Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 10 of 325
Found at i:2097805 original size:29 final size:28
Alignment explanation
Indices: 2097771--2097873 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
2097761 TAATCGATCA
*
2097771 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
2097800 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
2097829 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
2097858 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
2097874 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:2100223 original size:136 final size:136
Alignment explanation
Indices: 2099850--2100258 Score: 766
Period size: 135 Copynumber: 3.0 Consensus size: 136
2099840 GCCCATTCAT
* *
2099850 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
2099915 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
2099980 ATTT-G
131 ATTTGG
2099985 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
2100050 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
2100115 ATTTGG
131 ATTTGG
*
2100121 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGACCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
2100186 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCC
2100251 CATTTGG
130 CATTTGG
2100258 G
1 G
2100259 GAGACTACTC
Statistics
Matches: 268, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
135 132 0.49
136 114 0.43
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
ATTTGG
Found at i:2106136 original size:136 final size:136
Alignment explanation
Indices: 2105892--2106312 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
2105882 TATTGGGCCT
** * *
2105892 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
2105957 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
2106022 ATATGC
131 ATATGC
2106028 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
2106093 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
2106158 ATATGC
131 ATATGC
2106164 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
2106229 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
2106293 CATATGC
130 CATATGC
2106300 AAGCCCATTTGGG
1 AAGCCCATTTGGG
2106313 GAGACTACTC
Statistics
Matches: 279, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
135 58 0.21
136 221 0.79
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:2106596 original size:25 final size:26
Alignment explanation
Indices: 2106559--2106610 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2106549 TCAAACATGC
2106559 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
2106585 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
2106610 A
1 A
2106611 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:2111975 original size:64 final size:64
Alignment explanation
Indices: 2111902--2112118 Score: 154
Period size: 64 Copynumber: 3.3 Consensus size: 64
2111892 CTAGGCCAGA
* * *
2111902 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGGCCATAG
***** * ** *
2111966 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
*
2112028 CTGGGCCAGA-
55 -TGGGCCATAG
* * *
2112038 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGGCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGGCCATAG
2112102 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
2112119 TGCAACATCA
Statistics
Matches: 108, Mismatches: 29, Indels: 32
0.64 0.17 0.19
Matches are distributed among these distances:
63 10 0.09
64 31 0.29
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 9 0.08
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGGCCATAG
Found at i:2112112 original size:136 final size:136
Alignment explanation
Indices: 2111868--2112289 Score: 763
Period size: 136 Copynumber: 3.1 Consensus size: 136
2111858 TATTGGGCCT
** * *
2111868 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
2111933 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
2111998 ATATGC
131 ATATGC
2112004 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
2112069 AGCCCCTTATTCAGATAACAGTATGGGCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
2112134 ATATGC
131 ATATGC
*
2112140 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
2112205 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
2112270 CATATGC
130 CATATGC
2112277 AAGCCCATTTGGG
1 AAGCCCATTTGGG
2112290 GAGACTACTC
Statistics
Matches: 276, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 254 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:2115155 original size:15 final size:14
Alignment explanation
Indices: 2115123--2115161 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
2115113 TATTTTCGTG
2115123 TTCTTGTTTCTTTTT
1 TTCTT-TTTCTTTTT
2115138 TTCTTTTTCTTTTCT
1 TTCTTTTTCTTTT-T
2115153 TTCTATTTT
1 TTCT-TTTT
2115162 TGAATCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (14 bp):
TTCTTTTTCTTTTT
Found at i:2115226 original size:16 final size:15
Alignment explanation
Indices: 2115201--2115234 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2115191 TATTAAAGAC
2115201 ATAAAAAAATACAAAA
1 ATAAAAAAATA-AAAA
*
2115217 ATAAATAAATAAAAA
1 ATAAAAAAATAAAAA
2115232 ATA
1 ATA
2115235 GATACCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:2116984 original size:46 final size:46
Alignment explanation
Indices: 2116929--2117109 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
2116919 TAGGATGGTT
2116929 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
2116975 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
2117021 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** * *
2117068 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2117110 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:2117090 original size:93 final size:93
Alignment explanation
Indices: 2116931--2117102 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2116921 GGATGGTTGA
* *
2116931 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
2116996 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
2117024 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
2117089 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
2117103 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:2118855 original size:22 final size:21
Alignment explanation
Indices: 2118816--2118867 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
2118806 TTTTTATATA
*
2118816 TATTATTTTCATTTGCATC-T
1 TATTATTATCATTTGCATCTT
2118836 TACTTATTATCATTTTGCATCTT
1 TA-TTATTATCA-TTTGCATCTT
2118859 TATTATTAT
1 TATTATTAT
2118868 TATTATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 8 0.29
22 15 0.54
23 3 0.11
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTATTATCATTTGCATCTT
Found at i:2118864 original size:3 final size:3
Alignment explanation
Indices: 2118858--2118893 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2118848 TTTTGCATCT
2118858 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2118894 CCATTACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2119282 original size:25 final size:24
Alignment explanation
Indices: 2119253--2119315 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
2119243 TCCTTTTTAC
2119253 TTATTCTTATTATTCTTGT-TTATTT
1 TTATTCTTATTATT-TT-TATTATTT
*
2119278 TTATTCTTATCATTTTTATTATTT
1 TTATTCTTATTATTTTTATTATTT
2119302 TTA-TC-TATTATTTT
1 TTATTCTTATTATTTT
2119316 CCTCTTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 8 0.23
23 3 0.09
24 11 0.31
25 13 0.37
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTCTTATTATTTTTATTATTT
Found at i:2122334 original size:23 final size:24
Alignment explanation
Indices: 2122308--2122353 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2122298 TTAAAATTTC
2122308 AAATGAAATGTAAT-AAATAAATG
1 AAATGAAATGTAATAAAATAAATG
* * *
2122331 AAATGTATTGTTATAAAATAAAT
1 AAATGAAATGTAATAAAATAAAT
2122354 AACTCGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.33
Consensus pattern (24 bp):
AAATGAAATGTAATAAAATAAATG
Found at i:2122812 original size:16 final size:16
Alignment explanation
Indices: 2122793--2122825 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2122783 TAAAATATTA
2122793 AAAGTAA-ATAATACAC
1 AAAGTAATAT-ATACAC
2122809 AAAGTAATATATACAC
1 AAAGTAATATATACAC
2122825 A
1 A
2122826 GGAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGTAATATATACAC
Found at i:2124088 original size:15 final size:16
Alignment explanation
Indices: 2124070--2124099 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2124060 GGTTTTGGGC
2124070 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
2124085 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
2124100 CCCGGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:2140263 original size:2 final size:2
Alignment explanation
Indices: 2140256--2140283 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2140246 GAAATATGTG
2140256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2140284 AAAGATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2144701 original size:15 final size:15
Alignment explanation
Indices: 2144681--2144710 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2144671 AAAAATTATA
2144681 AAAATATTCAAAAAT
1 AAAATATTCAAAAAT
2144696 AAAATATTCAAAAAT
1 AAAATATTCAAAAAT
2144711 TTATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATTCAAAAAT
Found at i:2148345 original size:17 final size:17
Alignment explanation
Indices: 2148313--2148361 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
2148303 AATTACAAAA
*
2148313 AAAATTAGAAAT-ATAG
1 AAAATTACAAATAATAG
2148329 AAAATTACAAATAATAG
1 AAAATTACAAATAATAG
*
2148346 AAAATTACAAAAAATA
1 AAAATTACAAATAATA
2148362 AATATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAATTACAAATAATAG
Found at i:2148376 original size:12 final size:12
Alignment explanation
Indices: 2148359--2148393 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
2148349 ATTACAAAAA
2148359 ATAAATATTATT
1 ATAAATATTATT
2148371 ATAAATATTATT
1 ATAAATATTATT
2148383 ATAAATATTAT
1 ATAAATATTAT
2148394 AAAACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATAAATATTATT
Found at i:2148404 original size:24 final size:24
Alignment explanation
Indices: 2148359--2148404 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2148349 ATTACAAAAA
* *
2148359 ATAAATATTATTATAAATATTATT
1 ATAAATATTATTAAAAAAATTATT
2148383 ATAAATATTA-TAAAACAAATTA
1 ATAAATATTATTAAAA-AAATTA
2148405 AAAATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAAATATTATTAAAAAAATTATT
Found at i:2150171 original size:65 final size:65
Alignment explanation
Indices: 2150055--2150183 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
2150045 TTTCAGATAT
* * *
2150055 TAATCTAGTTGTGCTATAATAGTAATACTAAAAAGTAAATTACATCCAAGTCGCTATGTTATTAG
1 TAATCTAGTTGTGCCATAATAGTAATACTAAAAAGTAAACTACATCCAAGTCGCTATATTATTAG
* * * *
2150120 TAATCTAGTTGTGCCATAATAGTAATATTAAAGA-TAAACTATATCCAAAGTCGTTATATTATTA
1 TAATCTAGTTGTGCCATAATAGTAATACTAAAAAGTAAACTACATCC-AAGTCGCTATATTATTA
2150184 ATAAGTTTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 10 0.18
65 46 0.82
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (65 bp):
TAATCTAGTTGTGCCATAATAGTAATACTAAAAAGTAAACTACATCCAAGTCGCTATATTATTAG
Found at i:2154344 original size:15 final size:17
Alignment explanation
Indices: 2154323--2154363 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
2154313 TAACTTTTTA
2154323 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
2154339 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
2154355 AAAATTATA
1 AAAATTATA
2154364 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:2155450 original size:18 final size:18
Alignment explanation
Indices: 2155427--2155464 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2155417 AAAAAAATAA
2155427 AAACATATTTTGAAACCT
1 AAACATATTTTGAAACCT
2155445 AAACATATTTTGAAACCT
1 AAACATATTTTGAAACCT
2155463 AA
1 AA
2155465 CTTCCGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
AAACATATTTTGAAACCT
Found at i:2156171 original size:78 final size:78
Alignment explanation
Indices: 2156042--2156250 Score: 391
Period size: 78 Copynumber: 2.7 Consensus size: 78
2156032 GAGTCGCACC
2156042 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTACAATCATCCATAATTAGAATAAGATGTAC
1 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTACAATCATCCATAATTAGAATAAGATGTAC
*
2156107 TGCAAGTCATACT
66 TACAAGTCATACT
2156120 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTACAATCATCCATAATTAGAATAAGATGTAC
1 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTACAATCATCCATAATTAGAATAAGATGTAC
2156185 TACAAGTCATACT
66 TACAAGTCATACT
*
2156198 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTATCAATCATTCATAATTA
1 ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTA-CAATCATCCATAATTA
2156251 TTGGTGTTAG
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
78 113 0.88
79 15 0.12
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (78 bp):
ATGCACCACCATTTAAAGTGAAGGGTCAATTTCTTACAATCATCCATAATTAGAATAAGATGTAC
TACAAGTCATACT
Found at i:2176918 original size:13 final size:13
Alignment explanation
Indices: 2176876--2176936 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
2176866 TTTGTCAATG
2176876 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* * *
2176889 CTGTAGAAAAGTG
1 CTTTTGAAAAGTA
2176902 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
2176915 CTTTTGAGAAA-TA
1 CTTTTGA-AAAGTA
2176928 CTTTT-AAAA
1 CTTTTGAAAA
2176937 ATTTTAAGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 3 0.07
12 1 0.02
13 34 0.83
14 3 0.07
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:2180998 original size:37 final size:37
Alignment explanation
Indices: 2180957--2181029 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
2180947 TGTATTAATT
2180957 GTTTGTATGCATTATTTTATTTGATTACATTTTTTTA
1 GTTTGTATGCATTATTTTATTTGATTACATTTTTTTA
2180994 GTTTGTATGCATTATTTTATTTGATTACATTTTTTT
1 GTTTGTATGCATTATTTTATTTGATTACATTTTTTT
2181030 TAACTTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (37 bp):
GTTTGTATGCATTATTTTATTTGATTACATTTTTTTA
Found at i:2181031 original size:19 final size:18
Alignment explanation
Indices: 2180966--2181029 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
2180956 TGTTTGTATG
*
2180966 CATTATTTTATTTGATTA
1 CATTTTTTTATTTGATTA
*
2180984 CATTTTTTTAGTTTG-TATG
1 CATTTTTTTA-TTTGAT-TA
*
2181003 CATTATTTTATTTGATTA
1 CATTTTTTTATTTGATTA
2181021 CATTTTTTT
1 CATTTTTTT
2181030 TAACTTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.64
Consensus pattern (18 bp):
CATTTTTTTATTTGATTA
Found at i:2186401 original size:17 final size:17
Alignment explanation
Indices: 2186381--2186435 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
2186371 GCTTTCTGAT
2186381 TTTTTTTTTCATATTTC
1 TTTTTTTTTCATATTTC
*
2186398 -TTTTGTTT--T-TTTC
1 TTTTTTTTTCATATTTC
*
2186411 TTTTATTTTCATATTTC
1 TTTTTTTTTCATATTTC
2186428 TTTTTTTT
1 TTTTTTTT
2186436 ACTTTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.13
14 7 0.23
16 8 0.27
17 11 0.37
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTCATATTTC
Found at i:2186420 original size:30 final size:29
Alignment explanation
Indices: 2186380--2186448 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
2186370 TGCTTTCTGA
*
2186380 TTTTTT-TTTTCATATTTCTTTTGTTTT-T
1 TTTTTTATTTTCATATTTCTTTT-TTTTAC
2186408 TTCTTTTATTTTCATATTTCTTTTTTTTAC
1 TT-TTTTATTTTCATATTTCTTTTTTTTAC
2186438 TTTTTTATTTT
1 TTTTTTATTTT
2186449 GTTCCTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 2 0.05
29 17 0.46
30 18 0.49
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTTATTTTCATATTTCTTTTTTTTAC
Found at i:2186482 original size:17 final size:17
Alignment explanation
Indices: 2186462--2186539 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 17
2186452 CCTTAATAAA
2186462 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
2186479 TTTTA-CTTTTT-TGTTT
1 TTTTATCTTTTTAT-TTT
*
2186495 TTTTTTCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
2186514 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
2186533 TTATTAT
1 TT-TTAT
2186540 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 13 0.27
17 8 0.17
18 3 0.06
19 13 0.27
20 9 0.19
21 1 0.02
ACGTcount: A:0.12, C:0.05, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:2186483 original size:9 final size:9
Alignment explanation
Indices: 2186469--2186540 Score: 58
Period size: 10 Copynumber: 7.9 Consensus size: 9
2186459 AAATTTTATC
2186469 TTTTTATTT
1 TTTTTATTT
2186478 TTTTTACTTT
1 TTTTTA-TTT
*
2186488 TTTGT-TTT
1 TTTTTATTT
*
2186496 TTTTT-CTT
1 TTTTTATTT
* *
2186504 ATTTCATTT
1 TTTTTATTT
*
2186513 TGTTTATTT
1 TTTTTATTT
2186522 TGTTTTATTT
1 T-TTTTATTT
2186532 TTTATTATT
1 TTT-TTATT
2186541 AACTTTAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 12 0.24
9 17 0.35
10 20 0.41
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2186718 original size:13 final size:14
Alignment explanation
Indices: 2186700--2186728 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2186690 AATTTTTTAA
2186700 AATTTT-AAATATT
1 AATTTTAAAATATT
2186713 AATTTTAAAATATT
1 AATTTTAAAATATT
2186727 AA
1 AA
2186729 CCATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTTAAAATATT
Found at i:2186728 original size:37 final size:36
Alignment explanation
Indices: 2186587--2186728 Score: 107
Period size: 37 Copynumber: 4.0 Consensus size: 36
2186577 TTATAATACC
* * *
2186587 TTTTTAAAATTTTAATTATTATTTTTAAAAA-TACT
1 TTTTTAAAATTTTAAATATTAATTTTAAAAATTAAT
* * *
2186622 TTTTT--AACTTTATATA-TATATTTGT-GAAATTAAT
1 TTTTTAAAATTTTAAATATTA-ATTT-TAAAAATTAAT
* * **
2186656 TTTTTATATATTTTAAAAATGT-ATTTTTCAAATTAAT
1 TTTTTA-AAATTTTAAATAT-TAATTTTAAAAATTAAT
2186693 TTTTTAAAATTTTAAATATTAATTTTAAAATATTAA
1 TTTTTAAAATTTTAAATATTAATTTTAAAA-ATTAA
2186729 CCATATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
32 2 0.02
33 14 0.17
34 9 0.11
35 6 0.07
36 19 0.23
37 30 0.37
39 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (36 bp):
TTTTTAAAATTTTAAATATTAATTTTAAAAATTAAT
Found at i:2186805 original size:21 final size:21
Alignment explanation
Indices: 2186780--2186828 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2186770 TTGTAAATAC
2186780 AATTTCTTTAA-TTTCTTTTTA
1 AATTT-TTTAACTTTCTTTTTA
* *
2186801 AATTTTTTAACTTTTTTTTTT
1 AATTTTTTAACTTTCTTTTTA
2186822 AATTTTT
1 AATTTTT
2186829 GAAAAGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (21 bp):
AATTTTTTAACTTTCTTTTTA
Found at i:2186938 original size:17 final size:17
Alignment explanation
Indices: 2186893--2186940 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2186883 TGTCACCCTT
2186893 TTTTTATTTTTTTATTAA
1 TTTTT-TTTTTTTATTAA
* * * *
2186911 ATTTGTCTTTTTCTTAA
1 TTTTTTTTTTTTATTAA
2186928 TTTTTTTTTTTTA
1 TTTTTTTTTTTTA
2186941 AGTTTTATAT
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTTTATTAA
Found at i:2186956 original size:18 final size:17
Alignment explanation
Indices: 2186924--2186989 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
2186914 TGTCTTTTTC
2186924 TTAATTTT-T-TT-TTT
1 TTAATTTTATATTATTT
2186938 TTAAGTTTTATATTATTT
1 TTAA-TTTTATATTATTT
* *
2186956 TTTATTTTATTTTATTTAT
1 TTAATTTTATATTA-TT-T
2186975 TTAA-TTTATATTATT
1 TTAATTTTATATTATT
2186990 AATTTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 4 0.10
15 4 0.10
16 1 0.02
17 13 0.31
18 16 0.38
19 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTAATTTTATATTATTT
Found at i:2186956 original size:24 final size:21
Alignment explanation
Indices: 2186929--2186976 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 21
2186919 TTTTCTTAAT
*
2186929 TTTTTTTTTTTAAGTTTTATATTA
1 TTTTTTATTTT-A-TTTTAT-TTA
2186953 TTTTTTATTTTATTTTATTTA
1 TTTTTTATTTTATTTTATTTA
2186974 TTT
1 TTT
2186977 AATTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 1 0.04
24 10 0.43
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTATTTTATTTTATTTA
Found at i:2187060 original size:35 final size:34
Alignment explanation
Indices: 2187020--2187118 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 34
2187010 GTATATTTAA
2187020 ATTTTTTTACAATTTTAAT-TATTATTTTTAAAATT
1 ATTTTTTTA-AATTTTAATATA-TATTTTTAAAATT
* *
2187055 ATTTTTTT-AACTTTAGATATATATTTGTAAAATT
1 ATTTTTTTAAATTTTA-ATATATATTTTTAAAATT
2187089 ATTTTTTTATAAATTTTAAATATATATTTT
1 A-TTTTTT-TAAATTTT-AATATATATTTT
2187119 CAAATTAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
33 6 0.11
34 15 0.28
35 16 0.30
36 1 0.02
37 15 0.28
38 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (34 bp):
ATTTTTTTAAATTTTAATATATATTTTTAAAATT
Found at i:2187061 original size:34 final size:35
Alignment explanation
Indices: 2187020--2187118 Score: 114
Period size: 34 Copynumber: 2.8 Consensus size: 35
2187010 GTATATTTAA
*
2187020 ATTTTTTTACAATTTTAAT-TATTATTTTTAAAATT
1 ATTTTTTTAAAATTTTAATATA-TATTTTTAAAATT
* *
2187055 ATTTTTTT--AACTTTAGATATATATTTGTAAAATT
1 ATTTTTTTAAAATTTTA-ATATATATTTTTAAAATT
2187089 ATTTTTTTATAAATTTTAAATATATATTTT
1 ATTTTTTTA-AAATTTT-AATATATATTTT
2187119 CAAATTAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
33 6 0.11
34 22 0.41
35 10 0.19
37 15 0.28
38 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (35 bp):
ATTTTTTTAAAATTTTAATATATATTTTTAAAATT
Found at i:2187104 original size:24 final size:25
Alignment explanation
Indices: 2187072--2187118 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
2187062 TAACTTTAGA
*
2187072 TATATATTTGTAAA-AT-TATTTTTT
1 TATAAATTT-TAAATATATATTTTTT
2187096 TATAAATTTTAAATATATATTTT
1 TATAAATTTTAAATATATATTTT
2187119 CAAATTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TATAAATTTTAAATATATATTTTTT
Found at i:2187172 original size:20 final size:20
Alignment explanation
Indices: 2187147--2187221 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
2187137 ATTAGTTTTA
2187147 TAATATTTGAAATGTATGTT
1 TAATATTTGAAATGTATGTT
*
2187167 TAATATTT--TAT-TAAT-TT
1 TAATATTTGAAATGT-ATGTT
*
2187184 TACATACAATTTGAAACGTATGTT
1 TA-AT---ATTTGAAATGTATGTT
2187208 TAATATTTGAAATG
1 TAATATTTGAAATG
2187222 GCTCCACCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
17 5 0.12
18 6 0.14
20 17 0.40
21 4 0.10
23 5 0.12
24 5 0.12
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (20 bp):
TAATATTTGAAATGTATGTT
Found at i:2187387 original size:14 final size:15
Alignment explanation
Indices: 2187368--2187400 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2187358 AAAAATATGG
2187368 TTAATATTTAAAA-A
1 TTAATATTTAAAATA
2187382 TTAATATTTAAAATA
1 TTAATATTTAAAATA
2187397 TTAA
1 TTAA
2187401 AAAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATATTTAAAATA
Found at i:2187419 original size:23 final size:23
Alignment explanation
Indices: 2187370--2187416 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
2187360 AAATATGGTT
*
2187370 AATATTTAAAAATTAATATTTAA
1 AATATTTAAAAAATAATATTTAA
2187393 AATA-TTAAAAAATAA-ATTTGAA
1 AATATTTAAAAAATAATATTT-AA
2187415 AA
1 AA
2187417 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATTTAAAAAATAATATTTAA
Found at i:2187428 original size:36 final size:36
Alignment explanation
Indices: 2187373--2187509 Score: 122
Period size: 37 Copynumber: 3.9 Consensus size: 36
2187363 TATGGTTAAT
*
2187373 ATTTAAAAATTAATATTTAAAATAT-TAAAAAATAA
1 ATTTAAAAATAAATATTTAAAATATATAAAAAATAA
* *
2187408 ATTTGAAAAATAAATTTTTAAAATATATAAAAAATTA
1 ATTT-AAAAATAAATATTTAAAATATATAAAAAATAA
* * * * *
2187445 ATTTCACAAATATATATCTAAAGT-TA-AAAAAATAT
1 ATTT-AAAAATAAATATTTAAAATATATAAAAAATAA
* * *
2187480 TTTTAAAAAT-AATAATTAAAAT-TTTAAAAA
1 ATTTAAAAATAAATATTTAAAATATATAAAAA
2187510 GGTATTATAA
Statistics
Matches: 81, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
33 9 0.11
34 10 0.12
35 14 0.17
36 21 0.26
37 27 0.33
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (36 bp):
ATTTAAAAATAAATATTTAAAATATATAAAAAATAA
Found at i:2187432 original size:13 final size:13
Alignment explanation
Indices: 2187400--2187424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2187390 TAAAATATTA
2187400 AAAAATAAATTTG
1 AAAAATAAATTTG
2187413 AAAAATAAATTT
1 AAAAATAAATTT
2187425 TTAAAATATA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAAATAAATTTG
Found at i:2187585 original size:18 final size:17
Alignment explanation
Indices: 2187559--2187601 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2187549 TAAAGTTAAT
2187559 AATAAAAAA-TAAAACAA
1 AATAAAAAAGTAAAA-AA
2187576 AATCAAAAAAGTAAAAAA
1 AAT-AAAAAAGTAAAAAA
2187594 AATAAAAA
1 AATAAAAA
2187602 GATACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 11 0.46
19 5 0.21
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (17 bp):
AATAAAAAAGTAAAAAA
Found at i:2187647 original size:13 final size:14
Alignment explanation
Indices: 2187622--2187678 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
2187612 ATTAAGGAAC
2187622 AAAATAAAA-AAAT
1 AAAATAAAAGAAAT
2187635 AAAA-AAAAGAAATAT
1 AAAATAAAAG-AA-AT
2187650 GAAAATAAAAGAAA-
1 -AAAATAAAAGAAAT
*
2187664 AAAACAAAAGAAAT
1 AAAATAAAAGAAAT
2187678 A
1 A
2187679 TGAAAAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.11
13 16 0.43
14 3 0.08
15 3 0.08
16 6 0.16
17 5 0.14
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAATAAAAGAAAT
Found at i:2187659 original size:17 final size:16
Alignment explanation
Indices: 2187635--2187693 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 16
2187625 ATAAAAAAAT
2187635 AAAAAAAAGAAATATG
1 AAAAAAAAGAAATATG
2187651 AAAATAAAAGAAA-A--
1 AAAA-AAAAGAAATATG
*
2187665 AAACAAAAGAAATATG
1 AAAAAAAAGAAATATG
2187681 AAAAGAAAAGAAA
1 AAAA-AAAAGAAA
2187694 AAGAAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.22
14 4 0.11
16 8 0.22
17 16 0.44
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (16 bp):
AAAAAAAAGAAATATG
Found at i:2187675 original size:30 final size:29
Alignment explanation
Indices: 2187622--2187700 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 29
2187612 ATTAAGGAAC
2187622 AAAATAAAA-AAATAAAAAAAAGAAATATG
1 AAAATAAAAGAAA-AAAAAAAAGAAATATG
2187651 AAAATAAAAGAAAAAAACAAAAGAAATATG
1 AAAATAAAAGAAAAAAA-AAAAGAAATATG
* *
2187681 AAAAGAAAAGAAAAAGAAAA
1 AAAATAAAAGAAAAAAAAAA
2187701 CAAAAAGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 16 0.35
30 30 0.65
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.09
Consensus pattern (29 bp):
AAAATAAAAGAAAAAAAAAAAGAAATATG
Found at i:2187688 original size:5 final size:5
Alignment explanation
Indices: 2187630--2187705 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
2187620 ACAAAATAAA
* * *
2187630 AAAAT AAAA- AAAAG AAATATG AAAAT AAAAG -AAA- AAAAC AAAAG AAATATG
1 AAAAG AAAAG AAAAG AAA-A-G AAAAG AAAAG AAAAG AAAAG AAAAG AAA-A-G
*
2187681 AAAAG AAAAG AAAAAG AAAAC AAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAA
2187706 AGGTGTCAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 10 0.17
5 32 0.54
6 9 0.15
7 8 0.14
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.08
Consensus pattern (5 bp):
AAAAG
Found at i:2187707 original size:17 final size:17
Alignment explanation
Indices: 2187635--2187705 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
2187625 ATAAAAAAAT
*
2187635 AAAA-AAAAGAAATATG
1 AAAACAAAAGAAATAAG
*
2187651 AAAATAAAAG--A-AA-
1 AAAACAAAAGAAATAAG
*
2187664 AAAACAAAAGAAATATG
1 AAAACAAAAGAAATAAG
*
2187681 AAAAGAAAAGAAA-AAG
1 AAAACAAAAGAAATAAG
2187697 AAAACAAAA
1 AAAACAAAA
2187706 AGGTGTCAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 9 0.20
14 1 0.02
15 2 0.05
16 15 0.34
17 17 0.39
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.07
Consensus pattern (17 bp):
AAAACAAAAGAAATAAG
Found at i:2188478 original size:23 final size:23
Alignment explanation
Indices: 2188452--2188495 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2188442 ATGTTCATAA
* *
2188452 TTCATGAATATTAAACAAACATG
1 TTCATAAATAGTAAACAAACATG
2188475 TTCATAAATAGTAAACAAACA
1 TTCATAAATAGTAAACAAACA
2188496 ATAAATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (23 bp):
TTCATAAATAGTAAACAAACATG
Found at i:2189409 original size:15 final size:15
Alignment explanation
Indices: 2189389--2189421 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2189379 TTATATTTTT
2189389 AATTTAATTT-AAATA
1 AATTT-ATTTAAAATA
2189404 AATTTATTTAAAATA
1 AATTTATTTAAAATA
2189419 AAT
1 AAT
2189422 ATTGATTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTATTTAAAATA
Found at i:2189792 original size:17 final size:16
Alignment explanation
Indices: 2189771--2189817 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
2189761 TATATTTACT
2189771 TATAATTAATATAAAA
1 TATAATTAATATAAAA
*
2189787 TAATAATTAA-ATTAAA
1 T-ATAATTAATATAAAA
*
2189803 TATCA-TAATATAAAA
1 TATAATTAATATAAAA
2189818 CAAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 7 0.27
17 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAATTAATATAAAA
Found at i:2189814 original size:31 final size:29
Alignment explanation
Indices: 2189777--2189840 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
2189767 TACTTATAAT
* * *
2189777 TAATATAAAATAATAATTAAATTAAATATCA
1 TAATATAAAACAA-AAATAAATTAAACA-CA
2189808 TAATATAAAACAAAAATAAATTAAACACA
1 TAATATAAAACAAAAATAAATTAAACACA
2189837 TAAT
1 TAAT
2189841 TTACCATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 6 0.20
30 12 0.40
31 12 0.40
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (29 bp):
TAATATAAAACAAAAATAAATTAAACACA
Found at i:2196478 original size:19 final size:19
Alignment explanation
Indices: 2196433--2196477 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2196423 TTAATCTAAA
2196433 ATTATTTTAAAATATAGAT
1 ATTATTTTAAAATATAGAT
2196452 ATTATTTTAAAA-ATA-AT
1 ATTATTTTAAAATATAGAT
2196469 ATATATTTT
1 AT-TATTTT
2196478 TTGGGAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTATTTTAAAATATAGAT
Found at i:2207780 original size:23 final size:23
Alignment explanation
Indices: 2207719--2207784 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
2207709 GCTTATTAAT
*
2207719 TATTATCTTGAATAATATT-AATTTA
1 TATTAT-TT-AATAA-ATTAAAATTA
**
2207744 TATTAACTACATAAATTAAAATTA
1 TATTATTTA-ATAAATTAAAATTA
2207768 TATTATTTAATAAATTA
1 TATTATTTAATAAATTA
2207785 CAAAACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 12 0.35
24 17 0.50
25 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTATTTAATAAATTAAAATTA
Found at i:2208332 original size:29 final size:29
Alignment explanation
Indices: 2208267--2208332 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
2208257 GTTTAGGTTT
**
2208267 TTTTTAACCAAAAAAGATTATTGAAATTA
1 TTTTTAACCAAAAAAGATTATTGAAAACA
*
2208296 TTTATTAACTAAAAAAG-TTAATTGAAAACA
1 TTT-TTAACCAAAAAAGATT-ATTGAAAACA
2208326 TTTTTAA
1 TTTTTAA
2208333 AGATTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (29 bp):
TTTTTAACCAAAAAAGATTATTGAAAACA
Found at i:2213190 original size:20 final size:19
Alignment explanation
Indices: 2213148--2213190 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2213138 ATTTAATTTG
* *
2213148 AAAATTGGACTTGAAATCG
1 AAAATTGGACCTGAAATCC
*
2213167 AAAATTGGGCCTGAGAATCC
1 AAAATTGGACCTGA-AATCC
2213187 AAAA
1 AAAA
2213191 CTAAGACTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (19 bp):
AAAATTGGACCTGAAATCC
Found at i:2213611 original size:29 final size:29
Alignment explanation
Indices: 2213556--2213612 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
2213546 TTATTTTAAT
**
2213556 ATTAAATTAATAAAATATTTATCTATAAG
1 ATTAAATTAATAAAATATTTAAATATAAG
*
2213585 ATTAAATTAAATTAAATA-TTAAATATAA
1 ATTAAATT-AATAAAATATTTAAATATAA
2213613 CATCTATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTAAATTAATAAAATATTTAAATATAAG
Found at i:2219092 original size:18 final size:19
Alignment explanation
Indices: 2219069--2219105 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2219059 TAAAAATATA
2219069 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
2219087 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
2219106 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:2219104 original size:19 final size:20
Alignment explanation
Indices: 2219074--2219145 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
2219064 ATATATATAA
2219074 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
2219094 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTATAAATT
2219113 ATTTT-AAGTTTTTGA-AAATT
1 ATTTTGAA-TTTTT-ATAAATT
*
2219133 ATTTTAAATTTTT
1 ATTTTGAATTTTT
2219146 TTTGTAATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
18 10 0.22
19 9 0.20
20 24 0.52
21 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:2220793 original size:12 final size:12
Alignment explanation
Indices: 2220776--2220914 Score: 91
Period size: 12 Copynumber: 12.0 Consensus size: 12
2220766 AATTATACAT
2220776 AATAATAAATAA
1 AATAATAAATAA
2220788 AATAATAAAGTAA
1 AATAATAAA-TAA
*
2220801 TAT-AT-AATAA
1 AATAATAAATAA
2220811 AATAA-AAATAA
1 AATAATAAATAA
* *
2220822 TATAATGAATAA
1 AATAATAAATAA
*
2220834 TAT-ATATAATAA
1 AATAATA-AATAA
*
2220846 AATGAT--ATAA
1 AATAATAAATAA
*
2220856 TAT-ATAAATAA
1 AATAATAAATAA
*
2220867 AAT-ATATACTAA
1 AATAATA-AATAA
2220879 AAT-ATAAATAA
1 AATAATAAATAA
*
2220890 TATAATAAATAA
1 AATAATAAATAA
2220902 TACATAA-AAATAA
1 -A-ATAATAAATAA
2220915 TATATATAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 23
0.75 0.09 0.17
Matches are distributed among these distances:
9 2 0.02
10 11 0.11
11 29 0.28
12 44 0.43
13 13 0.13
14 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:2220807 original size:20 final size:20
Alignment explanation
Indices: 2220778--2220816 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2220768 TTATACATAA
2220778 TAATAAATAA-AATAATAAAG
1 TAATAAATAATAA-AATAAAG
*
2220798 TAATATATAATAAAATAAA
1 TAATAAATAATAAAATAAA
2220817 AATAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
TAATAAATAATAAAATAAAG
Found at i:2220839 original size:35 final size:35
Alignment explanation
Indices: 2220776--2220903 Score: 147
Period size: 34 Copynumber: 3.7 Consensus size: 35
2220766 AATTATACAT
*
2220776 AATAATAAATAAAATAATAAAGT-A-ATATATAATAA
1 AATAA-AAATAATATAATAAA-TAATATATATAATAA
*
2220811 AATAAAAATAATATAATGAATAATATATATAATAA
1 AATAAAAATAATATAATAAATAATATATATAATAA
* * * *
2220846 AAT-GATATAATAT-ATAAATAAAATATATACTAA
1 AATAAAAATAATATAATAAATAATATATATAATAA
*
2220879 AATATAAATAATATAATAAATAATA
1 AATAAAAATAATATAATAAATAATA
2220904 CATAAAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
33 21 0.27
34 30 0.38
35 28 0.35
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (35 bp):
AATAAAAATAATATAATAAATAATATATATAATAA
Found at i:2220873 original size:68 final size:68
Alignment explanation
Indices: 2220799--2220925 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
2220789 ATAATAAAGT
* * *
2220799 AATATATAATAAAATAAAAATAATATAATGAATAATATAT-ATAATAAAATGATATAATATATAA
1 AATATATAATAAAATAAAAATAATATAATAAATAATACATAAAAATAAAAT-ATATAATATATAA
2220863 ATAA
65 ATAA
* * *
2220867 AATATATACTAAAATATAAATAATATAATAAATAATACATAAAAATAATATATATAATA
1 AATATATAATAAAATAAAAATAATATAATAAATAATACATAAAAATAAAATATATAATA
2220926 ATTTTTTACA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 44 0.85
69 8 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (68 bp):
AATATATAATAAAATAAAAATAATATAATAAATAATACATAAAAATAAAATATATAATATATAAA
TAA
Found at i:2220916 original size:59 final size:61
Alignment explanation
Indices: 2220776--2220926 Score: 60
Period size: 58 Copynumber: 2.5 Consensus size: 61
2220766 AATTATACAT
2220776 AATA-ATAAATAAAATAATAAAGTAATAT-AT-AAT-A-AAATAAAA-A-TAA-TATAATGAAT-
1 AATATATAAATAAAAT-ATAAA-TAATATAATAAATAATAAATAAAAGATTAATTAT-AT-AATA
* * * *
2220832 AATATATATAATAAAATGATATAAT-ATATAAATAAA-ATATATACTAAAATATAAATAATATAA
1 AATATATA-AATAAAAT-ATA-AATAATAT-AATAAATA-ATA-AATAAAAGATTAATTATATAA
2220895 TA
60 TA
*
2220897 AATA-ATACATAAAA-AT-AATATATATAATAA
1 AATATATAAATAAAATATAAATA-ATATAATAA
2220927 TTTTTTACAT
Statistics
Matches: 74, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
56 4 0.05
57 7 0.09
58 12 0.16
59 7 0.09
60 7 0.09
61 7 0.09
62 1 0.01
63 12 0.16
64 7 0.09
65 8 0.11
66 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (61 bp):
AATATATAAATAAAATATAAATAATATAATAAATAATAAATAAAAGATTAATTATATAATA
Found at i:2220927 original size:12 final size:12
Alignment explanation
Indices: 2220800--2220927 Score: 101
Period size: 12 Copynumber: 11.0 Consensus size: 12
2220790 TAATAAAGTA
*
2220800 ATATATAATAAA
1 ATATATAATAAT
*
2220812 ATA-AAAATAAT
1 ATATATAATAAT
2220823 ATA-ATGAATAAT
1 ATATAT-AATAAT
2220835 ATATATAATAA-
1 ATATATAATAAT
2220846 A-ATGAT-ATAAT
1 ATAT-ATAATAAT
*
2220857 ATATA-AATAAA
1 ATATATAATAAT
* *
2220868 ATATATACTAAA
1 ATATATAATAAT
2220880 ATATA-AATAAT
1 ATATATAATAAT
2220891 ATA-ATAAATAAT
1 ATATAT-AATAAT
* *
2220903 ACATAAAAATAAT
1 ATAT-ATAATAAT
2220916 ATATATAATAAT
1 ATATATAATAAT
2220928 TTTTTACATA
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.07
11 31 0.33
12 44 0.47
13 11 0.12
14 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:2220952 original size:19 final size:21
Alignment explanation
Indices: 2220914--2220952 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2220904 CATAAAAATA
*
2220914 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
2220935 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
2220953 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:2220992 original size:29 final size:29
Alignment explanation
Indices: 2220959--2221015 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2220949 TTTATAGTAA
2220959 AAATAAATAATATATA-AAATATTTAAAAT
1 AAATAAATAATATATATAAA-ATTTAAAAT
*
2220988 AAATAAATTATATATATAAAATTTAAAA
1 AAATAAATAATATATATAAAATTTAAAA
2221016 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATAAATAATATATATAAAATTTAAAAT
Found at i:2226105 original size:26 final size:26
Alignment explanation
Indices: 2226074--2226181 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
2226064 TGAAATGCCC
*
2226074 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
2226100 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
2226126 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
2226152 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2226178 ATCA
1 ATCA
2226182 ATTTGTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:2226881 original size:9 final size:10
Alignment explanation
Indices: 2226862--2226886 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2226852 AAGAAATGGG
2226862 AAAAACAAAA
1 AAAAACAAAA
2226872 AAAAACAAAA
1 AAAAACAAAA
2226882 AAAAA
1 AAAAA
2226887 AGAAAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:2229465 original size:20 final size:19
Alignment explanation
Indices: 2229421--2229472 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2229411 ATAAATTTAG
* * *
2229421 AAATATAATTCTATTTATT
1 AAATATTATTTTATTTATA
2229440 AAATATTATTTTATTTAATA
1 AAATATTATTTTATTT-ATA
2229460 AAATA-TATTTTAT
1 AAATATTATTTTAT
2229473 ATAAAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATATTATTTTATTTATA
Found at i:2229804 original size:19 final size:19
Alignment explanation
Indices: 2229780--2229817 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2229770 CAAAAAATAG
* *
2229780 TAGTAACATAATAGTGAAA
1 TAGTAACAAAATAATGAAA
2229799 TAGTAACAAAATAATGAAA
1 TAGTAACAAAATAATGAAA
2229818 AAACAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (19 bp):
TAGTAACAAAATAATGAAA
Found at i:2229855 original size:15 final size:15
Alignment explanation
Indices: 2229821--2229856 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2229811 AATGAAAAAA
*
2229821 CAATAAAAAAAATAG
1 CAATAAAAAAAACAG
2229836 CAATAAAAAAAACAG
1 CAATAAAAAAAACAG
*
2229851 TAATAA
1 CAATAA
2229857 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (15 bp):
CAATAAAAAAAACAG
Found at i:2232382 original size:3 final size:3
Alignment explanation
Indices: 2232374--2232477 Score: 190
Period size: 3 Copynumber: 34.0 Consensus size: 3
2232364 CATGAGTTGG
2232374 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
2232422 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGCA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG-A
2232468 TGA TGCA TGA
1 TGA TG-A TGA
2232478 ATAACTTCTT
Statistics
Matches: 99, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
3 93 0.94
4 6 0.06
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:2234893 original size:22 final size:22
Alignment explanation
Indices: 2234862--2234904 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2234852 AAGATGTCAT
*
2234862 TGGCATGTTCATAGAGTGAAAA
1 TGGCAGGTTCATAGAGTGAAAA
2234884 TGGCAGGTTCATAGAGTGAAA
1 TGGCAGGTTCATAGAGTGAAA
2234905 GTATTTCGTT
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:0.09, G:0.30, T:0.26
Consensus pattern (22 bp):
TGGCAGGTTCATAGAGTGAAAA
Found at i:2241741 original size:15 final size:15
Alignment explanation
Indices: 2241721--2241755 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2241711 AAGCGACCGA
2241721 CCGATCCCCGAGTCG
1 CCGATCCCCGAGTCG
*
2241736 CCGATCCCGGAGTCG
1 CCGATCCCCGAGTCG
*
2241751 GCGAT
1 CCGAT
2241756 GTAACTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.40, G:0.31, T:0.14
Consensus pattern (15 bp):
CCGATCCCCGAGTCG
Found at i:2248024 original size:33 final size:33
Alignment explanation
Indices: 2247987--2248079 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
2247977 AACTTGAGCT
*
2247987 GGGAGGAGTGGAGTACTGCGATTGATACGGGCC
1 GGGAGGAGTGGAGTACTGCGATGGATACGGGCC
* * *
2248020 GGGAGGAGTGGAGTACGGTGGTGGATACGGGCC
1 GGGAGGAGTGGAGTACTGCGATGGATACGGGCC
* * * * *
2248053 GGAAGGAGCGGAGCACTGAGGTGGATA
1 GGGAGGAGTGGAGTACTGCGATGGATA
2248080 TGAGTCAGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.23, C:0.13, G:0.49, T:0.15
Consensus pattern (33 bp):
GGGAGGAGTGGAGTACTGCGATGGATACGGGCC
Found at i:2249938 original size:40 final size:39
Alignment explanation
Indices: 2249855--2250110 Score: 358
Period size: 40 Copynumber: 6.5 Consensus size: 39
2249845 CAACCAAGTA
** *
2249855 CCTTCGGGGTTTAG-CCGGATATAGCTACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
*
2249893 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
2249933 CCTTCGGGACTTAGCCCGGATATAGTACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAC-TCGCACAAATG
*
2249973 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
2250013 CCTTCGGGACTTAGCCCGGATATAGTACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAC-TCGCACAAATG
* *
2250053 CCTTCGGAACTT-GCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
2250092 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
2250111 TTATCATCCA
Statistics
Matches: 199, Mismatches: 10, Indels: 16
0.88 0.04 0.07
Matches are distributed among these distances:
38 14 0.07
39 48 0.24
40 135 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:2250821 original size:2 final size:2
Alignment explanation
Indices: 2250814--2250841 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2250804 ATGTGCAAAC
2250814 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
2250842 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2258184 original size:39 final size:39
Alignment explanation
Indices: 2258016--2258269 Score: 340
Period size: 39 Copynumber: 6.5 Consensus size: 39
2258006 TAACCAAGTA
** *
2258016 CCTTCGGGGTTTAG-CCGGATATAGCTACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* *
2258054 CCTTCGGGACTTAGCCCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
2258094 CCTTCGGGACTTAGCCCGGA-ATTAGTACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAC-TCGCACAAATG
2258134 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
2258173 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
* *
2258212 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
2258251 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
2258270 TTATCATCCA
Statistics
Matches: 197, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
37 1 0.01
38 31 0.16
39 85 0.43
40 77 0.39
41 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:2262242 original size:3 final size:3
Alignment explanation
Indices: 2262236--2262271 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2262226 TTTTTTTTCT
*
2262236 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTT TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
2262272 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:2262270 original size:20 final size:22
Alignment explanation
Indices: 2262231--2262288 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
2262221 TACCTTTTTT
* * *
2262231 TTTCTTTCTTCTTCTTCTTCTTC
1 TTTCTCTCTT-TTTTTCTTCTCC
2262254 -TTCT-TCTTTTTTTCTTCTCC
1 TTTCTCTCTTTTTTTCTTCTCC
2262274 TTTCTCTCTTTTTTT
1 TTTCTCTCTTTTTTT
2262289 TCTCTCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.32
21 8 0.26
22 13 0.42
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTCTCTTTTTTTCTTCTCC
Found at i:2262653 original size:26 final size:25
Alignment explanation
Indices: 2262606--2262673 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
2262596 TATATATTTA
2262606 AATATTTTAATAAAAATAAAAAAAT
1 AATATTTTAATAAAAATAAAAAAAT
*
2262631 AATATTTTATTTAAAAA-ACAAAAAA-
1 AATATTTTA-ATAAAAATA-AAAAAAT
2262656 AA-A-TTTAATATAAAATAA
1 AATATTTTAATA-AAAATAA
2262674 TCATTTGCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 2 0.05
25 12 0.32
26 12 0.32
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (25 bp):
AATATTTTAATAAAAATAAAAAAAT
Found at i:2284878 original size:17 final size:16
Alignment explanation
Indices: 2284856--2284914 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
2284846 AAACTACGTT
2284856 AAAAAAATAGAGAAGGG
1 AAAAAAA-AGAGAAGGG
*
2284873 AAAAAAACAGAG-AGAG
1 AAAAAAA-AGAGAAGGG
* *
2284889 AAACAAAAGAGAATGG
1 AAAAAAAAGAGAAGGG
*
2284905 AAAATAAAGA
1 AAAAAAAAGA
2284915 AAAAAGGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 4 0.12
16 19 0.56
17 11 0.32
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.05
Consensus pattern (16 bp):
AAAAAAAAGAGAAGGG
Found at i:2290849 original size:13 final size:13
Alignment explanation
Indices: 2290831--2290855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2290821 CCTCCTTCGT
2290831 ATTTTTTAATGTG
1 ATTTTTTAATGTG
2290844 ATTTTTTAATGT
1 ATTTTTTAATGT
2290856 TTTTTATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
ATTTTTTAATGTG
Found at i:2301227 original size:30 final size:30
Alignment explanation
Indices: 2301168--2301227 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
2301158 TCGTGTTGTG
*
2301168 TATTTGTAATTATTTATTATGATTATAATT
1 TATTTGTAATTATTTATTATAATTATAATT
*
2301198 TATTTG-AATGTA-TTACTTATAATTGTAATT
1 TATTTGTAAT-TATTTA-TTATAATTATAATT
2301228 CAAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (30 bp):
TATTTGTAATTATTTATTATAATTATAATT
Found at i:2301423 original size:17 final size:18
Alignment explanation
Indices: 2301401--2301438 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2301391 ATTTTTAAAC
2301401 ATTTGGT-AATTACTTTT
1 ATTTGGTAAATTACTTTT
*
2301418 ATTTGGTAAATTATTTTT
1 ATTTGGTAAATTACTTTT
2301436 ATT
1 ATT
2301439 GAATTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTTGGTAAATTACTTTT
Found at i:2302444 original size:20 final size:21
Alignment explanation
Indices: 2302404--2302444 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2302394 AAATTTATCT
*
2302404 TTAAACTTTAAATTATTTTAA
1 TTAAACTTTAAAATATTTTAA
*
2302425 TTAAATTTTAAAAT-TTTTAA
1 TTAAACTTTAAAATATTTTAA
2302445 GGTTATGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAACTTTAAAATATTTTAA
Found at i:2306511 original size:1 final size:1
Alignment explanation
Indices: 2306505--2306529 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2306495 TTCAACACAG
2306505 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
2306530 ATTGTGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2317326 original size:5 final size:5
Alignment explanation
Indices: 2317316--2317367 Score: 68
Period size: 5 Copynumber: 10.0 Consensus size: 5
2317306 AAGTGATCAT
* *
2317316 GGGCC GGGCC GGGCC GGGTTC GGGCC GGGCC GGGCC GGGTTC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC
2317368 CAAATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 33 0.80
6 8 0.20
ACGTcount: A:0.00, C:0.35, G:0.58, T:0.08
Consensus pattern (5 bp):
GGGCC
Found at i:2317342 original size:21 final size:21
Alignment explanation
Indices: 2317316--2317367 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
2317306 AAGTGATCAT
2317316 GGGCCGGGCCGGGCCGGGTTC
1 GGGCCGGGCCGGGCCGGGTTC
2317337 GGGCCGGGCCGGGCCGGGTTC
1 GGGCCGGGCCGGGCCGGGTTC
2317358 GGGCCGGGCC
1 GGGCCGGGCC
2317368 CAAATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.58, T:0.08
Consensus pattern (21 bp):
GGGCCGGGCCGGGCCGGGTTC
Found at i:2317555 original size:26 final size:24
Alignment explanation
Indices: 2317515--2317574 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
2317505 TTATTTCATT
* * *
2317515 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
2317539 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
2317565 AAATAAATAT
1 AAATAAATAT
2317575 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:2317586 original size:22 final size:22
Alignment explanation
Indices: 2317545--2317603 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
2317535 ATAATAAATC
* *
2317545 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
2317565 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
2317587 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
2317604 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:2317680 original size:15 final size:16
Alignment explanation
Indices: 2317650--2317682 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2317640 AAATAGTTAT
2317650 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
2317667 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
2317682 A
1 A
2317683 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:2318202 original size:7 final size:7
Alignment explanation
Indices: 2318190--2318235 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
2318180 GAAGTAGACG
2318190 TTAAAAT
1 TTAAAAT
2318197 TTAAAAT
1 TTAAAAT
2318204 TTAAAATT
1 TTAAAA-T
2318212 TTAAAA-
1 TTAAAAT
2318218 TTAAAAT
1 TTAAAAT
2318225 ATTAAAAT
1 -TTAAAAT
2318233 TTA
1 TTA
2318236 TTAAATATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.17
7 16 0.44
8 14 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTAAAAT
Found at i:2318216 original size:8 final size:8
Alignment explanation
Indices: 2318190--2318256 Score: 61
Period size: 8 Copynumber: 8.5 Consensus size: 8
2318180 GAAGTAGACG
2318190 TTAAAA-T
1 TTAAAATT
2318197 TTAAAA-T
1 TTAAAATT
2318204 TTAAAATT
1 TTAAAATT
2318212 TTAAAA--
1 TTAAAATT
*
2318218 TTAAAATA
1 TTAAAATT
2318226 TTAAAATTT
1 TTAAAA-TT
2318235 ATTAAATATT
1 -TTAAA-ATT
*
2318245 ATAAAATT
1 TTAAAATT
2318253 TTAA
1 TTAA
2318257 GTATGTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
6 6 0.12
7 13 0.25
8 19 0.37
9 5 0.10
10 7 0.14
11 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:2322007 original size:21 final size:21
Alignment explanation
Indices: 2321973--2322013 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2321963 AGACAAGCGA
* * *
2321973 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
2321994 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
2322014 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:2326691 original size:20 final size:20
Alignment explanation
Indices: 2326641--2326691 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2326631 AAATTACAAA
2326641 AAAATTC-AAAATAATATTC
1 AAAATTCTAAAATAATATTC
*
2326660 AAAATT-TCAAAATAA-ATTTT
1 AAAATTCT-AAAATAATA-TTC
2326680 AAAATTCTAAAA
1 AAAATTCTAAAA
2326692 ATGATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 7 0.26
20 19 0.70
21 1 0.04
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTCTAAAATAATATTC
Found at i:2330858 original size:3 final size:3
Alignment explanation
Indices: 2330850--2330894 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2330840 AATTTAAAAT
2330850 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2330895 AAATGTCACG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2335480 original size:2 final size:2
Alignment explanation
Indices: 2335475--2335509 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2335465 GGATTTAGGT
2335475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2335510 GTGATTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2336579 original size:39 final size:39
Alignment explanation
Indices: 2336525--2336858 Score: 510
Period size: 39 Copynumber: 8.5 Consensus size: 39
2336515 TAATGGAGAA
*
2336525 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
2336564 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
2336603 TTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
2336642 TTATTTCCGTGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
2336681 TTATATCCGGGCTAAG-CCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
2336719 TTATATCCGGGCTAAGTCCCGAAAGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
2336758 TTATATCCGGGCTAAGCCCCGAAGGCACTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
2336797 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
2336836 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
2336859 CATGCTTTGT
Statistics
Matches: 274, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 38 0.14
39 215 0.78
40 21 0.08
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:2336831 original size:155 final size:156
Alignment explanation
Indices: 2336524--2336858 Score: 530
Period size: 155 Copynumber: 2.1 Consensus size: 156
2336514 ATAATGGAGA
* *
2336524 ATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAG
* * * *
2336589 CATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTGGTGTTATTTCCGTGC
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCACTCGTGCTGGTGTTATATCCGGGC
2336654 TAAGCCCCGAAGGCATTCGTGCTGGT
131 TAAGCCCCGAAGGCATTCGTGCTGGT
*
2336680 GTTATATCCGGGCTAAG-CCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAG
2336744 CATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCACTCGTGCTGGTGTTATATCCGGGC
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCACTCGTGCTGGTGTTATATCCGGGC
* * *
2336809 TAAAGTCCCGTAGGC-TTTGTGCTGGT
131 T-AAGCCCCGAAGGCATTCGTGCTGGT
*
2336835 ATTATATTCGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
2336859 CATGCTTTGT
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
155 128 0.79
156 28 0.17
157 3 0.02
158 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (156 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAG
CATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCACTCGTGCTGGTGTTATATCCGGGC
TAAGCCCCGAAGGCATTCGTGCTGGT
Found at i:2338208 original size:18 final size:18
Alignment explanation
Indices: 2338185--2338220 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2338175 CCATGCGAAG
2338185 ATGGCTTGCTCATTTTGT
1 ATGGCTTGCTCATTTTGT
2338203 ATGGCTTGCTCATTTTGT
1 ATGGCTTGCTCATTTTGT
2338221 TTAGAGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
ATGGCTTGCTCATTTTGT
Found at i:2339402 original size:27 final size:27
Alignment explanation
Indices: 2339372--2339427 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2339362 ACTTTTGGAT
2339372 TTGAGCAAAACGTAGATGAACCTTATG
1 TTGAGCAAAACGTAGATGAACCTTATG
*
2339399 TTGAGCAAAATGTAGATGAACCTTATG
1 TTGAGCAAAACGTAGATGAACCTTATG
2339426 TT
1 TT
2339428 TATAAACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (27 bp):
TTGAGCAAAACGTAGATGAACCTTATG
Found at i:2340384 original size:33 final size:32
Alignment explanation
Indices: 2340347--2340446 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 32
2340337 AAGCCCCCCC
2340347 AAAAAAACCTAACCAAAAAAAAAAAAGAAAAA
1 AAAAAAACCTAACCAAAAAAAAAAAAGAAAAA
2340379 GAAAAAAA---AACCCCAAAAAAAAAAGAAGAAAAA
1 -AAAAAAACCTAA--CCAAAAAAAAAA-AAGAAAAA
* *
2340412 AGAAAAACCTAACCAAAATAAAAAAAATAAAAA
1 AAAAAAACCTAACCAAAA-AAAAAAAAGAAAAA
2340445 AA
1 AA
2340447 CCTAGCCACC
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
30 2 0.04
32 18 0.32
33 29 0.51
34 6 0.11
35 2 0.04
ACGTcount: A:0.79, C:0.12, G:0.05, T:0.04
Consensus pattern (32 bp):
AAAAAAACCTAACCAAAAAAAAAAAAGAAAAA
Found at i:2340399 original size:30 final size:30
Alignment explanation
Indices: 2340363--2340446 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 30
2340353 ACCTAACCAA
2340363 AAAAAAAAAAGAA-AAAGAAAAAAAAACCCC
1 AAAAAAAAAAGAAGAAA-AAAAAAAAACCCC
*
2340393 AAAAAAAAAAGAAGAAAAAAGAAAAACCTAACC
1 AAAAAAAAAAGAAGAAAAAAAAAAAACC---CC
*
2340426 AAAATAAAAAA-AATAAAAAAA
1 AAAA-AAAAAAGAAGAAAAAAA
2340447 CCTAGCCACC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
30 23 0.50
31 3 0.07
33 14 0.30
34 6 0.13
ACGTcount: A:0.81, C:0.10, G:0.06, T:0.04
Consensus pattern (30 bp):
AAAAAAAAAAGAAGAAAAAAAAAAAACCCC
Found at i:2342956 original size:12 final size:12
Alignment explanation
Indices: 2342936--2342971 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2342926 AGTCATTTGA
2342936 CATTCATGCATT
1 CATTCATGCATT
*
2342948 CATTTATGCATT
1 CATTCATGCATT
*
2342960 CATTCATTCATT
1 CATTCATGCATT
2342972 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:2349421 original size:24 final size:24
Alignment explanation
Indices: 2349366--2349655 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
2349356 GAATGTGACT
*
2349366 ATAGCAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
*
2349389 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349413 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349437 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349461 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
2349485 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
2349509 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349533 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349557 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
2349581 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
2349605 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349629 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
2349653 ATA
1 ATA
2349656 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
23 22 0.08
24 239 0.92
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:2354023 original size:51 final size:51
Alignment explanation
Indices: 2353942--2354075 Score: 216
Period size: 51 Copynumber: 2.6 Consensus size: 51
2353932 TGATACAAAT
2353942 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
* *
2353993 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATAGGTTAGGTAAATGTTCCA
*
2354044 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
2354076 GAATTTCATG
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
50 15 0.19
51 40 0.51
52 21 0.27
53 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:2354036 original size:26 final size:26
Alignment explanation
Indices: 2353942--2354075 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
2353932 TGATACAAAT
2353942 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
2353967 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
2353993 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
2354018 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
2354044 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
2354070 TGATAA
1 TGATAA
2354076 GAATTTCATG
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 48 0.45
26 58 0.55
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:2359826 original size:26 final size:26
Alignment explanation
Indices: 2359767--2359901 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
2359757 TGATACAAAT
2359767 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
2359792 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
2359818 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
2359844 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
2359870 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
2359896 TGATAA
1 TGATAA
2359902 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:2363379 original size:4 final size:4
Alignment explanation
Indices: 2363370--2363397 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2363360 GTAAAAGAAT
2363370 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
2363398 GACAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:2363465 original size:60 final size:59
Alignment explanation
Indices: 2363382--2363576 Score: 327
Period size: 60 Copynumber: 3.3 Consensus size: 59
2363372 TAAATAAATA
* *
2363382 AATAAATAAATAAATAGACAAAACAAATAATATTAAATTTAAGTATTTAAAATGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAGTAATATTAAATTTAAGTATTTAAAA-GTAAAAG
*
2363442 AATAAATAAATAAATAGATAAAACAAGTAACATTAAATTTAAGTATTTAAAAAGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAGTAATATTAAATTTAAGTATTT-AAAAGTAAAAG
* *
2363502 AATGAATAAATAAATAGATAACACAAGTAATATTAAATTTAAGTATTTAAAAGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAGTAATATTAAATTTAAGTATTTAAAAGTAAAAG
2363561 AATAAATAAATAAATA
1 AATAAATAAATAAATA
2363577 AATAGATAAG
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
59 26 0.20
60 97 0.76
61 4 0.03
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (59 bp):
AATAAATAAATAAATAGATAAAACAAGTAATATTAAATTTAAGTATTTAAAAGTAAAAG
Found at i:2369195 original size:51 final size:51
Alignment explanation
Indices: 2369133--2369269 Score: 193
Period size: 51 Copynumber: 2.7 Consensus size: 51
2369123 TTGTAACTTC
* * * * *
2369133 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTAGCTTCAATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAAGCTTT
* * **
2369184 AATCTGTTCCACTCCAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAAGCTTT
2369235 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
2369270 CGCTATCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (51 bp):
AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAAGCTTT
Found at i:2369204 original size:189 final size:191
Alignment explanation
Indices: 2368915--2369358 Score: 527
Period size: 189 Copynumber: 2.3 Consensus size: 191
2368905 GTTCCACTGC
* * * * * * *
2368915 AACTTCAGGGAGATAAGACTTGTAATTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGGTTT
1 AACTTCAGGAAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* * * * *
2368980 GTAGCTTGTAACTTTAGTCTATTTCACTGCAACTTTAGGGAAATAAGACTTGTTA-TGGTAGATT
66 GTAGCTTGCAACTTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGATT
* * * * ** *
2369044 TAATCCAATCCACTGCAACTTCAGAGG-TATAGGATTTG-TCGCTTCAATTTACTCCGTTGT
131 TAATCCAATCCACTGCAACTTCAG-GGAAATAAGATTCGCTAGCTTCAAACTACTCCATTGT
* *
2369104 AAGTTCAGGAAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
1 AACTTCAGGAAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* * * *
2369169 GTAGCTT-CAATCTTTAATCTGTTCCACTCCAACTTTAGGGAAATAAGATTTGTAACTTGTAGCT
66 GTAGCTTGCAA-CTTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGAT
*** * * *
2369233 TTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAAACTGCTCCATTGT
130 TTAATCCAATCCACTGCAACTTCAGGGAAATAAGATTCGCTAGCTTCAAACTACTCCATTGT
* * * *
2369295 AACTTTAGGTAGATAAGATTCGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AACTTCAGGAAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
2369359 CGCCACGATG
Statistics
Matches: 214, Mismatches: 37, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
188 2 0.01
189 103 0.48
190 36 0.17
191 73 0.34
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (191 bp):
AACTTCAGGAAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
GTAGCTTGCAACTTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGATT
TAATCCAATCCACTGCAACTTCAGGGAAATAAGATTCGCTAGCTTCAAACTACTCCATTGT
Found at i:2369311 original size:45 final size:45
Alignment explanation
Indices: 2369107--2369361 Score: 192
Period size: 51 Copynumber: 5.4 Consensus size: 45
2369097 CCGTTGTAAG
* * * *
2369107 TTCAGGAAGATAAGATTTG-TAACTTCAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCTAACTTTAAACTGCTCCACTGCAAC
* * * * *
2369151 CTCAGGGAGATAAGATTTGTAGCTTCAATCTTTAATCTGTTCCACTCCAAC
1 TTCAGGGAGATAAGA--T-TCGC-T-AA-CTTTAAACTGCTCCACTGCAAC
* * * *
2369202 TTTAGGGAAATAAGATTTG-TAACTTGTAGCTTTAATCTGTTCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCTAACTT-TA-----AA-CTGCTCCACTGCAAC
* * * *
2369253 TTCAGGGAAATAAGATTCGCTATCTTTAAACTGCTCCATTGTAAC
1 TTCAGGGAGATAAGATTCGCTAACTTTAAACTGCTCCACTGCAAC
* * *
2369298 TTTAGGTAGATAAGATTCG-TAACTTTAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCTAACTTTAAACTGCTCCACTGCAAC
2369342 TTCAGGGAGATAAGATTCGC
1 TTCAGGGAGATAAGATTCGC
2369362 CACGATGACT
Statistics
Matches: 168, Mismatches: 27, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
44 54 0.32
45 32 0.19
46 4 0.02
47 2 0.01
48 2 0.01
49 2 0.01
50 3 0.02
51 64 0.38
52 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
TTCAGGGAGATAAGATTCGCTAACTTTAAACTGCTCCACTGCAAC
Found at i:2369359 original size:44 final size:45
Alignment explanation
Indices: 2368860--2369361 Score: 230
Period size: 44 Copynumber: 10.8 Consensus size: 45
2368850 CGCTTCAATT
* * **
2368860 TGCTCCACTGCAACTTTAGGGAGATGAGATT-TATAACTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATC
* *
2368904 TGTTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAA-TTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTAACTTT-AATC
* * * * *
2368948 TACTCCACTGTAACTTCAGGGAGATAAGGTTTGTAGCTTGTAACTTTAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAA-G-AT-TCGC---TAACTTTAATC
** * * * * *
2368999 TATTTCACTGCAACTTTAGGGAAATAAGACTT-GTTATGGTAGATTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTA----A-CTTTAATC
*** * * * ** * *
2369049 CAATCCACTGCAACTTCAGAGG-TATAGGATTTG-TCGCTTCAATT
1 TGCTCCACTGCAACTTCAG-GGAGATAAGATTCGCTAACTTTAATC
* ** * * * * *
2369093 TACTCCGTTGTAAGTTCAGGAAGATAAGATTTG-TAACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATC
* *
2369137 TGCTCCACTGCAACCTCAGGGAGATAAGATTTGTAGCTTCAATCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--T-TCGC-T-AA-CTTTAATC
* * * * * *
2369188 TGTTCCACTCCAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCG---C---TAACTTTAATC
* * * *
2369239 TGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAAAC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATC
* * * *
2369284 TGCTCCATTGTAACTTTAGGTAGATAAGATTCG-TAACTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATC
2369328 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
2369362 CACGATGACT
Statistics
Matches: 350, Mismatches: 75, Indels: 65
0.71 0.15 0.13
Matches are distributed among these distances:
43 4 0.01
44 151 0.43
45 42 0.12
46 2 0.01
47 3 0.01
48 4 0.01
49 7 0.02
50 31 0.09
51 101 0.29
52 4 0.01
53 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATC
Done.