Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 16
Found at i:431840 original size:63 final size:63
Alignment explanation
Indices: 431746--431868 Score: 237
Period size: 63 Copynumber: 2.0 Consensus size: 63
431736 AACTTTATAT
431746 TTGTTTCATCATTTCCACCATGTACAACAACGTGTAAGCGACATAGTACCAATTTTGGCCCCA
1 TTGTTTCATCATTTCCACCATGTACAACAACGTGTAAGCGACATAGTACCAATTTTGGCCCCA
*
431809 TTGTTTCATCATTTCCACCATGTACAACAACGTGTAAGTGACATAGTACCAATTTTGGCC
1 TTGTTTCATCATTTCCACCATGTACAACAACGTGTAAGCGACATAGTACCAATTTTGGCC
431869 GCTGTGGGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (63 bp):
TTGTTTCATCATTTCCACCATGTACAACAACGTGTAAGCGACATAGTACCAATTTTGGCCCCA
Found at i:432061 original size:15 final size:15
Alignment explanation
Indices: 432041--432069 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
432031 CTTCTATCGA
432041 AACTCATTCAGAAAT
1 AACTCATTCAGAAAT
432056 AACTCATTCAGAAA
1 AACTCATTCAGAAA
432070 CATACTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AACTCATTCAGAAAT
Found at i:433361 original size:178 final size:179
Alignment explanation
Indices: 433062--433419 Score: 709
Period size: 178 Copynumber: 2.0 Consensus size: 179
433052 TTCCATCCAT
433062 GAAATGATTAAACACTAGTATCAATGCATAATTAAAACATTAAAGTATTCTCAAATAGTTTGAGA
1 GAAATGATTAAACACTAGTATCAATGCATAATTAAAACATTAAAGTATTCTCAAATAGTTTGAGA
433127 TGGTAAACAGGTGGGGTAGGTGCGGATACCTCTACCCCATCCTCATACCCACCTATTTCGTATCC
66 TGGTAAACAGGTGGGGTAGGTGCGGATACCTCTACCCCATCCTCATACCCACCTATTTCGTATCC
433192 ACCCATAAGCCACGATGGGTAAAATTTTTAAACTCACATCCA-CCACGC
131 ACCCATAAGCCACGATGGGTAAAATTTTTAAACTCACATCCACCCACGC
433240 GAAATGATTAAACACTAGTATCAATGCATAATTAAAACATTAAAGTATTCTCAAATAGTTTGAGA
1 GAAATGATTAAACACTAGTATCAATGCATAATTAAAACATTAAAGTATTCTCAAATAGTTTGAGA
433305 TGGTAAACAGGTGGGGTAGGTGCGGATACCTCTACCCCATCCTCATACCCACCTATTTCGTATCC
66 TGGTAAACAGGTGGGGTAGGTGCGGATACCTCTACCCCATCCTCATACCCACCTATTTCGTATCC
433370 ACCCATAAGCCACGATGGGTAAAATTTTTAAACTCACATCCACCCACGC
131 ACCCATAAGCCACGATGGGTAAAATTTTTAAACTCACATCCACCCACGC
433419 G
1 G
433420 GGTACATTTT
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 172 0.96
179 7 0.04
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (179 bp):
GAAATGATTAAACACTAGTATCAATGCATAATTAAAACATTAAAGTATTCTCAAATAGTTTGAGA
TGGTAAACAGGTGGGGTAGGTGCGGATACCTCTACCCCATCCTCATACCCACCTATTTCGTATCC
ACCCATAAGCCACGATGGGTAAAATTTTTAAACTCACATCCACCCACGC
Found at i:433911 original size:25 final size:24
Alignment explanation
Indices: 433883--433967 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 24
433873 GTACTTTCAC
433883 TAGTGAAATTAACACTTAATTCCAG
1 TAGTGAAATTAACA-TTAATTCCAG
* *
433908 TAGTGAAACTTAACATTAGACTTACAC
1 TAGTGAAA-TTAACATTA-A-TTCCAG
* *
433935 TAGTGAAATTAACATTTAATCCCGG
1 TAGTGAAATTAACA-TTAATTCCAG
433960 TAGTGAAA
1 TAGTGAAA
433968 CCTAAGATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 21 0.42
26 14 0.28
27 15 0.30
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (24 bp):
TAGTGAAATTAACATTAATTCCAG
Found at i:433921 original size:51 final size:51
Alignment explanation
Indices: 433857--434212 Score: 346
Period size: 51 Copynumber: 7.0 Consensus size: 51
433847 ATATTTACAC
* * **
433857 TAGTAAAACTTAACATGTACTTTCACTAGTGAAATTAACACTTAATTCCAG
1 TAGTGAAACTTAACATGTACTTACACCGGTGAAATTAACACTTAATTCCAG
** * * *
433908 TAGTGAAACTTAACAT-TAGACTTACACTAGTGAAATTAACATTTAATCCCGG
1 TAGTGAAACTTAACATGT--ACTTACACCGGTGAAATTAACACTTAATTCCAG
* * * *
433960 TAGTGAAACCTAAGATAG-ATTTACACCGGTGAAATTAACACTTAATTTCAG
1 TAGTGAAACTTAACAT-GTACTTACACCGGTGAAATTAACACTTAATTCCAG
* ** * * *
434011 TAGTGAAACCTAACATAAACCTACACCGGTGAAATTAACACTTAATTTCAA
1 TAGTGAAACTTAACATGTACTTACACCGGTGAAATTAACACTTAATTCCAG
* * ** *
434062 TAGTGAAACTTAACA--TAGCTTATACCGGTGAAACTAACACTTAATTTTAT
1 TAGTGAAACTTAACATGTA-CTTACACCGGTGAAATTAACACTTAATTCCAG
* * * *
434112 TTGTGAAACTTAATA-GAGACTTACACCGGTGAAATTAACACTTAATTCTAG
1 TAGTGAAACTTAACATG-TACTTACACCGGTGAAATTAACACTTAATTCCAG
* *
434163 TTGTGAAACTTAACATAG-ACTTAGACCGGTGAAATTAACACTTAATTCCA
1 TAGTGAAACTTAACAT-GTACTTACACCGGTGAAATTAACACTTAATTCCA
434213 ACACTAAACT
Statistics
Matches: 259, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
49 1 0.00
50 41 0.16
51 172 0.66
52 44 0.17
53 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (51 bp):
TAGTGAAACTTAACATGTACTTACACCGGTGAAATTAACACTTAATTCCAG
Found at i:433950 original size:26 final size:27
Alignment explanation
Indices: 433851--433950 Score: 104
Period size: 26 Copynumber: 3.9 Consensus size: 27
433841 TAACACATAT
*
433851 TTACACTAGTAAAACTTAACA-T-GTAC
1 TTACACTAGTGAAACTTAACATTAG-AC
*
433877 TTTCACTAGTGAAA-TTAACACTTA-A-
1 TTACACTAGTGAAACTTAACA-TTAGAC
* *
433902 TTCCAGTAGTGAAACTTAACATTAGAC
1 TTACACTAGTGAAACTTAACATTAGAC
433929 TTACACTAGTGAAA-TTAACATT
1 TTACACTAGTGAAACTTAACATT
433951 TAATCCCGGT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 21 0.34
26 28 0.45
27 13 0.21
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TTACACTAGTGAAACTTAACATTAGAC
Found at i:434137 original size:101 final size:102
Alignment explanation
Indices: 433857--434209 Score: 415
Period size: 101 Copynumber: 3.5 Consensus size: 102
433847 ATATTTACAC
* * ** *
433857 TAGTAAAACTTAACAT-GTACTTTCACTAGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAA
1 TAGTGAAACTTAACATAG-ACTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACTTAA
** * ** *
433921 CATTAGACTTACACTAGTGAAATTAACATTTAATCCCGG
65 CA-TAGACTTACACCGGTGAAATTAACACTTAATTTCAG
* * * *
433960 TAGTGAAACCTAAGATAGATTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACCTAAC
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACTTAAC
* * *
434025 ATAAACCTACACCGGTGAAATTAACACTTAATTTCAA
66 ATAGACTTACACCGGTGAAATTAACACTTAATTTCAG
* * * * * *
434062 TAGTGAAACTTAACATAG-CTTATACCGGTGAAACTAACACTTAATTTTATTTGTGAAACTTAAT
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACTTAAC
*
434126 AGAGACTTACACCGGTGAAATTAACACTTAA-TTCTAG
66 ATAGACTTACACCGGTGAAATTAACACTTAATTTC-AG
* *
434163 TTGTGAAACTTAACATAGACTTAGACCGGTGAAATTAACACTTAATT
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATT
434210 CCAACACTAA
Statistics
Matches: 212, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
100 3 0.01
101 84 0.40
102 69 0.33
103 55 0.26
104 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (102 bp):
TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACTTAAC
ATAGACTTACACCGGTGAAATTAACACTTAATTTCAG
Found at i:434154 original size:152 final size:154
Alignment explanation
Indices: 433885--434227 Score: 433
Period size: 152 Copynumber: 2.2 Consensus size: 154
433875 ACTTTCACTA
* * * *
433885 GTGAAATTAACACTTAATTCCAGTAGTGAAACTTAACATTAGACTTACACTAGTGAAATTAACAT
1 GTGAAATTAACACTTAATTCCAATAGTGAAACTTAACATTAGACTTACACCAGTGAAACTAACAC
* * *
433950 TTAATCCCGGTAGTGAAACCTAAGATAGATTTACACCGGTGAAATTAACACTTAATT-TCAGTAG
66 TTAATCCCAGTAGTGAAACCTAAGAGAGACTTACACCGGTGAAATTAACACTTAATTCT-AGTAG
434014 TGAAACCTAACATAAACCTACACCG
130 TGAAACCTAACATAAACCTACACCG
* * *
434039 GTGAAATTAACACTTAATTTCAATAGTGAAACTTAACA-TAG-CTTATACCGGTGAAACTAACAC
1 GTGAAATTAACACTTAATTCCAATAGTGAAACTTAACATTAGACTTACACCAGTGAAACTAACAC
*** * * * * *
434102 TTAATTTTATTTGTGAAACTTAATAGAGACTTACACCGGTGAAATTAACACTTAATTCTAGTTGT
66 TTAATCCCAGTAGTGAAACCTAAGAGAGACTTACACCGGTGAAATTAACACTTAATTCTAGTAGT
* * * *
434167 GAAACTTAACATAGACTTAGACCG
131 GAAACCTAACATAAACCTACACCG
* *
434191 GTGAAATTAACACTTAATTCCAACACT-AAACTTAACA
1 GTGAAATTAACACTTAATTCCAATAGTGAAACTTAACA
434228 CATAATTCTA
Statistics
Matches: 163, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
151 10 0.06
152 113 0.69
153 4 0.02
154 36 0.22
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (154 bp):
GTGAAATTAACACTTAATTCCAATAGTGAAACTTAACATTAGACTTACACCAGTGAAACTAACAC
TTAATCCCAGTAGTGAAACCTAAGAGAGACTTACACCGGTGAAATTAACACTTAATTCTAGTAGT
GAAACCTAACATAAACCTACACCG
Found at i:434245 original size:101 final size:101
Alignment explanation
Indices: 433857--434251 Score: 336
Period size: 101 Copynumber: 3.9 Consensus size: 101
433847 ATATTTACAC
* * **
433857 TAGTAAAACTTAACAT-GTACTTTCACTAGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAA
1 TAGTGAAACTTAACATAG-ACTTACACCGGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAA
* * * **
433921 CA-TTAGACTTACACTAGTGAAATTAACATTTAATCCCGG
65 CACATA-A-TTACAC-AGTGAAATTAACACTTAATTCTAG
* * * * *
433960 TAGTGAAACCTAAGATAGATTTACACCGGTGAAATTAACACTTAATTTCAGTAGTGAAACCTAAC
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAAC
* * * *
434025 ATA-AACCTACACCGGTGAAATTAACACTTAATT-TCAA
66 ACATAA-TTACA-CAGTGAAATTAACACTTAATTCT-AG
* * ** * * *
434062 TAGTGAAACTTAACATAG-CTTATACCGGTGAAACTAACACTTAATTTTATTTGTGAAACTTAAT
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAAC
* * * *
434126 AGAGACTTACACCGGTGAAATTAACACTTAATTCTAG
66 ACATAATTACA-CAGTGAAATTAACACTTAATTCTAG
* * ** *
434163 TTGTGAAACTTAACATAGACTTAGACCGGTGAAATTAACACTTAATTCCAACACT-AAACTTAAC
1 TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAAC
434227 ACATAATT-CTATCAGTGAAACTTAA
66 ACATAATTAC-A-CAGTGAAA-TTAA
434252 GATTTTGCCA
Statistics
Matches: 237, Mismatches: 46, Indels: 19
0.78 0.15 0.06
Matches are distributed among these distances:
100 1 0.00
101 105 0.44
102 73 0.31
103 57 0.24
104 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (101 bp):
TAGTGAAACTTAACATAGACTTACACCGGTGAAATTAACACTTAATTCCAGTAGTGAAACTTAAC
ACATAATTACACAGTGAAATTAACACTTAATTCTAG
Found at i:434573 original size:42 final size:42
Alignment explanation
Indices: 434514--434594 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
434504 TGAAATCCCG
* *
434514 TGTTTGTTTCATGTAATTCGTTTGCCGGAAAATGTTTTCTCA
1 TGTTTGTTTCACGTAATTCGTTTGCCGGAAAATATTTTCTCA
*
434556 TGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTC
1 TGTTTGTTTCACGTAATTCGTTTGCCGGAAAATATTTTC
434595 CAGTATTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (42 bp):
TGTTTGTTTCACGTAATTCGTTTGCCGGAAAATATTTTCTCA
Found at i:434841 original size:21 final size:20
Alignment explanation
Indices: 434815--434865 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 20
434805 TTGATTATTA
434815 TAATATTTAAAATATATTTAT
1 TAATATTTAAAATATATTT-T
434836 TAATATTTATAATATTATATTTT
1 TAATATTTA-AA-A-TATATTTT
434859 TAATATT
1 TAATATT
434866 ATAATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.33
22 2 0.07
23 9 0.33
24 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTTAAAATATATTTT
Found at i:434870 original size:8 final size:8
Alignment explanation
Indices: 434810--434901 Score: 56
Period size: 8 Copynumber: 12.1 Consensus size: 8
434800 AAATATTGAT
434810 TATTATAA
1 TATTATAA
434818 TATT-TAA
1 TATTATAA
*
434825 -AATAT-A
1 TATTATAA
434831 T-TTATTAA
1 TATTA-TAA
434839 TATTTATAA
1 TA-TTATAA
434848 TATTAT-A
1 TATTATAA
*
434855 T-TTTTAA
1 TATTATAA
434862 TATTATAA
1 TATTATAA
*
434870 TATAATAA
1 TATTATAA
*
434878 TCA--ATTA
1 T-ATTATAA
434885 TATTATAA
1 TATTATAA
*
434893 TAATATAA
1 TATTATAA
434901 T
1 T
434902 CTATTATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
6 9 0.14
7 13 0.20
8 34 0.52
9 6 0.09
10 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (8 bp):
TATTATAA
Found at i:434887 original size:23 final size:23
Alignment explanation
Indices: 434861--434911 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
434851 TATATTTTTA
434861 ATATTATAAT-ATAATAATCAATT
1 ATATTATAATAAT-ATAATCAATT
*
434884 ATATTATAATAATATAATCTATT
1 ATATTATAATAATATAATCAATT
434907 ATATT
1 ATATT
434912 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTATAATAATATAATCAATT
Found at i:434962 original size:28 final size:26
Alignment explanation
Indices: 434931--434987 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
434921 ATAAATATAT
*
434931 AATAAATTTTTTATATATTTAATAATGA
1 AATAAATTATTTATATA-TTAAT-ATGA
*
434959 AAT--ATTATTTATATATTAATATTA
1 AATAAATTATTTATATATTAATATGA
434983 AATAA
1 AATAA
434988 TAATCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 6 0.24
25 5 0.20
26 11 0.44
28 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
AATAAATTATTTATATATTAATATGA
Found at i:434974 original size:26 final size:22
Alignment explanation
Indices: 434929--434985 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 22
434919 TAATAAATAT
434929 ATAATAAATTTTTTATATATTTA
1 ATAATAAATTTTTTATATA-TTA
434952 ATAATGAAATATTATTTATATATTA
1 ATAAT-AAAT-TT-TTTATATATTA
*
434977 ATATTAAAT
1 ATAATAAAT
434986 AATAATCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.17
24 8 0.27
25 9 0.30
26 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATAATAAATTTTTTATATATTA
Found at i:434985 original size:24 final size:25
Alignment explanation
Indices: 434929--434986 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
434919 TAATAAATAT
434929 ATAA-TAAAT-TTTTTATATATTTA
1 ATAATTAAATATTTTTATATATTTA
*
434952 ATAATGAAATATTATTTATATA-TTA
1 ATAATTAAATATT-TTTATATATTTA
434977 AT-ATTAAATA
1 ATAATTAAATA
434987 ATAATCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 11 0.37
25 7 0.23
26 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATAATTAAATATTTTTATATATTTA
Found at i:435023 original size:23 final size:22
Alignment explanation
Indices: 435004--435047 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
434994 AATAATATTT
435004 TAATAAAGATATTTAAAATATAC
1 TAATAAAGAT-TTTAAAATATAC
* *
435027 TAATTAATATTTTAAAATATA
1 TAATAAAGATTTTAAAATATA
435048 ATATAGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAC
Found at i:435377 original size:14 final size:14
Alignment explanation
Indices: 435358--435405 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
435348 CCAGAAATGT
435358 AATTCATTTTCCAG
1 AATTCATTTTCCAG
**
435372 AATTCAAATTCCAG
1 AATTCATTTTCCAG
*
435386 TAATTCATTTTTCA-
1 -AATTCATTTTCCAG
435400 AATTCA
1 AATTCA
435406 AATTCAAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 6 0.21
14 12 0.43
15 10 0.36
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:435381 original size:20 final size:20
Alignment explanation
Indices: 435344--435382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
435334 CTGGAAAACG
**
435344 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
435364 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
435383 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:435392 original size:15 final size:15
Alignment explanation
Indices: 435356--435423 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
435346 TTCCAGAAAT
**
435356 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
435371 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
** *
435385 GTAATTCATTTTTCA
1 GTAATTCAAATTCCA
*
435400 --AATTCAAATTCAA
1 GTAATTCAAATTCCA
435413 GTAATTCAAAT
1 GTAATTCAAAT
435424 CCTAGTTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
13 9 0.22
14 12 0.29
15 20 0.49
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:435415 original size:28 final size:29
Alignment explanation
Indices: 435356--435420 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
435346 TTCCAGAAAT
*
435356 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCAA
*
435385 GTAATTCATTTTTCA-AATTCAAATTCAA
1 GTAATTCATTTTCCAGAATTCAAATTCAA
435413 GTAATTCA
1 GTAATTCA
435421 AATCCTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCAA
Found at i:437188 original size:3 final size:3
Alignment explanation
Indices: 437172--437232 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
437162 ATTTAAAAAA
* * * *
437172 TAT TATT TATT TAT TAT TAT TAT TAG TAT CATT TAT TAT TAA TAT TAA
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
437220 TAT TTT TAT TAT T
1 TAT TAT TAT TAT T
437233 TTACAAGGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
3 37 0.80
4 9 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:437206 original size:22 final size:21
Alignment explanation
Indices: 437170--437232 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
437160 GAATTTAAAA
*
437170 AATATT-ATTTATTTATTATT
1 AATATTAATATATTTATTATT
* *
437190 ATTATTAGTATCATTTATTATT
1 AATATTAATAT-ATTTATTATT
*
437212 AATATTAATATTTTTATTATT
1 AATATTAATATATTTATTATT
437233 TTACAAGGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 19 0.54
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
AATATTAATATATTTATTATT
Found at i:438276 original size:3 final size:3
Alignment explanation
Indices: 438256--438310 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
438246 GTTCAGTTTT
* * * *
438256 TTA TTT TTA TTA TT- TTA TTA TTT TTA TTA TTT TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
438303 TTT TTA TT
1 TTA TTA TT
438311 TCTTTTCCTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (3 bp):
TTA
Found at i:438316 original size:9 final size:9
Alignment explanation
Indices: 438252--438310 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
438242 CTTTGTTCAG
438252 TTTT-TTAT
1 TTTTATTAT
438260 TTTTATTA-
1 TTTTATTAT
438268 TTTTATTAT
1 TTTTATTAT
438277 TTTTATTAT
1 TTTTATTAT
438286 TTTTATTAT
1 TTTTATTAT
438295 TTTTATTAT
1 TTTTATTAT
438304 TTTTATT
1 TTTTATT
438311 TCTTTTCCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
8 12 0.24
9 37 0.76
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTAT
Found at i:441049 original size:94 final size:95
Alignment explanation
Indices: 440847--441317 Score: 666
Period size: 95 Copynumber: 5.1 Consensus size: 95
440837 ATTATAATTA
* *
440847 TATATATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCGTTATG
1 TATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
*
440912 GATAAGATTCAACTA-CCTAAATAAAGGTGAT
65 GATAAGATTCAGCTAGCCT-AATAAAGGTGAT
*
440943 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCC-GCGTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
*
441007 ATAAGATTCAACTA-CCTAAATAAAGGTGAT
66 ATAAGATTCAGCTAGCCT-AATAAAGGTGAT
* *
441037 TATAACATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
* *
441102 AT-ATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTAATAAAGGTGAT
* *
441131 TATAATAT----T-AAGC------TGTCCCTCTAGAGAAATTGGTTAAACGCCCTGGCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
*
441185 ATAAGATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTAATAAAGGTGAT
* *
441215 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCCAGCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
* *
441280 ATAATATTCAGCTAGCCTAATAATGGTGAT
66 ATAAGATTCAGCTAGCCTAATAAAGGTGAT
441310 TATAATAT
1 TATAATAT
441318 TAAGTTGTCA
Statistics
Matches: 342, Mismatches: 19, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
83 40 0.12
84 34 0.10
88 1 0.00
89 8 0.02
90 1 0.00
94 119 0.35
95 135 0.39
96 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
ATAAGATTCAGCTAGCCTAATAAAGGTGAT
Found at i:441277 original size:178 final size:178
Alignment explanation
Indices: 440967--441365 Score: 624
Period size: 178 Copynumber: 2.2 Consensus size: 178
440957 AAGCTTGAGT
* *
440967 TGTCCCTCTAGAGCAATTGGTTAAACGCCCCGCGTTATGGATAAGATTCAACTACCTAAATAAAG
1 TGTCCCTCTAGAGCAATTGGTTAAACGCCCGGCTTTATGGATAAGATTCAACTACCTAAATAAAG
*
441032 GTGATTATAACATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTT
66 GTGATTATAACATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTT
*
441097 TATGGAT-ATATTCAGCTAGCCTGATAAAGGTGATTATAATATTAAGC
131 TATGGATAATATTCAGCTAGCCTAATAAAGGTGATTATAATATTAAGC
* * *
441144 TGTCCCTCTAGAGAAATTGGTTAAACGCCCTGGCTTTATGGATAAGATTCAGCTAGCCT-GATAA
1 TGTCCCTCTAGAGCAATTGGTTAAACGCCC-GGCTTTATGGATAAGATTCAACTA-CCTAAATAA
* *
441208 AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCCAGC
64 AGGTGATTATAACATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAGC
* *
441273 TTTATGGATAATATTCAGCTAGCCTAATAATGGTGATTATAATATTAAGT
129 TTTATGGATAATATTCAGCTAGCCTAATAAAGGTGATTATAATATTAAGC
* *
441323 TGTCACTCTAGAGCAATTGGTTAAACACCCCGAG-TTTATGGAT
1 TGTCCCTCTAGAGCAATTGGTTAAAC-GCCCG-GCTTTATGGAT
441366 CCAACTAGCC
Statistics
Matches: 203, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
177 29 0.14
178 96 0.47
179 74 0.36
180 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (178 bp):
TGTCCCTCTAGAGCAATTGGTTAAACGCCCGGCTTTATGGATAAGATTCAACTACCTAAATAAAG
GTGATTATAACATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTT
TATGGATAATATTCAGCTAGCCTAATAAAGGTGATTATAATATTAAGC
Found at i:442881 original size:246 final size:244
Alignment explanation
Indices: 442356--443723 Score: 1873
Period size: 246 Copynumber: 5.6 Consensus size: 244
442346 TCAGAGTCAA
* * * *
442356 TTTCAACTTCACAACGAAGGATATTGAACTCGAAGCAACATTCATCTTTATATTGGATTTCAAAT
1 TTTCAACTTCACGACGAAGGA-ATTGTACTC-AAGCAACATTCATCTTTAGATTGGATTTCAACT
* * * *
442421 TCACGACGAATGATATCCAATTCAAGGCTAAACTTCACAAAGAAGGGG------ACGATTTCAAC
64 TCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCAAC
* *
442480 TTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATATTTAGATTGGATTTCAACTTCACGA
129 TTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATGA
* *
442545 CGAAAGATATCCAA-TCAAGGCTCAACTT-ACAACGAATGGGTCATCCACGG
194 CGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGGCATCCACGG
* * *
442595 TTTCAACTTCACGAC-ATAGGAAATTGTGCTCCCCAGCAACATTTATCTTTAGATTGGATTTCAA
1 TTTCAACTTCACGACGA-AGG-AATTGTACT--CAAGCAACATTCATCTTTAGATTGGATTTCAA
* * *
442659 CTTCACGATGAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCAAGGTTTCA
62 CTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCA
* *
442724 ACTTCACGACGAAGGGAATCGTGCTCACCAGTAACATTCATCTTTAGATTGGATTTCAACTTCAT
127 ACTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCAT
* * *
442789 GATGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGCATCCACAG
192 GACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCATCCACGG
* *
442842 TTTCAACTTCACAACGAAGGATATTGAACTCGAAGCAACATTCATCTTTAGATTGGATTTCAACT
1 TTTCAACTTCACGACGAAGGA-ATTGTACTC-AAGCAACATTCATCTTTAGATTGGATTTCAACT
* * * * **
442907 TCACGACGAATGATATCTAATTCAAGGCTAAACTTCACAAAGAAGGGG-TCATCCACTATTTC-A
64 TCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCT-ATCCACGGTTTCAA
*
442970 CTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATG
128 CTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATG
* *
443035 ACGAAAGATATCCAA-TCAAGACTCAACTTCACAACGAAGGGGTCATCCACGG
193 ACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG-CATCCACGG
* * *
443087 TTTCAACTTCACGAC-ATAGGAAATTGTGCTCCCCAGCAACATTTATCTTTAGATTGGATTTCAA
1 TTTCAACTTCACGACGA-AGG-AATTGTACT--CAAGCAACATTCATCTTTAGATTGGATTTCAA
443151 CTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCAC-GTTTCA
62 CTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCA
* *
443215 ACTTCACGACGAAGGGAATCATGTTCACCAGTAACATTCATCTTTAGATTGGATTTCAACTTCAT
127 ACTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCAT
* * *
443280 GATGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGCCATCCACAG
192 GACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG-CATCCACGG
* * * *
443334 TTTCAACTTCACGATGAAGGGAATCGTACTCACCAACAACATTCATCTTTAGATTGCATTTCAAC
1 TTTCAACTTCACGACGAA-GGAATTGTACTCA--AGCAACATTCATCTTTAGATTGGATTTCAAC
* * * *
443399 TTCATGACGAAGGATATCCAATTCAATGCTCAACTTCAAAACGAAGGGGCCATCCACGGTTTCAA
63 TTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCAA
* *
443464 CTTCACGACGAAGGGAATCATGCTCACCAGGAACATTCATCTTTAGATTGGATTTCAATTTCATG
128 CTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATG
* *
443529 ACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGGGCCATCCACGG
193 ACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGGCATCCACGG
* * * **
443582 TTTCAACATCTCGACGAAGGGAATCGCGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAAC
1 TTTCAACTTCACGACGAA-GGAATTGTACTCA--AGCAACATTCATCTTTAGATTGGATTTCAAC
* * *
443647 TTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCATCCACGGTTTCAA
63 TTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCAA
443712 CTTCACGACGAA
128 CTTCACGACGAA
443724 TGAGTCATCT
Statistics
Matches: 1006, Mismatches: 93, Indels: 51
0.87 0.08 0.04
Matches are distributed among these distances:
238 1 0.00
239 23 0.02
240 73 0.07
241 1 0.00
244 26 0.03
245 116 0.12
246 323 0.32
247 186 0.18
248 254 0.25
249 3 0.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (244 bp):
TTTCAACTTCACGACGAAGGAATTGTACTCAAGCAACATTCATCTTTAGATTGGATTTCAACTTC
ACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCTATCCACGGTTTCAACTT
CACGACGAAGGGAATCATGCTCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATGACG
AAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCATCCACGG
Found at i:443096 original size:123 final size:123
Alignment explanation
Indices: 442389--443723 Score: 1872
Period size: 124 Copynumber: 10.9 Consensus size: 123
442379 TTGAACTCGA
* * * *
442389 AGCAACATTCATCTTTATATTGGATTTCAAATTCACGACGAATGATATCCAATTCAAGGCTAAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
442454 TTCACAAAGAAGGGG-----ACGATTTCAACTTCACGACGAAGGGAATCATGCTCACC
66 TTCACAACGAAGGGGCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* *
442507 AGCAACATTCATATTTAGATTGGATTTCAACTTCACGACGAAAGATATCCAA-TCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * *
442571 TT-ACAACGAATGGGTCATCCACGGTTTCAACTTCACGAC-ATAGGAAATTGTGCTCCCC
66 TTCACAACGAA-GGGGCATCCACGGTTTCAACTTCACGACGA-AGGGAATCGTGCTCACC
* * *
442629 AGCAACATTTATCTTTAGATTGGATTTCAACTTCACGATGAAGAATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
*
442694 TTCACAACGAAGGGGCTATCCAAGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
66 TTCACAACGAAGGGGC-ATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* * *
442753 AGTAACATTCATCTTTAGATTGGATTTCAACTTCATGATGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * **
442818 TTCACAATGAAGGGGCATCCACAGTTTCAACTTCACAACGAA-GGATATTGAACTCGA--
66 TTCACAACGAAGGGGCATCCACGGTTTCAACTTCACGACGAAGGGA-ATCGTGCTC-ACC
* * *
442875 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAATGATATCTAATTCAAGGCTAAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* **
442940 TTCACAAAGAAGGGGTCATCCACTATTTC-ACTTCACGACGAAGGGAATCGTGCTCACC
66 TTCACAACGAAGGGG-CATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* * *
442998 AGCAACATTCATCTTTAGATTGGATTTCAACTTCATGACGAAAGATATCCAA-TCAAGACTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
443062 TTCACAACGAAGGGGTCATCCACGGTTTCAACTTCACGAC-ATAGGAAATTGTGCTCCCC
66 TTCACAACGAAGGGG-CATCCACGGTTTCAACTTCACGACGA-AGGGAATCGTGCTCACC
*
443121 AGCAACATTTATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* *
443186 TTCACAACGAAGGGGCTATCCAC-GTTTCAACTTCACGACGAAGGGAATCATGTTCACC
66 TTCACAACGAAGGGGC-ATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* * *
443244 AGTAACATTCATCTTTAGATTGGATTTCAACTTCATGATGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * *
443309 TTCACAATGAAGGGGCCATCCACAGTTTCAACTTCACGATGAAGGGAATCGTACTCACC
66 TTCACAACGAAGGGG-CATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* * * *
443368 AACAACATTCATCTTTAGATTGCATTTCAACTTCATGACGAAGGATATCCAATTCAATGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* *
443433 TTCAAAACGAAGGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACC
66 TTCACAACGAAGGGG-CATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
* * *
443492 AGGAACATTCATCTTTAGATTGGATTTCAATTTCATGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * *
443557 TTTACAACGAATGGGCCATCCACGGTTTCAACATCTCGACGAAGGGAATCGCGCTCACC
66 TTCACAACGAA-GGGGCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
*
443616 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
*
443681 TTCACAACGAATGGGCCATCCACGGTTTCAACTTCACGACGAA
66 TTCACAACGAA-GGGGCATCCACGGTTTCAACTTCACGACGAA
443724 TGAGTCATCT
Statistics
Matches: 1087, Mismatches: 105, Indels: 44
0.88 0.08 0.04
Matches are distributed among these distances:
116 7 0.01
117 16 0.01
118 48 0.04
121 2 0.00
122 209 0.19
123 293 0.27
124 508 0.47
125 4 0.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (123 bp):
AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
TTCACAACGAAGGGGCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACC
Found at i:444232 original size:3 final size:3
Alignment explanation
Indices: 444209--444263 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
444199 GTTTAAAAAA
* *
444209 TAT TATT TATT TAT TAA TAT TAT TAT TAG TAT TATT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
444257 TAT TAT T
1 TAT TAT T
444264 TTACAGGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 36 0.78
4 10 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:444250 original size:19 final size:19
Alignment explanation
Indices: 444226--444264 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
444216 TATTTATTAA
444226 TATTATTATTAGTATTATT
1 TATTATTATTAGTATTATT
*
444245 TATTATTATTATTATTATT
1 TATTATTATTAGTATTATT
444264 T
1 T
444265 TACAGGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTATTATTAGTATTATT
Found at i:445296 original size:18 final size:17
Alignment explanation
Indices: 445273--445313 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
445263 TTGAATCCAC
*
445273 TTTATTCAGTTTTTTATT
1 TTTATT-AGTTTTTTAAT
*
445291 TTTATTATTTTTTTAAT
1 TTTATTAGTTTTTTAAT
445308 TTTATT
1 TTTATT
445314 TCTTTTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTAGTTTTTTAAT
Found at i:446026 original size:15 final size:15
Alignment explanation
Indices: 445990--446018 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
445980 AAGGATTAAT
445990 TTTATTTTAATTTGA
1 TTTATTTTAATTTGA
446005 TTTATTTTAATTTG
1 TTTATTTTAATTTG
446019 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTATTTTAATTTGA
Found at i:446338 original size:31 final size:31
Alignment explanation
Indices: 446269--446339 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
446259 CTATGGTAAT
446269 CACATCTTAAATAAATAAAAATAAAAGTGAA
1 CACATCTTAAATAAATAAAAATAAAAGTGAA
* * * *
446300 CATATCTTAATTAAATAAAAATGAAGGTG-A
1 CACATCTTAAATAAATAAAAATAAAAGTGAA
446330 CAACATCTTA
1 C-ACATCTTA
446340 TGTATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (31 bp):
CACATCTTAAATAAATAAAAATAAAAGTGAA
Found at i:447753 original size:65 final size:64
Alignment explanation
Indices: 447636--447839 Score: 202
Period size: 65 Copynumber: 3.2 Consensus size: 64
447626 TTTCAAAGTG
* * ** * *
447636 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATT-GAACATTGAATGCATT
1 ATGCATCGATGCACCAA-CCATGCATCGATGCACTCA-GG-CTATTTTAAAACATCGAATGCATT
*
447699 CC
63 TC
*
447701 ATGCATCGATGCA-CATACTATGCATCGATGCACTCAGAG-T-TTTATAAAAACATCGAATGCAT
1 ATGCATCGATGCACCA-ACCATGCATCGATGCACTCAG-GCTATTT-T-AAAACATCGAATGCAT
*
447763 TTG
62 TTC
* * *
447766 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTC
1 ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTC
447830 ATGCATCGAT
1 ATGCATCGAT
447840 TCACTCTTAG
Statistics
Matches: 117, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 46 0.39
65 63 0.54
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTC
Found at i:455694 original size:13 final size:13
Alignment explanation
Indices: 455676--455700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
455666 CCATTTCACA
455676 TTTGATTATGAAT
1 TTTGATTATGAAT
455689 TTTGATTATGAA
1 TTTGATTATGAA
455701 AGTAATGGCT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTGATTATGAAT
Found at i:463297 original size:19 final size:19
Alignment explanation
Indices: 463262--463314 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
463252 TCAATAGAAA
*
463262 ATATA-TAAAAACATATTT
1 ATATATTAAAAATATATTT
*
463280 ATATATTAAAAATTTATTT
1 ATATATTAAAAATATATTT
* *
463299 TTTTATTTAAAAATAT
1 ATATA-TTAAAAATAT
463315 CAGAAAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTAAAAATATATTT
Found at i:463522 original size:16 final size:16
Alignment explanation
Indices: 463503--463534 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
463493 AATAATAGTA
*
463503 ATAATGATAAATATAT
1 ATAATCATAAATATAT
463519 ATAATCATAAATATAT
1 ATAATCATAAATATAT
463535 GAAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
ATAATCATAAATATAT
Found at i:464992 original size:3 final size:3
Alignment explanation
Indices: 464974--465045 Score: 67
Period size: 3 Copynumber: 24.7 Consensus size: 3
464964 TAACATTTAT
* * * * *
464974 TAA TAA AAA T-A TAA TAA TAA TAG TAA TAA TTA TAA TAA TTA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
465021 TTA TAA TAA TTA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
465046 GGCAAAAATT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:465010 original size:18 final size:18
Alignment explanation
Indices: 464987--465039 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
464977 TAAAAATATA
464987 ATAATAA-TAGTAATAATT
1 ATAATAATTA-TAATAATT
*
465005 ATAATAATTATAACAATT
1 ATAATAATTATAATAATT
465023 ATAATAATTATAATAAT
1 ATAATAATTATAATAAT
465040 AAAATAGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATAATTATAATAATT
Found at i:465582 original size:16 final size:16
Alignment explanation
Indices: 465539--465585 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
465529 CTTCTTCTTC
*
465539 CTTCTTCAGATGAGTT
1 CTTCTTCAGATGAATT
*
465555 -TTC-TCATTATGAATT
1 CTTCTTCA-GATGAATT
465570 CTTCTTCAGATGAATT
1 CTTCTTCAGATGAATT
465586 ACTTTCTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 10 0.40
17 3 0.12
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (16 bp):
CTTCTTCAGATGAATT
Found at i:465640 original size:139 final size:140
Alignment explanation
Indices: 465418--465836 Score: 433
Period size: 141 Copynumber: 3.0 Consensus size: 140
465408 TTTCTTCTCC
* * ** ** *
465418 TCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGGAAATGTTGATGTTGATCTATCTCCTTC
1 TCTTCAGATGAATTCTTCTCATGATGAACTTTCTCTGGAAAAATTAATGTTGATCTATCTCCTTC
* * **
465482 TATGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 TGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
465547 GATGAGTT-T
131 GATGAGTTCT
* *
465556 TC-TCATTATGAATTCTTCTTCA-GATGAATTACTTTCTCTGG-AAAA-T-GTGTTGATCTATCT
1 TCTTCA-GATGAATTCTTC-TCATGATG-A--ACTTTCTCTGGAAAAATTAATGTTGATCTATCT
* *
465616 CCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTC-TCATT
61 CCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTT
* ** ** ***
465680 ATGAACTTCTTCTTCCT
126 CTTCAGAT-GAGTT-CT
* * *
465697 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTAATGCTGATCTATCTCCTTC
1 TCTTCAGATGAATTCTTCTCATGATGAACTTTCTCTGGAAAAATTAATGTTGATCTATCTCCTTC
* * * * *
465762 TGTGATAGAATCATGAAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CGTCTTCA
66 TGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
465826 GATGAGTTCT
131 GATGAGTTCT
465836 T
1 T
465837 TTATTATACT
Statistics
Matches: 224, Mismatches: 42, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
137 3 0.01
138 33 0.15
139 80 0.36
140 8 0.04
141 91 0.41
142 9 0.04
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (140 bp):
TCTTCAGATGAATTCTTCTCATGATGAACTTTCTCTGGAAAAATTAATGTTGATCTATCTCCTTC
TGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCT
Found at i:465677 original size:17 final size:17
Alignment explanation
Indices: 465655--465692 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
465645 GAACAAGCTC
465655 TTCTCATTATGAACTTA
1 TTCTCATTATGAACTTA
*
465672 TTCTCATTATGAACTTC
1 TTCTCATTATGAACTTA
465689 TTCT
1 TTCT
465693 TCCTTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (17 bp):
TTCTCATTATGAACTTA
Found at i:465898 original size:108 final size:110
Alignment explanation
Indices: 465779--466079 Score: 454
Period size: 107 Copynumber: 2.8 Consensus size: 110
465769 GAATCATGAA
* *
465779 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCGTCTTCAGATGAGTTCTT-TTATTA
1 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
* * *
465843 T-ACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCAAGC
66 TAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
465887 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGAT---TTCTTCTCATTA
1 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
* *
465949 TGAACTCT-TCTGGAAATGATGATCCATCAAATGATGAATTCAAGC
66 T-AACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
*
465994 AAA-AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGA-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
466058 ATGAACTCTACCTGGAAATGTT
65 AT-AACTCTACCTGGAAATGTT
466080 TTAAGAAAAA
Statistics
Matches: 175, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
105 5 0.03
106 7 0.04
107 79 0.45
108 54 0.31
110 20 0.11
111 10 0.06
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (110 bp):
AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
Found at i:466882 original size:22 final size:22
Alignment explanation
Indices: 466857--466977 Score: 197
Period size: 22 Copynumber: 5.5 Consensus size: 22
466847 AATAAAGCTT
466857 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
466879 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
466901 TCATCTTTTAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
466923 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
*
466945 TCATCTTTGAATAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
466967 TCATCTTTGAA
1 TCATCTTTGAA
466978 GAATGTAGAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 91 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:467427 original size:50 final size:49
Alignment explanation
Indices: 467342--467437 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 49
467332 TCACTGGTTC
* * * * *
467342 GTAAAACATTGACAATATATTCATCTTTTCCTGTGGTTTCTGCCCAGAT
1 GTAAAACATTGAAAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
*
467391 GTAAAACATTTGAAAACACATTCATCATTTCTTGTGGCTTCTGCCCA
1 GTAAAACA-TTGAAAACACATTCATCATTTCCTGTGGCTTCTGCCCA
467438 AATTTCTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 8 0.20
50 32 0.80
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (49 bp):
GTAAAACATTGAAAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
Found at i:468452 original size:74 final size:76
Alignment explanation
Indices: 468314--468555 Score: 301
Period size: 74 Copynumber: 3.2 Consensus size: 76
468304 TATGGGTTTT
* * * * * * *
468314 AGCATGTCCCAGCA-TTGGCTGATACAAACATTCAAAATGCGTCAACATTCTCCATTCTGATTG-
1 AGCATGCCCCAACATTTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGATTGA
468377 AAAGGGCTTTC
66 AAAGGGCTTTC
* * *
468388 AACATGCCCCAATA-TTTGCTGATATAAATATTCAAAATACATCAACATTCTTCATTCTGATTGA
1 AGCATGCCCCAACATTTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGATTGA
* *
468452 AAAAGGCTTTT
66 AAAGGGCTTTC
** * *
468463 AGCATGCCCCAACATTTTGCTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGATTGA
1 AGCATGCCCCAACATTTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGATTG-
*
468528 AAAAGGGTTTTC
65 AAAAGGGCTTTC
468540 AGCATGCCCCAACATT
1 AGCATGCCCCAACATT
468556 CGCTTCTTGT
Statistics
Matches: 143, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
74 53 0.37
75 21 0.15
76 44 0.31
77 25 0.17
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (76 bp):
AGCATGCCCCAACATTTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGATTGA
AAAGGGCTTTC
Found at i:468504 original size:76 final size:75
Alignment explanation
Indices: 468310--468555 Score: 314
Period size: 76 Copynumber: 3.3 Consensus size: 75
468300 ATGATATGGG
* * * * * * *
468310 TTTTAGCATGTCCCAGCATTGGCTGATACAAACATTCAAAATGCGTCAACATTCTCCATTCTGAT
1 TTTTAGCATGCCCCAACATTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGAT
*
468375 TG-AAAGGGC
66 TGAAAAAGGC
* * * *
468384 TTTCAACATGCCCCAATATTTGCTGATATAAATATTCAAAATACATCAACATTCTTCATTCTGAT
1 TTTTAGCATGCCCCAACATTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGAT
468449 TGAAAAAGGC
66 TGAAAAAGGC
** * *
468459 TTTTAGCATGCCCCAACATTTTGCTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGA
1 TTTTAGCATGCCCCAACA-TTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGA
*
468524 TTGAAAAAGGG
65 TTGAAAAAGGC
468535 TTTTCAGCATGCCCCAACATT
1 TTTT-AGCATGCCCCAACATT
468556 CGCTTCTTGT
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
74 56 0.38
75 21 0.14
76 57 0.39
77 14 0.09
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (75 bp):
TTTTAGCATGCCCCAACATTTGCTGATATAAACATTCAAAATACATCAACATTCTTCATTCTGAT
TGAAAAAGGC
Found at i:470199 original size:114 final size:114
Alignment explanation
Indices: 469999--470219 Score: 379
Period size: 114 Copynumber: 1.9 Consensus size: 114
469989 ACGACCATGC
* * *
469999 AATTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
470064 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
* * *
470113 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAATCAGATTAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
470178 GAACACTTCCAGAAGATGCTATTGGGTCTCTTTATTTCTACT
66 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACT
470220 GCGAGAACGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
Found at i:472362 original size:17 final size:17
Alignment explanation
Indices: 472342--472427 Score: 83
Period size: 17 Copynumber: 5.4 Consensus size: 17
472332 ATTTCTCCCC
472342 TTTTTCTTTTTCCTTTT
1 TTTTTCTTTTTCCTTTT
* * *
472359 TTTTCCTTTTTTCTCTT
1 TTTTTCTTTTTCCTTTT
* *
472376 TTTTCCTTTTTTC-TTT
1 TTTTTCTTTTTCCTTTT
472392 TTTTTC-TTTT--TTTT
1 TTTTTCTTTTTCCTTTT
*
472406 TTTCT-TTTTTCCTTTT
1 TTTTTCTTTTTCCTTTT
472422 TTTTTC
1 TTTTTC
472428 AAGCATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.19
15 4 0.07
16 15 0.26
17 27 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTCCTTTT
Found at i:472368 original size:8 final size:8
Alignment explanation
Indices: 472357--472423 Score: 79
Period size: 8 Copynumber: 8.8 Consensus size: 8
472347 CTTTTTCCTT
472357 TTTTTTCC
1 TTTTTTCC
472365 TTTTTTCTC
1 TTTTTTC-C
472374 TTTTTTCC
1 TTTTTTCC
*
472382 TTTTTTCT
1 TTTTTTCC
*
472390 TTTTTTTC
1 TTTTTTCC
472398 -TTTTT--
1 TTTTTTCC
472403 TTTTTT-C
1 TTTTTTCC
472410 TTTTTTCC
1 TTTTTTCC
472418 TTTTTT
1 TTTTTT
472424 TTTCAAGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
6 5 0.10
7 11 0.21
8 28 0.54
9 8 0.15
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCC
Found at i:472368 original size:9 final size:9
Alignment explanation
Indices: 472348--472424 Score: 70
Period size: 9 Copynumber: 8.6 Consensus size: 9
472338 CCCCTTTTTC
472348 TTTTTCCTTT
1 TTTTTCC-TT
472358 TTTTTCC-T
1 TTTTTCCTT
472366 TTTTT-CTCT
1 TTTTTCCT-T
472375 TTTTTCC-T
1 TTTTTCCTT
*
472383 TTTTTCTTT
1 TTTTTCCTT
*
472392 TTTTTCTTT
1 TTTTTCCTT
**
472401 TTTTTTTTCT
1 TTTTTCCT-T
472411 TTTTTCCTT
1 TTTTTCCTT
472420 TTTTT
1 TTTTT
472425 TTCAAGCATA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
7 1 0.02
8 13 0.22
9 29 0.50
10 15 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:473781 original size:27 final size:27
Alignment explanation
Indices: 473751--473806 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
473741 GTAATTATGT
473751 AAAAATGAAAATGTAAATACAAACGTA
1 AAAAATGAAAATGTAAATACAAACGTA
* * *
473778 AAAAATGCAAATGTAAATGCAAATGTA
1 AAAAATGAAAATGTAAATACAAACGTA
473805 AA
1 AA
473807 TATGTGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.20
Consensus pattern (27 bp):
AAAAATGAAAATGTAAATACAAACGTA
Found at i:473795 original size:12 final size:12
Alignment explanation
Indices: 473780--473807 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
473770 CAAACGTAAA
473780 AAATGCAAATGT
1 AAATGCAAATGT
473792 AAATGCAAATGT
1 AAATGCAAATGT
473804 AAAT
1 AAAT
473808 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:475401 original size:20 final size:21
Alignment explanation
Indices: 475359--475406 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
475349 AAATAAATAA
*
475359 AAAAAATAAAATAAAATACTT
1 AAAAAATAAAATAAAACACTT
*
475380 AAAAAATAAAATGAAACA-TT
1 AAAAAATAAAATAAAACACTT
*
475400 AATAAAT
1 AAAAAAT
475407 TAATATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAATAAAACACTT
Found at i:475944 original size:11 final size:13
Alignment explanation
Indices: 475928--475969 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
475918 ATGTTAAGTT
475928 TATTAATATAAT-
1 TATTAATATAATA
*
475940 T-TTAAGATAATA
1 TATTAATATAATA
475952 TATTAATATATATA
1 TATTAATATA-ATA
475966 TATT
1 TATT
475970 TTATTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 7 0.28
14 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TATTAATATAATA
Found at i:476373 original size:16 final size:16
Alignment explanation
Indices: 476349--476379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
476339 ATAGTAATAC
*
476349 TAATGATAAATATATA
1 TAATCATAAATATATA
476365 TAATCATAAATATAT
1 TAATCATAAATATAT
476380 GAAAGTAAAA
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
TAATCATAAATATATA
Found at i:476428 original size:20 final size:21
Alignment explanation
Indices: 476384--476429 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
476374 ATATATGAAA
*
476384 GTAAAATATGATTAATAAAAT
1 GTAAAATATGAGTAATAAAAT
*
476405 -TAAAATAT-AGTATTAAAAT
1 GTAAAATATGAGTAATAAAAT
476424 GTAAAA
1 GTAAAA
476430 AGTAATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
GTAAAATATGAGTAATAAAAT
Found at i:477865 original size:3 final size:3
Alignment explanation
Indices: 477857--477944 Score: 72
Period size: 3 Copynumber: 29.7 Consensus size: 3
477847 CTGTAATATG
* * * *
477857 TAA TAA TAA TATT TAT TAA TAA AAA T-A TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
477902 TTA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
477945 GGCAAAAATT
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
2 4 0.06
3 60 0.91
4 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:477909 original size:18 final size:18
Alignment explanation
Indices: 477886--477938 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
477876 TAAAAATATA
477886 ATAATAA-TAGTAATAATT
1 ATAATAATTA-TAATAATT
*
477904 ATAATAATTATAACAATT
1 ATAATAATTATAATAATT
477922 ATAATAATTATAATAAT
1 ATAATAATTATAATAAT
477939 AAAATAGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATAATTATAATAATT
Found at i:489556 original size:22 final size:22
Alignment explanation
Indices: 489483--489553 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
489473 AAGTCGAGGG
*
489483 TTCTACGTGGTCCTTCGGGATA
1 TTCTACGTGGTCCTTCGGGACA
* * * *
489505 TTTCTACGCGATCTTTTGGGACA
1 -TTCTACGTGGTCCTTCGGGACA
*
489528 -TCTATGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTCGGGACA
489549 TTCTA
1 TTCTA
489554 TGTTGCACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 16 0.43
22 4 0.11
23 17 0.46
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (22 bp):
TTCTACGTGGTCCTTCGGGACA
Found at i:496316 original size:22 final size:22
Alignment explanation
Indices: 496221--496310 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 22
496211 CGATCCTTCA
496221 GGACAATTCTATGTGGTCATTCG
1 GGAC-ATTCTATGTGGTCATTCG
* * *
496244 AGACAGTTCTACGTGGTTATTCG
1 GGACA-TTCTATGTGGTCATTCG
496267 GGACA-TCTATGTGGTCATTCG
1 GGACATTCTATGTGGTCATTCG
496288 GGACATTCTATGTGG-CACTTCG
1 GGACATTCTATGTGGTCA-TTCG
496310 G
1 G
496311 TTCATTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
21 21 0.36
22 15 0.26
23 22 0.38
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (22 bp):
GGACATTCTATGTGGTCATTCG
Found at i:498025 original size:17 final size:19
Alignment explanation
Indices: 497988--498030 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
497978 ACTTCTATAA
*
497988 AAAATAATATTTTTAAATT
1 AAAATAATATATTTAAATT
498007 AAAA-AATATATTT-AATT
1 AAAATAATATATTTAAATT
*
498024 AATATAA
1 AAAATAA
498031 ATAAAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 10 0.48
19 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATATATTTAAATT
Found at i:498102 original size:19 final size:20
Alignment explanation
Indices: 498062--498107 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
498052 ATGTTTTCTA
* *
498062 AAATA-AAAATAAATTATGT
1 AAATATAAAATAAATAATAT
498081 AAATATAAAAT-AATAATAT
1 AAATATAAAATAAATAATAT
*
498100 AAAAATAA
1 AAATATAA
498108 TTATATTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATATAAAATAAATAATAT
Found at i:498280 original size:45 final size:45
Alignment explanation
Indices: 498226--498317 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
498216 ACAAAATAAT
* *
498226 AAAATTGATATGAAATTTCATAACACAAATTATTGAAATATTAAA
1 AAAATTGATATGAAATTTCAAAACACAAATTATTAAAATATTAAA
* *
498271 AAAATTGATATTAAATTTCAAAACACAAATTATTAAAATATTCAA
1 AAAATTGATATGAAATTTCAAAACACAAATTATTAAAATATTAAA
498316 AA
1 AA
498318 GATGAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (45 bp):
AAAATTGATATGAAATTTCAAAACACAAATTATTAAAATATTAAA
Found at i:498332 original size:24 final size:24
Alignment explanation
Indices: 498297--498363 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
498287 TTCAAAACAC
*
498297 AAATTATT-AAAATATTCAAAAGAT
1 AAATTATTAAAAATATT-AAAAAAT
*
498321 GAAA-TA-TAAAAATACTAAAAAAT
1 -AAATTATTAAAAATATTAAAAAAT
498344 AAATTATTAAAAATA-TAAAA
1 AAATTATTAAAAATATTAAAA
498364 TATAGGGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 3 0.08
23 14 0.38
24 17 0.46
25 3 0.08
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (24 bp):
AAATTATTAAAAATATTAAAAAAT
Found at i:499138 original size:38 final size:38
Alignment explanation
Indices: 499096--499196 Score: 148
Period size: 38 Copynumber: 2.7 Consensus size: 38
499086 TTCGGTTCAA
* ** * *
499096 TTATGTTCACGAACAAGCTTGTTTATTAACTTGTTCGT
1 TTATGTTCATGAACAAGCTCATTTATCAACTCGTTCGT
*
499134 TTATGTTCATGAACAAGCTCATTTATCAACTCGTTTGT
1 TTATGTTCATGAACAAGCTCATTTATCAACTCGTTCGT
499172 TTATGTTCATGAACAAGCTCATTTA
1 TTATGTTCATGAACAAGCTCATTTA
499197 ATACCTCATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (38 bp):
TTATGTTCATGAACAAGCTCATTTATCAACTCGTTCGT
Found at i:501242 original size:15 final size:15
Alignment explanation
Indices: 501215--501254 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
501205 AAATTGATAA
501215 TTAGGGA-TTTAGAT
1 TTAGGGATTTTAGAT
501229 ATT-GGGATTTTAGAT
1 -TTAGGGATTTTAGAT
501244 TTAGGGATTTT
1 TTAGGGATTTT
501255 GGGTCACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TTAGGGATTTTAGAT
Found at i:517964 original size:22 final size:21
Alignment explanation
Indices: 517936--517989 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
517926 AGTCGAGGGT
517936 TTCATAGGTCTTTCAGAACATA
1 TTCATAGGTCTTT-AGAACATA
* **
517958 TTCATAGGTCCTTTGGGCCATA
1 TTCATAGGT-CTTTAGAACATA
517980 TTCATAGGTC
1 TTCATAGGTC
517990 CTTTGGGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.82
23 4 0.14
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (21 bp):
TTCATAGGTCTTTAGAACATA
Found at i:517990 original size:22 final size:22
Alignment explanation
Indices: 517954--517996 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
517944 TCTTTCAGAA
517954 CATATTCATAGGTCCTTTGGGC
1 CATATTCATAGGTCCTTTGGGC
517976 CATATTCATAGGTCCTTTGGG
1 CATATTCATAGGTCCTTTGGG
517997 ACAAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (22 bp):
CATATTCATAGGTCCTTTGGGC
Found at i:519660 original size:32 final size:32
Alignment explanation
Indices: 519618--519678 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
519608 GCTTTAGCAT
**
519618 AATAGAGTCAGTGTTGCATTTAGATAATGCAC
1 AATAGAGTCAGTGTCACATTTAGATAATGCAC
*
519650 AATAGTGTCAGTGTCACATTTAGATAATG
1 AATAGAGTCAGTGTCACATTTAGATAATG
519679 TAAATCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (32 bp):
AATAGAGTCAGTGTCACATTTAGATAATGCAC
Found at i:524300 original size:19 final size:20
Alignment explanation
Indices: 524265--524304 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
524255 TAGAGAGGAT
524265 GGATGATTCGAAAGAATTAA
1 GGATGATTCGAAAGAATTAA
524285 GGATGATTCG-AAGAATTAA
1 GGATGATTCGAAAGAATTAA
524304 G
1 G
524305 TGTTGCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (20 bp):
GGATGATTCGAAAGAATTAA
Found at i:526572 original size:23 final size:23
Alignment explanation
Indices: 526528--526593 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
526518 GCTTGAGATA
* **
526528 CAACATCACCACCATCTCCATTT
1 CAACATCAACACCATCAACATTT
*
526551 CAACTTCAACACCATCAACATTTT
1 CAACATCAACACCATCAACA-TTT
*
526575 C--CATCAAGACCATCAACAT
1 CAACATCAACACCATCAACAT
526594 CTTCCTAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 15 0.42
23 16 0.44
24 4 0.11
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.24
Consensus pattern (23 bp):
CAACATCAACACCATCAACATTT
Found at i:526586 original size:22 final size:22
Alignment explanation
Indices: 526556--526598 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
526546 CATTTCAACT
*
526556 TCAACACCATCAACATTTTCCA
1 TCAACACCATCAACATCTTCCA
*
526578 TCAAGACCATCAACATCTTCC
1 TCAACACCATCAACATCTTCC
526599 TAATTCCGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (22 bp):
TCAACACCATCAACATCTTCCA
Found at i:531015 original size:14 final size:12
Alignment explanation
Indices: 530998--531036 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
530988 GTGCAAAGAC
530998 AAAAGCAAAAAGAA
1 AAAAG-AAAAA-AA
531012 AAAA-AAAAAAA
1 AAAAGAAAAAAA
531023 AAAAGAAAAAAA
1 AAAAGAAAAAAA
531035 AA
1 AA
531037 GACTCCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
12 14 0.58
14 4 0.17
ACGTcount: A:0.90, C:0.03, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:531037 original size:10 final size:10
Alignment explanation
Indices: 531004--531038 Score: 56
Period size: 9 Copynumber: 3.7 Consensus size: 10
530994 AGACAAAAGC
531004 AAAAAG-AAA
1 AAAAAGAAAA
531013 AAAAA-AAAA
1 AAAAAGAAAA
531022 AAAAAGAAAA
1 AAAAAGAAAA
531032 AAAAAGA
1 AAAAAGA
531039 CTCCTACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:531105 original size:16 final size:16
Alignment explanation
Indices: 531072--531105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
531062 CAAAGACAAA
*
531072 AAGAAGAAAAAATCAG
1 AAGAAGAAAAAAACAG
*
531088 AAGAAGAAAAAAAGAG
1 AAGAAGAAAAAAACAG
531104 AA
1 AA
531106 TTTCAAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (16 bp):
AAGAAGAAAAAAACAG
Found at i:533072 original size:22 final size:22
Alignment explanation
Indices: 533042--533084 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
533032 CATTTCAACT
*
533042 TCAATACCATCAACATCTTCCA
1 TCAAGACCATCAACATCTTCCA
533064 TCAAGACCATCAACATCTTCC
1 TCAAGACCATCAACATCTTCC
533085 TAATTCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (22 bp):
TCAAGACCATCAACATCTTCCA
Found at i:533916 original size:51 final size:48
Alignment explanation
Indices: 533806--533951 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 48
533796 AAAAGGAAAT
*
533806 AAAAAGAAATAAAATAAATAATAAT-AATATTAAAAAACAATTTAAAAAAG
1 AAAAAGAAATAAAATAAA-AAAAATAAAT-TTAAAAAACAA-TTAAAAAAG
* * * *
533856 GAAACGAAATAAAATCAAAACAAAATAAATTTAAAAAATAATTAAAGAAG
1 AAAAAGAAATAAAAT-AAAA-AAAATAAATTTAAAAAACAATTAAAAAAG
* ** *
533906 AAAAAAGAAATTAAAGGAAGAAAATAAAATTTAAAAAACAATTAAA
1 -AAAAAGAAATAAAATAAAAAAAAT-AAATTTAAAAAACAATTAAA
533952 TGAAAATGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
49 5 0.06
50 43 0.54
51 28 0.35
52 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (48 bp):
AAAAAGAAATAAAATAAAAAAAATAAATTTAAAAAACAATTAAAAAAG
Found at i:536137 original size:24 final size:24
Alignment explanation
Indices: 536110--536189 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
536100 AGAAATCAAA
536110 AGAATTCAGATAAGATATCATAAC
1 AGAATTCAGATAAGATATCATAAC
* * * * *
536134 AGAATCCATATAAAAAATCAGAAC
1 AGAATTCAGATAAGATATCATAAC
* *
536158 AGAATTCAGGTAATG-TATCATAAT
1 AGAATTCAGATAA-GATATCATAAC
536182 AGAATTCA
1 AGAATTCA
536190 AGTCGAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (24 bp):
AGAATTCAGATAAGATATCATAAC
Found at i:540959 original size:24 final size:24
Alignment explanation
Indices: 540895--540961 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
540885 AAACGAAGAT
* * *
540895 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACATAATCCAG
*
540919 ATCAGATATCAGAACATAATCCAG
1 ATCAGAAATCAGAACATAATCCAG
540943 ATCAGAAATCAGAACATAA
1 ATCAGAAATCAGAACATAA
540962 ATAAGGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATCCAG
Found at i:541184 original size:16 final size:17
Alignment explanation
Indices: 541153--541185 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
541143 TTATTAACTA
541153 CAGAATCATCAATTATT
1 CAGAATCATCAATTATT
*
541170 CAGAAT-ATGAATTATT
1 CAGAATCATCAATTATT
541186 AGGATCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
CAGAATCATCAATTATT
Found at i:545861 original size:6 final size:6
Alignment explanation
Indices: 545845--545879 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
545835 ACCCTAAACG
* *
545845 TTTTTC CTTTTC TTTTTC TTTTTT TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
545880 GACTTATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:555627 original size:16 final size:16
Alignment explanation
Indices: 555607--555651 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
555597 GAAGAAAATT
555607 AAATTAAATTAAAA-A
1 AAATTAAATTAAAACA
555622 ATAATTAAATTAAAACGA
1 A-AATTAAATTAAAAC-A
555640 AAATTAAATTAA
1 AAATTAAATTAA
555652 GGAGGGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 11 0.41
18 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AAATTAAATTAAAACA
Found at i:555642 original size:21 final size:21
Alignment explanation
Indices: 555546--555651 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
555536 AAAAAAATTA
* * *
555546 AATTAAATTAAATTAAAAAAC
1 AATTAAATTAAAATGAAAAAT
555567 AATTAAA--AAAA-G-AAAAT
1 AATTAAATTAAAATGAAAAAT
** *
555584 AAAGAAA-TAAAATGAAGAA-
1 AATTAAATTAAAATGAAAAAT
* *
555603 AATTAAATTAAATTAAAAAAT
1 AATTAAATTAAAATGAAAAAT
* *
555624 AATTAAATTAAAACGAAAATT
1 AATTAAATTAAAATGAAAAAT
555645 AAATTAA
1 -AATTAA
555652 GGAGGGACTA
Statistics
Matches: 64, Mismatches: 15, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
17 9 0.14
18 4 0.06
19 9 0.14
20 12 0.19
21 24 0.38
22 6 0.09
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AATTAAATTAAAATGAAAAAT
Found at i:555677 original size:16 final size:16
Alignment explanation
Indices: 555611--555679 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
555601 AAAATTAAAT
*
555611 TAAATTAAAA-AATAAT
1 TAAATTAAAAGAA-AAC
*
555627 TAAATTAAAACGAAAAT
1 TAAATTAAAA-GAAAAC
* **
555644 TAAATT-AAGGAGGGAC
1 TAAATTAAAAGA-AAAC
555660 TAAATTAAAAGAAAAC
1 TAAATTAAAAGAAAAC
555676 TAAA
1 TAAA
555680 ATAGAGGTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.05
16 25 0.60
17 13 0.31
18 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAATTAAAAGAAAAC
Found at i:561600 original size:65 final size:64
Alignment explanation
Indices: 561481--561647 Score: 169
Period size: 65 Copynumber: 2.6 Consensus size: 64
561471 TTTTCAGGTA
* * * * *
561481 AGTGTACCGACGCATAAATCAATGCATCGATGCACCCTTGTTTTAATTGAACATCGAATAG-CGT
1 AGTGTACCGATGCA-CAA-CAATGCATCGATGCACCCATGTATTAATTAAACATCGAATAGACGT
561545 T
64 T
* **
561546 AGTGTACCGATGCACATACAATGCATCGATGCACTCCATGTATT-ATTAAAACATCGAATTGATT
1 AGTGTACCGATGCACA-ACAATGCATCGATGCAC-CCATGTATTAATT-AAACATCGAATAGACG
561610 TT
63 TT
* *
561612 A-TGCACCGATGCACAAGACATGCATCGATGCACCCA
1 AGTGTACCGATGCACAACA-ATGCATCGATGCACCCA
561648 GGCTTTTTCA
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
64 25 0.29
65 59 0.68
66 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (64 bp):
AGTGTACCGATGCACAACAATGCATCGATGCACCCATGTATTAATTAAACATCGAATAGACGTT
Found at i:568744 original size:26 final size:23
Alignment explanation
Indices: 568693--568746 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
568683 TGTTAAAACT
*
568693 TTTG-ATGTTTTTGGATTGGATG
1 TTTGAATGTTTTTGGATTGAATG
568715 TTTGAATGTTTTATGGATGTTGAATG
1 TTTGAATGTTTT-TGGA--TTGAATG
568741 TTTGAA
1 TTTGAA
568747 CTTGACTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 4 0.15
23 7 0.26
24 4 0.15
26 12 0.44
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (23 bp):
TTTGAATGTTTTTGGATTGAATG
Found at i:568784 original size:2 final size:2
Alignment explanation
Indices: 568777--568817 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
568767 GGACTTAATA
568777 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
568818 TTGGTTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:569339 original size:21 final size:21
Alignment explanation
Indices: 569310--569351 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
569300 TTTAAGATAA
*
569310 ATTTTAATCCTTACTAATGTG
1 ATTTCAATCCTTACTAATGTG
569331 ATTTCAATCCTTACTAATGTG
1 ATTTCAATCCTTACTAATGTG
569352 TAAAATTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTTCAATCCTTACTAATGTG
Found at i:569552 original size:65 final size:64
Alignment explanation
Indices: 569434--569600 Score: 196
Period size: 65 Copynumber: 2.6 Consensus size: 64
569424 TTTTCAGGTA
* * * *
569434 AGTGTACCGATGCATAAATCAATGCATCGATGCACCCTTGTTTTAATTGAACATCGAATAGA-TT
1 AGTGTACCGATGCA-CAA-CAATGCATCGATGCACCCATGTATTAATTAAACATCGAATAGATTT
569498 T
64 T
*
569499 AGTGTACCGATGCACATACAATGCATCGATGCACTCCATGTATT-ATTAAAACATCGAATTGATT
1 AGTGTACCGATGCACA-ACAATGCATCGATGCAC-CCATGTATTAATT-AAACATCGAATAGATT
569563 TT
63 TT
* *
569565 A-TGCACCGATGCACAAGACATGCATCGATGCACCCA
1 AGTGTACCGATGCACAACA-ATGCATCGATGCACCCA
569601 GGCTTTTTCA
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
64 25 0.28
65 61 0.68
66 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (64 bp):
AGTGTACCGATGCACAACAATGCATCGATGCACCCATGTATTAATTAAACATCGAATAGATTTT
Found at i:569640 original size:64 final size:64
Alignment explanation
Indices: 569439--569642 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 64
569429 AGGTAAGTGT
* * ** * *
569439 ACCGATGCATAAATCAATGCATCGATGCAC-CCTTGTTTTAATT-GAACATCGAATAGA-TTTAG
1 ACCGATGCACAGA-CAATGCATCGATGCACTCCAGGTATT-ATTAAAACATCGAAT-GATTTTA-
*
569501 TGT
62 TGC
* *
569504 ACCGATGCACATACAATGCATCGATGCACTCCATGTATTATTAAAACATCGAATTGATTTTATGC
1 ACCGATGCACAGACAATGCATCGATGCACTCCAGGTATTATTAAAACATCGAA-TGATTTTATGC
569569 ACCGATGCACAAGAC-ATGCATCGATGCAC-CCAGGCT-TT-TTCAAAACATCGAA-GCATATTT
1 ACCGATGCAC-AGACAATGCATCGATGCACTCCAGG-TATTATT-AAAACATCGAATG-AT-TTT
569629 ATGC
61 ATGC
*
569633 ATCGATGCAC
1 ACCGATGCAC
569643 TCTCAGTGTA
Statistics
Matches: 121, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 52 0.43
65 56 0.46
66 8 0.07
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (64 bp):
ACCGATGCACAGACAATGCATCGATGCACTCCAGGTATTATTAAAACATCGAATGATTTTATGC
Found at i:571243 original size:20 final size:21
Alignment explanation
Indices: 571206--571244 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
571196 TGTAAACGTA
571206 AAGTATCGATACTTTTTATAT
1 AAGTATCGATACTTTTTATAT
571227 AAGTATCGATA-TTTTTAT
1 AAGTATCGATACTTTTTAT
571245 TCCAATATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
AAGTATCGATACTTTTTATAT
Found at i:571466 original size:199 final size:198
Alignment explanation
Indices: 571063--571488 Score: 518
Period size: 199 Copynumber: 2.1 Consensus size: 198
571053 TCGATACTTG
* * *
571063 ACAATTTGCACGAAAAAAGTATCGATACACATATATAAAGTATCGATACTTAGAATTTCAAAACT
1 ACAATTTGCACGCAAAAAGTATCGATACACATATACAAAGTATCGATACTTAGAATTTCAAAACC
* * ** * * **
571128 TATTACTTTAAAGTAATAGGTAAATTTGCAATGTAAACGGTAAAAATTGTTGATTTAATGATAAT
66 AATTACTATAAAGTAATAGGTAAATTAACAATGTAAACGATAAAAATTGTTCATACAATGATAAT
* * * * *
571193 ATGTGTAAACGTAAAGTATCGATACTTTTTATATAAGTATCGATATTTTTATTCCAATATGCTTC
131 AGGCGTAAACG-AAAGTATCGATACTTTATATATAAGTATCGATACTTTTAGTCCAATATGCTTC
571258 TCAA
195 TCAA
* * * *
571262 ACAATTTACACGCAAAAAGTATCGATACACATGTACAAAGTATCGATACTTGGAATTTCGAAACC
1 ACAATTTGCACGCAAAAAGTATCGATACACATATACAAAGTATCGATACTTAGAATTTCAAAACC
* * * *
571327 AATTACTATAAAGTAATTGGTAAATTAACAATGTGAATGATAAAAGTT-TATCAGTACAATGATA
66 AATTACTATAAAGTAATAGGTAAATTAACAATGTAAACGATAAAAATTGT-TCA-TACAATGATA
* * *
571391 ATAGGCGTATATAC-CAAGTATCGATA-TGTTATATATAGGTATCGATACTTTTAGTCCAGTATG
129 ATAGGCGTA-A-ACGAAAGTATCGATACT-TTATATATAAGTATCGATACTTTTAGTCCAATATG
571454 CTTCTC-A
191 CTTCTCAA
*
571461 ACAATTTGCACGCAAAATGTATCGATAC
1 ACAATTTGCACGCAAAAAGTATCGATAC
571489 TCGAAATTTC
Statistics
Matches: 193, Mismatches: 29, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
198 1 0.01
199 127 0.66
200 62 0.32
201 1 0.01
202 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (198 bp):
ACAATTTGCACGCAAAAAGTATCGATACACATATACAAAGTATCGATACTTAGAATTTCAAAACC
AATTACTATAAAGTAATAGGTAAATTAACAATGTAAACGATAAAAATTGTTCATACAATGATAAT
AGGCGTAAACGAAAGTATCGATACTTTATATATAAGTATCGATACTTTTAGTCCAATATGCTTCT
CAA
Found at i:571519 original size:178 final size:179
Alignment explanation
Indices: 571301--571667 Score: 535
Period size: 178 Copynumber: 2.1 Consensus size: 179
571291 CATGTACAAA
* * * *
571301 GTATCGATACTTGGAATTTCGAAACCAATTACTATAAAGTAATTGGTAAATTAACAATGT-GAAT
1 GTATCGATACTCGAAATTTCGAAACCAATTACTATAAAGTAATAGGTAAATTAACAATGTAG-AC
* *
571365 GATAAAAGTTTATCAG-TACAATGATAATAGGCGTATATACCAAGTATCGATA-TGTTATATATA
65 GATAAAAGTCTATC-GTTACAATGATAATAGGCGTAAATACCAAGTATCGATATTG-TATATATA
*
571428 GGTATCGATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCACGCAAAAT
128 GGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCAAAAT
* * *
571479 GTATCGATACTCGAAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAGACG
1 GTATCGATACTCGAAATTTCGAAACCAATTACTATAAAGTAATAGGTAAATTAACAATGTAGACG
* * * *
571544 GTAAAAGTCTATCGTTATATTGATAATAGGCGTAAATACCAAGTATCGATATTGTCTATATAGGT
66 ATAAAAGTCTATCGTTACAATGATAATAGGCGTAAATACCAAGTATCGATATTGTATATATAGGT
*
571609 ATCGATACTTTTATTCCAATATGCTTCTCAAACAATTTGCACGCAAAAT
131 ATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCAAAAT
*
571658 ATATCGATAC
1 GTATCGATAC
571668 ACATATATAA
Statistics
Matches: 169, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
177 1 0.01
178 137 0.81
179 31 0.18
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (179 bp):
GTATCGATACTCGAAATTTCGAAACCAATTACTATAAAGTAATAGGTAAATTAACAATGTAGACG
ATAAAAGTCTATCGTTACAATGATAATAGGCGTAAATACCAAGTATCGATATTGTATATATAGGT
ATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCAAAAT
Found at i:572413 original size:226 final size:225
Alignment explanation
Indices: 572010--572557 Score: 697
Period size: 226 Copynumber: 2.4 Consensus size: 225
572000 CGGTAATAAA
* * * * *
572010 TTGATAATATTGAAAACAAATCAAGTAATTAACCAATTTTTTTTTATTTTCGGATTTCTAATGCC
1 TTGATAATATTGATAACAAATCAAGTAATTAA-C-ATATTTTGTTATCTTCGGATTTCTAAGGCC
* ** * *
572075 CCATCAACTTTAAACAACTTTCACCTATTACATTAAATAAGCACTACTTGTTATGTTATTATGGT
64 CCATCAACTTTAAACAGCGAT-ACCTATTACATTAAATAAACACTACTCGTTATGTTATTATGGT
* * * * *
572140 TGATAATGTTTCCACGAATTAACCTATTTTGTTATCGTCGAATTTCTAAGGCTCCATCAGCTTAA
128 TGATAATATTTCCAAGAATTAAACTATTTTGTTATCGTCGAATTTCTAAGACTCCATCAGCATAA
* *
572205 A-TATTGGTAGCATTTTAGGTGATACCTAATATG
193 ACT-TTGATAGCATTTTAGGCGATACCTAATATG
* *
572238 TTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTAACTTCGGATTTATAAGGCCCC
1 TTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCTTCGGATTTCTAAGGCCCC
*
572303 ATCAACTTTAAACAGGCGATACCTATTACATTAAATAAACGCTACTCGTTATGTTATTATGGTTG
66 ATCAACTTTAAACA-GCGATACCTATTACATTAAATAAACACTACTCGTTATGTTATTATGGTTG
* *
572368 TTAATATTTCCAATAATTAAACTATTTTGTTATCGTC-AGATTTCTAAGACTCCATCAGCATAAA
130 ATAATATTTCCAAGAATTAAACTATTTTGTTATCGTCGA-ATTTCTAAGACTCCATCAGCATAAA
** *
572432 CTTTGATATTATTTTAGGCGCTACCTAATATG
194 CTTTGATAGCATTTTAGGCGATACCTAATATG
* * * * *
572464 TTGATAATATTAATAACAAATCAAGTAATTAAACCTATTTTGTTATCATCAGATTTCTAAGG-CT
1 TTGATAATATTGATAACAAATCAAGTAATT-AACATATTTTGTTATCTTCGGATTTCTAAGGCCC
** * *
572528 CATCATTTTTAAAAATGCGCTACCTATTAC
65 CATCAACTTTAAACA-GCGATACCTATTAC
572558 GTTACACAAA
Statistics
Matches: 279, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
225 1 0.00
226 217 0.78
227 30 0.11
228 31 0.11
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (225 bp):
TTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCTTCGGATTTCTAAGGCCCC
ATCAACTTTAAACAGCGATACCTATTACATTAAATAAACACTACTCGTTATGTTATTATGGTTGA
TAATATTTCCAAGAATTAAACTATTTTGTTATCGTCGAATTTCTAAGACTCCATCAGCATAAACT
TTGATAGCATTTTAGGCGATACCTAATATG
Found at i:577831 original size:15 final size:17
Alignment explanation
Indices: 577811--577842 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
577801 AAGTAACTTT
577811 TTATTTT-A-TTTATAA
1 TTATTTTCATTTTATAA
577826 TTATTTTCATTTTATAA
1 TTATTTTCATTTTATAA
577843 CTAAAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTTCATTTTATAA
Found at i:584477 original size:30 final size:31
Alignment explanation
Indices: 584422--584505 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
584412 ATTAATAAAT
*
584422 TTAAATAAATAATAATTATAAAATTATTTTAA
1 TTAAATAAATAAT-ATTATAAAATTATATTAA
* *
584454 -TAAAAAAATAATATTATATAATTATATTAA
1 TTAAATAAATAATATTATAAAATTATATTAA
584484 TTAAATAAATAACTATT-TAAAA
1 TTAAATAAATAA-TATTATAAAA
584506 AAATAACTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.36
31 25 0.56
32 4 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAAATAAATAATATTATAAAATTATATTAA
Found at i:584828 original size:61 final size:60
Alignment explanation
Indices: 584698--584838 Score: 187
Period size: 60 Copynumber: 2.3 Consensus size: 60
584688 GAAAGGCGTA
* * *
584698 TCCCCGGGGATACGCCTTTCACACGTGTCAACTGAATCAGCAAAATAAAGGTAAAGCGCG
1 TCCCCGGGGATGCGCCTTTCACACGTGGCAACTCAATCAGCAAAATAAAGGTAAAGCGCG
* * *
584758 TCCCCGGGGATGCACCTTTCACACGTGGCATC-CAACTCAGCGTAAAAT-CAGGTAAAGCGCG
1 TCCCCGGGGATGCGCCTTTCACACGTGGCAACTCAA-TCAGC--AAAATAAAGGTAAAGCGCG
584819 TCCCCGGGGATGCGCCTTTC
1 TCCCCGGGGATGCGCCTTTC
584839 GCCACCTCAG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
59 2 0.03
60 33 0.46
61 31 0.44
62 5 0.07
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (60 bp):
TCCCCGGGGATGCGCCTTTCACACGTGGCAACTCAATCAGCAAAATAAAGGTAAAGCGCG
Found at i:590492 original size:2 final size:2
Alignment explanation
Indices: 590475--590512 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
590465 TAAAGGTGAT
590475 TA TA T- TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
590513 CACAATAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:592987 original size:252 final size:251
Alignment explanation
Indices: 592539--593185 Score: 780
Period size: 252 Copynumber: 2.6 Consensus size: 251
592529 ACTTAGTACA
* * *
592539 TCCTTCGGGCCATCCGTAAGACCTTCAGGGTAGGATGTTTAT-A-TGAATTTCAAAAATGAGAAA
1 TCCTTC-GGCCAT-CATAAGACCTTC-GGGCAGGATGTTT-TCACTGATTTTCAAAAATGAGAAA
* * * * * * * *
592602 GTGATTTCCAAAGTTTCTCATTTAGTATTTTCATACAATGAAAATTTTGAAAAATAAGAAAGCGA
62 GTAATTTCCAAAGTTTCTCATTAAGTATTTTTAGAAAATGAAATTTTTG-AAAGT-AGAAAACGA
** *
592667 TTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAATTGGTAAGTCCTTCAGGCCATCAGTAAGC
125 TTTCCAAAGTTTCTTACCCAGTAAACTATTTCAAAATTAGTAAGTCCTTCAGGCCATCAGTAAGC
*
592732 CTTTCGAGCATGATGATTAAAT-CTTTCGGTTCATCTGT-TAGTCTTTCGAGCAAGATGATAAG
190 CTTTCGAGCATGATGATTAAATCCTTT-GGGTCATCTGTCT-GTCTTTCGAGCAAGATGATAAG
*
592794 TCCTTCGAGCCATC-TAAGACCTTCGGGCAAGATGTTTTCACGTGATTTTCAAAAAATGAGAAAG
1 TCCTTCG-GCCATCATAAGACCTTCGGGCAGGATGTTTTCAC-TGATTTTC-AAAAATGAGAAAG
* * *
592858 TTATTTCCAAAGTTT-TCATTAAGTGTTTTTAGAAAATGAAATTTTTGAAAGTAGAAAATGATTT
63 TAATTTCCAAAGTTTCTCATTAAGTATTTTTAGAAAATGAAATTTTTGAAAGTAGAAAACGATTT
*
592922 CCAAAGTTTCTTACCCAGTAAACTATTTTCAAAATTAGTATGTCCTTC-GGCCATCAGTAAGCCT
128 CCAAAGTTTCTTACCCAGTAAACTA-TTTCAAAATTAGTAAGTCCTTCAGGCCATCAGTAAGCCT
592986 TTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCTGTCTTTCGAGCAAGATGATAAG
192 TTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCTGTCTTTCGAGCAAGATGATAAG
* * * * * *
593046 TCATTTGGGCATCTATAAGACCTT-AGGCAGGATGTTTTCACATGATTTTCAAAAATGAGAATGA
1 TCCTTCGGCCATC-ATAAGACCTTCGGGCAGGATGTTTTCAC-TGATTTTCAAAAATGAGAAAGT
* **
593110 AATTTTCAAAGTTTCTCATTTAA-TATTTTCT-GAAAATG-AATTTTAAAAAAGTAGGAAAACG-
64 AATTTCCAAAGTTTCTCA-TTAAGTATTTT-TAGAAAATGAAATTTT-TGAAAGTA-GAAAACGA
593171 TTTCCAAAG-TTCTTA
125 TTTCCAAAGTTTCTTA
593186 GTTACTAAAT
Statistics
Matches: 345, Mismatches: 32, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
251 42 0.12
252 173 0.50
253 57 0.17
254 35 0.10
255 38 0.11
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (251 bp):
TCCTTCGGCCATCATAAGACCTTCGGGCAGGATGTTTTCACTGATTTTCAAAAATGAGAAAGTAA
TTTCCAAAGTTTCTCATTAAGTATTTTTAGAAAATGAAATTTTTGAAAGTAGAAAACGATTTCCA
AAGTTTCTTACCCAGTAAACTATTTCAAAATTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTTCG
AGCATGATGATTAAATCCTTTGGGTCATCTGTCTGTCTTTCGAGCAAGATGATAAG
Found at i:593609 original size:655 final size:655
Alignment explanation
Indices: 592295--593834 Score: 2137
Period size: 655 Copynumber: 2.3 Consensus size: 655
592285 AGTTTATTAC
* * *
592295 TTAGTAAGT-CTTCAGGCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTCATGT
1 TTAGTAAGTCCTTC-GGCCATCAGTAAGACTTTCGAGCATGATAATTAAATCCTT-GGGTCATCT
* *
592359 GTAAGTCTTTCGAGTAAGATGATAAGTCATTTGGGATATCTATAAGACCTTCGGACAGGATGTTT
64 GTCAGTCTTTCGAGCAAGATGATAAGTCATTTGGGA-ATCTATAAGACCTTCGG-CAGGATGTTT
*
592424 TCACATGATTTTCAAAAACGAGAAAGAAATTTTCAAAGTTTCTCATTTAATATTTTCTTAAAAAT
127 TCACATGATTTTCAAAAATGAG-AAGAAATTTTCAAAGTTTCTCATTTAATATTTTC-TAAAAAT
* *
592489 GAAATTTTTGAAAAGTAAG-AAACGATTTCCAAAGTTTCTTACTTAGTACATCCTTCGGGCCATC
190 G-AATTTTTGAAAAGTAAGAAAACGATTTCCAAAG-TTCTTACTTACTAAATCCTTCGGGCCATC
*
592553 CGTAAGACCTTCAGGGTAGGATGTTTATATGAATTTCAAAAATGAGAAAGTGATTTCCAAAGTTT
253 CGTAAGACCTTCAGGGTAGGATGTTTACATGAATTTCAAAAATGAGAAAGTGATTTCCAAAGTTT
*
592618 CTCATTTAGTATTTTCATACAATGAAAATTTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCTTA
318 CTCATTTAGTATTTTCAGACAATGAAAATTTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCTTA
* * * *
592683 CCCAGTAAACTATTTCCCAATTGGTAAGTCCTTCAGGCCATCAGTAAGCCTTTCGAGCATGATGA
383 CCCAATAAACTATTTCCAAATTGGTAAGTCCTTCAGGCCATCAGTAAGCCTTTCAAGCATAATGA
* * *
592748 TTAAATCTTTCGGTTCATCTGTTAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGCCATCTAAGA
448 TTAAATCTTTCGGGTCATCTGTCAGTCATTCGAGCAAGATGATAAGTCCTTCGAGCCATCTAAGA
* *
592813 CCTTCGGGCAAGATGTTTTCACGTGATTTTCAAAAAATGAGAAAGTTATTTCCAAAGTTTTCATT
513 CCTTCGGGCAAGATGTTTTCACGTGATTTTCAAAAAATAAGAAAGTGATTTCCAAAGTTTTCATT
* * * *
592878 AAGTGTTTTTAGAAAATGAAATTTTTGAAAGTAGAAAATGATTTCCAAAGTTTCTTACCCAGTAA
578 AAGTGTTTTCAAAAAATGAAATTTTTGAAAGTAGAAAACGATTGCCAAAGTTTCTTACCCAGTAA
592943 ACTATTTTCAAAA
643 ACTATTTTCAAAA
* * *
592956 TTAGTATGTCCTTCGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTG
1 TTAGTAAGTCCTTCGGCCATCAGTAAGACTTTCGAGCATGATAATTAAATCC-TTGGGTCATCTG
* * *
593021 TCTGTCTTTCGAGCAAGATGATAAGTCATTTGGGCATCTATAAGACCTTAGGCAGGATGTTTTCA
65 TCAGTCTTTCGAGCAAGATGATAAGTCATTTGGGAATCTATAAGACCTTCGGCAGGATGTTTTCA
*
593086 CATGATTTTCAAAAATGAGAATGAAATTTTCAAAGTTTCTCATTTAATATTTTCTGAAAATGAAT
130 CATGATTTTCAAAAATGAGAA-GAAATTTTCAAAGTTTCTCATTTAATATTTTCTAAAAATGAAT
** * *
593151 TTTAAAAAAGTAGGAAAACG-TTTCCAAAGTTCTTAGTTACTAAATCC-TCGGGCCATCCGTAAG
194 TTTTGAAAAGTAAGAAAACGATTTCCAAAGTTCTTACTTACTAAATCCTTCGGGCCATCCGTAAG
593214 ACCTTC-GGGTAGGATGTTTTCACATGAATTTCAAAAATGAGAAAGTGATTTCC-AAGTTTCTCA
259 ACCTTCAGGGTAGGATG-TTT-ACATGAATTTCAAAAATGAGAAAGTGATTTCCAAAGTTTCTCA
* * * *
593277 TTTAGTATTTTCAGATAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTTTTACCCA
322 TTTAGTATTTTCAGACAATGAAAATTTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCTTACCCA
* *
593342 ATGAACTATTTCCAAAATTGGTAAGT-CTTCGGGCCATCAGTAAGCCTTTCAAGCATAATGATTA
387 ATAAACTATTTCC-AAATTGGTAAGTCCTTCAGGCCATCAGTAAGCCTTTCAAGCATAATGATTA
* ** *
593406 AATCTTTTGGGTCATCTGTCAGTCATTCGAGC-AGATGATAAGTTTTTCGGGCCATCTATAAGA-
451 AATCTTTCGGGTCATCTGTCAGTCATTCGAGCAAGATGATAAGTCCTTCGAGCCATC--TAAGAC
* * *
593469 CTTC-GGCAGGCTGTTTTCACGTGATTTTCAAAAAATAAGAAAGTGATTTTCAAAGTTTCTCATT
514 CTTCGGGCAAGATGTTTTCACGTGATTTTCAAAAAATAAGAAAGTGATTTCCAAAGTTT-TCATT
*
593533 TAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTA-AGAAACGATTGCCAAAGTTTCTTACCCAGT
578 AAGTGTTTTCAAAAAATGAAATTTTTG-AAAGTAGA-AAACGATTGCCAAAGTTTCTTACCCAGT
*
593597 AATCTA-TTTCAAAA
641 AAACTATTTTCAAAA
* * * *
593611 TTGGTAAGTCCTTGGGCCATCAATAAGACTTTCGAGCATGATAATTAATTCC--GGGTCATCTGT
1 TTAGTAAGTCCTTCGGCCATCAGTAAGACTTTCGAGCATGATAATTAAATCCTTGGGTCATCTGT
* * * * **
593674 CAGTCTTTCTAGCAAG-TGATATGTCA-TCGAGAAATCTATAAGACCTTCGGCATAATGTTTTCA
66 CAGTCTTTCGAGCAAGATGATAAGTCATTTG-GGAATCTATAAGACCTTCGGCAGGATGTTTTCA
* * * * * *
593737 TATGA-TTTCAAAAAACTGAGAA-AATGATTTCCAAAGTTT-TCATTCAGTGTTTTCAAAAAATG
130 CATGATTTTC-AAAAA-TGAGAAGAA--ATTTTCAAAGTTTCTCATTTAATATTTTCTAAAAATG
*
593799 AATTTTTGAAAAGTAAGAAAAGTGATTTCCAAAGTT
191 AATTTTTGAAAAGTAAGAAAA-CGATTTCCAAAGTT
593835 TCTACCCAAT
Statistics
Matches: 785, Mismatches: 75, Indels: 46
0.87 0.08 0.05
Matches are distributed among these distances:
650 8 0.01
651 82 0.10
652 44 0.06
653 11 0.01
654 80 0.10
655 256 0.33
656 99 0.13
657 23 0.03
658 14 0.02
659 63 0.08
660 16 0.02
661 83 0.11
662 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (655 bp):
TTAGTAAGTCCTTCGGCCATCAGTAAGACTTTCGAGCATGATAATTAAATCCTTGGGTCATCTGT
CAGTCTTTCGAGCAAGATGATAAGTCATTTGGGAATCTATAAGACCTTCGGCAGGATGTTTTCAC
ATGATTTTCAAAAATGAGAAGAAATTTTCAAAGTTTCTCATTTAATATTTTCTAAAAATGAATTT
TTGAAAAGTAAGAAAACGATTTCCAAAGTTCTTACTTACTAAATCCTTCGGGCCATCCGTAAGAC
CTTCAGGGTAGGATGTTTACATGAATTTCAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTA
GTATTTTCAGACAATGAAAATTTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAA
ACTATTTCCAAATTGGTAAGTCCTTCAGGCCATCAGTAAGCCTTTCAAGCATAATGATTAAATCT
TTCGGGTCATCTGTCAGTCATTCGAGCAAGATGATAAGTCCTTCGAGCCATCTAAGACCTTCGGG
CAAGATGTTTTCACGTGATTTTCAAAAAATAAGAAAGTGATTTCCAAAGTTTTCATTAAGTGTTT
TCAAAAAATGAAATTTTTGAAAGTAGAAAACGATTGCCAAAGTTTCTTACCCAGTAAACTATTTT
CAAAA
Found at i:593833 original size:249 final size:253
Alignment explanation
Indices: 593210--593949 Score: 886
Period size: 249 Copynumber: 2.9 Consensus size: 253
593200 GGGCCATCCG
*
593210 TAAGACCTTCGG-GTAGGATGTTTTCACATGAATTTC-AAAAATGAGAAAGTGATTTCC-AAGTT
1 TAAGACCTTCGGCATA--ATGTTTTCACATG-ATTTCAAAAAATGAGAAAGTGATTTCCAAAGTT
* * * *
593272 TCTCATTTAGTATTTTCAGATAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTTTT
63 TCTCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTT
* * *
593337 ACCCAATGAACTATTTCCAAAATTGGTAAGT-CTTCGGGCCATCAGTAAGCCTTTCAAGCATAAT
128 ACCCAAT-AACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGACTTTCGAGCATGAT
* ** ** * **
593401 GATTAAATCTTTTGGGTCATCTGTCAGTCATTCGAGCAGATGATAAGTTTTTCGGGCCATCTA
192 AATTAAA-CTTCCGGGTCATCTGTCAGTCATTCGAGCAGATGATAAGTTCATCGAGAAATCTA
*** * * *
593464 TAAGA-CTTCGGCAGGCTGTTTTCACGTGATTTTCAAAAAATAAGAAAGTGATTTTCAAAGTTTC
1 TAAGACCTTCGGCATAATGTTTTCACATGA-TTTCAAAAAATGAGAAAGTGATTTCCAAAGTTTC
*
593528 TCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTAAGAAA-CGATTGCCAAAGTTTCTTAC
65 TCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTAC
* *
593592 CCAGTAATCTATTT-CAAAATTGGTAAGTCCTT-GGGCCATCAATAAGACTTTCGAGCATGATAA
130 CCAATAA-CTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGACTTTCGAGCATGATAA
* * *
593655 TT-AA-TTCCGGGTCATCTGTCAGTCTTTCTAGCA-AGTGATATG-TCATCGAGAAATCTA
194 TTAAACTTCCGGGTCATCTGTCAGTCATTCGAGCAGA-TGATAAGTTCATCGAGAAATCTA
* *
593712 TAAGACCTTCGGCATAATGTTTTCATATGATTTCAAAAAACTGAGAAAATGATTTCCAAAGTTT-
1 TAAGACCTTCGGCATAATGTTTTCACATGATTTCAAAAAA-TGAGAAAGTGATTTCCAAAGTTTC
* *
593776 TCATTCAGTGTTTTCAAAAAATG-AATTTTTGAAAAGTAAGAAAAGTGATTTCCAAAGTTTC-TA
65 TCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTAAG-AAAGCGATTTCCAAAGTTTCTTA
* * * *
593839 CCCAATAGACTATTTCCAAAATTGATAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATG
129 CCCAATA-ACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGACTTTCGAGCATGATA
* *
593904 GTTAAATCATT-CGGGTCATATGTCAGT--TTCGAGCAAGATGATAAGT
193 ATTAAA-C-TTCCGGGTCATCTGTCAGTCATTCGAGC-AGATGATAAGT
593950 CCTTCGACCA
Statistics
Matches: 416, Mismatches: 49, Indels: 43
0.82 0.10 0.08
Matches are distributed among these distances:
247 17 0.04
248 65 0.16
249 102 0.25
250 28 0.07
251 11 0.03
252 66 0.16
253 72 0.17
254 55 0.13
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (253 bp):
TAAGACCTTCGGCATAATGTTTTCACATGATTTCAAAAAATGAGAAAGTGATTTCCAAAGTTTCT
CATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACC
CAATAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGACTTTCGAGCATGATAATT
AAACTTCCGGGTCATCTGTCAGTCATTCGAGCAGATGATAAGTTCATCGAGAAATCTA
Found at i:594069 original size:16 final size:16
Alignment explanation
Indices: 594050--594098 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
594040 ATATTTATAA
594050 AAAAAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
* *
594066 AAAAATAGAGAACAA-
1 AAAAAAAGAGAAAAAG
594081 AAAAAAA-AGAAAAAG
1 AAAAAAAGAGAAAAAG
594096 AAA
1 AAA
594099 GGAAGAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 13 0.46
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:594380 original size:45 final size:44
Alignment explanation
Indices: 594330--594564 Score: 244
Period size: 45 Copynumber: 5.3 Consensus size: 44
594320 GATAGACAAT
*
594330 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTATCGTGAAAAGGAG
1 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCGT-AAAAGGAG
** * * *
594375 TCAATCTTTTAACGTTGTCTTCATTAACTTTCTCATAAAGAGGAG
1 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCGTAAA-AGGAG
** * *
594420 TCAATC-TTTAACGTTGTCTTCCTTGACTTT-TCGTAAGAGAAG
1 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCGTAAAAGGAG
* *
594462 TCAATCTTTCAGTATTGTCTTCCTTGACTTTCTCGTAAAGAGGAG
1 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCGTAAA-AGGAG
* * * *
594507 TCAATCTTTTAGTGTTGTC-ACTCTTGA-ATTCTCGTGAAGAGAAG
1 TCAATCTTTTAGTGTTGTCTTC-CTTGACTTTCTCGT-AAAAGGAG
*
594551 TCAACCTTTTAGTG
1 TCAATCTTTTAGTG
594565 GTGTTATTCT
Statistics
Matches: 160, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
42 10 0.06
43 25 0.16
44 56 0.35
45 69 0.43
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (44 bp):
TCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCGTAAAAGGAG
Found at i:594482 original size:87 final size:89
Alignment explanation
Indices: 594330--594559 Score: 268
Period size: 87 Copynumber: 2.6 Consensus size: 89
594320 GATAGACAAT
** * * * *
594330 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTATCGTGAAAAGGAGTCAATCTTTTAACGTTGTCT
1 TCAATCTTTTAACGTTGTCTTCCTTGACTTT-TCGTGAAGAGAAGTCAATCTTTCAACATTGTCT
594395 TCATTAACTTTCTCATAAAGAGGAG
65 TCATTAACTTTCTCATAAAGAGGAG
**
594420 TCAATC-TTTAACGTTGTCTTCCTTGACTTTTCGT-AAGAGAAGTCAATCTTTCAGTATTGTCTT
1 TCAATCTTTTAACGTTGTCTTCCTTGACTTTTCGTGAAGAGAAGTCAATCTTTCAACATTGTCTT
* * *
594483 CCTTGACTTTCTCGTAAAGAGGAG
66 CATTAACTTTCTCATAAAGAGGAG
** * * * *
594507 TCAATCTTTTAGTGTTGTC-ACTCTTGAATTCTCGTGAAGAGAAGTCAACCTTT
1 TCAATCTTTTAACGTTGTCTTC-CTTGACTTTTCGTGAAGAGAAGTCAATCTTT
594560 TAGTGGTGTT
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
87 51 0.43
88 25 0.21
89 38 0.32
90 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (89 bp):
TCAATCTTTTAACGTTGTCTTCCTTGACTTTTCGTGAAGAGAAGTCAATCTTTCAACATTGTCTT
CATTAACTTTCTCATAAAGAGGAG
Found at i:594540 original size:44 final size:43
Alignment explanation
Indices: 594330--594663 Score: 239
Period size: 45 Copynumber: 7.5 Consensus size: 43
594320 GATAGACAAT
*
594330 TCAATCTTTTAGTGTTGTCTTCCTTGACTTTATCGTGAAA-AGGAG
1 TCAATCTTTTAGTGTTGTCTT-CTTGA-TTTCTCGT-AAAGAGGAG
** * *
594375 TCAATCTTTTAACGTTGTCTTCATTAACTTTCTCATAAAGAGGAG
1 TCAATCTTTTAGTGTTGTCTTC-TTGA-TTTCTCGTAAAGAGGAG
** *
594420 TCAATC-TTTAACGTTGTCTTCCTTGACTTT-TCGT-AAGAGAAG
1 TCAATCTTTTAGTGTTGTCTT-CTTGA-TTTCTCGTAAAGAGGAG
* *
594462 TCAATCTTTCAGTATTGTCTTCCTTGACTTTCTCGTAAAGAGGAG
1 TCAATCTTTTAGTGTTGTCTT-CTTGA-TTTCTCGTAAAGAGGAG
* * * *
594507 TCAATCTTTTAGTGTTGTCACTCTTGAATTCTCGTGAAGAGAAG
1 TCAATCTTTTAGTGTTGTC-TTCTTGATTTCTCGTAAAGAGGAG
* * * * * *
594551 TCAACCTTTTAGTGGTGTTATTCTTGATTTTCTCATGAAGAGAAG
1 TCAATCTTTTAGTGTTG-TCTTCTTGA-TTTCTCGTAAAGAGGAG
* * * * *
594596 TTAATCTTTCAGTGTTATGATTCTTGACTTT-TCAG-AAAGAGGAA
1 TCAATCTTTTAGTGTTGT-CTTCTTGA-TTTCTC-GTAAAGAGGAG
* *
594640 TCAACCTTTTAGTGATGTCCTTCT
1 TCAATCTTTTAGTGTTGT-CTTCT
594664 CAACTTGACT
Statistics
Matches: 236, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
42 13 0.06
43 23 0.10
44 90 0.38
45 109 0.46
46 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (43 bp):
TCAATCTTTTAGTGTTGTCTTCTTGATTTCTCGTAAAGAGGAG
Found at i:594621 original size:89 final size:88
Alignment explanation
Indices: 594330--594658 Score: 245
Period size: 89 Copynumber: 3.7 Consensus size: 88
594320 GATAGACAAT
* * * * * * ** *
594330 TCAATCTTTTAGTGTTGTC-TTCCTTGACTTTATCGTGAAAAGGAGTCAATCTTTTAACGTTGTC
1 TCAATCTTTCAGTGTTATCACT-CTTGACTTT-TCGT-AAGAGAAGTCAACCTTTTAGTGGTGTC
* * *
594394 TTCATTAACTTTCTCATAAAGAGGAG
63 TTCCTTGACTTTCTCATAAAGAGAAG
** * * * * **
594420 TCAATCTTT-AACGTTGTC-TTCCTTGACTTTTCGTAAGAGAAGTCAATCTTTCAGTATTGTCTT
1 TCAATCTTTCAGTGTTATCACT-CTTGACTTTTCGTAAGAGAAGTCAACCTTTTAGTGGTGTCTT
* *
594483 CCTTGACTTTCTCGTAAAGAGGAG
65 CCTTGACTTTCTCATAAAGAGAAG
* * * *
594507 TCAATCTTTTAGTGTTGTCACTCTTGAATTCTCGTGAAGAGAAGTCAACCTTTTAGTGGTGT-TA
1 TCAATCTTTCAGTGTTATCACTCTTGACTTTTCGT-AAGAGAAGTCAACCTTTTAGTGGTGTCT-
* * *
594571 TTCTTGATTTTCTCATGAAGAGAAG
64 TCCTTGACTTTCTCATAAAGAGAAG
* * * * *
594596 TTAATCTTTCAGTGTTATGATTCTTGACTTTTCAGAAAGAGGAA-TCAACCTTTTAGTGATGTC
1 TCAATCTTTCAGTGTTATCACTCTTGACTTTTC-GTAAGA-GAAGTCAACCTTTTAGTGGTGTC
594659 CTTCTCAACT
Statistics
Matches: 198, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
87 53 0.27
88 23 0.12
89 109 0.55
90 13 0.07
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (88 bp):
TCAATCTTTCAGTGTTATCACTCTTGACTTTTCGTAAGAGAAGTCAACCTTTTAGTGGTGTCTTC
CTTGACTTTCTCATAAAGAGAAG
Found at i:594698 original size:49 final size:48
Alignment explanation
Indices: 594645--594844 Score: 196
Period size: 50 Copynumber: 4.1 Consensus size: 48
594635 AGGAATCAAC
* * *
594645 CTTTT-AGTGATGTCCTTCTCAACTTGACTTTCTTGCGGAGAGGAGTCAA
1 CTTTTCAGT-ATGTCATT-TCAACTTGACTTTCTCGCGGAGAGGAGCCAA
**
594694 CTTTTCAGTA-GTAGCATTTCAACTTGACTTTCTCAAGGAGAGGAGCCAA
1 CTTTTCAGTATGT--CATTTCAACTTGACTTTCTCGCGGAGAGGAGCCAA
* *
594743 CTTTTCAGTAGTATCATTATCAACTTGACTTTCTCGCGAAGAGGAGCCAA
1 CTTTTCAGTA-TGTCATT-TCAACTTGACTTTCTCGCGGAGAGGAGCCAA
* * * *
594793 CTTTTCAATAGTATCATTT----TTGACTTTCTCGCTGAGAGGAGTCAA
1 CTTTTCAGTA-TGTCATTTCAACTTGACTTTCTCGCGGAGAGGAGCCAA
594838 CTTTTCA
1 CTTTTCA
594845 ATAGTATTCT
Statistics
Matches: 132, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
45 30 0.23
48 2 0.02
49 48 0.36
50 51 0.39
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (48 bp):
CTTTTCAGTATGTCATTTCAACTTGACTTTCTCGCGGAGAGGAGCCAA
Found at i:594769 original size:99 final size:95
Alignment explanation
Indices: 594663--594851 Score: 252
Period size: 99 Copynumber: 1.9 Consensus size: 95
594653 GATGTCCTTC
* * * *
594663 TCAACTTGACTTTCTTGCGGAGAGGAGTCAACTTTTCAGTAGTAGCATTTCAACTTGACTTTCTC
1 TCAACTTGACTTTCTCGCGAAGAGGAGCCAACTTTTCAATAGTAGCATTT----TTGACTTTCTC
*
594728 AAGGAGAGGAGCCAACTTTTCAGTAGTATCATTA
62 AAGGAGAGGAGCCAACTTTTCAATAGTATCATTA
* ***
594762 TCAACTTGACTTTCTCGCGAAGAGGAGCCAACTTTTCAATAGTATCATTTTTGACTTTCTCGCTG
1 TCAACTTGACTTTCTCGCGAAGAGGAGCCAACTTTTCAATAGTAGCATTTTTGACTTTCTCAAGG
*
594827 AGAGGAGTCAACTTTTCAATAGTAT
66 AGAGGAGCCAACTTTTCAATAGTAT
594852 TCTTCCTCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 35 0.44
99 45 0.56
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (95 bp):
TCAACTTGACTTTCTCGCGAAGAGGAGCCAACTTTTCAATAGTAGCATTTTTGACTTTCTCAAGG
AGAGGAGCCAACTTTTCAATAGTATCATTA
Found at i:594823 original size:45 final size:46
Alignment explanation
Indices: 594668--594851 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 46
594658 CCTTCTCAAC
* * * *
594668 TTGACTTTCTTGCGGAGAGGAGTCAACTTTTCAGTAGTAGCATTTCAA
1 TTGACTTTCTCGCGGAGAGGAGCCAACTTTTCAATAGTATCATTT--A
** *
594716 CTTGACTTTCTCAAGGAGAGGAGCCAACTTTTCAGTAGTATCATTATCAA
1 -TTGACTTTCTCGCGGAGAGGAGCCAACTTTTCAATAGTATCATT-T--A
*
594766 CTTGACTTTCTCGCGAAGAGGAGCCAACTTTTCAATAGTATCATTT-
1 -TTGACTTTCTCGCGGAGAGGAGCCAACTTTTCAATAGTATCATTTA
* *
594812 TTGACTTTCTCGCTGAGAGGAGTCAACTTTTCAATAGTAT
1 TTGACTTTCTCGCGGAGAGGAGCCAACTTTTCAATAGTAT
594852 TCTTCCTCAA
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 37 0.30
49 40 0.33
50 45 0.37
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (46 bp):
TTGACTTTCTCGCGGAGAGGAGCCAACTTTTCAATAGTATCATTTA
Found at i:595452 original size:133 final size:132
Alignment explanation
Indices: 595151--595582 Score: 546
Period size: 133 Copynumber: 3.2 Consensus size: 132
595141 ATAAGAGAAA
* * * * ** *
595151 CAAATCAAGTTCGATTC-ATCTTCCCTGAAGAGCAGCGAAATGGATCAAAATTTTCTTGATTCTG
1 CAAATCAAATTCGATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATC-AAATTTTCTCCAGTCTG
* * *
595215 ATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGC
65 ATCTCCCCTAAAGAGTAGTGGAGC--A-TATT-TTTTTCTTTCAGATTTGGTCTTCCTCAAGAAC
595280 AGCGAAG
126 AGCGAAG
*
595287 CAAATCAAATTCGATTCAAGCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCCAGTCTG
1 CAAATCAAATTCGATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAA-TTTTCTCCAGTCTG
* *
595352 ATCTCCCCTAAAGAGTAGTGGAGCATATTTTTTTCTTTCAGATTTGGTCTTTCAT-AAGAACACC
65 ATCTCCCCTAAAGAGTAGTGGAGCATATTTTTTTCTTTCAGATTTGGTC-TTCCTCAAGAACAGC
595416 GAAG
129 GAAG
* * *
595420 CAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTTCTCTAGTCTGA
1 CAAATCAAATTCGATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAATTTTCTCCAGTCTGA
* * * * * * * * *
595485 TCTCCCCTAAAGAGTAGTGGAGCATATTCTTCTGTTTTAGA-GTGGTCCTCCTCAAGAATAGTGG
66 TCTCCCCTAAAGAGTAGTGGAGCATATTTTTTTCTTTCAGATTTGGTCTTCCTCAAGAACAGCGA
595549 AG
131 AG
*
595551 CAAATCACATTCGATTCAATCTTCCCTAAAGA
1 CAAATCAAATTCGATTCAATCTTCCCTAAAGA
595583 ATGTTGAAGT
Statistics
Matches: 263, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
130 3 0.01
131 44 0.17
132 50 0.19
133 78 0.30
134 8 0.03
135 1 0.00
136 19 0.07
137 60 0.23
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (132 bp):
CAAATCAAATTCGATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAATTTTCTCCAGTCTGA
TCTCCCCTAAAGAGTAGTGGAGCATATTTTTTTCTTTCAGATTTGGTCTTCCTCAAGAACAGCGA
AG
Found at i:602830 original size:15 final size:16
Alignment explanation
Indices: 602810--602853 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
602800 ATTTGATATT
602810 AAATATAAAAATTT-A
1 AAATATAAAAATTTAA
**
602825 AAATATAAATTTTTAA
1 AAATATAAAAATTTAA
*
602841 AAATATTAAAATT
1 AAATATAAAAATT
602854 ATGAATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAAAATTTAA
Found at i:602849 original size:24 final size:24
Alignment explanation
Indices: 602815--602861 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
602805 ATATTAAATA
602815 TAAAAATTTAAAA-TATAAATTTT
1 TAAAAATTTAAAATTATAAATTTT
*
602838 TAAAAATATTAAAATTATGAATTT
1 TAAAAAT-TTAAAATTATAAATTT
602862 AAAGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAAAATTTAAAATTATAAATTTT
Found at i:602864 original size:23 final size:22
Alignment explanation
Indices: 602815--602861 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
602805 ATATTAAATA
602815 TAAAAATTTAAAATATAAATTTT
1 TAAAAATTTAAAATATAAA-TTT
*
602838 TAAAAATATTAAAATTATGAATTT
1 TAAAAAT-TTAAAA-TATAAATTT
602862 AAAGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAAATTTAAAATATAAATTT
Found at i:604719 original size:19 final size:19
Alignment explanation
Indices: 604697--604773 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
604687 TGGGAATATG
604697 ATTTCAAGTTGGAAACCAA
1 ATTTCAAGTTGGAAACCAA
* * *
604716 ATTTCAGGTTGGGATA--AG
1 ATTTCAAGTT-GGAAACCAA
* * *
604734 GTTTCAAGTTGGAAACTAG
1 ATTTCAAGTTGGAAACCAA
* *
604753 ATTTTAAGTTGGGAACCAA
1 ATTTCAAGTTGGAAACCAA
604772 AT
1 AT
604774 CCTTAAGGGT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 27 0.61
20 4 0.09
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (19 bp):
ATTTCAAGTTGGAAACCAA
Found at i:604748 original size:37 final size:38
Alignment explanation
Indices: 604678--604767 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 38
604668 TAGGAACCTG
*
604678 ATTTCAGGTTGGGAATATGATTTCAAGTTGGAAACCAA
1 ATTTCAGGTTGGGAATAAGATTTCAAGTTGGAAACCAA
* * *
604716 ATTTCAGGTTGGG-ATAAGGTTTCAAGTTGGAAACTAG
1 ATTTCAGGTTGGGAATAAGATTTCAAGTTGGAAACCAA
* *
604753 ATTTTAAGTTGGGAA
1 ATTTCAGGTTGGGAA
604768 CCAAATCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 31 0.69
38 14 0.31
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (38 bp):
ATTTCAGGTTGGGAATAAGATTTCAAGTTGGAAACCAA
Found at i:605687 original size:8 final size:8
Alignment explanation
Indices: 605674--607609 Score: 1752
Period size: 8 Copynumber: 245.8 Consensus size: 8
605664 TCGAGTGAAA
*
605674 TATGTATG
1 TATGCATG
*
605682 TATGTATG
1 TATGCATG
*
605690 TATGTATG
1 TATGCATG
605698 TATGCATG
1 TATGCATG
605706 TATGCATG
1 TATGCATG
605714 TATGCATG
1 TATGCATG
605722 TATGCATG
1 TATGCATG
605730 TATGCATG
1 TATGCATG
605738 -ATGCATG
1 TATGCATG
605745 TATGCATG
1 TATGCATG
605753 TATGCATG
1 TATGCATG
605761 TATGCATG
1 TATGCATG
605769 TATGCATG
1 TATGCATG
605777 TATGCATG
1 TATGCATG
605785 TATGCATG
1 TATGCATG
605793 TATGC---
1 TATGCATG
605798 -ATGCATG
1 TATGCATG
605805 TATGCATG
1 TATGCATG
605813 TATGCATG
1 TATGCATG
605821 TATGCATG
1 TATGCATG
605829 TATGCATG
1 TATGCATG
605837 TATGCATG
1 TATGCATG
605845 TATGCATG
1 TATGCATG
605853 -ATGCATG
1 TATGCATG
605860 TATGCA-G
1 TATGCATG
605867 TATGCATG
1 TATGCATG
605875 TATGCATG
1 TATGCATG
605883 TATGCATG
1 TATGCATG
605891 TATGCATG
1 TATGCATG
605899 TATGCATG
1 TATGCATG
605907 TATGCATG
1 TATGCATG
605915 TATGCATG
1 TATGCATG
605923 TATGCATG
1 TATGCATG
605931 TATGCATG
1 TATGCATG
605939 TATGCATG
1 TATGCATG
605947 TATGCATG
1 TATGCATG
605955 TATGCATG
1 TATGCATG
605963 TATGCATG
1 TATGCATG
605971 TATGCATG
1 TATGCATG
605979 TATGCATG
1 TATGCATG
605987 TATGCATG
1 TATGCATG
605995 TATGCATG
1 TATGCATG
606003 TATGCATG
1 TATGCATG
606011 TATGCATG
1 TATGCATG
* *
606019 CATACATG
1 TATGCATG
* *
606027 CATACATG
1 TATGCATG
*
606035 CTTCCAATGCAAG
1 --T---ATGCATG
606048 -AT-CACCT-
1 TATGCA--TG
606055 TACCTGCATG
1 TA--TGCATG
606065 ACTAT--AT-
1 --TATGCATG
* * *
606072 TTTACCA-C
1 TAT-GCATG
*
606080 AAT-CATG
1 TATGCATG
* *
606087 -AT-AATAA
1 TATGCAT-G
606094 TAT-CAT-
1 TATGCATG
* *
606100 TATATCATT
1 TAT-GCATG
* *
606109 TATTACAATAAC
1 TA-TGC-AT--G
* **
606121 CATAGCCCAAA
1 TAT-G--CATG
** **
606132 TATAAACC
1 TATGCATG
* *
606140 TAT-AAAG
1 TATGCATG
*
606147 -AT-CCTGG
1 TATGCAT-G
*
606154 TATTCGAGTG
1 TATGC-A-TG
*
606164 AAATATGTATG
1 ---TATGCATG
*
606175 TATGTATG
1 TATGCATG
*
606183 TATGTATG
1 TATGCATG
606191 TATGCATG
1 TATGCATG
606199 TATGCATG
1 TATGCATG
606207 TATGCATG
1 TATGCATG
606215 TATGCATG
1 TATGCATG
606223 TATGCATG
1 TATGCATG
606231 TATGCATG
1 TATGCATG
606239 TATGCATG
1 TATGCATG
606247 TATGCATG
1 TATGCATG
606255 TATGCATG
1 TATGCATG
606263 TATGCATG
1 TATGCATG
606271 TATGCATG
1 TATGCATG
606279 T-TGCATG
1 TATGCATG
606286 TATG--TG
1 TATGCATG
606292 TATGCATG
1 TATGCATG
606300 TATGCATG
1 TATGCATG
606308 TATGCATG
1 TATGCATG
606316 TATGCATG
1 TATGCATG
606324 --T--ATG
1 TATGCATG
606328 TATGCATG
1 TATGCATG
*
606336 TATGTATG
1 TATGCATG
606344 TATGCATG
1 TATGCATG
606352 TATGCATG
1 TATGCATG
606360 TATGCATG
1 TATGCATG
606368 TATG--TG
1 TATGCATG
606374 TATGCATG
1 TATGCATG
606382 TATGCATG
1 TATGCATG
606390 TATGCATG
1 TATGCATG
*
606398 CATGCATG
1 TATGCATG
606406 TATGCATG
1 TATGCATG
606414 TATGCATG
1 TATGCATG
606422 TATGCATG
1 TATGCATG
606430 TATGCATG
1 TATGCATG
606438 TTGATGCATG
1 -T-ATGCATG
606448 TATGCATG
1 TATGCATG
606456 TATGCATG
1 TATGCATG
*
606464 TATGTATG
1 TATGCATG
* *
606472 CATGTATG
1 TATGCATG
*
606480 CATGCATG
1 TATGCATG
606488 TATGCATG
1 TATGCATG
606496 TATGCATG
1 TATGCATG
606504 TATGCATG
1 TATGCATG
606512 TATGCATG
1 TATGCATG
606520 TATGCATG
1 TATGCATG
606528 TATGCATG
1 TATGCATG
606536 TATGCATG
1 TATGCATG
606544 TATGCATG
1 TATGCATG
606552 TATGCAT-
1 TATGCATG
606559 TATG-ATG
1 TATGCATG
606566 TATGCATG
1 TATGCATG
606574 TATGCATG
1 TATGCATG
606582 TATGCATG
1 TATGCATG
606590 TATGCATG
1 TATGCATG
606598 TATGCATG
1 TATGCATG
606606 TATGCATG
1 TATGCATG
606614 TA-GCATG
1 TATGCATG
606621 TATGCATG
1 TATGCATG
606629 TATGCATG
1 TATGCATG
606637 TATGCATG
1 TATGCATG
606645 TATGCATG
1 TATGCATG
606653 TATGCATG
1 TATGCATG
606661 TATGCATG
1 TATGCATG
606669 --T--ATG
1 TATGCATG
606673 TATGCATG
1 TATGCATG
*
606681 TATGCCTG
1 TATGCATG
606689 TATGCATG
1 TATGCATG
606697 TATGCATG
1 TATGCATG
606705 TATGCATG
1 TATGCATG
606713 TATGCAGTATG
1 TATGC---ATG
606724 TATGCATG
1 TATGCATG
606732 TATGCATG
1 TATGCATG
*
606740 TATGCCTG
1 TATGCATG
606748 TATGCAT-
1 TATGCATG
606755 TATGCATG
1 TATGCATG
606763 TATGCATG
1 TATGCATG
*
606771 TATTGTATG
1 TA-TGCATG
* *
606780 CATGTATG
1 TATGCATG
606788 TATGCATG
1 TATGCATG
606796 TATGCATG
1 TATGCATG
606804 TATGCATG
1 TATGCATG
606812 TATGCATG
1 TATGCATG
*
606820 TATGTATG
1 TATGCATG
606828 TATGTAGCATG
1 TA--T-GCATG
*
606839 TATGTATG
1 TATGCATG
*
606847 TTTGCATG
1 TATGCATG
606855 T-T---TG
1 TATGCATG
**
606859 TATGTTTG
1 TATGCATG
606867 TATG-ATG
1 TATGCATG
**
606874 TATGTTTG
1 TATGCATG
*
606882 TATGTATG
1 TATGCATG
*
606890 TA-GTATG
1 TATGCATG
606897 TA-GCA-G
1 TATGCATG
*
606903 TATGTATG
1 TATGCATG
606911 TATGCATG
1 TATGCATG
606919 TATGCATG
1 TATGCATG
606927 TATGCATG
1 TATGCATG
606935 TATGCATG
1 TATGCATG
606943 T-TGCATG
1 TATGCATG
606950 TATGCATG
1 TATGCATG
*
606958 TTATGTATG
1 -TATGCATG
*
606967 TATGTATG
1 TATGCATG
*
606975 TATGTATG
1 TATGCATG
*
606983 TATGTATG
1 TATGCATG
*
606991 TATGTATG
1 TATGCATG
*
606999 TATGTATG
1 TATGCATG
*
607007 TATGTATG
1 TATGCATG
*
607015 TATGTATG
1 TATGCATG
*
607023 TATGTATG
1 TATGCATG
*
607031 TATGTATG
1 TATGCATG
*
607039 TATGTATG
1 TATGCATG
*
607047 TATGTATG
1 TATGCATG
*
607055 TAT--ATTA
1 TATGCA-TG
*
607062 TATGTATG
1 TATGCATG
607070 TAT--ATAG
1 TATGCAT-G
*
607077 TATGTATG
1 TATGCATG
*
607085 TATGTAT-
1 TATGCATG
607092 TATG--TG
1 TATGCATG
607098 TAT--ATG
1 TATGCATG
607104 TAT--ATG
1 TATGCATG
607110 TAT--ATG
1 TATGCATG
607116 TATG--TG
1 TATGCATG
*
607122 TATGTATG
1 TATGCATG
* *
607130 TATGTATA
1 TATGCATG
*
607138 TATGTATG
1 TATGCATG
607146 TA-G-ATG
1 TATGCATG
*
607152 TATGTATG
1 TATGCATG
**
607160 TATATATG
1 TATGCATG
*
607168 TATGTATG
1 TATGCATG
*
607176 TATGTATG
1 TATGCATG
*
607184 TATGTATG
1 TATGCATG
*
607192 T-TGTATG
1 TATGCATG
**
607199 TATATATG
1 TATGCATG
**
607207 TATATATG
1 TATGCATG
*
607215 TATGTATG
1 TATGCATG
*
607223 TATGTATG
1 TATGCATG
* *
607231 TATGTATA
1 TATGCATG
607239 TATGTC-TG
1 TATG-CATG
*
607247 TATGTATG
1 TATGCATG
* *
607255 TATGTATA
1 TATGCATG
*
607263 TATGTATG
1 TATGCATG
*
607271 TAATGTATG
1 T-ATGCATG
*
607280 TATGTATG
1 TATGCATG
**
607288 TTATATATG
1 -TATGCATG
*
607297 TATGTA-G
1 TATGCATG
*
607304 TATGTATG
1 TATGCATG
*
607312 TATGTATG
1 TATGCATG
607320 TATG-ATG
1 TATGCATG
*
607327 TATGTATG
1 TATGCATG
*
607335 TATGTATTG
1 TATGCA-TG
*
607344 TATGTATG
1 TATGCATG
*
607352 TATGTATG
1 TATGCATG
*
607360 TATGTATG
1 TATGCATG
* *
607368 TGTAGTATG
1 TAT-GCATG
*
607377 TATGTATG
1 TATGCATG
*
607385 TATGTATG
1 TATGCATG
607393 TATG--TG
1 TATGCATG
*
607399 TATGTATG
1 TATGCATG
*
607407 TATGTATG
1 TATGCATG
*
607415 TATGTATG
1 TATGCATG
*
607423 TATGTATG
1 TATGCATG
*
607431 TATGTATG
1 TATGCATG
*
607439 TATGTATG
1 TATGCATG
*
607447 TATG-TTG
1 TATGCATG
*
607454 TATGTATG
1 TATGCATG
*
607462 TATGTATG
1 TATGCATG
*
607470 TATGTATG
1 TATGCATG
*
607478 TA-GGATG
1 TATGCATG
*
607485 TATGTATG
1 TATGCATG
*
607493 TATGTATG
1 TATGCATG
*
607501 TATGTATG
1 TATGCATG
*
607509 TATGTATG
1 TATGCATG
*
607517 TATGTATG
1 TATGCATG
*
607525 TATGTATG
1 TATGCATG
*
607533 TATGTATG
1 TATGCATG
*
607541 TATGTATG
1 TATGCATG
*
607549 TATGTATG
1 TATGCATG
*
607557 TATGTATG
1 TATGCATG
*
607565 TATGTATG
1 TATGCATG
*
607573 TATGTATG
1 TATGCATG
*
607581 TATGTATG
1 TATGCATG
*
607589 TATGTATG
1 TATGCATG
*
607597 TA-GTATG
1 TATGCATG
607604 TATGCA
1 TATGCA
607610 CCGTAAAATT
Statistics
Matches: 1735, Mismatches: 85, Indels: 216
0.85 0.04 0.11
Matches are distributed among these distances:
4 13 0.01
5 4 0.00
6 74 0.04
7 134 0.08
8 1406 0.81
9 54 0.03
10 14 0.01
11 22 0.01
12 4 0.00
13 9 0.01
14 1 0.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (8 bp):
TATGCATG
Found at i:606176 original size:4 final size:4
Alignment explanation
Indices: 606167--607607 Score: 1634
Period size: 4 Copynumber: 367.0 Consensus size: 4
606157 TCGAGTGAAA
* * *
606167 TATG TATG TATG TATG TATG TATG TATG CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606215 TATG CATG TATG CATG TATG CATG TATG CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
606263 TATG CATG TATG CATG T-TG CATG TATG --TG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
606308 TATG CATG TATG CATG TATG TATG CATG TATG TATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606356 CATG TATG CATG TATG --TG TATG CATG TATG CATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606402 CATG TATG CATG TATG CATG TATG CATG TATG CATG T-TG -ATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606448 TATG CATG TATG CATG TATG TATG CATG TATG CATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606496 TATG CATG TATG CATG TATG CATG TATG CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
606544 TATG CATG TATG CAT- TATG -ATG TATG CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
606590 TATG CATG TATG CATG TATG CATG TA-G CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
606637 TATG CATG TATG CATG TATG CATG TATG CATG TATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * * * *
606685 CCTG TATG CATG TATG CATG TATG CATG TATG CA-G TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* ** * * *
606732 TATG CATG TATG CCTG TATG CAT- TATG CATG TATG CATG TATTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG
* * * * *
606780 CATG TATG TATG CATG TATG CATG TATG CATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
606828 TATG TA-G CATG TATG TATG TTTG CATG TTTG TATG TTTG TATG -ATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
606874 TATG TTTG TATG TATG TA-G TATG TA-G CA-G TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
606919 TATG CATG TATG CATG TATG CATG T-TG CATG TATG CATG TTATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG -TATG TATG
606967 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
607015 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA T-TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
607062 TATG TATG TATA TA-G TATG TATG TATG TAT- TATG TGTA TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
607108 TGTA TATG TATG --TG TATG TATG TATG TATA TATG TATG TA-G -ATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
607152 TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG T-TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
607199 TATA TATG TATA TATG TATG TATG TATG TATG TATG TATA TATG TCTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
607247 TATG TATG TATG TATA TATG TATG TAATG TATG TATG TATG TTATA TATG
1 TATG TATG TATG TATG TATG TATG T-ATG TATG TATG TATG -TATG TATG
607297 TATG TA-G TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG
*
607344 TATG TATG TATG TATG TATG TATG TGTAG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TAT-G TATG TATG TATG TATG TATG
607393 TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
607439 TATG TATG TATG T-TG TATG TATG TATG TATG TATG TATG TA-G GATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
607485 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
607533 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
607581 TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
607608 CACCGTAAAA
Statistics
Matches: 1196, Mismatches: 203, Indels: 76
0.81 0.14 0.05
Matches are distributed among these distances:
2 9 0.01
3 58 0.05
4 1108 0.93
5 21 0.02
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:612539 original size:30 final size:31
Alignment explanation
Indices: 612493--612561 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
612483 GTTTAAAGTC
* *
612493 TTAGAAAATTTTGGGGACC-A-TTATGTAATT
1 TTAGAAAAGTTGGGGGACCGATTTA-GTAATT
*
612523 TTTGAAAAGTTGGGGGACCGATTTAGTAATT
1 TTAGAAAAGTTGGGGGACCGATTTAGTAATT
612554 TTAGAAAA
1 TTAGAAAA
612562 ATTGTGAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 16 0.48
31 14 0.42
32 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (31 bp):
TTAGAAAAGTTGGGGGACCGATTTAGTAATT
Done.