Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 102 of 290
Found at i:35015424 original size:41 final size:41
Alignment explanation
Indices: 35015367--35015457 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
35015357 TTAACTTTTT
35015367 TAGGCTCAAGGTTTGTAATGAGGTTCATCAAGAAGTGTTAA
1 TAGGCTCAAGGTTTGTAATGAGGTTCATCAAGAAGTGTTAA
* *
35015408 TAGGCTCAAGTTTTGTAATGAGGTTTATCAAGAAGTGTTAA
1 TAGGCTCAAGGTTTGTAATGAGGTTCATCAAGAAGTGTTAA
35015449 TAGGCTCAA
1 TAGGCTCAA
35015458 AATTTGGTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGGCTCAAGGTTTGTAATGAGGTTCATCAAGAAGTGTTAA
Found at i:35017836 original size:27 final size:28
Alignment explanation
Indices: 35017796--35017962 Score: 186
Period size: 27 Copynumber: 6.2 Consensus size: 28
35017786 GGATAAGTTG
*
35017796 TAGAGTTACCGAAATACCCCTGTAAGG-
1 TAGAATTACCGAAATACCCCTGTAAGGA
** * *
35017823 TAGAATTATTGAAATACCCCTAT-AGGG
1 TAGAATTACCGAAATACCCCTGTAAGGA
*
35017850 TAGAATTATCGAAATACCCCTGT-AGGA
1 TAGAATTACCGAAATACCCCTGTAAGGA
35017877 TAGAATTACCGAAATA-CCCT-TATAGGA
1 TAGAATTACCGAAATACCCCTGTA-AGGA
* * *
35017904 TAGAATTACCAAAATACCCTTGT-AGGG
1 TAGAATTACCGAAATACCCCTGTAAGGA
*
35017931 TAGAAATACCGAAATACCCCTGT-AGGA
1 TAGAATTACCGAAATACCCCTGTAAGGA
35017958 TAGAA
1 TAGAA
35017963 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 7 0.06
27 108 0.90
28 3 0.03
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (28 bp):
TAGAATTACCGAAATACCCCTGTAAGGA
Found at i:35017881 original size:54 final size:53
Alignment explanation
Indices: 35017796--35017962 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 53
35017786 GGATAAGTTG
* ** *
35017796 TAGAGTTACCGAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGT-AGGTAGAATTACCGAAATACCCCTATAGGA
* *
35017850 TAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTATAGGA
1 TAGAATTACCGAAATACCCCTGTAGG-TAGAATTACCGAAATACCCCTATAGGA
* * * *
35017904 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTATAGGA
35017958 TAGAA
1 TAGAA
35017963 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 3 0.03
54 94 0.95
55 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (53 bp):
TAGAATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGGA
Found at i:35017944 original size:81 final size:81
Alignment explanation
Indices: 35017796--35017962 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
35017786 GGATAAGTTG
* *** * *
35017796 TAGAGTTACCGAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTATCG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGGTAGAAATACCG
35017861 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* *
35017877 TAGAATTACCGAAATA-CCCT-TATAGGATAGAATTACCAAAATACCCTTGTAGGGTAGAAATAC
1 TAGAATTACCGAAATACCCCTGTA-AGG-TAGAATTACCAAAATACCCCTATAGGGTAGAAATAC
35017940 CGAAATACCCCTGTAGGA
64 CGAAATACCCCTGTAGGA
35017958 TAGAA
1 TAGAA
35017963 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 7 0.09
81 67 0.88
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTATAGGGTAGAAATACCG
AAATACCCCTGTAGGA
Found at i:35026313 original size:27 final size:26
Alignment explanation
Indices: 35026247--35026313 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
35026237 AGCTACCAGA
35026247 AACAGTAAATGTGGCAAAGCCACGAGT
1 AACAGT-AATGTGGCAAAGCCACGAGT
* * *
35026274 ATCAGTAGTTGTGGCAAAGCCACTAGT
1 AACAGTA-ATGTGGCAAAGCCACGAGT
35026301 AACAGTGAATGTG
1 AACAGT-AATGTG
35026314 ACATAGTCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (26 bp):
AACAGTAATGTGGCAAAGCCACGAGT
Found at i:35026445 original size:15 final size:16
Alignment explanation
Indices: 35026425--35026458 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35026415 ATCATATATG
*
35026425 TAAATCATA-AGCACA
1 TAAATCATACAGAACA
35026440 TAAATCATACAGAACA
1 TAAATCATACAGAACA
35026456 TAA
1 TAA
35026459 GGACGTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAATCATACAGAACA
Found at i:35026499 original size:27 final size:27
Alignment explanation
Indices: 35026469--35026532 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
35026459 GGACGTAATT
* * * *
35026469 GTCATTTTAGCATATAGGGGTATTACG
1 GTCATTTTACCATAAAGGGGTACTACA
35026496 GTCATTTTACCATAAAGGGGTACTACA
1 GTCATTTTACCATAAAGGGGTACTACA
35026523 GTCATTTTAC
1 GTCATTTTAC
35026533 AAACTGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATAAAGGGGTACTACA
Found at i:35031248 original size:27 final size:27
Alignment explanation
Indices: 35031217--35031394 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35031207 TAAATTGTAC
35031217 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35031244 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35031270 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35031298 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35031326 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35031353 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35031380 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35031395 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35031331 original size:82 final size:81
Alignment explanation
Indices: 35031218--35031373 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35031208 AAATTGTACA
* *
35031218 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35031282 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35031299 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35031364 TGCGAGTTGA
65 TGCGAATTGA
35031374 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35031385 original size:82 final size:81
Alignment explanation
Indices: 35031214--35031394 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35031204 GATTAAATTG
* *
35031214 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35031279 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35031295 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35031359 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35031377 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35031395 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35039285 original size:28 final size:27
Alignment explanation
Indices: 35039228--35039324 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
35039218 TAAATTGTGC
*
35039228 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
35039255 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
35039283 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
35039310 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35039325 GACTTAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 40 0.61
28 26 0.39
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:35039293 original size:55 final size:56
Alignment explanation
Indices: 35039203--35039324 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 56
35039193 GAGATTGGCG
* * *
35039203 CTAAGTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGAGTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATGCAGCACTAAGTGTGCGAGTTGACTATATAGCA
* * *
35039259 CTAAGTGTGCGAGTTT-GATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATGCAGCACTAAGTGTGCGAGTTGACTATATAGCA
*
35039314 CTGAGTGTGCG
1 CTAAGTGTGCG
35039325 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
55 44 0.75
56 15 0.25
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATGCAGCACTAAGTGTGCGAGTTGACTATATAGCA
Found at i:35039335 original size:27 final size:27
Alignment explanation
Indices: 35039228--35039337 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
35039218 TAAATTGTGC
* * *
35039228 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGACTTGAATATAT
* * *
35039255 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
35039283 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
35039310 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
35039337 A
1 A
35039338 TTCTTGAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 45 0.61
28 29 0.39
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:35042977 original size:13 final size:13
Alignment explanation
Indices: 35042959--35042983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35042949 CCATTTTACA
35042959 ACTTTGTAAAATC
1 ACTTTGTAAAATC
35042972 ACTTTGTAAAAT
1 ACTTTGTAAAAT
35042984 ATGTTTATCA
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:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
ACTTTGTAAAATC
Found at i:35046915 original size:45 final size:45
Alignment explanation
Indices: 35046772--35046985 Score: 147
Period size: 45 Copynumber: 4.9 Consensus size: 45
35046762 ATATCGAACA
* * ** * *
35046772 ATGCCAACGTCCTAGACGTGGTCTTACATGCTATCTCATATA--G
1 ATGCCAAAGTCCCAGACGTGGTCTTACATGAAAACACATATATCG
** * *
35046815 ATGCCACTGTCCCAAACAG-GGTCTTACACG-AAACA-A-ATAT-G
1 ATGCCAAAGTCCCAGAC-GTGGTCTTACATGAAAACACATATATCG
* * * * * * *
35046856 ATGTCGATGTCCCAGACATGGTCTTA-TTCGTAACCACATATATCG
1 ATGCCAAAGTCCCAGACGTGGTCTTACAT-GAAAACACATATATCG
*
35046901 ATGCCAAAGTCCCAGACGTGGTCTTACATGAAAACATATATATCG
1 ATGCCAAAGTCCCAGACGTGGTCTTACATGAAAACACATATATCG
* * * **
35046946 ATGCCAACGTCCTAGATGTGGTCTTACACAAAAACACATA
1 ATGCCAAAGTCCCAGACGTGGTCTTACATGAAAACACATA
35046986 GCATAGTCCT
Statistics
Matches: 132, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.02
41 23 0.17
42 6 0.05
43 24 0.18
44 5 0.04
45 70 0.53
46 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGCCAAAGTCCCAGACGTGGTCTTACATGAAAACACATATATCG
Found at i:35051157 original size:43 final size:43
Alignment explanation
Indices: 35051094--35051260 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
35051084 AGCTTGTACA
* * *
35051094 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATTG
* * * * *
35051136 ATGCCACTGTCCCAGACATGGTCTAACACT-AAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACA-TGTAATCACATATTG
* **
35051179 ATGCCAATGTCCCAGACATGGTCTTAAATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-TG
* *
35051222 ATGTCAATGTCCCAGACATGGTCTTACATGTACTCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
35051261 CTCGGTAACC
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 93 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATTG
Found at i:35060481 original size:55 final size:55
Alignment explanation
Indices: 35060422--35060556 Score: 191
Period size: 55 Copynumber: 2.5 Consensus size: 55
35060412 CTACCAAAAC
* *
35060422 AACACGGGCGTGCGACACGCCCGTGCCTGGAAACCGTG-GTCGAACCTGTCACATT
1 AACACGGGCGTGCGACACGCCCGTGCCTGGAAACCGTGCCT-GAACCTGTCAAATT
* * * *
35060477 AACACGAGCGTGCAACACGCCCGTGCCTTGAACCCGTGCCTGAACCTGTCAAATT
1 AACACGGGCGTGCGACACGCCCGTGCCTGGAAACCGTGCCTGAACCTGTCAAATT
*
35060532 AACACGGGCGTTCGACACGCCCGTG
1 AACACGGGCGTGCGACACGCCCGTG
35060557 TCAAGCACTC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
55 69 0.99
56 1 0.01
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCGTGCCTGGAAACCGTGCCTGAACCTGTCAAATT
Found at i:35064877 original size:27 final size:27
Alignment explanation
Indices: 35064844--35064917 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
35064834 TGGATAAGTT
35064844 GTAGAATTACTGAAATACCCCTATAAG
1 GTAGAATTACTGAAATACCCCTATAAG
* * *
35064871 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTATAAG
* *
35064898 GTAAAATTATTGAAATACCC
1 GTAGAATTACTGAAATACCC
35064918 TTGTGGGGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTATAAG
Found at i:35064926 original size:27 final size:27
Alignment explanation
Indices: 35064848--35064933 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
35064838 TAAGTTGTAG
* * * *
35064848 AATTACTGAAATACCCCTATAAGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAA
**
35064875 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAA
* *
35064902 AATTATTGAAATACCCTTGTGGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAA
35064929 AATTA
1 AATTA
35064934 CCATTATGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAA
Found at i:35065138 original size:27 final size:26
Alignment explanation
Indices: 35065094--35065145 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35065084 CTCGCTGTAA
*
35065094 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
35065121 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
35065146 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:35073417 original size:46 final size:44
Alignment explanation
Indices: 35073314--35073428 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 44
35073304 TATCCACGCT
* * * *
35073314 GATGCCATGTCCCAGACATGTCTTACATTGACACTTCTCGTAGCC
1 GATG-CATGTCCCAGACATGTCTTCCACTGACACATCTCGTAGCA
* *
35073359 GATGTATGTCCCAGACATGTCTTCCACTGGCTTACATCTCG-AGGCA
1 GATGCATGTCCCAGACATGTCTTCCACTGAC--ACATCTCGTA-GCA
*
35073405 GATGCATGTCCCAAACATGTCTTC
1 GATGCATGTCCCAGACATGTCTTC
35073429 ACTAGCTCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 23 0.39
45 5 0.08
46 31 0.53
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTCCACTGACACATCTCGTAGCA
Found at i:35076398 original size:140 final size:140
Alignment explanation
Indices: 35076146--35076413 Score: 500
Period size: 140 Copynumber: 1.9 Consensus size: 140
35076136 GGGGAAAGTC
* *
35076146 AAAAATAGTTGAATAGCCGTTCTTTTTCGTTCACTCCTGTATGAGGTAAGTCGATATACAAATAT
1 AAAAATAGTTGAATAGCCGTTCTTTTTCGTTCACTCCTGTACGAGGTAAGTCGATATACAAATAA
*
35076211 ATGTGTTTTGAATTGAATTATTATTGCTTATATGCTACTGAATAGTGATGGATAGCTATTTGACC
66 ATGTGTTTTGAATTGAATTATTATTGCTTATATGCTACTGAATAGTGATGAATAGCTATTTGACC
35076276 TAACTATTTG
131 TAACTATTTG
*
35076286 AAAAATAGTTGAATAGCCGTTCTTTTTCGTTCATTCCTGTACGAGGTAAGTCGATATACAAATAA
1 AAAAATAGTTGAATAGCCGTTCTTTTTCGTTCACTCCTGTACGAGGTAAGTCGATATACAAATAA
35076351 ATGTGTTTTGAATTGAATTATTATTGCTTATATGCTACTGAATAGTGATGAATAGCTATTTGA
66 ATGTGTTTTGAATTGAATTATTATTGCTTATATGCTACTGAATAGTGATGAATAGCTATTTGA
35076414 GTTGAATATG
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (140 bp):
AAAAATAGTTGAATAGCCGTTCTTTTTCGTTCACTCCTGTACGAGGTAAGTCGATATACAAATAA
ATGTGTTTTGAATTGAATTATTATTGCTTATATGCTACTGAATAGTGATGAATAGCTATTTGACC
TAACTATTTG
Found at i:35079839 original size:46 final size:46
Alignment explanation
Indices: 35079766--35079892 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
35079756 TGATATGTGT
* *
35079766 GCTAGTGTAAGACATGTCTGAGG-CATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTG-GGACATGCATCGGCCACTA-GACGAGA
* *
35079812 GCTAGCGTAAGACATGTCTGGGACATGCATCAG-CACTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACT-AGACGAGA
*
35079858 GCTAGTGTAAGACATCTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
35079893 TCAAGATATA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
45 5 0.07
46 63 0.90
47 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACTAGACGAGA
Found at i:35080012 original size:93 final size:93
Alignment explanation
Indices: 35079911--35080123 Score: 300
Period size: 93 Copynumber: 2.3 Consensus size: 93
35079901 TACAAGCTAG
* * * *
35079911 TGTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTTAGTGTCAGACCTGTCTAGGACAT
1 TGTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTAGGACAT
* *
35079976 GGCATCGACACCAATAGATAAGAGTCAA
66 GGCATCAACACCAATAGATAAGAGCCAA
* * * *
35080004 TGTAAGACCTGTCTGGGACATGGCATCAACTTTTTGTGTGTCAGTGTAAGATCTGTTTGGGACAT
1 TGTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTAGGACAT
* * *
35080069 GGCATCAACACCGATAGATGAGAGCCAG
66 GGCATCAACACCAATAGATAAGAGCCAA
*
35080097 TGAAAGACCTGTCTGGGACATGGCATC
1 TGTAAGACCTGTCTGGGACATGGCATC
35080124 GGCCTCAATA
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (93 bp):
TGTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTAGGACAT
GGCATCAACACCAATAGATAAGAGCCAA
Found at i:35080067 original size:44 final size:44
Alignment explanation
Indices: 35079909--35080077 Score: 167
Period size: 44 Copynumber: 3.7 Consensus size: 44
35079899 TATACAAGCT
* * *
35079909 AGTGTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTT
1 AGTGTAAGACCTGTCTAGGACATGGCATCAACTTATTGTGTGTC
* ** * *
35079953 AGTGTCAGACCTGTCTAGGACATGGCATCGACACCAATAGATAAGAGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATC-A-ACTTATTG-T--GTGTC
* * *
35080002 AATGTAAGACCTGTCTGGGACATGGCATCAACTTTTTGTGTGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAACTTATTGTGTGTC
* * *
35080046 AGTGTAAGATCTGTTTGGGACATGGCATCAAC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAAC
35080078 ACCGATAGAT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
44 60 0.59
45 1 0.01
46 5 0.05
47 5 0.05
48 1 0.01
49 29 0.29
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCAACTTATTGTGTGTC
Found at i:35080118 original size:49 final size:47
Alignment explanation
Indices: 35079909--35080172 Score: 182
Period size: 49 Copynumber: 5.6 Consensus size: 47
35079899 TATACAAGCT
* * * * * * *
35079909 AGTGTAAGACCTGTCTAGGACATGGTATCA-A-C-TTGTTGTGTGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCACACCATAGATGAGAGTC
* * *
35079953 AGTGTCAGACCTGTCTAGGACATGGCATCGACACCAATAGATAAGAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-ACACC-ATAGATGAGAGTC
* *** * *
35080002 AATGTAAGACCTGTCTGGGACATGGCATCA-A-C-TTTTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCACACCATAGATGAGAGTC
* * *
35080046 AGTGTAAGATCTGTTTGGGACATGGCATCAACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-ACACC-ATAGATGAGAGTC
* * * *
35080095 AGTGAAAGACCTGTCTGGGACATGGCATCGGC-CTCAATAAATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-ACAC-C-ATAGATGAGAGTC
* * *
35080144 AATGTAAGACCTATCTAGGACATGGCATC
1 AGTGTAAGACCTGTCTGGGACATGGCATC
35080173 GACTTTGATG
Statistics
Matches: 170, Mismatches: 39, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
44 59 0.35
45 2 0.01
46 3 0.02
47 3 0.02
48 2 0.01
49 101 0.59
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCACACCATAGATGAGAGTC
Found at i:35083711 original size:20 final size:21
Alignment explanation
Indices: 35083686--35083725 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35083676 CTCTTGAAAC
35083686 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
* *
35083706 AGGGCAACATGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
35083726 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:35085001 original size:49 final size:48
Alignment explanation
Indices: 35084929--35085089 Score: 216
Period size: 49 Copynumber: 3.3 Consensus size: 48
35084919 ATCAAGTCAA
*
35084929 ACATGGTCTTACACTAACTATTGAAATCAAGGCCGACGCCATGTCCCAG
1 ACATGGTCTTACACTAACTATTGAAATC-AGGCCGATGCCATGTCCCAG
*
35084978 ACATGGTCTTACACTAACTATTGAAATCGAGGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTAACTATTGAAATC-AGGCCGATGCCATGTCCCAG
* * * *
35085027 ACATGGTCTTACACTAGCT-TTCACATATCTGTGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTAACTATTGA-A-ATCAG-GCCGATGCCATGTCCCAG
35085077 ACATGGTCTTACA
1 ACATGGTCTTACA
35085090 TTGACACATC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
48 3 0.03
49 66 0.65
50 32 0.32
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
ACATGGTCTTACACTAACTATTGAAATCAGGCCGATGCCATGTCCCAG
Found at i:35085162 original size:46 final size:46
Alignment explanation
Indices: 35085012--35085179 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
35085002 AATCGAGGCT
* * * *
35085012 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTGTGCC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGC-TT-ACATCTC-GAGCC
* * *
35085062 GATGCCATGTCCCAAACATGGTCTTACATTGAC--ACATCTCGTAGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCG-AGCC
* *
35085108 GATACATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGA-GCC
*
35085154 AATGCATGTCCCAAACAT-GTCTTACA
1 GATGCATGTCCCAAACATGGTCTTACA
35085180 ATGTAATGCC
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 44 0.44
50 29 0.29
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGAGCC
Found at i:35085550 original size:26 final size:26
Alignment explanation
Indices: 35085521--35085619 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
35085511 ATTGATAAAA
*
35085521 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
35085547 GGTTAGGTAAATATTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
35085573 GGTTAGCTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
35085599 GTTTAGGTAAATGTTCCATGA
1 GGTTAGGTAAATGTTCCATGA
35085620 CGGGCATTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:35095437 original size:50 final size:47
Alignment explanation
Indices: 35095319--35095536 Score: 184
Period size: 49 Copynumber: 4.6 Consensus size: 47
35095309 GTATAAAGCT
* * *
35095319 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCGA-A-ATCGAGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGA-TATC-ACATATCG-TGCC
* *
35095368 GACGCCATGTCCCAGACATGGTCTTACACTAGATATCACATATCCGTTCC
1 GATGCCATGTCCCAGACAT-GTCTTACACT-GATATCACATAT-CGTGCC
*
35095418 GATGCCATGTCCCAGACATGTCTTACACTG--A-CACATCTCGTAGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGATATCACATATCGT-GCC
* * *
35095463 GATG-CATGTCCCAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACT-GATATCACATATCG-TGCC
* *
35095509 GATG-CATATCCCAAACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
35095537 AGCTCTCGTC
Statistics
Matches: 148, Mismatches: 11, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
44 27 0.18
45 13 0.09
46 38 0.26
48 2 0.01
49 43 0.29
50 23 0.16
51 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGATATCACATATCGTGCC
Found at i:35095478 original size:44 final size:44
Alignment explanation
Indices: 35095373--35095536 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 44
35095363 AGGCTGACGC
* *
35095373 CATGTCCCAGACATGGTCTTACACTAGATATCACATATCCGT-TCCGATG
1 CATGTCCCAGACAT-GTCTTACACT-G--A-CACATCT-CGTAGCCGATG
35095422 CCATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
*
35095467 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCGATG
* *
35095513 CATATCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
35095537 AGCTCTCGTC
Statistics
Matches: 105, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
44 29 0.28
45 13 0.12
46 38 0.36
48 1 0.01
49 10 0.10
50 14 0.13
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:35095521 original size:46 final size:46
Alignment explanation
Indices: 35095416--35095629 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 46
35095406 CATATCCGTT
* *
35095416 CCGATGCCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCG-AGG
35095461 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGG
* * * * * *
35095507 CCGATGCATATCCCAAACATGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGG
* * * * * *
35095553 CCAATACCATATCCCAGACATGTTCTTACATTGGCTCTCATAAT-GTGG
1 CCGAT-GCATGTCCCAGACATG-TCTTACACTGGCTCTCAT-CTCGAGG
* *
35095601 CCGATGCATGTGCCAGACATGCCTTACAC
1 CCGATGCATGTCCCAGACATGTCTTACAC
35095630 CAGTACACAA
Statistics
Matches: 137, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
44 24 0.18
45 8 0.06
46 56 0.41
47 28 0.20
48 20 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGG
Found at i:35104931 original size:34 final size:34
Alignment explanation
Indices: 35104888--35104954 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
35104878 AATGAGTGAA
* * *
35104888 TTTCATCATGTTAGATCAATAAAATCGAGATTTT
1 TTTCATCATGCTAGATCAAGAAAATCAAGATTTT
35104922 TTTCATCATGCTAGATCAAGAAAATCAAGATTT
1 TTTCATCATGCTAGATCAAGAAAATCAAGATTT
35104955 GGGCTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (34 bp):
TTTCATCATGCTAGATCAAGAAAATCAAGATTTT
Found at i:35105517 original size:44 final size:44
Alignment explanation
Indices: 35105467--35105629 Score: 173
Period size: 44 Copynumber: 3.6 Consensus size: 44
35105457 ACAAGCTAGA
* *
35105467 GTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGT
** * * * * *
35105511 GTAAGACCTGTCTGGGACATGGCATTGACGCCGATAGATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCA-T--CAAC--TTGTTGTGTGTCAGT
* * *
35105560 GTAAAACCTATCTGGGACATGGCATCAGCTTGTTGTGTGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGT
35105604 GTAAGACCTGTCTGGGACATGGCATC
1 GTAAGACCTGTCTGGGACATGGCATC
35105630 GACACCGACA
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
44 56 0.60
45 1 0.01
46 2 0.02
47 2 0.02
48 1 0.01
49 32 0.34
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (44 bp):
GTAAGACCTGTCTGGGACATGGCATCAACTTGTTGTGTGTCAGT
Found at i:35105574 original size:49 final size:47
Alignment explanation
Indices: 35105324--35105723 Score: 207
Period size: 49 Copynumber: 8.5 Consensus size: 47
35105314 TATGTGTGCT
* * * * *
35105324 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCAGAT-TATAAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCC-GATAGATGAGAGCC
* * * * *
35105370 AGTGTAAGACATGTCTGGGACAT-GCAT-TGAC-ATTGAGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCGA-T-AGATGAGAGCC
* * * * * *
35105416 AGTGTAAGACAC-GTCTGGGACCT-GCATCGACCTCGAGATAT-ACAAGCT
1 AGTGTAAGAC-CTGTCTGGGACATGGCATC-AGC-CGATAGATGA-GAGCC
* * * * * * * * *
35105464 AGAGTAAGACCTGTCTAGGACATGGTATCA-AC--TTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCGATAGATGAGAGCC
*
35105508 AGTGTAAGACCTGTCTGGGACATGGCATTGACGCCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCA-TCA-GCCGATAGATGAGAGCC
* * * * * * *
35105557 AGTGTAAAACCTATCTGGGACATGGCATCAG-C--TTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCGATAGATGAGAGCC
* *
35105601 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGACAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-A-GCCGATAGATGAGAGCC
* * * * *
35105650 AGTGTAAGATCTGTCTAGGACATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAG-C-CGATAGATGAGAGCC
* *
35105699 AGCGTAAAACCTGTCTGGGACATGG
1 AGTGTAAGACCTGTCTGGGACATGG
35105724 AATTTACTTT
Statistics
Matches: 262, Mismatches: 68, Indels: 45
0.70 0.18 0.12
Matches are distributed among these distances:
43 1 0.00
44 61 0.23
45 5 0.02
46 58 0.22
47 5 0.02
48 29 0.11
49 102 0.39
50 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCGATAGATGAGAGCC
Found at i:35105598 original size:93 final size:93
Alignment explanation
Indices: 35105467--35105681 Score: 349
Period size: 93 Copynumber: 2.3 Consensus size: 93
35105457 ACAAGCTAGA
* *
35105467 GTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
1 GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
* * *
35105532 GCATTGACGCCGATAGATGAGAGCCAGT
66 GCATCGACACCGACAGATGAGAGCCAGT
* * *
35105560 GTAAAACCTATCTGGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
1 GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
35105625 GCATCGACACCGACAGATGAGAGCCAGT
66 GCATCGACACCGACAGATGAGAGCCAGT
*
35105653 GTAAGATCTGTCTAGGACATGGCATCAGC
1 GTAAGACCTGTCTAGGACATGGCATCAGC
35105682 CTCGATATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 110 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (93 bp):
GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
GCATCGACACCGACAGATGAGAGCCAGT
Found at i:35105665 original size:142 final size:146
Alignment explanation
Indices: 35105507--35105771 Score: 346
Period size: 142 Copynumber: 1.8 Consensus size: 146
35105497 TGTTGTGTGT
* * * *
35105507 CAGTGTAAGACCTGTCTGGGACATGGCAT-TGACGC-CGATAGATGAGAGCCAGTGTAAAACCTA
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAG-C-CTCGATAGATGAAAGCCAGCGTAAAACCTA
* * *
35105570 TCTGGGACATGGCA-TCAGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCATC
64 TCTGGGACATGGAATTCA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
35105630 GACACCGACAGATGAGAGC
128 GACACCGACAGATGAGAGC
* * * *
35105649 CAGTGTAAGATCTGTCTAGGACATGGCATCAGCCTCGATATATGAAAGTCAGCGTAAAACCTGTC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAAGCCAGCGTAAAACCTATC
*
35105714 TGGGACATGGAATTTACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGG
66 TGGGACATGGAATTCACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGG
35105772 TGTCGGCACC
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
141 1 0.01
142 65 0.62
143 10 0.10
144 1 0.01
145 13 0.12
146 14 0.13
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (146 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAAGCCAGCGTAAAACCTATC
TGGGACATGGAATTCACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
ACCGACAGATGAGAGC
Found at i:35107686 original size:18 final size:19
Alignment explanation
Indices: 35107663--35107700 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35107653 GTTAAATGTC
*
35107663 CTAAGG-ACACGGGCTTGT
1 CTAAGGCACACGGGCGTGT
35107681 CTAAGGCACACGGGCGTGT
1 CTAAGGCACACGGGCGTGT
35107700 C
1 C
35107701 CCTATGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.18
Consensus pattern (19 bp):
CTAAGGCACACGGGCGTGT
Found at i:35111752 original size:9 final size:9
Alignment explanation
Indices: 35111738--35111775 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
35111728 AAAGAGTAAG
*
35111738 TCTGTTAGA
1 TCTGATAGA
*
35111747 TCTGTTAGA
1 TCTGATAGA
35111756 TCTGATAGA
1 TCTGATAGA
35111765 TCTGATAGA
1 TCTGATAGA
35111774 TC
1 TC
35111776 GGTAAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (9 bp):
TCTGATAGA
Found at i:35117945 original size:11 final size:11
Alignment explanation
Indices: 35117931--35117980 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
35117921 TTTCAATATT
35117931 CTCTCAAATTC
1 CTCTCAAATTC
35117942 CTCTCAAA-T-
1 CTCTCAAATTC
*
35117951 CTCTCAAATTT
1 CTCTCAAATTC
*
35117962 CTCTTAAATTC
1 CTCTCAAATTC
35117973 CTCTCAAA
1 CTCTCAAA
35117981 ACTCTCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:35117952 original size:31 final size:31
Alignment explanation
Indices: 35117929--35117987 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
35117919 TCTTTCAATA
35117929 TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
1 TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
* *
35117960 TTCTCTTAAATTCCTCTCAAAACTCTCA
1 TTCTCTCAAATTCCTCTCAAATCTCTCA
35117988 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (31 bp):
TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
Found at i:35117955 original size:20 final size:21
Alignment explanation
Indices: 35117923--35117980 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
35117913 CTTCAATCTT
35117923 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
35117945 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
35117965 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
35117981 ACTCTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:35118297 original size:39 final size:39
Alignment explanation
Indices: 35118243--35118319 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
35118233 GATATTGCAA
35118243 TGCTATATCCGTAACATGACTGGTCCTCCATCACCGTTT
1 TGCTATATCCGTAACATGACTGGTCCTCCATCACCGTTT
35118282 TGCTATATCCGTAACATGACTGGTCCTCCATCACCGTT
1 TGCTATATCCGTAACATGACTGGTCCTCCATCACCGTT
35118320 GATAAAGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (39 bp):
TGCTATATCCGTAACATGACTGGTCCTCCATCACCGTTT
Found at i:35120364 original size:116 final size:116
Alignment explanation
Indices: 35120083--35120468 Score: 646
Period size: 116 Copynumber: 3.3 Consensus size: 116
35120073 TATTTGTACA
* *
35120083 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
35120148 TGTAATTTACTTTTATATTTTTTAATAAAATAGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATA-TTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
35120200 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
35120265 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
35120316 AACATTTTAAATATTTTTATATTATTTCATGTGATAATATAAATGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
35120381 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
35120432 AATATTTTGAATATTTTTATATTATTTCATGTGATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
35120469 AATATAAATA
Statistics
Matches: 257, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
116 176 0.68
117 81 0.32
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:35124032 original size:126 final size:126
Alignment explanation
Indices: 35123486--35124024 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
35123476 TCCCAAGTTA
* * *
35123486 TTTCAAAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTGTTGCTGAAAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
35123551 TGCATCCTGCTTGAAGCATTTTTGACACTATTTATGCAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
35123612 TTTCAGAGACCACTGAAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
35123677 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACGCGTCTTGTCCAAATTATTT
66 TGCATCCTGCTTGAAGCATTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * *
35123738 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAATACTTTTGCTGATAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
35123803 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAAACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
35123864 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
35123929 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
*
35123990 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGT
35124025 AGAAGCTTTT
Statistics
Matches: 371, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 1 0.00
126 369 0.99
127 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:35124281 original size:97 final size:99
Alignment explanation
Indices: 35124110--35124309 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 99
35124100 TAAATACCCT
* * * * **
35124110 AAAACCTTAAACCCTAAAATCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 AAAACCATAAACACTAAAATCATAATCTAA-TTTTTTTAAAATTTATAATTAATTTAATCAACAA
*
35124175 ACCCTAAACCCTAATTTATTTAA-TTTTTTCCTTA
65 ACACTAAACCCTAATTTATTTAATTTTTTTCCTTA
*
35124209 AAAACCATAAACACTAAACA-CATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACA
1 AAAACCATAAACACTAAA-ATCATAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACA
*
35124271 AACACTAAACCTTAATTTATTTAATTTTTTTCCTTA
64 AACACTAAACCCTAATTTATTTAATTTTTTTCCTTA
35124307 AAA
1 AAA
35124310 CCCTAAAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
96 3 0.03
97 46 0.52
98 14 0.16
99 25 0.28
100 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.01, T:0.41
Consensus pattern (99 bp):
AAAACCATAAACACTAAAATCATAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
CACTAAACCCTAATTTATTTAATTTTTTTCCTTA
Found at i:35124324 original size:15 final size:16
Alignment explanation
Indices: 35124306--35124347 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
35124296 TTTTTTCCTT
35124306 AAAACCCTAAAATTTA
1 AAAACCCTAAAATTTA
* *
35124322 AAAATCC-AAAATTCTC
1 AAAACCCTAAAATT-TA
35124338 AAAACCCTAA
1 AAAACCCTAA
35124348 CCCTAATTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAACCCTAAAATTTA
Found at i:35125535 original size:3 final size:3
Alignment explanation
Indices: 35125486--35125517 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
35125476 TATATTAATG
*
35125486 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35125518 TAATAGGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:35125548 original size:20 final size:20
Alignment explanation
Indices: 35125505--35125548 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35125495 TTATTATTAT
* *
35125505 TATTATTATTATTTAATAGG
1 TATTATTATTAGTTAATAGA
35125525 TATTATTATTAAGTTAA-AGA
1 TATTATTATT-AGTTAATAGA
35125545 TATT
1 TATT
35125549 TACTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TATTATTATTAGTTAATAGA
Found at i:35125684 original size:170 final size:170
Alignment explanation
Indices: 35125507--35125874 Score: 711
Period size: 170 Copynumber: 2.2 Consensus size: 170
35125497 ATTATTATTA
35125507 TTATTATTATTTAATAGGTATTATTATTAAGTTAAAGATATTTACTAAATTAAATAAATAAAAGA
1 TTATTATTATTTAATAGGTATTATTATTAAGTTAAAGATATTTACTAAATTAAATAAATAAAAGA
35125572 AAGACAAGTGTATGGTAAAAATAAAATACATGCGTAATAAATATTCTACATATAATTATAATACA
66 AAGACAAGTGTATGGTAAAAATAAAATACATGCGTAATAAATATTCTACATATAATTATAATACA
35125637 TGTATGTATTTACTTATTATTTAAGTAAATATTAATATAT
131 TGTATGTATTTACTTATTATTTAAGTAAATATTAATATAT
35125677 TTATTATTATTTAATAGGTATTATTATTAAGTTAAAGATATTTACTAAATTAAATAAATAAAAGA
1 TTATTATTATTTAATAGGTATTATTATTAAGTTAAAGATATTTACTAAATTAAATAAATAAAAGA
35125742 AAGACAAGTGTATGGTAAAAATAAAATACATGCGTAATAAATATTCTACATATAATTATAATACA
66 AAGACAAGTGTATGGTAAAAATAAAATACATGCGTAATAAATATTCTACATATAATTATAATACA
35125807 TGTATGTATTTACTTATTATTTAAGTAAATATTAATATAT
131 TGTATGTATTTACTTATTATTTAAGTAAATATTAATATAT
* *
35125847 TTATTATTATTTAATTGATATTA-TATTA
1 TTATTATTATTTAATAGGTATTATTATTA
35125875 TGAAATAAAT
Statistics
Matches: 196, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
169 5 0.03
170 191 0.97
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (170 bp):
TTATTATTATTTAATAGGTATTATTATTAAGTTAAAGATATTTACTAAATTAAATAAATAAAAGA
AAGACAAGTGTATGGTAAAAATAAAATACATGCGTAATAAATATTCTACATATAATTATAATACA
TGTATGTATTTACTTATTATTTAAGTAAATATTAATATAT
Found at i:35125718 original size:20 final size:20
Alignment explanation
Indices: 35125668--35125718 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
35125658 TAAGTAAATA
* *
35125668 TTAATATAT-TTATTATTAT
1 TTAATAGATATTATTATTAG
*
35125687 TTAATAGGTATTATTATTAAG
1 TTAATAGATATTATTATT-AG
35125708 TTAA-AGATATT
1 TTAATAGATATT
35125719 TACTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 14 0.54
21 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTAATAGATATTATTATTAG
Found at i:35126781 original size:12 final size:12
Alignment explanation
Indices: 35126764--35126795 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35126754 AATTATTTAT
35126764 TATAATTAATAC
1 TATAATTAATAC
*
35126776 TATAATTAATAG
1 TATAATTAATAC
35126788 TATAATTA
1 TATAATTA
35126796 TTTTAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (12 bp):
TATAATTAATAC
Found at i:35127025 original size:24 final size:25
Alignment explanation
Indices: 35126992--35127038 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
35126982 GAAATGGATT
35126992 AATTTGATATAT-AATGAATTTATTG
1 AATTTGATAT-TGAATGAATTTATTG
*
35127017 AATTT-ATATTGATTGAATTTAT
1 AATTTGATATTGAATGAATTTAT
35127039 ATTGATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.70
25 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (25 bp):
AATTTGATATTGAATGAATTTATTG
Found at i:35127033 original size:15 final size:15
Alignment explanation
Indices: 35127013--35127070 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
35127003 TAATGAATTT
35127013 ATTGAATTTATATTG
1 ATTGAATTTATATTG
35127028 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
35127043 ATTGAATTGA-ATTG
1 ATTGAATTTATATTG
35127057 AATTGAATTTATAT
1 -ATTGAATTTATAT
35127071 GATATATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
14 4 0.10
15 33 0.85
16 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:35127053 original size:5 final size:5
Alignment explanation
Indices: 35127013--35127065 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
35127003 TAATGAATTT
* *
35127013 ATTGA ATTTA TATTG- ATTGA ATTTA TATTG- ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA -ATTGA ATTGA ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA
35127063 ATT
1 ATT
35127066 TATATGATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 8 0.20
5 26 0.65
6 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (5 bp):
ATTGA
Found at i:35127634 original size:18 final size:19
Alignment explanation
Indices: 35127613--35127653 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
35127603 AATGAAATGA
35127613 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
35127631 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
35127650 GAAA
1 GAAA
35127654 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:35129054 original size:25 final size:26
Alignment explanation
Indices: 35129006--35129056 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
35128996 TTGGCCATCG
35129006 AAAAGAAAGAGGAAAGAAAAAAAAAT
1 AAAAGAAAGAGGAAAGAAAAAAAAAT
*
35129032 AAAAGAGAAGA-G-AAGAAACAAAAAT
1 AAAAGA-AAGAGGAAAGAAAAAAAAAT
35129057 TCCTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 7 0.30
27 4 0.17
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (26 bp):
AAAAGAAAGAGGAAAGAAAAAAAAAT
Found at i:35135980 original size:24 final size:24
Alignment explanation
Indices: 35135909--35135982 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
35135899 ACAGTATACT
35135909 TAAATATTATTCTT--AAAATATA
1 TAAATATTATTCTTAAAAAATATA
* * *
35135931 TTAAT-TGATT-TTAAAATCATAT-
1 TAAATATTATTCTTAAAA-AATATA
35135953 TAAATATTATTCTTAAAAAATATA
1 TAAATATTATTCTTAAAAAATATA
35135977 TAAATA
1 TAAATA
35135983 GAAATAGATG
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 10 0.25
23 12 0.30
24 12 0.30
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (24 bp):
TAAATATTATTCTTAAAAAATATA
Found at i:35136136 original size:20 final size:21
Alignment explanation
Indices: 35136096--35136141 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
35136086 ATTTTTATAA
35136096 AAAAT-TTTAAAAAATAAATT
1 AAAATATTTAAAAAATAAATT
* *
35136116 ATAATATTTATAAAA-AAATT
1 AAAATATTTAAAAAATAAATT
35136136 AAAATA
1 AAAATA
35136142 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATATTTAAAAAATAAATT
Found at i:35139203 original size:48 final size:47
Alignment explanation
Indices: 35139131--35139428 Score: 221
Period size: 48 Copynumber: 6.3 Consensus size: 47
35139121 ACTGGCAGGG
* *
35139131 TATGGCATCGGCATCGAGATGAGATCCCGTGTAAGACCATATTTGGGA
1 TATGGCATCGGCATC-ATATGAGATCCCGTGTAAGACCATATCTGGGA
* * * **
35139179 TATGGCATCGGCATCATTAAGAGATCCCGTATAAGACTACGTCTGGGA
1 TATGGCATCGGCATCA-TATGAGATCCCGTGTAAGACCATATCTGGGA
* * *
35139227 CATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCATATCTAGGA
1 TATGGCATCGGCATCA-TATGAGATCCCGTGTAAGACCATATCTGGGA
* * * * * * *
35139275 TATGGCATTGGAATCGATATGAGGTCCCGTATAAGACCATGTTTGGAA
1 TATGGCATCGGCATC-ATATGAGATCCCGTGTAAGACCATATCTGGGA
* * * * *
35139323 CATGGCATCGGCACCGTTATGAGA-CTTCGTGTAAGACCATAGCTGGG-
1 TATGGCATCGGCATC-ATATGAGATC-CCGTGTAAGACCATATCTGGGA
* * * * **
35139370 -CT-G--TTGGCATCGATGTGAGATCCCATGTAAGACCACGTCTGGGA
1 TATGGCATCGGCATC-ATATGAGATCCCGTGTAAGACCATATCTGGGA
* *
35139414 CATGGCATTGGCATC
1 TATGGCATCGGCATC
35139429 TTTTCATGTG
Statistics
Matches: 192, Mismatches: 49, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
43 29 0.15
44 1 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 155 0.81
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (47 bp):
TATGGCATCGGCATCATATGAGATCCCGTGTAAGACCATATCTGGGA
Found at i:35139303 original size:96 final size:95
Alignment explanation
Indices: 35139132--35139428 Score: 313
Period size: 96 Copynumber: 3.1 Consensus size: 95
35139122 CTGGCAGGGT
* *
35139132 ATGGCATCGGCATCGAG-ATGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCGGCATC-A
1 ATGGCATCGGCATC-AGTATGAGATCCCGTGTAAGACCATATCT-GGATATGGCATTGGCATCGA
* *
35139195 TTAAGAGATCCCGTATAAGACTACGTCTGGGAC
64 -TATGAGATCCCGTATAAGACCACGTCTGGGAC
* *
35139228 ATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCATATCTAGGATATGGCATTGGAATCGAT
1 ATGGCATCGGCATCAGTATGAGATCCCGTGTAAGACCATATCT-GGATATGGCATTGGCATCGAT
* * * *
35139293 ATGAGGTCCCGTATAAGACCATGTTTGGAAC
65 ATGAGATCCCGTATAAGACCACGTCTGGGAC
* * * **
35139324 ATGGCATCGGCA-CCGTTATGAGA-CTTCGTGTAAGACCATAGCTGG-GCT-G--TTGGCATCGA
1 ATGGCATCGGCATCAG-TATGAGATC-CCGTGTAAGACCATATCTGGATATGGCATTGGCATCGA
* * *
35139383 TGTGAGATCCCATGTAAGACCACGTCTGGGAC
64 TATGAGATCCCGTATAAGACCACGTCTGGGAC
*
35139415 ATGGCATTGGCATC
1 ATGGCATCGGCATC
35139429 TTTTCATGTG
Statistics
Matches: 170, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
91 45 0.26
92 1 0.01
93 1 0.01
94 1 0.01
95 7 0.04
96 114 0.67
97 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (95 bp):
ATGGCATCGGCATCAGTATGAGATCCCGTGTAAGACCATATCTGGATATGGCATTGGCATCGATA
TGAGATCCCGTATAAGACCACGTCTGGGAC
Found at i:35152847 original size:39 final size:39
Alignment explanation
Indices: 35152812--35153200 Score: 438
Period size: 39 Copynumber: 9.9 Consensus size: 39
35152802 GGATATAGTA
* * * * *
35152812 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * **
35152851 CCAGCATGAAGCCTACGGATCTTAAGTCTTGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*** * *
35152890 CCAGCACGAAGCCTGCGGGTTTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * * *
35152930 CCAGCACGAAGCCTGTAGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
35152970 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
35153009 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
35153049 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
*
35153089 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
35153128 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
35153167 CCAGCACAAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
35153201 TACATCAAAT
Statistics
Matches: 307, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
39 169 0.55
40 137 0.45
41 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:35152994 original size:119 final size:119
Alignment explanation
Indices: 35152851--35153182 Score: 477
Period size: 119 Copynumber: 2.8 Consensus size: 119
35152841 GAATATAGTA
* * * ** *
35152851 CCAGCATGAAGCCTACGGATCTTAAGTCTTGATACAATTCCAGCACGAAGCCTGCGGGTTTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
* * *
35152916 GCCCAGATACAATTCCAGCACGAAGCCTGTAGGTCTTTAAGCCCAGATACAATT
66 GCCCGGATACAATTCCAGCACAAAGCCTGCAGGTCTTTAAGCCCAGATACAATT
*
35152970 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
* * * * *
35153035 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
66 GCCCGGATACAATTCCAGCACAAAGCCTGCAGGTCTTTAAGCCCAGATACAATT
* * * *
35153089 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGC-GGACCTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
*
35153153 GTCCGGATACAATTCCAGCACAAAGCCTGC
66 GCCCGGATACAATTCCAGCACAAAGCCTGC
35153183 GGACCTTAAG
Statistics
Matches: 189, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
118 33 0.17
119 156 0.83
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (119 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
GCCCGGATACAATTCCAGCACAAAGCCTGCAGGTCTTTAAGCCCAGATACAATT
Found at i:35153204 original size:119 final size:118
Alignment explanation
Indices: 35152792--35153196 Score: 463
Period size: 119 Copynumber: 3.4 Consensus size: 118
35152782 GCCTACGAGA
* * * * * * * * *
35152792 CTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCA
* * * **
35152857 TGAAGCCTACGGATCTTAAGTCTTGATACAATTCCAGCACGAAGCCTGCGGGT
66 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * * * * * *
35152910 TTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTAGGTCTTTAAG-CCCAGATACAATTCCAG
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTG-CGGACCTTAAGTCCGA-ATACAATTCCAG
*
35152974 CACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGT
64 CACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * * * * * *
35153029 CTTTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGC
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGC-GGACCTTAAGTCCGAATACAATTCCAGC
* * *
35153094 ACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGC-GGA
65 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* *
35153147 CCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCG
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCG
35153197 GATATACATC
Statistics
Matches: 242, Mismatches: 41, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
117 11 0.05
118 64 0.26
119 165 0.68
120 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (118 bp):
CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCA
CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
Found at i:35156720 original size:28 final size:28
Alignment explanation
Indices: 35156680--35156737 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
35156670 ATGCCATATA
*
35156680 TATCACGAACTTGGACCACTCAACAAGT
1 TATCACAAACTTGGACCACTCAACAAGT
35156708 TATCACAAACTTGGACCACTCAACAAGT
1 TATCACAAACTTGGACCACTCAACAAGT
35156736 TA
1 TA
35156738 AGATTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (28 bp):
TATCACAAACTTGGACCACTCAACAAGT
Found at i:35159386 original size:32 final size:32
Alignment explanation
Indices: 35159312--35159387 Score: 120
Period size: 30 Copynumber: 2.4 Consensus size: 32
35159302 TTGGTACTTT
* *
35159312 TTATCATTTCACATAATTAAAGTTGGTATTTG
1 TTATCATTTCACAAAATTAAAGTTGATATTTG
35159344 -T-TCATTTCACAAAATTAAAGTTGATATTTG
1 TTATCATTTCACAAAATTAAAGTTGATATTTG
35159374 TTATCATTTCACAA
1 TTATCATTTCACAA
35159388 TCGTGCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 27 0.68
31 2 0.05
32 11 0.28
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
TTATCATTTCACAAAATTAAAGTTGATATTTG
Found at i:35168053 original size:20 final size:20
Alignment explanation
Indices: 35168020--35168060 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35168010 TGGGATAATG
*
35168020 AATAATTTAGATATTGTATA
1 AATAAATTAGATATTGTATA
* *
35168040 AATAAATTATATATTTTATA
1 AATAAATTAGATATTGTATA
35168060 A
1 A
35168061 TTATACTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AATAAATTAGATATTGTATA
Found at i:35170338 original size:13 final size:13
Alignment explanation
Indices: 35170305--35170348 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
35170295 TTATATGTGA
35170305 TTTTATAAATATAT
1 TTTTAT-AATATAT
*
35170319 TTATTATTATATAT
1 TT-TTATAATATAT
35170333 TTTTATAATATAT
1 TTTTATAATATAT
35170346 TTT
1 TTT
35170349 AGGAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 13 0.48
14 10 0.37
15 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTATAATATAT
Found at i:35171490 original size:15 final size:15
Alignment explanation
Indices: 35171470--35171502 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
35171460 TTTTCAATAG
35171470 TTTCAATTATTTTT-T
1 TTTCAATT-TTTTTCT
35171485 TTTCAATTTTTTTCT
1 TTTCAATTTTTTTCT
35171500 TTT
1 TTT
35171503 ATCTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCAATTTTTTTCT
Found at i:35177604 original size:39 final size:39
Alignment explanation
Indices: 35177524--35177634 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 39
35177514 TTTTACAAAT
* * ** * * *
35177524 TATTTGGTTATAAAGTTGAGTTTTCAGGAGGAATTTGAG
1 TATTTGGTTACAAAGTTGAGTTTCCAATATGAAGTTAAG
*
35177563 TATTTTGTTACAAAGTTGAGTTTCCAATATGAAGTTAAG
1 TATTTGGTTACAAAGTTGAGTTTCCAATATGAAGTTAAG
* * * *
35177602 TATTGGGATACAAAATTGGGTTTCCAATATGAA
1 TATTTGGTTACAAAGTTGAGTTTCCAATATGAA
35177635 TTTGAGTAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (39 bp):
TATTTGGTTACAAAGTTGAGTTTCCAATATGAAGTTAAG
Found at i:35177913 original size:7 final size:7
Alignment explanation
Indices: 35177901--35177925 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35177891 TTAAAAAAAT
35177901 TAATTTA
1 TAATTTA
35177908 TAATTTA
1 TAATTTA
35177915 TAATTTA
1 TAATTTA
35177922 TAAT
1 TAAT
35177926 GGCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATTTA
Found at i:35181023 original size:18 final size:18
Alignment explanation
Indices: 35180983--35181025 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35180973 AAAACTACAA
*
35180983 AAAAATTAAAATAATTTT
1 AAAATTTAAAATAATTTT
35181001 AAAATTTAAAAT-ATTTAT
1 AAAATTTAAAATAATTT-T
35181019 AAAATTT
1 AAAATTT
35181026 CCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTAAAATAATTTT
Found at i:35181034 original size:18 final size:17
Alignment explanation
Indices: 35180984--35181037 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
35180974 AAACTACAAA
*
35180984 AAAATTAAAATAATTT-T
1 AAAATTTAAA-AATTTAT
35181001 AAAATTTAAAATATTTAT
1 AAAATTTAAAA-ATTTAT
*
35181019 AAAATTTCCAAAATTTAT
1 AAAATTT-AAAAATTTAT
35181037 A
1 A
35181038 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 13 0.41
18 15 0.47
19 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTAAAAATTTAT
Found at i:35188889 original size:56 final size:56
Alignment explanation
Indices: 35188803--35188938 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
35188793 ATCATGGCTT
* * *
35188803 CGATATATGTGTGCGATTAATACCATGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
* *
35188859 CGATAAATGTGTGCGAGTAAGACCACGTTTTATATGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
*
35188915 AGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
35188939 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
Found at i:35188958 original size:56 final size:56
Alignment explanation
Indices: 35188804--35188967 Score: 163
Period size: 56 Copynumber: 2.9 Consensus size: 56
35188794 TCATGGCTTC
* * * * ** * * *
35188804 GATATATGTGTGCGATTAATACCATGTTTTATACGTTGGCATCGATATGTGACTCC
1 GATAAATGTGTGCGAGTAAGACCACGTTGGATATGTTAGCATCGATATGTGACTCA
** *
35188860 GATAAATGTGTGCGAGTAAGACCACGTTTTATATGTTGGCATCGATATGTGACTCA
1 GATAAATGTGTGCGAGTAAGACCACGTTGGATATGTTAGCATCGATATGTGACTCA
*
35188916 GATATATGTGTGCGAGTAAGACC-CTGTCTGGGATA-G-TAGCATCGATATGTGA
1 GATAAATGTGTGCGAGTAAGACCAC-GT-T-GGATATGTTAGCATCGATATGTGA
35188968 TTACATGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
55 1 0.01
56 89 0.94
57 2 0.02
58 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (56 bp):
GATAAATGTGTGCGAGTAAGACCACGTTGGATATGTTAGCATCGATATGTGACTCA
Found at i:35209176 original size:46 final size:46
Alignment explanation
Indices: 35209124--35209308 Score: 121
Period size: 46 Copynumber: 4.1 Consensus size: 46
35209114 ACTATTGCTT
*
35209124 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATAC
1 AGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
* * ** * * * *
35209170 AGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGT-C
1 AGGGAGATA-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
* * * * * * *
35209212 AGGGAGGTAAAATCTGCCATCATCGATCTGCTT-CGCTGCCAAATAC
1 AGGGAGATAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATAC
* ** * *
35209258 AGGAAGGCAAGATCTGCAATCCTCAATCTATTCCACTGTCAAATAC
1 AGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
35209304 AGGGA
1 AGGGA
35209309 CAAGATCTGC
Statistics
Matches: 98, Mismatches: 33, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 12 0.12
44 1 0.01
45 20 0.20
46 48 0.49
47 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (46 bp):
AGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
Found at i:35209500 original size:132 final size:132
Alignment explanation
Indices: 35209307--35210061 Score: 1357
Period size: 132 Copynumber: 5.7 Consensus size: 132
35209297 CAAATACAGG
* * * *
35209307 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
35209372 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
35209437 AA
131 AA
* * * *
35209439 GACAAGATCTACCTTCTGCGATCTACTTCGCCACCAATATGGGAAAACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
35209504 TCCACTTCCTACCAATATAGGAAGATAGGATTTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
35209569 AA
131 AA
*
35209571 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
35209636 TCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
35209701 AA
131 AA
*
35209703 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGC
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
35209768 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
35209833 AA
131 AA
*
35209835 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTGCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
35209900 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
35209965 AA
131 AA
*
35209967 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
35210032 TCCACTTCCTACCAATATAGGAAGATAGGA
66 TCCACTTCCTACCAATATAGGAAGATAGGA
35210062 CCTATTTACG
Statistics
Matches: 599, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 599 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:35225052 original size:50 final size:48
Alignment explanation
Indices: 35224889--35225063 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 48
35224879 GCATTGAGAC
* *
35224889 GAGAGCTAGTGTAAGACATGTCTGGGACATGTATCGGGCT-C-GAGATGT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-GG-TACGGATATGT
* * * **
35224937 -A-ACCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACGTATA-AA
1 GAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGTACGGATATGT
* * *
35224983 G-GTGTTAGTGTAAGACCATGTCTGGGACATGACATCAGTACGGATATGT
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGTACGGATATGT
35225032 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACATG
35225064 GCGTTAGCCT
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
46 29 0.29
47 18 0.18
48 25 0.25
49 1 0.01
50 28 0.28
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGTACGGATATGT
Found at i:35225173 original size:46 final size:44
Alignment explanation
Indices: 35225120--35225242 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 44
35225110 TTGGCATGCT
*
35225120 AGTGTAAGACATGTCTGGGACATGTATCGGGCT-CGAGATGTAACCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGATGT--CCC
* **
35225166 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTCCC
*
35225210 AGTTTAAGATCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
35225243 ACGTATAAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 9 0.13
45 18 0.26
46 42 0.61
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTCCC
Found at i:35225279 original size:48 final size:48
Alignment explanation
Indices: 35225166--35225334 Score: 168
Period size: 48 Copynumber: 3.6 Consensus size: 48
35225156 GATGTAACCC
* *
35225166 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--C-TATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAGGTGTT
* * *
35225210 AGTTTAAGATCATGTCTGGGACATGGCATCGGCACGTATAAAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTT
* * * * * * *
35225258 AGTGTAAGACCATGTCCGGGACATGCCATCAGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-GAG-GTGTT
35225308 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
35225335 GTCAGCCTCG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 8 0.08
45 14 0.14
46 7 0.07
48 41 0.40
49 4 0.04
50 28 0.27
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTT
Found at i:35225340 original size:50 final size:48
Alignment explanation
Indices: 35225214--35225385 Score: 161
Period size: 50 Copynumber: 3.5 Consensus size: 48
35225204 TGTGTCAGTT
* * * ** *
35225214 TAAGATCATGTCTGGGACATGGCATCGGCACGTATAAAG-GTGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCACGGATATTGAGAG-TAGTG
* *
35225262 TAAGACCATGTCCGGGACATGCCATCAGCACGGATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCACGGATAT-TGAGAG-TAGTG
* * *
35225312 TAAGACCATGTCTGGGACATGGCGTCAGC-CTCGAT-TTCGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCAC-GGATATT-GAGAGT-AGTG
*
35225361 TAAGACCATGTCTGGGACTTGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
35225386 GCTAGTGTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
48 33 0.32
49 34 0.33
50 36 0.35
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCAGCACGGATATTGAGAGTAGTG
Found at i:35225376 original size:269 final size:271
Alignment explanation
Indices: 35224896--35225413 Score: 900
Period size: 269 Copynumber: 1.9 Consensus size: 271
35224886 GACGAGAGCT
*
35224896 AGTGTAAGACATGTCTGGGACATGTATCGGGCTCGAGATGTAACCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATGTAACCTAGTGTAAGACATGTCTGGG
* *
35224961 ACATGGCATCGGCACGTATAAAGGTGTTAGTGTAAGACCATGTCTGGGACATGACATCAGTACGG
66 ACATGGCATCGGCACGTATAAAGGTGTTAGTGTAAGACCATGTCCGGGACATGACATCAGCACGG
*
35225026 ATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTAGCCTCGATTTCGATAGTCAGT
131 ATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCGATAGTCAGT
35225091 GTAAGACCATGTCTGGGACTTGGCATGCTAGTGTAAGA-CATGTCTGGGACATGTATCGGGCTCG
196 GTAAGACCATGTCTGGGACTTGGCATGCTAGTGTAAGACCATGTCTGGGACATGTATCGGGCTCG
35225155 AGATGTAACCC
261 AGATGTAACCC
* ** *
35225166 AGTGTAAGACATGTCTGGGACATGCATC-GGCTATGAGATGT-GTC-AGTTTAAGATCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCT-CGAGATGTAACCTAGTGTAAGA-CATGTCTG
*
35225228 GGACATGGCATCGGCACGTATAAAGGTGTTAGTGTAAGACCATGTCCGGGACATGCCATCAGCAC
64 GGACATGGCATCGGCACGTATAAAGGTGTTAGTGTAAGACCATGTCCGGGACATGACATCAGCAC
35225293 GGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCGATAGTCA
129 GGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCGATAGTCA
*
35225358 GTGTAAGACCATGTCTGGGACTTGGCATGCTAGTGTAAGACCATGTTTGGGACATG
194 GTGTAAGACCATGTCTGGGACTTGGCATGCTAGTGTAAGACCATGTCTGGGACATG
35225414 GCATCGGCAT
Statistics
Matches: 235, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
268 8 0.03
269 179 0.76
270 48 0.20
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (271 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATGTAACCTAGTGTAAGACATGTCTGGG
ACATGGCATCGGCACGTATAAAGGTGTTAGTGTAAGACCATGTCCGGGACATGACATCAGCACGG
ATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCGATAGTCAGT
GTAAGACCATGTCTGGGACTTGGCATGCTAGTGTAAGACCATGTCTGGGACATGTATCGGGCTCG
AGATGTAACCC
Found at i:35225398 original size:32 final size:32
Alignment explanation
Indices: 35225357--35225417 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
35225347 TTCGATAGTC
*
35225357 AGTGTAAGACCATGTCTGGGACTTGGCATGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATGCT
*
35225389 AGTGTAAGACCATGTTTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
35225418 CGGCATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (32 bp):
AGTGTAAGACCATGTCTGGGACATGGCATGCT
Found at i:35241334 original size:20 final size:19
Alignment explanation
Indices: 35241298--35241343 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
35241288 ATACTTGATT
35241298 TCATTTCACAATTCATATA
1 TCATTTCACAATTCATATA
* *
35241317 TCATTTCATAATTTCATATT
1 TCATTTCACAA-TTCATATA
35241337 TCATTTC
1 TCATTTC
35241344 TCATCTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TCATTTCACAATTCATATA
Found at i:35241354 original size:19 final size:19
Alignment explanation
Indices: 35241295--35241367 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
35241285 TCAATACTTG
*
35241295 ATTTCATTTCACAAT-TCAT
1 ATTTCATTTCTC-ATCTCAT
* * *
35241314 ATATCATTTCATAATTTCAT
1 ATTTCATTTC-TCATCTCAT
35241334 ATTTCATTTCTCATCTCAT
1 ATTTCATTTCTCATCTCAT
*
35241353 A-TTCAATTCTCATCT
1 ATTTCATTTCTCATCT
35241368 TTGTCATCTC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 13 0.29
19 19 0.42
20 13 0.29
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTCATTTCTCATCTCAT
Found at i:35241362 original size:18 final size:19
Alignment explanation
Indices: 35241330--35241367 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
35241320 TTTCATAATT
*
35241330 TCATATTTCATTTCTCATC
1 TCATATTTCAATTCTCATC
35241349 TCATA-TTCAATTCTCATC
1 TCATATTTCAATTCTCATC
35241367 T
1 T
35241368 TTGTCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (19 bp):
TCATATTTCAATTCTCATC
Found at i:35243411 original size:21 final size:20
Alignment explanation
Indices: 35243374--35243413 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35243364 CCCTTGATAC
* *
35243374 AGGGCACACTCCTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
35243394 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
35243414 TCATTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:35244753 original size:46 final size:48
Alignment explanation
Indices: 35244640--35244757 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 48
35244630 CGCGAGGCCA
* *
35244640 ATGCATGTCCCAGACATGACTTACATTGGCTTAAATATCTTGGGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGGGGCTG
* * *
35244688 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATA-C-TGTGGTTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTTGGGGCTG
35244734 ATGCATGTCCCAGACATGTCTTAC
1 ATGCATGTCCCAGACATGTCTTAC
35244758 GCTAGCACAC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 30 0.47
47 1 0.02
48 32 0.50
49 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (48 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGGGGCTG
Found at i:35246329 original size:50 final size:50
Alignment explanation
Indices: 35246155--35246382 Score: 190
Period size: 50 Copynumber: 4.5 Consensus size: 50
35246145 TGAGAACACA
* * ** * *
35246155 TGTGTAGTACTATGTACAGGCTACTGTGTGTTTAAGATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACG
* * * * * *** *
35246207 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTT-AGGTCACG
35246258 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * * * ** * *
35246308 TGTTTAGTACTATGTGTAGGCTACTACGTGTACCGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
35246357 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
35246383 TGCGTACCAG
Statistics
Matches: 139, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
49 29 0.21
50 42 0.30
51 39 0.28
52 29 0.21
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:35246332 original size:101 final size:100
Alignment explanation
Indices: 35246151--35246382 Score: 277
Period size: 101 Copynumber: 2.3 Consensus size: 100
35246141 ATTATGAGAA
* * ** *
35246151 CACATGTGTAGTACTATGTACAGGCTACTGTGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTA
*
35246216 CTAAGTGTAGGCTACTATGCGTACCCGACAACTTCAAT
65 CTAAGTGTAGGCTACTACGCGTACCCGACAA-TT-AAT
* * *
35246254 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTTTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTAC
* * * ** **
35246318 TATGTGTAGGCTACTACGTGTACCGGATTATTGGT
66 TAAGTGTAGGCTACTACGCGTACCCGACAATTAAT
*
35246353 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
35246383 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 29 0.26
100 2 0.02
101 43 0.39
103 37 0.33
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTAC
TAAGTGTAGGCTACTACGCGTACCCGACAATTAAT
Found at i:35246615 original size:16 final size:15
Alignment explanation
Indices: 35246594--35246623 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35246584 GAATGGAGTA
35246594 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
35246610 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
35246624 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:35248713 original size:46 final size:46
Alignment explanation
Indices: 35248663--35248881 Score: 311
Period size: 46 Copynumber: 4.7 Consensus size: 46
35248653 TGGTTGAGCA
35248663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
35248709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35248755 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35248800 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35248848 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35248882 GGGGCGGGTT
Statistics
Matches: 155, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 107 0.69
47 29 0.19
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35254497 original size:13 final size:13
Alignment explanation
Indices: 35254479--35254504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35254469 GCTCGACAGG
35254479 GACATGCCCGTGT
1 GACATGCCCGTGT
35254492 GACATGCCCGTGT
1 GACATGCCCGTGT
35254505 TTGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:35258204 original size:352 final size:352
Alignment explanation
Indices: 35257323--35258824 Score: 1911
Period size: 352 Copynumber: 4.3 Consensus size: 352
35257313 ATTGGAACGA
* * *
35257323 TATTTGCAAGGCCTACAACAAATGTGCACTTCTTAATCTTCTCATTAGGATACTCTACAAAGAAT
1 TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* * * * ** *
35257388 TGTAGTATTATTTGA-CATTACACAATGACATATCTCTCAATAGCTGTTAAGTTAGTATATATAA
66 TGTAGTATTATCTGACCA-TGCACAATGACATATCTCTCAACAACTGTGGA-TTAGTAGATATAA
* * * * *
35257452 AAGCATAATCATCTTGGTTCAATTCCCGATCTATATAATAATTCAGTTTGATTTATCAATTTCAA
129 AAGCATGATCATCTTGGTTCAATTCCCAATCTATATAACAATTCAGTTCGATTTATCAATTCCAA
* * *
35257517 ATATCTTATAACAATCTATTATATATATATATGTATCAATTCAATTTCATTATTCGTATGCCCCT
194 ACATCTTATAAAAATCTA-T-TATA-A-GTATGTATCAATTCAATTTCATTATTCGTATGCCCCT
* * * *
35257582 TAAAATTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGCCATAACTAGTCCTCTTTAA
255 TAAAGTTTCACATTTTATTCAATTTAGTCTCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAA
* *
35257647 CTAACCATTTTGTATGGTGTTTCTCCTCCATTT
320 CTAACCATTTTGCATGGTGTCTCTCCTCCATTT
* * * * * *
35257680 TATCTGCATGGCCTACGAAAAATGTGCAGTTCTTAATTTTCTCATCAGGATAGTCTACAAAGAGT
1 TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* * * *
35257745 TGTAGTATTATTTGACCATGCACAA-CA-ATGCATCTCTCAACAGCTATTGGATTAGTAGATATA
66 TGTAGTATTATCTGACCATGCACAATGACAT--ATCTCTCAACAACT-GTGGATTAGTAGATATA
* * * * *
35257808 AAAACATGATAATCTTGGTTAAATTCCCAATCTATATAACAATTCAGTTCGATTTATTAATTACA
128 AAAGCATGATCATCTTGGTTCAATTCCCAATCTATATAACAATTCAGTTCGATTTATCAATTCCA
* * * *
35257873 AACATCTTAGAAAAATCTATTATAAGTATGTATTAGTTCGATTTCATTATTCGTATGCCCCTTAA
193 AACATCTTATAAAAATCTATTATAAGTATGTATCAATTCAATTTCATTATTCGTATGCCCCTTAA
* * *
35257938 AGTTTTACATTTTATTCAATTTAATAC-CTAAAATCGAAATAGTCATAACGAGTCCTTTTTAACT
258 AGTTTCACATTTTATTCAATTTAGT-CTCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACT
*
35258002 AATCATTTTGCATGGTGTCTCTCCTCCA-TT
322 AACCATTTTGCATGGTGTCTCTCCTCCATTT
* * * * *
35258032 TATTTGCAAGGCCTACGACAAACGTGTAGTTCTTAATCTTCTCATAAGGATACTCTGCAAAGAGT
1 TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
*
35258097 TGTAATATTATCTGACCATGCACAATGACATATCTCTCAACAACTGCTGGATTAGTAGATATAAA
66 TGTAGTATTATCTGACCATGCACAATGACATATCTCTCAACAACTG-TGGATTAGTAGATATAAA
* * * * **
35258162 AGTATGATCATCTTGGTTCAATTCCTAATTTGTATAACAATTCAGTTTAATTTATCAATTCCAAA
130 AGCATGATCATCTTGGTTCAATTCCCAATCTATATAACAATTCAGTTCGATTTATCAATTCCAAA
* * * * *
35258227 CATCTTATAATAATCCATTATATGTATGTATGAATTCAATTTTATTATTCGTATGCCCCTTAAAG
195 CATCTTATAAAAATCTATTATAAGTATGTATCAATTCAATTTCATTATTCGTATGCCCCTTAAAG
* * *
35258292 TTTCACATTTTATTCAATTTAGTCTCTAAAATCAAAATAGTCATAACTAGTCATTTTTAACTAAT
260 TTTCACATTTTATTCAATTTAGTCTCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAAC
* * *
35258357 CATTTTGCATGGTATTTCTCCCCCATTT
325 CATTTTGCATGGTGTCTCTCCTCCATTT
* * * *
35258385 TATTTTCAAAGCTTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAAAGT
1 TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* * * * * *
35258450 TGTAGTATTATATAACAATGCACAAGGACATATCTCTCGACAATTGTGGATTAGTAGATAT--AA
66 TGTAGTATTATCTGACCATGCACAATGACATATCTCTCAACAACTGTGGATTAGTAGATATAAAA
* ** * * * * * *
35258513 GCATGATCATCTGGGTTCAATTCCTGATATATATAACAATTTAATTCTATTTATGAATTCCAAAT
131 GCATGATCATCTTGGTTCAATTCCCAATCTATATAACAATTCAGTTCGATTTATCAATTCCAAAC
* * *
35258578 ATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCGTTTTCCCCTTAAAGT
196 ATCTTATAAAAATCTATTATAAGTATGTATCAATTCAATTTCATTATTCGTATGCCCCTTAAAGT
* * * * *
35258643 TTTACATTTTATTCAATTTAGTCTTTAAAATTGAAATAGTCATAATTAGTCCTTTTTAAATAACC
261 TTCACATTTTATTCAATTTAGTCTCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAACC
*
35258708 ATTTTGTATGGTGTCTCTCCTCCATTT
326 ATTTTGCATGGTGTCTCTCCTCCATTT
* * * * * *
35258735 TATGTGCAAGGCCTACGAAAAATGCGCACTTCTTAATCTCCTCATCAGGATACTTTGCAAAGAGT
1 TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
*
35258800 TGTAGTATTATCTGACCATGGACAA
66 TGTAGTATTATCTGACCATGCACAA
35258825 CGAAAAATCT
Statistics
Matches: 994, Mismatches: 141, Indels: 27
0.86 0.12 0.02
Matches are distributed among these distances:
350 271 0.27
351 1 0.00
352 318 0.32
353 215 0.22
354 4 0.00
355 6 0.01
356 2 0.00
357 173 0.17
358 4 0.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (352 bp):
TATTTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
TGTAGTATTATCTGACCATGCACAATGACATATCTCTCAACAACTGTGGATTAGTAGATATAAAA
GCATGATCATCTTGGTTCAATTCCCAATCTATATAACAATTCAGTTCGATTTATCAATTCCAAAC
ATCTTATAAAAATCTATTATAAGTATGTATCAATTCAATTTCATTATTCGTATGCCCCTTAAAGT
TTCACATTTTATTCAATTTAGTCTCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAACC
ATTTTGCATGGTGTCTCTCCTCCATTT
Found at i:35259969 original size:43 final size:44
Alignment explanation
Indices: 35259896--35259978 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
35259886 AGCGATTACA
* * *
35259896 AAAATCCATCATTCTCGCTTCACCTTTTTCAACATCGAGGCTGG
1 AAAATCCATCATTCTCACTTCACCTCTTTCAACACCGAGGCTGG
*
35259940 AAAA-CCATCATTCTCACTTCATCTCTTTCAACACCGAGG
1 AAAATCCATCATTCTCACTTCACCTCTTTCAACACCGAGG
35259979 TTTATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (44 bp):
AAAATCCATCATTCTCACTTCACCTCTTTCAACACCGAGGCTGG
Found at i:35267637 original size:11 final size:11
Alignment explanation
Indices: 35267620--35267699 Score: 59
Period size: 11 Copynumber: 8.0 Consensus size: 11
35267610 TGTTGTAATT
35267620 TTATTATTATA
1 TTATTATTATA
*
35267631 TTGTTATTATA
1 TTATTATTATA
*
35267642 TTATTATT-TT
1 TTATTATTATA
35267652 TTA-TATTATA
1 TTATTATTATA
* *
35267662 TAATT-TTATT
1 TTATTATTATA
*
35267672 TTATTGTTA-A
1 TTATTATTATA
35267682 TT-TTATT-T-
1 TTATTATTATA
35267690 TTATT-TTATA
1 TTATTATTATA
35267700 AGTATTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.08
9 11 0.21
10 17 0.32
11 21 0.40
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATTATTATA
Found at i:35267668 original size:17 final size:15
Alignment explanation
Indices: 35267618--35267660 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
35267608 TTTGTTGTAA
35267618 TTTTATTATTA-TATT
1 TTTTA-TATTATTATT
35267633 GTTATTATATTATTATT
1 -TT-TTATATTATTATT
35267650 TTTTATATTAT
1 TTTTATATTAT
35267661 ATAATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.36
16 9 0.36
17 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTATATTATTATT
Found at i:35267682 original size:17 final size:17
Alignment explanation
Indices: 35267617--35267690 Score: 80
Period size: 17 Copynumber: 4.3 Consensus size: 17
35267607 TTTTGTTGTA
35267617 ATTTTATTATTATATTGTT
1 ATTTTATTATTA-ATT-TT
*
35267636 ATTATATTATT-ATTTT
1 ATTTTATTATTAATTTT
*
35267652 -TTATATTATATAATTTT
1 ATTTTATTAT-TAATTTT
*
35267669 ATTTTATTGTTAATTTT
1 ATTTTATTATTAATTTT
35267686 ATTTT
1 ATTTT
35267691 TATTTTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
15 9 0.18
16 3 0.06
17 20 0.41
18 7 0.14
19 10 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTATTATTAATTTT
Found at i:35272736 original size:46 final size:44
Alignment explanation
Indices: 35272632--35272739 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
35272622 TGTCTTTAAC
** * * *
35272632 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
35272676 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
35272722 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
35272740 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:35279721 original size:79 final size:81
Alignment explanation
Indices: 35279585--35279769 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35279575 TTGAATGATG
* *
35279585 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35279649 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35279664 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35279726 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
35279744 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35279770 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35279783 original size:40 final size:40
Alignment explanation
Indices: 35279586--35279769 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35279576 TGAATGATGT
* * * *
35279586 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35279626 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35279666 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35279704 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35279745 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35279770 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35279791 original size:79 final size:79
Alignment explanation
Indices: 35279638--35279802 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
35279628 GGACTAAGAT
* * **
35279638 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35279703 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35279717 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35279780 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35279796 CCGAAGG
1 CCGAAGG
35279803 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35283804 original size:18 final size:18
Alignment explanation
Indices: 35283769--35283805 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35283759 TGAATTCTCG
*
35283769 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
*
35283787 AATTCGAATAAATTGAAT
1 AATTCGAATAAATCGAAT
35283805 A
1 A
35283806 TAAACTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:35284978 original size:267 final size:271
Alignment explanation
Indices: 35284363--35285011 Score: 1054
Period size: 267 Copynumber: 2.4 Consensus size: 271
35284353 AAAAACTGTT
* * *
35284363 TAATGTGTTATTAAGTGTTATCTATTTCTTAGGGGTTTACTAATTTATAAGATTTTTTTTTAAAA
1 TAATGTGTTATTAAGTGTTATCTATTTCTTAGGGATTTACTAATTTATAAGAATTATTTTTAAAA
*
35284428 CTTAGTTAATTAATTTTGTATTACTGGTTCAAGTTGTACTTGTAATTAGTAAATTCTCGTATGAT
66 CTTAGTTAATTAATTTTGTATTACTGGTTC-A--TG---TTGCAATTAGTAAATTCTCGTATGAT
* * *
35284493 TTTTATCGTTATGAATTAGCTAATTTTTCTTCAATGATTGAAGAAGAAAAAACCTACAGCGGTGG
125 TTTTATCCTTATGAATTAGCTAATTTTTCTTCAATGATTGAAGAAGAAAAAACCTACAACAGTGG
35284558 GCGATGGGGGTTCAGGGGATTTTAGCTTTATCCACTATTCCACTTGATGTACAATAACCCTTAAC
190 GCGATGGGGGTTCAGGGGATTTTAGC-TTAT---CTATTCCACTTGATGTACAATAACCCTTAAC
35284623 AAATATGAATTAGTATCCTTA
251 AAATATGAATTAGTATCCTTA
*
35284644 TAATGTGTTATTAAGTGTTATCTATTTCCTAGGGATTTACTAATTTATAAGAATTATTTTTAAAA
1 TAATGTGTTATTAAGTGTTATCTATTTCTTAGGGATTTACTAATTTATAAGAATTATTTTTAAAA
*
35284709 CTTAGTTAATTAATTTTGTATTACTGGTTCATGTTGCAATTCGTAAATTCTCGTATGATTTTTAT
66 CTTAGTTAATTAATTTTGTATTACTGGTTCATGTTGCAATTAGTAAATTCTCGTATGATTTTTAT
*
35284774 CCTTATGAATTAGCTAATTTTTCTTCAATGATTGAAGAAGAAAAAACCTACAACAGTTGGCGATG
131 CCTTATGAATTAGCTAATTTTTCTTCAATGATTGAAGAAGAAAAAACCTACAACAGTGGGCGATG
*
35284839 GGGGTTCAGGGTATTTTAGC-T-T-TA-TCCACTTGATGTACAATAACCCTTAACAAATATGAAT
196 GGGGTTCAGGGGATTTTAGCTTATCTATTCCACTTGATGTACAATAACCCTTAACAAATATGAAT
35284900 TAGTATCCTTA
261 TAGTATCCTTA
*
35284911 TAATGTGTTATTAAGTGTTATCTATTTCTTAGGAATTTACTAATTTATAAGAATTATTTTTAAAA
1 TAATGTGTTATTAAGTGTTATCTATTTCTTAGGGATTTACTAATTTATAAGAATTATTTTTAAAA
* *
35284976 CTTAGTTAATTAATTTTGTATTACTAGTTCAAGTTG
66 CTTAGTTAATTAATTTTGTATTACTGGTTCATGTTG
35285012 TAATAGTTAA
Statistics
Matches: 353, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
267 145 0.41
268 2 0.01
272 1 0.00
273 1 0.00
275 110 0.31
278 2 0.01
280 1 0.00
281 91 0.26
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (271 bp):
TAATGTGTTATTAAGTGTTATCTATTTCTTAGGGATTTACTAATTTATAAGAATTATTTTTAAAA
CTTAGTTAATTAATTTTGTATTACTGGTTCATGTTGCAATTAGTAAATTCTCGTATGATTTTTAT
CCTTATGAATTAGCTAATTTTTCTTCAATGATTGAAGAAGAAAAAACCTACAACAGTGGGCGATG
GGGGTTCAGGGGATTTTAGCTTATCTATTCCACTTGATGTACAATAACCCTTAACAAATATGAAT
TAGTATCCTTA
Found at i:35285020 original size:37 final size:37
Alignment explanation
Indices: 35284978--35285052 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
35284968 TTTTAAAACT
35284978 TAGTTAATTAATTTTGTATTACTAGTTCAAGTTGTAA
1 TAGTTAATTAATTTTGTATTACTAGTTCAAGTTGTAA
*
35285015 TAGTTAATTAATTTTGTATTACTGGTTCAAGTTGTAA
1 TAGTTAATTAATTTTGTATTACTAGTTCAAGTTGTAA
35285052 T
1 T
35285053 TCGTAAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (37 bp):
TAGTTAATTAATTTTGTATTACTAGTTCAAGTTGTAA
Found at i:35299145 original size:36 final size:36
Alignment explanation
Indices: 35299096--35299169 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
35299086 AATGAGGAAC
*
35299096 GAAAATAGGAATGCTTGAAATGATGAGCTCATATAA
1 GAAAATAGAAATGCTTGAAATGATGAGCTCATATAA
35299132 GAAAATAGAAATGCTTGAAATGATGAGCTCATATAA
1 GAAAATAGAAATGCTTGAAATGATGAGCTCATATAA
35299168 GA
1 GA
35299170 CTAATGCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (36 bp):
GAAAATAGAAATGCTTGAAATGATGAGCTCATATAA
Found at i:35301676 original size:26 final size:26
Alignment explanation
Indices: 35301640--35301691 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35301630 TACATGTATG
35301640 AATGAATTGTTCAATGATGAGCTCAT
1 AATGAATTGTTCAATGATGAGCTCAT
35301666 AATGAATTGTTCAATGATGAGCTCAT
1 AATGAATTGTTCAATGATGAGCTCAT
35301692 CTAGTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (26 bp):
AATGAATTGTTCAATGATGAGCTCAT
Found at i:35323540 original size:13 final size:13
Alignment explanation
Indices: 35323522--35323554 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
35323512 ACCGTGTGTC
35323522 ACACACGGCCTAG
1 ACACACGGCCTAG
35323535 ACACACGGCCTAG
1 ACACACGGCCTAG
35323548 ACACACG
1 ACACACG
35323555 CAAGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:35338129 original size:79 final size:81
Alignment explanation
Indices: 35337993--35338177 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35337983 TTGAATGATG
*
35337993 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35338057 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35338072 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35338134 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35338152 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35338178 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35338191 original size:40 final size:40
Alignment explanation
Indices: 35337994--35338177 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35337984 TGAATGATGT
* * * *
35337994 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35338034 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35338074 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35338112 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35338153 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35338178 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35338199 original size:79 final size:79
Alignment explanation
Indices: 35338046--35338210 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35338036 GGACTAAGAT
* **
35338046 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35338111 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35338125 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35338188 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35338204 CCGAAGG
1 CCGAAGG
35338211 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35340691 original size:12 final size:12
Alignment explanation
Indices: 35340676--35340700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35340666 TAACACTTGT
35340676 AAATTTACTTCC
1 AAATTTACTTCC
35340688 AAATTTACTTCC
1 AAATTTACTTCC
35340700 A
1 A
35340701 GCCAAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTACTTCC
Found at i:35343336 original size:47 final size:44
Alignment explanation
Indices: 35343245--35343372 Score: 123
Period size: 47 Copynumber: 2.8 Consensus size: 44
35343235 ATTGAGCCGA
* * *
35343245 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTCAAGAT
* * * *
35343289 GTAAGCCAGTTTTAAGACATGTCTAGGACATGTAT-TGACTACAAGAT
1 G--AGCCAG-TGTAAGACATGTCTGGGACATGCATCGGACT-CAAGAT
*
35343336 GAGCCAGTGTAAAACCATGTCTGGGACATGACATCGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGG
35343373 TATCCTACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
44 6 0.09
45 20 0.31
46 10 0.15
47 29 0.45
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTCAAGAT
Found at i:35346031 original size:41 final size:41
Alignment explanation
Indices: 35345954--35346031 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
35345944 TCTGATATTT
*
35345954 ATTCACCGGCAATAAGCCTGCTAGGCACGAAGCCCGATCAA
1 ATTCACCGGCAATAAGCCTGCTAGGCACGAAACCCGATCAA
*
35345995 ATTCTCCGGCACAT-AGCCTGCTAGGCTA-GAAACCCGA
1 ATTCACCGGCA-ATAAGCCTGCTAGGC-ACGAAACCCGA
35346032 ATATCATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (41 bp):
ATTCACCGGCAATAAGCCTGCTAGGCACGAAACCCGATCAA
Found at i:35358384 original size:6 final size:6
Alignment explanation
Indices: 35358373--35358398 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35358363 GCAACCCAAA
35358373 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
35358399 TTGAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:35373507 original size:30 final size:30
Alignment explanation
Indices: 35373471--35373531 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35373461 TCCTTAACTC
*
35373471 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
35373501 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
35373531 A
1 A
35373532 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:35380204 original size:61 final size:62
Alignment explanation
Indices: 35380062--35380205 Score: 145
Period size: 60 Copynumber: 2.4 Consensus size: 62
35380052 TCAAGCTTTA
* * *
35380062 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTATCCTATACCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGCCCATACCAATATCAAT
* * * *
35380124 CTGGGCCATAGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATACCAATATCAAT
* *
35380184 CTGGGTCGTAGCCCTATTACAA
1 CTGGGCCATAGCCCTATTACAA
35380206 GTCGAGATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
60 29 0.43
61 24 0.35
62 14 0.21
63 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (62 bp):
CTGGGCCATAGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATACCAATATCAAT
Found at i:35381765 original size:25 final size:22
Alignment explanation
Indices: 35381711--35381765 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
35381701 TTTCGGTTAG
35381711 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
35381733 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
35381758 AGGAAGAA
1 A-GAAGAA
35381766 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:35393144 original size:79 final size:82
Alignment explanation
Indices: 35393033--35393217 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35393023 GCTACTCGTT
* * *
35393033 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35393096 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35393113 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35393176 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35393193 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35393218 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.