTAAATAGTCACTTTAACTCTTATTCTTTTTGAAGTATT
* * * **
2193338 GTGGTTCCAATGTATCATTTTAAGGTAAAAAGACCCCTATTTGACCGTTTGTTGGTTAATTATTT
188 GTGGCTCCAAAGTATCATTTTAAGGTAAAAAGACCCCTAGTTGACCGTTTGTTGGTTAACGATTT
* *
2193403 TCATCCACGAAAAAAATATTTTTACCCTAAAATAAAACCTTGAGAGACAAAATGCTTAAAAAAAA
253 TCATCCACGAAAAAAACATTTTTACCCCAAAATAAAACCTTGAGAGACAAAATGCTTAAAAAAAA
2193468 TAGGGATCAAAGTGATTTTTTTAATAAAAATTAATTTTTTTTATCACTACCAATAAATAAACAAA
318 TAGGGATCAAAGTGATTTTTTTAATAAAAATTAATTTTTTTTATCACTACCAATAAATAAACAAA
*
2193533 AGTTGATGGCACATCAGCAAAAACAATTGATTAAAATAAATAAGGCATAATGTCAAGG-A-A-TG
1 AGTTGATGGCACATCAGCAAAAACAATTGATTAAAATAAATAAGGCATAACGTCAAGGAATATTG
* * *
2193595 CCTTAAC-AATAATTATTTTGATTTATATTTGTTGAAGTATTTCGACTTGTGAAGCTTCATTTTA
66 CCTTAACTAATAATTATTTCGATTTATATTTGTTGAAGTATTTCGACTCGCGAAGCTTCATTTTA
* * * * *
2193659 GAATAACAAGTCCCTAACATTTGACTAAATAGTTACTTTAACTCTTAATTTTTTTTGAAGTATTT
131 -AA-AA-AAAT-CATAACA-TT-ACTAAATAGTCACTTTAACTCTT-ATTCTTTTTGAAGTATTG
* * * *
2193724 TGGCTCCAAAAG-ATCATTTTAAGGTGAAAATACCCTTTGGAACGTTGATCGTTTGTTGGTTAAC
189 TGGCTCC-AAAGTATCATTTTAAGGTAAAAAGACCC-CT---A-GTTGACCGTTTGTTGGTTAAC
* **
2193788 GGTTTTCATCCACG-AAAAAACATTTTTACCCCAAAATAAAACCTT-AGGAGGTAAAATGC-T-A
248 GATTTTCATCCACGAAAAAAACATTTTTACCCCAAAATAAAACCTTGA-GAGACAAAATGCTTAA
* * * * *
2193849 AAAAAATAGGGGTCAAAGTGA-TTTTTTAGTAAAATGTTAGGCTTTTTTTGTCATTA-TACCAAT
312 AAAAAATAGGGATCAAAGTGATTTTTTTAATAAAA-ATTA--ATTTTTTT-T-ATCACTACCAAT
2193912 AAATAAACAAA
372 AAATAAACAAA
2193923 AGTTGAT
1 AGTTGAT
2193930 AGAAACCGAA
Statistics
Matches: 344, Mismatches: 34, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
378 52 0.15
379 2 0.01
380 2 0.01
381 3 0.01
382 6 0.02
383 2 0.01
384 21 0.06
385 43 0.12
386 16 0.05
387 32 0.09
388 3 0.01
389 48 0.14
390 111 0.32
391 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (382 bp):
AGTTGATGGCACATCAGCAAAAACAATTGATTAAAATAAATAAGGCATAACGTCAAGGAATATTG
CCTTAACTAATAATTATTTCGATTTATATTTGTTGAAGTATTTCGACTCGCGAAGCTTCATTTTA
AAAAAAATCATAACATTACTAAATAGTCACTTTAACTCTTATTCTTTTTGAAGTATTGTGGCTCC
AAAGTATCATTTTAAGGTAAAAAGACCCCTAGTTGACCGTTTGTTGGTTAACGATTTTCATCCAC
GAAAAAAACATTTTTACCCCAAAATAAAACCTTGAGAGACAAAATGCTTAAAAAAAATAGGGATC
AAAGTGATTTTTTTAATAAAAATTAATTTTTTTTATCACTACCAATAAATAAACAAA
Found at i:2198135 original size:30 final size:31
Alignment explanation
Indices: 2198101--2198165 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
2198091 AGCACCAAAG
2198101 CCACCTCCAAATCCTCCACCCA-CTCCACCA
1 CCACCTCCAAATCCTCCACCCACCTCCACCA
* * *
2198131 CCACCCCCAAATCCTCC-TCCACCTCCAGCA
1 CCACCTCCAAATCCTCCACCCACCTCCACCA
2198161 CCACC
1 CCACC
2198166 ACCGAGGCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.25, C:0.62, G:0.02, T:0.12
Consensus pattern (31 bp):
CCACCTCCAAATCCTCCACCCACCTCCACCA
Found at i:2198278 original size:60 final size:60
Alignment explanation
Indices: 2198248--2198672 Score: 532
Period size: 60 Copynumber: 7.1 Consensus size: 60
2198238 TCCTGCACCT
2198248 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
2198308 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
* * *
2198368 CCACCAAGTCCTCCACCACCTCCCAATCCACCTCCAGCACCTCCACCAAGCCCATGGCCA
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
* * * * * *
2198428 CCACCTAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
* * * * * * * * *
2198488 CTACCCAA-TCCCCCGCCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGTCCA
1 CCA-CCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
* * * * ** * * *
2198548 CCACCCAA-TCCCCCGCCACCTCCTAGCCCACCTCCTGCACCTCCACCAAGTCCATGTCCA
1 CCA-CCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
* * *
2198608 CCACCAAGCCCTCCAGCC-CCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCA
1 CCACCAAGTCCTCCA-CCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
2198668 CCACC
1 CCACC
2198673 CAATCCACCT
Statistics
Matches: 339, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
59 4 0.01
60 330 0.97
61 5 0.01
ACGTcount: A:0.22, C:0.55, G:0.09, T:0.14
Consensus pattern (60 bp):
CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
Found at i:2198291 original size:30 final size:30
Alignment explanation
Indices: 2198257--2198475 Score: 111
Period size: 30 Copynumber: 7.3 Consensus size: 30
2198247 TCCACCAAGT
2198257 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
2198287 CCTCCACCA--AGCCC-GTGGCCACCACCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
2198317 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
2198347 CCTCCACCA--AGCCC-GTGGCCACCACCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
* *
2198377 CCTCCACCACCTCCCAATCCACCTCCAGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* *
2198407 CCTCCACCA--AGCCC-ATGGCCACCACCTAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCCT-GCA
* * *
2198437 CCTCCACCACCTCCTAGTCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
2198467 CCTCCACCA
1 CCTCCACCA
2198476 AGTCCATGGC
Statistics
Matches: 140, Mismatches: 25, Indels: 48
0.66 0.12 0.23
Matches are distributed among these distances:
28 6 0.04
29 13 0.09
30 106 0.76
31 11 0.08
32 4 0.03
ACGTcount: A:0.22, C:0.56, G:0.09, T:0.13
Consensus pattern (30 bp):
CCTCCACCACCACCCAATCCACCTCCTGCA
Found at i:2198393 original size:120 final size:120
Alignment explanation
Indices: 2198248--2198672 Score: 595
Period size: 120 Copynumber: 3.5 Consensus size: 120
2198238 TCCTGCACCT
*
2198248 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCACCACC
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACC
* * * * *
2198313 AAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCA
66 AAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
* *
2198368 CCACCAAGTCCTCCACCACCTCCCAATCCACCTCCAGCACCTCCACCAAGCCCATGGCCACCACC
1 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACC
*
2198433 TAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
66 AAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
* * * * * * * *
2198488 CTACCCAA-TCCCCCGCCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGTCCACCAC
1 CCA-CCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCA-
* * * *
2198552 CCAA-TCCCCCGCCACCTCCTAGCCCACCTCCTGCACCTCCACCAAGTCCATGTCCA
64 CCAAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
* *
2198608 CCACCAAGCCCTCCAGCC-CCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCAC
1 CCACCAAGTCCTCCA-CCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCAC
2198672 C
65 C
2198673 CAATCCACCT
Statistics
Matches: 271, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
119 6 0.02
120 256 0.94
121 9 0.03
ACGTcount: A:0.22, C:0.55, G:0.09, T:0.14
Consensus pattern (120 bp):
CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACC
AAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCA
Found at i:2198461 original size:180 final size:179
Alignment explanation
Indices: 2198248--2198678 Score: 587
Period size: 180 Copynumber: 2.4 Consensus size: 179
2198238 TCCTGCACCT
* *
2198248 CCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCACCACC
1 CCACCAAGTCCTCCACCACCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACC
* *
2198313 AAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCGTGGCCACCA-CCAAGT
66 AA-TCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACCCAA-T
* *
2198377 CCTCCACCACCTCCCAATCCACCTCCAGCACCTCCACCAAGCCCATGGCCA
129 CCCCCACCACCTCCCAACCCACCTCCAGCACCTCCACCAAGCCCATGGCCA
* * * * *
2198428 CCACCTAGTCCTCCACCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGGCCACTACC
1 CCACCAAGTCCTCCACCACCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCA-C
* * * * * *
2198493 CAATCCCCCGCCACCTCCTAGTCCACCTCCTGCACCTCCACCAAGTCCATGTCCACCACCCAATC
65 CAATCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACCCAATC
* * * * * *
2198558 CCCCGCCACCTCCTAGCCCACCTCCTGCACCTCCACCAAGTCCATGTCCA
130 CCCCACCACCTCCCAACCCACCTCCAGCACCTCCACCAAGCCCATGGCCA
*
2198608 CCACCAAGCCCTCCAGCC-CCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCAC
1 CCACCAAGTCCTCCA-CCACCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCA-
2198672 CCAATCC
64 CCAATCC
2198679 ACCTCCTGCA
Statistics
Matches: 219, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
180 209 0.95
181 10 0.05
ACGTcount: A:0.22, C:0.55, G:0.09, T:0.14
Consensus pattern (179 bp):
CCACCAAGTCCTCCACCACCACCTAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACC
AATCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACCAAGCCCATGGCCACCACCCAATCC
CCCACCACCTCCCAACCCACCTCCAGCACCTCCACCAAGCCCATGGCCA
Found at i:2198654 original size:42 final size:42
Alignment explanation
Indices: 2198605--2198738 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
2198595 AAGTCCATGT
2198605 CCACCACCAAGCCCTCCAGCC-CCACCTAATCCACCTCCTGCA
1 CCACCACCAAGCCCTCC-GCCACCACCTAATCCACCTCCTGCA
* * *
2198647 CCTCCACCAAGCCCAT-GGCCACCACCCAATCCACCTCCTGCA
1 CCACCACCAAGCCC-TCCGCCACCACCTAATCCACCTCCTGCA
* * * * *
2198689 CCCCCACCAAGACCACCTCCACCACCTAATCCTCCTCCTGCA
1 CCACCACCAAGCCCTCCGCCACCACCTAATCCACCTCCTGCA
2198731 CCACCACC
1 CCACCACC
2198739 GCCACCTAGG
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.04
42 74 0.95
43 1 0.01
ACGTcount: A:0.24, C:0.57, G:0.07, T:0.12
Consensus pattern (42 bp):
CCACCACCAAGCCCTCCGCCACCACCTAATCCACCTCCTGCA
Found at i:2198805 original size:54 final size:54
Alignment explanation
Indices: 2198730--2198846 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
2198720 CTCCTCCTGC
* * *
2198730 ACCACCACCGCCACCTAGGCCTCCGCCTCC-CCCAAGGCCACCTCCACCACCAAA
1 ACCACCACCACCACCTAGGCCTCCGCCTCCACCCAA-ACCACCACCACCACCAAA
* * * *
2198784 GCCACCACCACCACCTAGGCCTCCTCCTCCACCTAAACCTCCACCACCACCAAA
1 ACCACCACCACCACCTAGGCCTCCGCCTCCACCCAAACCACCACCACCACCAAA
2198838 ACCACCACC
1 ACCACCACC
2198847 CAGACCACCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.26, C:0.57, G:0.08, T:0.09
Consensus pattern (54 bp):
ACCACCACCACCACCTAGGCCTCCGCCTCCACCCAAACCACCACCACCACCAAA
Found at i:2198817 original size:18 final size:18
Alignment explanation
Indices: 2198740--2198818 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 18
2198730 ACCACCACCG
* * *
2198740 CCACCTAGGCCTCCGCCT
1 CCACCTAGGCCACCTCCA
* *
2198758 CCCCCAAGGCCACCTCCA
1 CCACCTAGGCCACCTCCA
* * *
2198776 CCACCAAAGCCACCACCA
1 CCACCTAGGCCACCTCCA
* *
2198794 CCACCTAGGCCTCCTCCT
1 CCACCTAGGCCACCTCCA
2198812 CCACCTA
1 CCACCTA
2198819 AACCTCCACC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.22, C:0.57, G:0.10, T:0.11
Consensus pattern (18 bp):
CCACCTAGGCCACCTCCA
Found at i:2198824 original size:18 final size:18
Alignment explanation
Indices: 2198788--2198846 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
2198778 ACCAAAGCCA
* **
2198788 CCACCACCACCTAGGCCT
1 CCACCACCACCAAAACCT
* * *
2198806 CCTCCTCCACCTAAACCT
1 CCACCACCACCAAAACCT
*
2198824 CCACCACCACCAAAACCA
1 CCACCACCACCAAAACCT
2198842 CCACC
1 CCACC
2198847 CAGACCACCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.58, G:0.03, T:0.10
Consensus pattern (18 bp):
CCACCACCACCAAAACCT
Found at i:2198841 original size:12 final size:12
Alignment explanation
Indices: 2198826--2198860 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2198816 CTAAACCTCC
2198826 ACCACCACCAAA
1 ACCACCACCAAA
* *
2198838 ACCACCACCCAG
1 ACCACCACCAAA
2198850 ACCACCACCAA
1 ACCACCACCAA
2198861 TTCCATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.54, G:0.03, T:0.00
Consensus pattern (12 bp):
ACCACCACCAAA
Found at i:2203316 original size:12 final size:12
Alignment explanation
Indices: 2203299--2203323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2203289 ACAATCAAAT
2203299 ATTAAAATAAAA
1 ATTAAAATAAAA
2203311 ATTAAAATAAAA
1 ATTAAAATAAAA
2203323 A
1 A
2203324 CTCGAACGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATTAAAATAAAA
Found at i:2204936 original size:18 final size:19
Alignment explanation
Indices: 2204899--2204936 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2204889 CGACTGTCTG
* *
2204899 TTTATTTTTATTTTATTTT
1 TTTACTTTTATTTAATTTT
2204918 TTTACTTTT-TTTAATTTT
1 TTTACTTTTATTTAATTTT
2204936 T
1 T
2204937 AATAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTACTTTTATTTAATTTT
Found at i:2205421 original size:2 final size:2
Alignment explanation
Indices: 2205416--2205446 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2205406 AATCATCTCT
2205416 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2205447 CACAAGAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2209175 original size:14 final size:14
Alignment explanation
Indices: 2209139--2209181 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2209129 GTTCGTTCGT
*
2209139 TTTGTTCATTTAT-
1 TTTGTTCGTTTATG
*
2209152 TTTATTCGTTTATG
1 TTTGTTCGTTTATG
*
2209166 TTTGTTCGTTTCTG
1 TTTGTTCGTTTATG
2209180 TT
1 TT
2209182 CGTTTACATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (14 bp):
TTTGTTCGTTTATG
Found at i:2211546 original size:29 final size:29
Alignment explanation
Indices: 2211468--2211627 Score: 170
Period size: 28 Copynumber: 5.6 Consensus size: 29
2211458 CACATTCAAA
*
2211468 AATTCCCAAAATGTCACCTTTTTTCAAAAT
1 AATTCCCAGAATGTCACC-TTTTTCAAAAT
**
2211498 AATTCCCAGTTTGTCA-CTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
2211526 AATTCCCAGAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* * *
2211555 ATTTACCAGAATAG-CA--TTTTTCACAA-
1 AATTCCCAGAAT-GTCACCTTTTTCAAAAT
* *
2211581 AATTCTCAGAATGTCACCTTTTTTAATAA-
1 AATTCCCAGAATGTCACCTTTTTCAA-AAT
2211610 ACATTCCCAGAATGTCAC
1 A-ATTCCCAGAATGTCAC
2211628 TGGGTCGGGT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.01
26 11 0.10
27 9 0.08
28 31 0.28
29 28 0.26
30 29 0.27
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:2211582 original size:58 final size:54
Alignment explanation
Indices: 2211466--2211603 Score: 145
Period size: 55 Copynumber: 2.5 Consensus size: 54
2211456 TCCACATTCA
* * * *
2211466 AAAATTCCCAAAATGTCACCTTTTTTCAAAATAATTCCCAGTTTGTCACTTTTTC
1 AAAATTCCCAGAATGTCACC-TTTTTCAAAATAATTACCAGATAGTCACTTTTTC
*
2211521 AAAATAATTCCCAGAATGTCACCTTTTTCAAAATATTTACCAGAATAG-CA-TTTTTCAC
1 --AA-AATTCCCAGAATGTCACCTTTTTCAAAATAATTACCAG-ATAGTCACTTTTT--C
*
2211579 AAAATTCTCAGAATGTCACCTTTTT
1 AAAATTCCCAGAATGTCACCTTTTT
2211604 TAATAAACAT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 22 0.31
56 7 0.10
57 22 0.31
58 20 0.28
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
AAAATTCCCAGAATGTCACCTTTTTCAAAATAATTACCAGATAGTCACTTTTTC
Found at i:2211651 original size:16 final size:17
Alignment explanation
Indices: 2211629--2211673 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
2211619 GAATGTCACT
2211629 GGGTCGGGTCGGTCAAC
1 GGGTCGGGTCGGTCAAC
*
2211646 -GGTCGGATCGGTCAAC
1 GGGTCGGGTCGGTCAAC
2211662 GGGTCGGGTCGG
1 GGGTCGGGTCGG
2211674 GTCAGACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
GGGTCGGGTCGGTCAAC
Found at i:2218907 original size:29 final size:29
Alignment explanation
Indices: 2218865--2219024 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
2218855 CACATTCGAA
*
2218865 AATTCCCAAAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
*
2218894 AATTCCCAGCATGTCA-CTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* * *
2218922 AATTCCCAGAATATTACATTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* * *
2218951 ATTTCCCATAATGTCACTTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* *
2218980 ATTTCCCAGAATGTCACTTTTTTCACAAA-
1 AATTCCCAGAATGTCACCTTTTTCA-AAAT
*
2219009 AATTCCCAAAATGTCA
1 AATTCCCAGAATGTCA
2219025 ACGGGTCGGG
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
28 25 0.22
29 87 0.76
30 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:2219043 original size:17 final size:17
Alignment explanation
Indices: 2219021--2219053 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2219011 TTCCCAAAAT
2219021 GTCAACGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
*
2219038 GTCAACGGGTCTGGTC
1 GTCAACGGGTCGGGTC
2219054 AAATCGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.42, T:0.21
Consensus pattern (17 bp):
GTCAACGGGTCGGGTCG
Found at i:2219156 original size:9 final size:10
Alignment explanation
Indices: 2219133--2219159 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2219123 AAATTCCTGA
2219133 AAAAATTTCT
1 AAAAATTTCT
2219143 AAAAATTTCT
1 AAAAATTTCT
2219153 AAAAATT
1 AAAAATT
2219160 ATTTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTTCT
Found at i:2220211 original size:16 final size:16
Alignment explanation
Indices: 2220186--2220216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2220176 CCATCTCCGA
2220186 ACCAACCACTCTGAAT
1 ACCAACCACTCTGAAT
*
2220202 ACCAAGCACTCTGAA
1 ACCAACCACTCTGAA
2220217 CCTCAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.35, G:0.10, T:0.16
Consensus pattern (16 bp):
ACCAACCACTCTGAAT
Found at i:2220456 original size:21 final size:21
Alignment explanation
Indices: 2220427--2220473 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2220417 ATTCTGACTA
2220427 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
2220448 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
2220469 TCGCA
1 TCGCA
2220474 ATTCGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:2220500 original size:41 final size:42
Alignment explanation
Indices: 2220455--2220545 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
2220445 AATTCGCGTT
* * * *
2220455 GCGATTTTCCTAATTCGCAATTCGAA-TACGTAAATCGCAAC
1 GCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAAC
* * *
2220496 GCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1 GCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAAC
2220537 GCGATTTAC
1 GCGATTTAC
2220546 ATAGCGCCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
40 17 0.41
41 20 0.49
42 4 0.10
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
GCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAAC
Found at i:2220530 original size:21 final size:21
Alignment explanation
Indices: 2220469--2220545 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 21
2220459 TTTTCCTAAT
*
2220469 TCGCAATTCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
*
2220489 TCGCAACGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
2220509 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
*
2220530 TCGCAATGCGATTTAC
1 TCGCAATGCGAATTAC
2220546 ATAGCGCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 25 0.52
21 22 0.46
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:2220848 original size:9 final size:9
Alignment explanation
Indices: 2220834--2220859 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2220824 GGGTTAGTTT
2220834 TTTTAATTA
1 TTTTAATTA
2220843 TTTTAATTA
1 TTTTAATTA
2220852 TTTTAATT
1 TTTTAATT
2220860 TTGAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATTA
Found at i:2221157 original size:21 final size:20
Alignment explanation
Indices: 2221082--2221153 Score: 110
Period size: 20 Copynumber: 3.5 Consensus size: 20
2221072 TTCTAAACTT
*
2221082 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
2221102 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2221122 AAAATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
2221143 AAAATCGCAAC
1 AAAATCGCAAC
2221154 GAGATAATCG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 32 0.65
21 17 0.35
ACGTcount: A:0.54, C:0.18, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2221237 original size:19 final size:19
Alignment explanation
Indices: 2221213--2221292 Score: 97
Period size: 20 Copynumber: 4.1 Consensus size: 19
2221203 GTTGTGATTC
2221213 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
**
2221232 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATTTTCATT
* *
2221251 TCCACGTAGCGATTTTCATT
1 T-CTCGTTGCGATTTTCATT
*
2221271 CTCTCGTTGTGATTTTCATT
1 -TCTCGTTGCGATTTTCATT
2221291 TC
1 TC
2221293 AACCAAAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
19 20 0.40
20 29 0.58
21 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (19 bp):
TCTCGTTGCGATTTTCATT
Found at i:2222058 original size:20 final size:22
Alignment explanation
Indices: 2222033--2222072 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2222023 AGTCGTATAT
2222033 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2222053 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2222073 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2222124 original size:21 final size:21
Alignment explanation
Indices: 2222100--2222142 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2222090 TCCAGAATAG
*
2222100 AGGGAATCGATACCCCTTCAT
1 AGGGAATCAATACCCCTTCAT
2222121 AGGGAATCAATACCCCTTCAT
1 AGGGAATCAATACCCCTTCAT
2222142 A
1 A
2222143 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (21 bp):
AGGGAATCAATACCCCTTCAT
Found at i:2222204 original size:21 final size:21
Alignment explanation
Indices: 2222179--2222219 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2222169 TATTGAACAA
2222179 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
2222200 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
2222220 AACATTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:2222279 original size:21 final size:21
Alignment explanation
Indices: 2222254--2222296 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2222244 AAAACCTGCA
* *
2222254 GGGGGTATCTGTACCCCCTGG
1 GGGGGAATCTATACCCCCTGG
2222275 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTATACCCCCTGG
2222296 G
1 G
2222297 CAATCTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGAATCTATACCCCCTGG
Found at i:2222418 original size:29 final size:31
Alignment explanation
Indices: 2222386--2222444 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
2222376 AAACTTTGAA
*
2222386 TAAATTCAATT-ACGTCCAAAAA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAATCATTTTT
2222415 TAAATTCAATTCAAGTCCAAAAATCATTTT
1 TAAATTCAATTCAAGTCCAAAAATCATTTT
2222445 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTT
Found at i:2222635 original size:22 final size:22
Alignment explanation
Indices: 2222604--2222650 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2222594 AAGCTCCCCC
*
2222604 TTTTTCATTAAGAAATTGAATT
1 TTTTTCATTAAGAAAATGAATT
*
2222626 TTTTTTATTAAGAAAATGAATT
1 TTTTTCATTAAGAAAATGAATT
2222648 TTT
1 TTT
2222651 CAAACCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTTCATTAAGAAAATGAATT
Found at i:2225097 original size:34 final size:32
Alignment explanation
Indices: 2225044--2225113 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2225034 CCTTACAAAC
*
2225044 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
2225076 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
2225110 TCCC
1 TCCC
2225114 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:2225353 original size:20 final size:22
Alignment explanation
Indices: 2225328--2225367 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2225318 AGTCGTATAT
2225328 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2225348 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2225368 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2225419 original size:21 final size:21
Alignment explanation
Indices: 2225395--2225437 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2225385 CCCAGAATAG
*
2225395 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2225416 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2225437 A
1 A
2225438 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:2225499 original size:21 final size:21
Alignment explanation
Indices: 2225474--2225515 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2225464 TGTTGAACAA
2225474 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
2225495 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
2225516 ACATTCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:2225570 original size:15 final size:15
Alignment explanation
Indices: 2225550--2225579 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2225540 AAACCTACAG
2225550 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2225565 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2225580 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:2225589 original size:21 final size:21
Alignment explanation
Indices: 2225565--2225606 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2225555 ATCTGTACCC
* *
2225565 GGGGTATCTGTACCCCCTGGG
1 GGGGAATCTATACCCCCTGGG
2225586 GGGGAATCTATACCCCCTGGG
1 GGGGAATCTATACCCCCTGGG
2225607 CAATCTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGAATCTATACCCCCTGGG
Found at i:2225729 original size:29 final size:31
Alignment explanation
Indices: 2225697--2225756 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
2225687 AAACTTTGAA
*
2225697 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2225726 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2225757 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2227455 original size:94 final size:94
Alignment explanation
Indices: 2227267--2227627 Score: 502
Period size: 94 Copynumber: 4.0 Consensus size: 94
2227257 TAGATTGCTT
* *
2227267 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2227328 ATTTGTCTTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTATCTTTTGGTTGAA
* *
2227357 AGTAAATTTATTCGGTTGTTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2227422 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
*
2227451 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2227516 A------TTTG-----TCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
* * * * *
2227534 AGTAAATTTGTTCGTTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2227599 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
2227628 GCAATGCAAT
Statistics
Matches: 245, Mismatches: 10, Indels: 28
0.87 0.04 0.10
Matches are distributed among these distances:
83 75 0.31
88 4 0.02
89 4 0.02
90 34 0.14
92 3 0.01
93 22 0.09
94 103 0.42
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTATCTTTTGGTTGAA
Found at i:2227539 original size:83 final size:83
Alignment explanation
Indices: 2227438--2227608 Score: 306
Period size: 83 Copynumber: 2.1 Consensus size: 83
2227428 CTTTGTTTTA
2227438 TCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACA
1 TCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACA
*
2227503 CTGTGAAGTTAGTATTTG
66 CTCTGAAGTTAGTATTTG
* * *
2227521 TCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAATA
1 TCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACA
2227586 CTCTGAAGTTAGTATTTG
66 CTCTGAAGTTAGTATTTG
2227604 TCTTT
1 TCTTT
2227609 GTTTTGTCTT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (83 bp):
TCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACA
CTCTGAAGTTAGTATTTG
Found at i:2227784 original size:20 final size:20
Alignment explanation
Indices: 2227761--2227798 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2227751 TAGCAATGAC
*
2227761 AAAATCGTAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
*
2227781 AAAATCGCAACTCGAAAC
1 AAAATCGCAACGCGAAAC
2227799 GATAATCGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.26, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:2227826 original size:19 final size:19
Alignment explanation
Indices: 2227804--2227882 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 19
2227794 GAAACGATAA
*
2227804 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTTATT
* *
2227823 TCGCATTGCGA----T-TC
1 TCGCGTTGCGATTTTTATT
*
2227837 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
* *
2227856 TCGCGTTGTGATTTTTGTT
1 TCGCGTTGCGATTTTTATT
2227875 TCGCGTTG
1 TCGCGTTG
2227883 ATAGTCATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 10 0.22
18 1 0.02
19 35 0.76
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.49
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:2228385 original size:21 final size:21
Alignment explanation
Indices: 2228361--2228427 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2228351 TCATTCCTCG
2228361 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2228382 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2228403 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2228424 AGAG
1 AGAG
2228428 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2229798 original size:14 final size:14
Alignment explanation
Indices: 2229779--2229814 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2229769 ATTGTTTAAT
2229779 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2229793 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2229807 TGATTTGT
1 TGATTTGT
2229815 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2229937 original size:19 final size:19
Alignment explanation
Indices: 2229921--2229967 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
2229911 AAAAATGACT
*
2229921 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2229940 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
2229959 ATCGTAACG
1 ATCGCAACG
2229968 ACAAAATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2229994 original size:19 final size:19
Alignment explanation
Indices: 2229970--2230015 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
2229960 TCGTAACGAC
* *
2229970 AAAATCGCAACGCGTAACT
1 AAAATCGCAACACGAAACT
2229989 AAAATCGCAACACGAAACT
1 AAAATCGCAACACGAAACT
*
2230008 AAATTCGC
1 AAAATCGC
2230016 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACACGAAACT
Found at i:2230057 original size:33 final size:33
Alignment explanation
Indices: 2230015--2230137 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
2230005 ACTAAATTCG
* *
2230015 CGTTGCGATTTTCATTTCCCT-TTGCGATTCCCT
1 CGTTGCGATTTTCATTT-CGTATTGCGATTCTCT
*
2230048 CGTTGCGATTTTCATTTCGTATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
2230081 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
* *
2230114 CGTTGTGATTTTCATTTCGCATTG
1 CGTTGCGATTTTCATTTCGTATTG
2230138 TGATAGTCAT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 2 0.02
33 81 0.98
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
Found at i:2230107 original size:19 final size:19
Alignment explanation
Indices: 2230050--2230109 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
2230040 GATTCCCTCG
2230050 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGTA
* *
2230069 TTGTGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGTA
2230083 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGTA
2230102 TTGCGATT
1 TTGCGATT
2230110 CTCTCGTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
16 7 0.22
17 7 0.22
19 13 0.41
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.52
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGTA
Found at i:2230168 original size:20 final size:19
Alignment explanation
Indices: 2230126--2230168 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2230116 TTGTGATTTT
* *
2230126 CATTTCGCATTGTGATAGT
1 CATTTCGCATTGCGATAGA
*
2230145 CATTTCCGCGTTGCGATAGA
1 CATTT-CGCATTGCGATAGA
2230165 CATT
1 CATT
2230169 AAGATGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGA
Found at i:2230207 original size:20 final size:20
Alignment explanation
Indices: 2230139--2230207 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
2230129 TTCGCATTGT
** *
2230139 GATAGTCATTTCCGCGTTGC
1 GATAGTCATTTAAGTGTTGC
*
2230159 GATAGACA-TTAAGATGATTGC
1 GATAGTCATTTAAG-TG-TTGC
*
2230180 GA-ACGTCATTTATGTGTTGC
1 GATA-GTCATTTAAGTGTTGC
2230200 GATAGTCA
1 GATAGTCA
2230208 AATGAATGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.08
20 19 0.50
21 12 0.32
22 4 0.11
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (20 bp):
GATAGTCATTTAAGTGTTGC
Found at i:2232719 original size:24 final size:24
Alignment explanation
Indices: 2232692--2232738 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2232682 CAAAATCCGA
2232692 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
2232716 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
2232739 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:2232747 original size:24 final size:24
Alignment explanation
Indices: 2232696--2232747 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2232686 ATCCGAGTAT
** *
2232696 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
2232720 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
2232744 TGAC
1 TGAC
2232748 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:2233651 original size:21 final size:20
Alignment explanation
Indices: 2233596--2233887 Score: 162
Period size: 21 Copynumber: 14.3 Consensus size: 20
2233586 AGAATCTCGT
2233596 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
2233616 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
2233636 TGCGAATTAGGAAAATCGCAG
1 TGCG-ATTACGTAAATCGCAA
2233657 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
2233677 TGCGATTACGT-ATTCGCAT
1 TGCGATTACGTAAATCGCAA
*
2233696 TGCGATTTACGT-AATCGCAC
1 TGCGA-TTACGTAAATCGCAA
* * * *
2233716 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
2233737 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
2233758 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
2233779 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
*
2233800 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * *
2233820 TGCGATTTACGT-ATTCACAT
1 TGCGA-TTACGTAAATCGCAA
* *
2233840 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* ** *
2233861 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
2233882 TGCGAT
1 TGCGAT
2233888 AGTCAGAATC
Statistics
Matches: 238, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
19 15 0.06
20 100 0.42
21 123 0.52
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:2233661 original size:41 final size:40
Alignment explanation
Indices: 2233596--2233886 Score: 147
Period size: 41 Copynumber: 7.1 Consensus size: 40
2233586 AGAATCTCGT
* *
2233596 TGCGATTTACTAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGAATTACGAAATCGCAATGCGATTACGTAAATCGCAA
* *
2233636 TGCGAATTAGGAAAATCGCAGTGCGATTACGTAAATCGCAA
1 TGCGAATTACG-AAATCGCAATGCGATTACGTAAATCGCAA
* * * *
2233677 TGCG-ATTACGTATTCGCATTGCGATTTACGT-AATCGCAC
1 TGCGAATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * * * * *
2233716 TGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGA-ATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * * * * *
2233758 TGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGA-ATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * *
2233800 TGCGATTTACGTAATCGCATTGCGATTTACGT-ATTCACAT
1 TGCGAATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* * ** *
2233840 TGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
1 TGCGAATTACG-AAATCGCAATGCG-ATTACGTAAATCGCAA
2233882 TGCGA
1 TGCGA
2233887 TAGTCAGAAT
Statistics
Matches: 208, Mismatches: 35, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
39 22 0.11
40 35 0.17
41 87 0.42
42 64 0.31
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
TGCGAATTACGAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:2233830 original size:20 final size:20
Alignment explanation
Indices: 2233595--2233844 Score: 229
Period size: 21 Copynumber: 12.3 Consensus size: 20
2233585 CAGAATCTCG
2233595 TTGCGATTTAC-TAAATCGCA
1 TTGCGATTTACGT-AATCGCA
*
2233615 ATGCGA-TTACGTAAATCGCA
1 TTGCGATTTACGT-AATCGCA
* * * *
2233635 ATGCGAATTAGGAAAATCGCA
1 TTGCGATTTACG-TAATCGCA
*
2233656 GTGCGA-TTACGTAAATCGCA
1 TTGCGATTTACGT-AATCGCA
* *
2233676 ATGCGA-TTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
2233695 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
* * *
2233715 CTGCGATTTTCCTAATTCGCA
1 TTGCGATTTACGTAA-TCGCA
* *
2233736 TTGCGATTTTCCTAATTCGCA
1 TTGCGATTTACGTAA-TCGCA
* *
2233757 TTGCGATTTTCCTAATTCGCA
1 TTGCGATTTACGTAA-TCGCA
* *
2233778 TTGCGATTTTCCTAATTCGCA
1 TTGCGATTTACGTAA-TCGCA
2233799 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
* *
2233819 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTAATCGCA
2233839 TTGCGA
1 TTGCGA
2233845 ATTAGGAAAA
Statistics
Matches: 206, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.07
20 95 0.46
21 96 0.47
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:2247270 original size:586 final size:586
Alignment explanation
Indices: 2246150--2247322 Score: 2265
Period size: 586 Copynumber: 2.0 Consensus size: 586
2246140 AACCGCCAAA
*
2246150 GAGCCATTAGATCGGAGTAAATCTAAGGCGAAAGGCTTTACCTTTTCGTCGTTATTTCACCGTTT
1 GAGCCACTAGATCGGAGTAAATCTAAGGCGAAAGGCTTTACCTTTTCGTCGTTATTTCACCGTTT
2246215 CACAGTGACTGCTGGTTTTTCCTTTTGTCTTGCTTGCTGTATAGGTTTTCTTGGATTTTTCTACT
66 CACAGTGACTGCTGGTTTTTCCTTTTGTCTTGCTTGCTGTATAGGTTTTCTTGGATTTTTCTACT
*
2246280 GTGAGGCTTCGGCCTTTGGTTTTATATTTTTGTTGTGTATGGTTTCGTTTGTTCTCAGTTTCGTC
131 GTGAGGCTTCGACCTTTGGTTTTATATTTTTGTTGTGTATGGTTTCGTTTGTTCTCAGTTTCGTC
2246345 TGTGTGGGTAGTGACCGATGGTTCTGTTATTTGTTGTTTCGGCTTTGCGTGTTTTGGTACTGAAA
196 TGTGTGGGTAGTGACCGATGGTTCTGTTATTTGTTGTTTCGGCTTTGCGTGTTTTGGTACTGAAA
2246410 TGTTCTCTCTCGATGATGGTTTCTGGTTGTCTCGACCTTGCTTGTTGGTTGGCTTTGAATGTTTT
261 TGTTCTCTCTCGATGATGGTTTCTGGTTGTCTCGACCTTGCTTGTTGGTTGGCTTTGAATGTTTT
2246475 GTTTGGTTTTCTTGTTGTACGTGATCTTTCTGTGGGTTCTCCGTTTGGGTCTTATTGAGGATGGT
326 GTTTGGTTTTCTTGTTGTACGTGATCTTTCTGTGGGTTCTCCGTTTGGGTCTTATTGAGGATGGT
*
2246540 CTGTTGTGGTTTACTGCTGATCGGTCGTTCTCGTTTCTGGTGGTCGGTGTGGTGGTACCTCGGTA
391 CTGTTGTGGTTTACTGCTGACCGGTCGTTCTCGTTTCTGGTGGTCGGTGTGGTGGTACCTCGGTA
2246605 TCCCCCTTTCGCATGGCCTCACCGGGGTATTTATAACCCCTCGGTGAAGGCCGTTTCCGATGATA
456 TCCCCCTTTCGCATGGCCTCACCGGGGTATTTATAACCCCTCGGTGAAGGCCGTTTCCGATGATA
* *
2246670 ACGGGGTGGTTCCCCTCAACGTTCACGTGGTCGGGATTCTCGGGATGGTGCAGTCCCGATTTTCC
521 ACGGGGTCGTTCCCCTCAACGTTCACGTGGTCGGGATTCTCGGGATAGTGCAGTCCCGATTTTCC
2246735 C
586 C
2246736 GAGCCACTAGATCGGAGTAAATCTAAGGCGAAAGGCTTTACCTTTTCGTCGTTATTTCACCGTTT
1 GAGCCACTAGATCGGAGTAAATCTAAGGCGAAAGGCTTTACCTTTTCGTCGTTATTTCACCGTTT
*
2246801 CACAGTGACTGCTGGTTTTTCCTTTTGTCTTGCTTGCTGTATATGTTTTCTTGGATTTTTCTACT
66 CACAGTGACTGCTGGTTTTTCCTTTTGTCTTGCTTGCTGTATAGGTTTTCTTGGATTTTTCTACT
2246866 GTGAGGCTTCGACCTTTGGTTTTATATTTTTGTTGTGTATGGTTTCGTTTGTTCTCAGTTTCGTC
131 GTGAGGCTTCGACCTTTGGTTTTATATTTTTGTTGTGTATGGTTTCGTTTGTTCTCAGTTTCGTC
2246931 TGTGTGGGTAGTGACCGATGGTTCTGTTATTTGTTGTTTCGGCTTTGCGTGTTTTGGTACTGAAA
196 TGTGTGGGTAGTGACCGATGGTTCTGTTATTTGTTGTTTCGGCTTTGCGTGTTTTGGTACTGAAA
2246996 TGTTCTCTCTCGATGATGGTTTCTGGTTGTCTCGACCTTGCTTGTTGGTTGGCTTTGAATGTTTT
261 TGTTCTCTCTCGATGATGGTTTCTGGTTGTCTCGACCTTGCTTGTTGGTTGGCTTTGAATGTTTT
*
2247061 GTTTGGTTTTCTTGTTGTACGTGATCTTTCTGTGGGTTCTCCGTTTGGGTCTTGTTGAGGATGGT
326 GTTTGGTTTTCTTGTTGTACGTGATCTTTCTGTGGGTTCTCCGTTTGGGTCTTATTGAGGATGGT
*
2247126 TTGTTGTGGTTTACTGCTGACCGGTCGTTCTCGTTTCTGGTGGTCGGTGTGGTGGTACCTCGGTA
391 CTGTTGTGGTTTACTGCTGACCGGTCGTTCTCGTTTCTGGTGGTCGGTGTGGTGGTACCTCGGTA
2247191 TCCCCCTTTCGCATGGCCTCACCGGGGTATTTATAACCCCTCGGTGAAGGCCGTTTCCGATGATA
456 TCCCCCTTTCGCATGGCCTCACCGGGGTATTTATAACCCCTCGGTGAAGGCCGTTTCCGATGATA
*
2247256 ACGGGGTCGTTCCCCTCAACGTTCACGTGGTCGGGATTCTCGGGATAGTTCAGTCCCGATTTTCC
521 ACGGGGTCGTTCCCCTCAACGTTCACGTGGTCGGGATTCTCGGGATAGTGCAGTCCCGATTTTCC
2247321 C
586 C
2247322 G
1 G
2247323 GCCGGCCGGT
Statistics
Matches: 578, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
586 578 1.00
ACGTcount: A:0.12, C:0.19, G:0.27, T:0.42
Consensus pattern (586 bp):
GAGCCACTAGATCGGAGTAAATCTAAGGCGAAAGGCTTTACCTTTTCGTCGTTATTTCACCGTTT
CACAGTGACTGCTGGTTTTTCCTTTTGTCTTGCTTGCTGTATAGGTTTTCTTGGATTTTTCTACT
GTGAGGCTTCGACCTTTGGTTTTATATTTTTGTTGTGTATGGTTTCGTTTGTTCTCAGTTTCGTC
TGTGTGGGTAGTGACCGATGGTTCTGTTATTTGTTGTTTCGGCTTTGCGTGTTTTGGTACTGAAA
TGTTCTCTCTCGATGATGGTTTCTGGTTGTCTCGACCTTGCTTGTTGGTTGGCTTTGAATGTTTT
GTTTGGTTTTCTTGTTGTACGTGATCTTTCTGTGGGTTCTCCGTTTGGGTCTTATTGAGGATGGT
CTGTTGTGGTTTACTGCTGACCGGTCGTTCTCGTTTCTGGTGGTCGGTGTGGTGGTACCTCGGTA
TCCCCCTTTCGCATGGCCTCACCGGGGTATTTATAACCCCTCGGTGAAGGCCGTTTCCGATGATA
ACGGGGTCGTTCCCCTCAACGTTCACGTGGTCGGGATTCTCGGGATAGTGCAGTCCCGATTTTCC
C
Found at i:2247515 original size:3 final size:3
Alignment explanation
Indices: 2247507--2247550 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
2247497 AAAAAGCATA
*
2247507 AAT AAT AAT AAGA AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A
2247551 CTATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2251683 original size:33 final size:34
Alignment explanation
Indices: 2251620--2251715 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 34
2251610 AAACATTTTA
*
2251620 AAAATATATATATATAATTTTTAAACCGTTTCTG
1 AAAATATATATATATAATTTTTAAAACGTTTCTG
* *
2251654 AAAATATAT-TATA-AAGTTTTTAAAACGTTTTTAA
1 AAAATATATATATATAA-TTTTTAAAACGTTTCT-G
* *
2251688 AAACATGTATAATATATAGTTTTTAAAA
1 AAA-ATATAT-ATATATAATTTTTAAAA
2251716 GCATTTTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
32 2 0.04
33 18 0.35
34 12 0.24
35 5 0.10
37 13 0.25
38 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (34 bp):
AAAATATATATATATAATTTTTAAAACGTTTCTG
Found at i:2251781 original size:3 final size:3
Alignment explanation
Indices: 2251773--2251837 Score: 96
Period size: 3 Copynumber: 21.3 Consensus size: 3
2251763 ATATATATAG
2251773 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
2251819 T-T TATT TCT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT T
2251838 TATGCTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2253209 original size:29 final size:31
Alignment explanation
Indices: 2253158--2253220 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
2253148 AAAATTATAT
* *
2253158 ATTATATATATTTTTAAAATGTTTTTAAAAA
1 ATTATATATATATTTAAAATGTTTTAAAAAA
*
2253189 ATTATATA-ATATTT-AAGTGTTTTAAAAAA
1 ATTATATATATATTTAAAATGTTTTAAAAAA
2253218 ATT
1 ATT
2253221 CAAAACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.55
30 5 0.17
31 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (31 bp):
ATTATATATATATTTAAAATGTTTTAAAAAA
Found at i:2253264 original size:38 final size:38
Alignment explanation
Indices: 2253108--2253400 Score: 222
Period size: 37 Copynumber: 7.9 Consensus size: 38
2253098 CATATAAACG
* * *
2253108 TTTTAAAAAC-AT-TATAATATATATTTTCAGAAACG-
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATGA
* * * *
2253143 GTTTAAAAATTATATATTATATATATTTT-TAAAATGT
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATGA
* * * *
2253180 TTTTAAAAAAT-TATATAATATTTAAGTGTTTTAAAAA--A
1 TTTTAAAAACTATATATTATATAT-A-T-TTTCAAAAATGA
* *
2253218 -ATTCAAAACTATATATTATATA-AGTTTTCAAAAATGA
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAATGA
*
2253255 TTTTAAAAACTATATATTATATATATTTTCTAAAATG-
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATGA
* *
2253292 TTTTAAAAACTATATACTATATA-GTTTTCAAAAAAT-A
1 TTTTAAAAACTATATATTATATATATTTTC-AAAAATGA
* *
2253329 TTTTTAAAACTATATATTATATACATTTTC-AAAATG-
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATGA
*
2253365 TTTTCAAAAATTATGTATATTATA-AGTATTTT-AAAA
1 TTTT-AAAAACTA--TATATTATATA-TATTTTCAAAA
2253401 GACCGTTTGC
Statistics
Matches: 207, Mismatches: 30, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
35 16 0.08
36 33 0.16
37 86 0.42
38 47 0.23
39 21 0.10
40 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (38 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATGA
Found at i:2254279 original size:165 final size:165
Alignment explanation
Indices: 2254006--2254859 Score: 1361
Period size: 165 Copynumber: 5.2 Consensus size: 165
2253996 TGACAAATAG
* * * * * * * * * *
2254006 CCCTTCTTGCCTTGAGTTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACCCGAG
1 CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
2254071 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
**
2254136 GTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAA
131 GTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAA
* * *
2254171 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* *
2254236 GGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
*
2254301 GTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAA
131 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* *
2254336 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* *
2254401 GGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
*
2254466 GTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAA
131 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* *
2254501 CCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* * * *
2254566 GGTCTTTGGCATATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGTTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
2254631 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
131 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
*
2254666 CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
2254731 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
**
2254796 GTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAA
131 GTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAA
* * *
2254831 CCCTTCTAGCCTTGAGTTATGCTGTAAAT
1 CCCTTCTAGACTTAAGTTATGCTGCAAAT
2254860 AGTTTGTTTA
Statistics
Matches: 647, Mismatches: 40, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
164 5 0.01
165 637 0.98
166 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
CCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
Found at i:2256803 original size:3 final size:3
Alignment explanation
Indices: 2256795--2256836 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
2256785 AAAAAGCATA
*
2256795 AAT AAT AAT AAGA AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2256837 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:2256884 original size:2 final size:2
Alignment explanation
Indices: 2256834--2256866 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2256824 AATAATAATA
2256834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2256867 AAAAATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2257031 original size:29 final size:29
Alignment explanation
Indices: 2256982--2257042 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
2256972 AAAATTATAT
* **
2256982 ATTATATATTTTTAAAATGTTTTTCAAAA
1 ATTATATATATTTAAAATGTTTTAAAAAA
*
2257011 ATTATATAATATTT-AAGTGTTTTAAAAAA
1 ATTATAT-ATATTTAAAATGTTTTAAAAAA
2257040 ATT
1 ATT
2257043 CAAAACTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTATATATATTTAAAATGTTTTAAAAAA
Found at i:2257086 original size:38 final size:36
Alignment explanation
Indices: 2256865--2257182 Score: 217
Period size: 36 Copynumber: 8.8 Consensus size: 36
2256855 TATATATATA
* * * * *
2256865 TAAAAAATATGTAATATATAAATTTCCAAAATGCTTT
1 TAAAAACTATATATTATATAATTTTCAAAAATG-TTT
* * *
2256902 TAAAAACTATATA-TATACATGTTTTTAAAAA-GTTT
1 TAAAAACTATATATTATATA-ATTTTCAAAAATGTTT
* * * *
2256937 TAAAAACT-T-TATAATAT-ATTTTCAGAAACGGTT
1 TAAAAACTATATATTATATAATTTTCAAAAATGTTT
* *
2256970 TAAAAATTATATATTATAT-ATTTT-TAAAATGTTTT
1 TAAAAACTATATATTATATAATTTTCAAAAATG-TTT
* * * * **
2257005 TCAAAAATTATATAATATTTAAGTGTTTTAAAAA--AAT
1 T-AAAAACTATATATTATATAA-T-TTTCAAAAATGTTT
*
2257042 TCAAAACTATATATTATATAAGTTTTCAAAAATGATTT
1 TAAAAACTATATATTATATAA-TTTTCAAAAATG-TTT
* *
2257080 TAAAAACTATATATTATGT-ATATTTCTAAAATGTTT
1 TAAAAACTATATATTATATAAT-TTTCAAAAATGTTT
* * *
2257116 TAAAAACTATATACTATATAGTTTTCAAAAAATATTT
1 TAAAAACTATATATTATATAATTTTC-AAAAATGTTT
*
2257153 TTAAAACTATATA-TATATACATTTTCAAAA
1 TAAAAACTATATATTATATA-ATTTTCAAAA
2257183 GGTAATCAAA
Statistics
Matches: 222, Mismatches: 41, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
32 8 0.04
33 12 0.05
34 9 0.04
35 34 0.15
36 75 0.34
37 58 0.26
38 19 0.09
39 3 0.01
40 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (36 bp):
TAAAAACTATATATTATATAATTTTCAAAAATGTTT
Found at i:2260033 original size:13 final size:12
Alignment explanation
Indices: 2259999--2260033 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
2259989 AAATATATAT
2259999 AATTTTTTTAAA
1 AATTTTTTTAAA
2260011 AATGTTTTTTAAA
1 AAT-TTTTTTAAA
2260024 AATTTATTTT
1 AATTT-TTTT
2260034 GAACTTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
AATTTTTTTAAA
Found at i:2262914 original size:20 final size:21
Alignment explanation
Indices: 2262877--2262918 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2262867 GTCATGCAAC
2262877 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
2262898 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
2262918 T
1 T
2262919 TGTAAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:2267554 original size:20 final size:21
Alignment explanation
Indices: 2267517--2267558 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2267507 GTCATGCAAC
2267517 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
2267538 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
2267558 T
1 T
2267559 TGTAAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:2269341 original size:20 final size:19
Alignment explanation
Indices: 2269313--2269357 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2269303 ATCAATAAAT
2269313 TTAAATAATAATAAAATATA
1 TTAAATAATAAT-AAATATA
* * *
2269333 TTAATTAATTATAATTATA
1 TTAAATAATAATAAATATA
2269352 TTAAAT
1 TTAAAT
2269358 TACAATCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATAATAATAAATATA
Found at i:2270240 original size:2 final size:2
Alignment explanation
Indices: 2270233--2270271 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2270223 TGCACCTTTC
2270233 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2270272 CCACGCATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2270600 original size:30 final size:30
Alignment explanation
Indices: 2270544--2270672 Score: 224
Period size: 30 Copynumber: 4.3 Consensus size: 30
2270534 GAAGGACCTA
* *
2270544 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2270573 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2270603 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2270633 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
2270663 TCCATAGGTC
1 TCCAGAGGTC
2270673 CCGAAGAACC
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.17
30 80 0.83
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:2270689 original size:30 final size:30
Alignment explanation
Indices: 2270544--2270762 Score: 147
Period size: 30 Copynumber: 7.2 Consensus size: 30
2270534 GAAGGACCTA
* **
2270544 TCCAGAGGTCACAAAG-ACCCCGGTAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAACTG
* * * *
2270573 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAACTG
* * * *
2270603 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAACTG
* * * *
2270633 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAACTG
* *
2270663 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGT-AACTG
* ** *
2270694 TCCATATGTTC-CTTAGAACATAGGTATACTG
1 TCCATA-GGTCACAAAGAACCTAGGTA-ACTG
* * *
2270725 TCCATATGTCTCGAAAG-ACATAGGTAAAACTG
1 TCCATAGGTCAC-AAAGAACCTAGGT--AACTG
2270757 TCCATA
1 TCCATA
2270763 TGTTCCATAG
Statistics
Matches: 165, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
29 15 0.09
30 93 0.56
31 41 0.25
32 15 0.09
33 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (30 bp):
TCCATAGGTCACAAAGAACCTAGGTAACTG
Found at i:2270689 original size:60 final size:60
Alignment explanation
Indices: 2270544--2270697 Score: 220
Period size: 60 Copynumber: 2.6 Consensus size: 60
2270534 GAAGGACCTA
**
2270544 TCCAGAGGTCACAAAG-ACCCCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
* * *
2270603 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
* * *
2270663 TCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCA
1 TCCAGAGGTCACAAAGAACCTAGGT-AACTGTCCA
2270698 TATGTTCCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
59 15 0.18
60 60 0.71
61 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (60 bp):
TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:2270762 original size:32 final size:31
Alignment explanation
Indices: 2270658--2270785 Score: 150
Period size: 31 Copynumber: 4.1 Consensus size: 31
2270648 GATCCTCGGT
* * * *
2270658 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
**
2270689 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
* *
2270720 TACTGTCCATATGTCTCGAAAG-ACATAGGTAA
1 AACTGTCCATATGT-TCCAAAGAACATAGGT-A
*
2270752 AACTGTCCATATGTTCCATAGAACATAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
2270783 AAC
1 AAC
2270786 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
31 56 0.68
32 26 0.32
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCAAAGAACATAGGTA
Found at i:2270768 original size:63 final size:61
Alignment explanation
Indices: 2270655--2270783 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 61
2270645 AAAGATCCTC
* *
2270655 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCATAGAACATA
* *
2270716 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCATAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGT-AAACTGTCCATATGTTCCATAGAACATA
2270779 GGTAA
1 GGTAA
2270784 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 31 0.51
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:2271992 original size:21 final size:21
Alignment explanation
Indices: 2271968--2272012 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2271958 CCATGTTCGT
* * *
2271968 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2271989 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2272010 TTG
1 TTG
2272013 CCAGAAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2274796 original size:2 final size:2
Alignment explanation
Indices: 2274789--2274856 Score: 113
Period size: 2 Copynumber: 35.0 Consensus size: 2
2274779 TGCACCTTTC
*
2274789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2274830 AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2274857 TCATATCCAC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2275218 original size:30 final size:29
Alignment explanation
Indices: 2275135--2275259 Score: 184
Period size: 28 Copynumber: 4.3 Consensus size: 29
2275125 GAAGGACCTA
* *
2275135 TCCAGAGGTCACAAAGA-CCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCCGGTAACTG
2275163 TCCAGAGGTCATAAAGAT-CCGGTAACTG
1 TCCAGAGGTCATAAAGATCCCGGTAACTG
2275191 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCC-CGGTAACTG
2275221 TCCAGAGGTCATAAAGATCCTCGGTAA-TG
1 TCCAGAGGTCATAAAGATCC-CGGTAACTG
*
2275250 TCCATAGGTC
1 TCCAGAGGTC
2275260 CCGAAGAACC
Statistics
Matches: 91, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
28 43 0.47
29 12 0.13
30 36 0.40
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (29 bp):
TCCAGAGGTCATAAAGATCCCGGTAACTG
Found at i:2275228 original size:58 final size:57
Alignment explanation
Indices: 2275135--2275259 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 57
2275125 GAAGGACCTA
2275135 TCCAGAGGTCACAAAGACCCGGTAACTATCCAGAGGTCATAAAGAT-C-CGGTAACTG
1 TCCAGAGGTCACAAAGACCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA-TG
* *
2275191 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAATG
1 TCCAGAGGTCACAAAGA-CC-CGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAATG
*
2275250 TCCATAGGTC
1 TCCAGAGGTC
2275260 CCGAAGAACC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
56 16 0.26
57 2 0.03
58 26 0.42
59 12 0.19
60 6 0.10
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (57 bp):
TCCAGAGGTCACAAAGACCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAATG
Found at i:2275266 original size:29 final size:30
Alignment explanation
Indices: 2275135--2275286 Score: 152
Period size: 28 Copynumber: 5.2 Consensus size: 30
2275125 GAAGGACCTA
* *
2275135 TCCAGAGGTCACAAAGA-CC-CGGTAACTA
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* *
2275163 TCCAGAGGTCATAAAGAT-C-CGGTAACTG
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* *
2275191 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* *
2275221 TCCAGAGGTCATAAAGATCCTCGGTAA-TG
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* * * *
2275250 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGATCCTCGGT-AACTG
2275281 TCCATA
1 TCCATA
2275287 TGTTCATTAG
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
28 43 0.39
29 22 0.20
30 38 0.34
31 8 0.07
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.21
Consensus pattern (30 bp):
TCCATAGGTCACAAAGATCCTCGGTAACTG
Found at i:2275286 original size:31 final size:31
Alignment explanation
Indices: 2275248--2275370 Score: 115
Period size: 31 Copynumber: 4.0 Consensus size: 31
2275238 TCCTCGGTAA
* *
2275248 TGTCCATAGGTCCCGAAGAACCTAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *** *
2275279 TGTCCATATGTTCATTAGAACATAGGTATAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
2275310 TGTCCATATGTCTCGAA-AGACATAGGTAAAAT
1 TGTCCATATGTCCCGAAGA-ACATAGGT-AAAC
* *
2275342 TGTCCATATGTTCCGTAGAACATA-GTAAA
1 TGTCCATATGTCCCGAAGAACATAGGTAAA
2275371 ACCCTCGACT
Statistics
Matches: 72, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
30 4 0.06
31 46 0.64
32 21 0.29
33 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAC
Found at i:2275336 original size:62 final size:63
Alignment explanation
Indices: 2275248--2275366 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
2275238 TCCTCGGTAA
* *
2275248 TGTCCATAGGTCCCGAAGAACCTAGGT-AAACTGTCCATATGTTCATTAGAACATAGGTATAC
1 TGTCCATAGGTCCCGAAGAACATAGGTAAAACTGTCCATATGTTCAGTAGAACATAGGTATAC
* * * *
2275310 TGTCCATATGTCTCGAA-AGACATAGGTAAAATTGTCCATATGTTCCGTAGAACATAG
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAAAACTGTCCATATGTTCAGTAGAACATAG
2275367 TAAAACCCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 22 0.45
63 26 0.53
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (63 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAAACTGTCCATATGTTCAGTAGAACATAGGTATAC
Found at i:2276104 original size:22 final size:22
Alignment explanation
Indices: 2276060--2276101 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2276050 TAAATCAATT
*
2276060 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
2276082 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
2276102 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:2276572 original size:21 final size:21
Alignment explanation
Indices: 2276548--2276592 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2276538 CCATGTTCGT
* * *
2276548 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2276569 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2276590 TTG
1 TTG
2276593 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2278140 original size:14 final size:14
Alignment explanation
Indices: 2278121--2278147 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2278111 ATATAGTATA
2278121 GTTTTTGAAAACAC
1 GTTTTTGAAAACAC
2278135 GTTTTTGAAAACA
1 GTTTTTGAAAACA
2278148 TATAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
GTTTTTGAAAACAC
Found at i:2278196 original size:40 final size:38
Alignment explanation
Indices: 2278100--2278280 Score: 167
Period size: 41 Copynumber: 4.6 Consensus size: 38
2278090 GCATATATAG
* *
2278100 TTTTTG-AAA-ATAT-ATAGTATAGTTTTTGAAAACACG-
1 TTTTTGAAAACATATAATA-TATAGTTTTTTAAAA-AGGT
2278136 TTTTTGAAAACATATAATATATAGTTTTCTTAAAAATGGGT
1 TTTTTGAAAACATATAATATATAGTTTT-TTAAAAA--GGT
* *
2278177 TTTTTGAAAACATATATATAATATAG-TTTTTGAAAACGT
1 TTTTTGAAAACATATA-AT-ATATAGTTTTTTAAAAAGGT
*
2278216 ATTTTTGAAAACATATAATAGATAGTTTTTTTAAAAACGG-
1 -TTTTTGAAAACATATAATATATAG-TTTTTTAAAAA-GGT
2278256 TTTTTGAAAACATATATAATATATA
1 TTTTTGAAAAC--ATATAATATATA
2278281 TAGTTTCTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 25
0.79 0.05 0.16
Matches are distributed among these distances:
36 6 0.05
37 3 0.02
38 19 0.16
39 23 0.19
40 26 0.21
41 34 0.28
42 5 0.04
43 6 0.05
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (38 bp):
TTTTTGAAAACATATAATATATAGTTTTTTAAAAAGGT
Found at i:2278231 original size:81 final size:79
Alignment explanation
Indices: 2278109--2278320 Score: 277
Period size: 81 Copynumber: 2.6 Consensus size: 79
2278099 GTTTTTGAAA
* ** *
2278109 ATATATAGTATAGTTTTTGAAAACACGTTTTTGAAAACATATAATATATAGTTTTCTTAAAAATG
1 ATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTCTTAAAAA-C
2278174 GGTTTTTTGAAAACAT
65 GG-TTTTTGAAAACAT
* * *
2278190 ATATATAATATAGTTTTTGAAAACGTATTTTTGAAAACATATAATAGATAGTTTTTTTAAAAACG
1 ATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTCTTAAAAACG
2278255 GTTTTTGAAAACAT
66 GTTTTTGAAAACAT
2278269 ATATAATATATATAGTTTCTTTGAAAACATTATTTTTG--AA-ATATAATATATA
1 ATAT-ATA-ATATAG-TT-TTTGAAAACA-TATTTTTGAAAACATATAATATATA
2278321 TTATTATTAG
Statistics
Matches: 117, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
79 17 0.15
80 5 0.04
81 74 0.63
82 4 0.03
83 9 0.08
84 8 0.07
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (79 bp):
ATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTCTTAAAAACG
GTTTTTGAAAACAT
Found at i:2278371 original size:13 final size:13
Alignment explanation
Indices: 2278355--2278379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2278345 TTTTTATTTT
2278355 ATTTATTTTATTG
1 ATTTATTTTATTG
2278368 ATTTATTTTATT
1 ATTTATTTTATT
2278380 TTTATTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTATTTTATTG
Found at i:2281133 original size:37 final size:37
Alignment explanation
Indices: 2281060--2281152 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
2281050 ATTAGGATCC
* * **
2281060 AAATTTTTAAAAATAGGATATAATTTTGTTAGGATTT
1 AAATTTCTAAAAATAGGATAGAATTTTACTAGGATTT
* *
2281097 AAATTTCTAAAAATAGGATAGAGTTTTACTATGATTT
1 AAATTTCTAAAAATAGGATAGAATTTTACTAGGATTT
* * *
2281134 AAACTCCTAAAGATAGGAT
1 AAATTTCTAAAAATAGGAT
2281153 CCACAAGCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (37 bp):
AAATTTCTAAAAATAGGATAGAATTTTACTAGGATTT
Found at i:2281643 original size:15 final size:15
Alignment explanation
Indices: 2281623--2281778 Score: 50
Period size: 15 Copynumber: 10.5 Consensus size: 15
2281613 TTTTTTACAC
2281623 TATATATTATTATTA
1 TATATATTATTATTA
*
2281638 TATATACATATATT-TTT
1 TATAT--AT-TATTATTA
*
2281655 TATTTATT-TATATT-
1 TATATATTAT-TATTA
* * *
2281669 TATTTGGTTATT-TTT
1 TATAT-ATTATTATTA
2281684 TA-ATATTATTATTA
1 TATATATTATTATTA
2281698 T-TATTATTATTA-TA
1 TATA-TATTATTATTA
*
2281712 TATATATATACTTTTTA
1 TATATAT-TA-TTATTA
*
2281729 TAAATATT-TTATT-
1 TATATATTATTATTA
2281742 TATA-AGCTTATTATTA
1 TATATA--TTATTATTA
*
2281758 CCATATA-TA-TA-TA
1 -TATATATTATTATTA
2281771 TATATATT
1 TATATATT
2281779 GTAATTATCT
Statistics
Matches: 107, Mismatches: 12, Indels: 46
0.65 0.07 0.28
Matches are distributed among these distances:
12 6 0.06
13 12 0.11
14 28 0.26
15 33 0.31
16 4 0.04
17 19 0.18
18 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (15 bp):
TATATATTATTATTA
Found at i:2281729 original size:25 final size:24
Alignment explanation
Indices: 2281629--2281729 Score: 68
Period size: 25 Copynumber: 4.2 Consensus size: 24
2281619 ACACTATATA
*
2281629 TTATTATTATATATACATATA-TT
1 TTATTATTATATATATATATATTT
* *
2281652 TT-TTATT-TATTTATATTTATTT
1 TTATTATTATATATATATATATTT
* *
2281674 GGTTATT-TTTTA-ATATTATTATTATTA
1 --TTATTATTATATATA-TA-TA-TATTT
2281701 TTATTATTATATATATATATACTTT
1 TTATTATTATATATATATATA-TTT
2281726 TTAT
1 TTAT
2281730 AAATATTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
21 9 0.15
22 7 0.12
23 2 0.03
24 8 0.14
25 19 0.32
26 7 0.12
27 7 0.12
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTATTATATATATATATATTT
Found at i:2282043 original size:19 final size:19
Alignment explanation
Indices: 2282009--2282061 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2281999 TATATATATA
*
2282009 TATTTTTTAATATTT-CATT
1 TATTTTTT-ATTTTTCCATT
*
2282028 TATTTATTTATTTTTCCTTT
1 TATTT-TTTATTTTTCCATT
2282048 TATTTTTTATTTTT
1 TATTTTTTATTTTT
2282062 TTACTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTTATTTTTCCATT
Found at i:2285411 original size:6 final size:7
Alignment explanation
Indices: 2285395--2285464 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
2285385 CAAAAAGGGC
2285395 AAAAAGA
1 AAAAAGA
2285402 AAAAAGA
1 AAAAAGA
2285409 AAAGAAGCA
1 AAA-AAG-A
2285418 AAAAAGGA
1 AAAAA-GA
*
2285426 AAAAAGG
1 AAAAAGA
2285433 AAAAA-A
1 AAAAAGA
*
2285439 CAAAAGA
1 AAAAAGA
*
2285446 ACAAA-A
1 AAAAAGA
*
2285452 ATAAAGA
1 AAAAAGA
2285459 ACAAAA
1 A-AAAA
2285465 ATTGAAAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
6 9 0.18
7 22 0.44
8 14 0.28
9 5 0.10
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:2285420 original size:16 final size:16
Alignment explanation
Indices: 2285401--2285452 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
2285391 GGGCAAAAAG
2285401 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAAGC
*
2285417 AAAAAAGGAAAA-AAGG
1 AAAAAA-GAAAAGAAGC
*
2285433 AAAAAACAAAAGAA-C
1 AAAAAAGAAAAGAAGC
2285448 AAAAA
1 AAAAA
2285453 TAAAGAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 9 0.29
16 17 0.55
17 5 0.16
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAGC
Found at i:2285423 original size:32 final size:31
Alignment explanation
Indices: 2285381--2285452 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
2285371 AGATTCAATC
* * *
2285381 AGAACAAAAAGGGCAAAAA-GAAAAAAGAAA
1 AGAACAAAAAAGGAAAAAAGGAAAAAACAAA
2285411 AGAAGCAAAAAAGGAAAAAAGGAAAAAACAAA
1 AGAA-CAAAAAAGGAAAAAAGGAAAAAACAAA
2285443 AGAACAAAAA
1 AGAACAAAAA
2285453 TAAAGAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.11
31 19 0.51
32 14 0.38
ACGTcount: A:0.75, C:0.07, G:0.18, T:0.00
Consensus pattern (31 bp):
AGAACAAAAAAGGAAAAAAGGAAAAAACAAA
Found at i:2285429 original size:9 final size:8
Alignment explanation
Indices: 2285395--2285438 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
2285385 CAAAAAGGGC
2285395 AAAAA-GA
1 AAAAAGGA
2285402 AAAAA-GA
1 AAAAAGGA
*
2285409 AAAGAAGCA
1 AAA-AAGGA
2285418 AAAAAGGA
1 AAAAAGGA
2285426 AAAAAGGA
1 AAAAAGGA
2285434 AAAAA
1 AAAAA
2285439 CAAAAGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 10 0.30
8 19 0.58
9 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Done.