Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 182 of 325
Found at i:57464025 original size:94 final size:93
Alignment explanation
Indices: 57463908--57464191 Score: 478
Period size: 94 Copynumber: 3.0 Consensus size: 93
57463898 ATCGACATTC
* *
57463908 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAACAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAA-AA
57463973 GGCAATTTACTTAATTCAAATAGCATATA
65 GGCAATTTACTTAATTCAAATAGCATATA
57464002 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAA-AA
57464067 GGCAATTTACTTAATTCAAATAGCATATA
65 GGCAATTTACTTAATTCAAATAGCATATA
* *
57464096 AAATCTGCACACAAAGTGACCTTTAATTCCGCACACATAGTGCGAATGTTAACTCATTATATAAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATA-AA-
*
57464161 ATGGCAACTTACTTAATTCAAATAGCATATA
64 A-GGCAATTTACTTAATTCAAATAGCATATA
57464192 CGGCCACATT
Statistics
Matches: 181, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
94 151 0.83
95 2 0.01
96 28 0.15
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (93 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAAAAG
GCAATTTACTTAATTCAAATAGCATATA
Found at i:57468775 original size:15 final size:16
Alignment explanation
Indices: 57468739--57468768 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57468729 ACACATCTTT
57468739 TATTTCATTATATCAA
1 TATTTCATTATATCAA
57468755 TATTTCA-TATATCA
1 TATTTCATTATATCA
57468769 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:57470718 original size:30 final size:30
Alignment explanation
Indices: 57470684--57470741 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57470674 TCATTAACTC
57470684 AAACTTTGGAAAAATTACACTTTTGCCCTT
1 AAACTTTGGAAAAATTACACTTTTGCCCTT
* * * *
57470714 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGAAAAATTACACTTTTGCCC
57470742 CTAGGCTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCTT
Found at i:57476930 original size:14 final size:15
Alignment explanation
Indices: 57476899--57476945 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
57476889 ATATTAAATG
*
57476899 TTTAAGTTTTTAAGT
1 TTTAAGTTTTTAATT
*
57476914 TTT-AGTTTTTTATT
1 TTTAAGTTTTTAATT
*
57476928 TTTAAATTTTTAATT
1 TTTAAGTTTTTAATT
57476943 TTT
1 TTT
57476946 TTTAAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTAAGTTTTTAATT
Found at i:57476949 original size:18 final size:17
Alignment explanation
Indices: 57476925--57476971 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
57476915 TTAGTTTTTT
*
57476925 ATTTTTAAATTTTTAATT
1 ATTTTTAAATTTTT-ATC
*
57476943 TTTTTTAAGATTTTTATC
1 ATTTTTAA-ATTTTTATC
57476961 ATTTTTAAATT
1 ATTTTTAAATT
57476972 AACATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTTAAATTTTTATC
Found at i:57478273 original size:41 final size:40
Alignment explanation
Indices: 57478160--57478486 Score: 357
Period size: 41 Copynumber: 8.1 Consensus size: 40
57478150 CCTCAATCTA
* * * * *
57478160 TAAAAACTGAGCAATAGCGGCGTATTTCTAGAAGCGCCGC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* **
57478200 TAAAAACTGAGCAATAGTGGCGTTTTAACAAAAGCGCCGC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* *
57478240 TAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGC
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* ** *
57478281 TAAAACCTGTTTCTATAGTGGCGTTTTCCCAAAAGCGCCGC
1 TAAAAACTG-AGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * *
57478322 TAAAAAACTGAGCAATAGCGGCGTTTTTCCAAAGGCGCCGC
1 T-AAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * * *
57478363 TAAAACCTCGACCTATAGTGGCGTTTTTCCAAATGCACCGC
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* *
57478404 TAAAAACTGAGCAATAGTGGCGTTTTTCCAAAAGCGCCAC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * * * *
57478444 TAAAACCTCAATCTATAGCGGCGTTTTGCCAAAAGCGCCGC
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
57478485 TA
1 TA
57478487 TTGCTCAGTT
Statistics
Matches: 242, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
40 82 0.34
41 153 0.63
42 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
Found at i:57478431 original size:163 final size:163
Alignment explanation
Indices: 57478161--57478486 Score: 458
Period size: 163 Copynumber: 2.0 Consensus size: 163
57478151 CTCAATCTAT
* *
57478161 AAAAACTGAGCAATAGCGGCGTATTTCTAGAAGCGCCGCTAAAAACTGAGCAATAGTGGCGTTTT
1 AAAAACTGAGCAATAGCGGCGTATTTCCAGAAGCGCCGCTAAAAACTGACCAATAGTGGCGTTTT
* * * * * **
57478226 AACAAAAGCGCCGCTAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGT
66 AACAAAAGCACCGCTAAAAACTCGAGCAATAGTGGCGTTTTTCCAAAAGCGCCACTAAAACCTCA
* *
57478291 TTCTATAGTGGCGTTTTCCCAAAAGCGCCGCTA
131 ATCTATAGCGGCGTTTTCCCAAAAGCGCCGCTA
* * *
57478324 AAAAACTGAGCAATAGCGGCGTTTTTCCA-AAGGCGCCGCTAAAACCTCGACCTATAGTGGCGTT
1 AAAAACTGAGCAATAGCGGCGTATTTCCAGAA-GCGCCGCTAAAAACT-GACCAATAGTGGCGTT
** *
57478388 TTTCCAAATGCACCGCTAAAAACT-GAGCAATAGTGGCGTTTTTCCAAAAGCGCCACTAAAACCT
64 TTAACAAAAGCACCGCTAAAAACTCGAGCAATAGTGGCGTTTTTCCAAAAGCGCCACTAAAACCT
*
57478452 CAATCTATAGCGGCGTTTTGCCAAAAGCGCCGCTA
129 CAATCTATAGCGGCGTTTTCCCAAAAGCGCCGCTA
57478487 TTGCTCAGTT
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
162 2 0.01
163 108 0.76
164 33 0.23
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (163 bp):
AAAAACTGAGCAATAGCGGCGTATTTCCAGAAGCGCCGCTAAAAACTGACCAATAGTGGCGTTTT
AACAAAAGCACCGCTAAAAACTCGAGCAATAGTGGCGTTTTTCCAAAAGCGCCACTAAAACCTCA
ATCTATAGCGGCGTTTTCCCAAAAGCGCCGCTA
Found at i:57478452 original size:81 final size:80
Alignment explanation
Indices: 57478160--57478486 Score: 402
Period size: 81 Copynumber: 4.0 Consensus size: 80
57478150 CCTCAATCTA
* * * * * *
57478160 TAAAAACTGAGCAATAGCGGCGTATTTCTAGAAGCGCCGCTAAAAACTGAGCAATAGTGGCGTTT
1 TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGATCTATAGTGGCGTTT
*
57478225 TAACAAAAGCGCCGC
66 TACCAAAAGCGCCGC
* * * * *
57478240 TAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGTTTCTATAGTGGCGT
1 TAAAAACT-GAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTG-ATCTATAGTGGCGT
*
57478305 TTTCCCAAAAGCGCCGC
64 TTTACCAAAAGCGCCGC
* *
57478322 TAAAAAACTGAGCAATAGCGGCGTTTTTCCAAAGGCGCCGCTAAAACCTCGACCTATAGTGGCGT
1 T-AAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCT-GATCTATAGTGGCGT
* * *
57478387 TTTTCCAAATGCACCGC
64 TTTACCAAAAGCGCCGC
* * * *
57478404 TAAAAACTGAGCAATAGTGGCGTTTTTCCAAAAGCGCCACTAAAACCTCAATCTATAGCGGCGTT
1 TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCT-GATCTATAGTGGCGTT
*
57478469 TTGCCAAAAGCGCCGC
65 TTACCAAAAGCGCCGC
57478485 TA
1 TA
57478487 TTGCTCAGTT
Statistics
Matches: 211, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 7 0.03
81 107 0.51
82 90 0.43
83 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (80 bp):
TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGATCTATAGTGGCGTTT
TACCAAAAGCGCCGC
Found at i:57478517 original size:41 final size:41
Alignment explanation
Indices: 57478463--57478591 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 41
57478453 AATCTATAGC
* * *
57478463 GGCGTTTTG-CCAAAAGCGCCGCTATTGCTCAGTTTTTCGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGT
* * *
57478503 GGCGTTTGGACCAAAAACGCCACTATTGCTTAGTTTTTAGC
1 GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGT
* * *
57478544 GACGTTTGGACCAAAAACGCCGTTATTGCTCAGTTTTTTGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGT
57478585 GGCGTTT
1 GGCGTTT
57478592 TCAATCAAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 8 0.11
41 67 0.89
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGT
Found at i:57483301 original size:43 final size:43
Alignment explanation
Indices: 57483214--57483369 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 43
57483204 AGCTCGCACA
* * * *
57483214 ATGCC-ATATCCCAGATATGGTCTTACA-TGTTATCAC-ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAG-AATCACAATA-CG
* * * *
57483256 ATGCCACTGTCCCAGATAGGGTCTTACACAGAATCATAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAGAATCACAATACG
* * * * *
57483299 ATGCCAATGTCCTAGACATGCTCTTACGCATAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACAGAATCACAATACG
*
57483342 ATGCCAATGTCCCAAACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
57483370 TGTAACCACA
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
42 5 0.05
43 83 0.90
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAGAATCACAATACG
Found at i:57485288 original size:19 final size:19
Alignment explanation
Indices: 57485264--57485301 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57485254 AGGCTGATTT
57485264 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGATCGTG
*
57485283 TGGGCCTAATGGGATCGTG
1 TGGGCCAAATGGGATCGTG
57485302 GGCCTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.24
Consensus pattern (19 bp):
TGGGCCAAATGGGATCGTG
Found at i:57485547 original size:27 final size:27
Alignment explanation
Indices: 57485516--57485567 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
57485506 AGGACCCCTG
**
57485516 TAGTGCAAAATTACTGAAATACCCTTA
1 TAGTGCAAAATTACCAAAATACCCTTA
*
57485543 TAGTGTAAAATTACCAAAATACCCT
1 TAGTGCAAAATTACCAAAATACCCT
57485568 CGATTTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
TAGTGCAAAATTACCAAAATACCCTTA
Found at i:57487829 original size:40 final size:40
Alignment explanation
Indices: 57487767--57487991 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
57487757 TATTCGGATG
*
57487767 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
57487807 ATATTCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57487847 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
57487890 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57487930 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57487970 ATGTCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57487992 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 14 0.09
40 107 0.69
43 35 0.22
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57488010 original size:83 final size:79
Alignment explanation
Indices: 57487769--57487991 Score: 320
Period size: 83 Copynumber: 2.8 Consensus size: 79
57487759 TTCGGATGAT
* * *
57487769 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATTCGGGCTAAGTCCTGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA-TCCGGCTAAGTCCCGAAGGCATT
*
57487834 TGTGCTAGTGACTAT
65 TGTGCTAGTGACTAC
* *
57487849 ATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCC-GGCTAAGTCCCGAAGGC
57487914 ATTTGTGCTAGTGACTAC
62 ATTTGTGCTAGTGACTAC
* * *
57487932 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCGGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGG
57487992 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
79 15 0.12
80 40 0.31
81 1 0.01
82 2 0.02
83 70 0.55
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCATTT
GTGCTAGTGACTAC
Found at i:57489710 original size:40 final size:40
Alignment explanation
Indices: 57489648--57489863 Score: 271
Period size: 40 Copynumber: 5.4 Consensus size: 40
57489638 ATACCCAGTA
* * * *
57489648 CCTTCGGGATTTA-ACCGGATATAG-CTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
57489687 CCTTCGGGACTTAGCCCGGATATAGT-AGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATG
* * *
57489727 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
57489767 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATG
57489807 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATG
57489847 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57489864 CGTTATCATC
Statistics
Matches: 160, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
39 16 0.10
40 141 0.88
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:57497768 original size:40 final size:39
Alignment explanation
Indices: 57497691--57497866 Score: 230
Period size: 40 Copynumber: 4.4 Consensus size: 39
57497681 ATACCCAGTA
* * * *
57497691 CCTTCGGGATTTA-ACCAGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
*
57497730 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
57497770 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* *
57497810 CCTTCGGGACTTATCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
57497850 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57497867 CGTTATCATC
Statistics
Matches: 123, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 15 0.12
40 107 0.87
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:57508580 original size:43 final size:44
Alignment explanation
Indices: 57508492--57508657 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 44
57508482 AGCTCGCACA
* * ** **
57508492 ATGCC-ATATCCCAGATATGGTCTTACATGTTTTCAC-ATATGG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACAG
* * * * *
57508534 ATGCCACTGTCCCAGATAGGGTCTTACATGGAATCATAATAC-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACAG
* *
57508577 ATGCCAATG-CCTCAGACATGGTCTTACACGTAATCACAATACAA
1 ATGCCAATGTCC-CAGACATGGTCTTACATGTAATCACAATACAG
57508621 AT-CCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
57508658 TCTTGATAAC
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
42 7 0.07
43 89 0.86
44 7 0.07
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACAG
Found at i:57520325 original size:27 final size:27
Alignment explanation
Indices: 57520271--57520381 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
57520261 AGCATGGCTG
* * * *
57520271 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAATAGATAATTGTGGCAGAGCCA
*
57520297 CCAGAATAGATAATTGTGGCAGAGACA
1 CCAGAATAGATAATTGTGGCAGAGCCA
* * *
57520324 CCAGAAGAGGT-ATATGTGGCAGTGCCA
1 CCAGAATAGATAAT-TGTGGCAGAGCCA
*
57520351 CCAG-ATCAGATAATTGTGGCATAGCCA
1 CCAGAAT-AGATAATTGTGGCAGAGCCA
57520378 CCAG
1 CCAG
57520382 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.22
27 52 0.75
28 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (27 bp):
CCAGAATAGATAATTGTGGCAGAGCCA
Found at i:57521849 original size:24 final size:24
Alignment explanation
Indices: 57521814--57521890 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
57521804 CCAACACCGT
*
57521814 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
57521838 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* * *
57521862 TCTCCCTTATCAGTTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
57521886 TCTCC
1 TCTCC
57521891 TGACAGCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:57523292 original size:21 final size:21
Alignment explanation
Indices: 57523251--57523292 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57523241 TCTCCCACCT
* *
57523251 CCCCCGATTCCTCAACCTGTA
1 CCCCCGATGCCTCAAACTGTA
*
57523272 CCCCCGATGCCTCAAAGTGTA
1 CCCCCGATGCCTCAAACTGTA
57523293 GATCTGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.43, G:0.14, T:0.21
Consensus pattern (21 bp):
CCCCCGATGCCTCAAACTGTA
Found at i:57528305 original size:21 final size:21
Alignment explanation
Indices: 57528264--57528305 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57528254 TCCCCCACCT
* *
57528264 CCCCCGATTCCTCAACCTGTA
1 CCCCCGATGCCTCAACATGTA
*
57528285 CCCCCGATGCCTCAAGATGTA
1 CCCCCGATGCCTCAACATGTA
57528306 AATCTGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.43, G:0.14, T:0.21
Consensus pattern (21 bp):
CCCCCGATGCCTCAACATGTA
Found at i:57537904 original size:6 final size:6
Alignment explanation
Indices: 57537883--57538035 Score: 98
Period size: 6 Copynumber: 24.8 Consensus size: 6
57537873 TATTAGAACT
* * * * *
57537883 AGAATC AAAATG AGAATT AGAATC AAAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * * *
57537931 AGGTAA-C ATAATC AAAATC AGAATC AGTATC AAGTAA-C AGAATT AGAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC -AG-AATC AGAATC AGAATC
* * *
57537981 AAAATC AGTTAA-C AGAATC AGAATC AGTATC AGCTAAT- AGAATC AAAATC
1 AGAATC AG--AATC AGAATC AGAATC AGAATC AG--AATC AGAATC AGAATC
57538031 AGAAT
1 AGAAT
57538036 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
5 9 0.08
6 87 0.77
7 10 0.09
8 7 0.06
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:57537968 original size:31 final size:31
Alignment explanation
Indices: 57537909--57537989 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
57537899 TTAGAATCAA
* * * *
57537909 AATCAGAATCAGAATCAGAATTAGGTAACAT
1 AATCAGAATCAGAATCAGTATCAAGTAACAG
*
57537940 AATCAAAATCAGAATCAGTATCAAGTAACAG
1 AATCAGAATCAGAATCAGTATCAAGTAACAG
* *
57537971 AATTAGAATCAAAATCAGT
1 AATCAGAATCAGAATCAGT
57537990 TAACAGAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.22
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGTATCAAGTAACAG
Found at i:57537978 original size:25 final size:26
Alignment explanation
Indices: 57537946--57538032 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 26
57537936 ACATAATCAA
57537946 AATCAGAATCAGTATCAAG-TAACAG
1 AATCAGAATCAGTATCAAGTTAACAG
* **
57537971 AATTAGAATCAAAATC-AGTTAACAG
1 AATCAGAATCAGTATCAAGTTAACAG
* *
57537996 AATCAGAATCAGTATC-AGCTAATAG
1 AATCAGAATCAGTATCAAGTTAACAG
*
57538021 AATCAAAATCAG
1 AATCAGAATCAG
57538033 AATGTGAATG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 2 0.04
25 50 0.96
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (26 bp):
AATCAGAATCAGTATCAAGTTAACAG
Found at i:57537981 original size:37 final size:36
Alignment explanation
Indices: 57537883--57538007 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 36
57537873 TATTAGAACT
* *
57537883 AGAATCAAAATGAGAATTAGAATCAAAATCAGAATC
1 AGAATCAGAATCAGAATTAGAATCAAAATCAGAATC
* * *
57537919 AGAATCAGAATTAGGTAA-CATAATCAAAATCAGAATC
1 AGAATCAGAATCA-G-AATTAGAATCAAAATCAGAATC
*
57537956 AGTATCAAGTAA-CAGAATTAGAATCAAAATCAGTTAA-C
1 AGAATC-AG-AATCAGAATTAGAATCAAAATCAG--AATC
57537994 AGAATCAGAATCAG
1 AGAATCAGAATCAG
57538008 TATCAGCTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
36 15 0.21
37 42 0.58
38 11 0.15
39 4 0.06
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.21
Consensus pattern (36 bp):
AGAATCAGAATCAGAATTAGAATCAAAATCAGAATC
Found at i:57538190 original size:27 final size:26
Alignment explanation
Indices: 57538153--57538230 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
57538143 AGCATGGCTG
* *
57538153 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAAAGCCA
*
57538179 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGA-ACAGATATTGTGACAAAGCCA
* *
57538206 CCAGAATCAGATAATGTGGCAAAGC
1 CCAGAA-CAGATATTGTGACAAAGC
57538231 GACTTAACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAAAGCCA
Found at i:57538411 original size:78 final size:78
Alignment explanation
Indices: 57538255--57538401 Score: 231
Period size: 78 Copynumber: 1.9 Consensus size: 78
57538245 CGTGGCACAA
* * * * * *
57538255 AGCCATCGATAACGAGTCTATAATCGGCACGAAGCCCACAATAACGGTACACAGCCTTTGGTAAC
1 AGCCATCAATAACGAGTCTATAATCGACACGAAGCCCACAATAACAGCACACAGCCTTCGATAAC
57538320 ATGATCGACACTC
66 ATGATCGACACTC
*
57538333 AGCCATCAATAACGGGTCTATAATCGACACGAAGCCCACAATAACAGCACACAGCCTTCGATAAC
1 AGCCATCAATAACGAGTCTATAATCGACACGAAGCCCACAATAACAGCACACAGCCTTCGATAAC
57538398 ATGA
66 ATGA
57538402 CTGGCACTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (78 bp):
AGCCATCAATAACGAGTCTATAATCGACACGAAGCCCACAATAACAGCACACAGCCTTCGATAAC
ATGATCGACACTC
Found at i:57538479 original size:27 final size:26
Alignment explanation
Indices: 57538429--57538495 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
57538419 ATCGATCAAT
* ** *
57538429 AGATATTGTGACAGAGTCATCAGATAC
1 AGATATTGTGGCAGAACCACCAGA-AC
*
57538456 AGATATTGTGGCAGAACCACCAGAGC
1 AGATATTGTGGCAGAACCACCAGAAC
57538482 AGATATTTGTGGCA
1 AGATA-TTGTGGCA
57538496 TAGCCACTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (26 bp):
AGATATTGTGGCAGAACCACCAGAAC
Found at i:57538753 original size:27 final size:27
Alignment explanation
Indices: 57538721--57539059 Score: 466
Period size: 27 Copynumber: 12.6 Consensus size: 27
57538711 TAACACCCTA
* *
57538721 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
57538748 GGGTA-TTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
57538774 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
57538801 GGGTATTTCAGTATTTCTACCATACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
57538828 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
57538855 GGGTATTTTAGTAATTCTACACTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
57538882 GGGTATTTC-GATATTTCTACCCTACAA
1 GGGTATTTCAG-TAATTCTACCCTACAG
* * *
57538909 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
57538936 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
57538963 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
57538990 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
57539017 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
57539044 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
57539060 TTATAAATCG
Statistics
Matches: 283, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.09
27 257 0.91
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:57539073 original size:27 final size:27
Alignment explanation
Indices: 57539043--57539330 Score: 174
Period size: 27 Copynumber: 10.7 Consensus size: 27
57539033 CTACCCTACA
**
57539043 AGGGTATTTCAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
57539070 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
57539097 GGGGTACTTTGGTAATTTTGCT-AGTTG
1 AGGGTATTTTGGTAATTTT-ATAAATCG
* ** *
57539124 AGGGTATTTTAGTAATTTTATAGGTGG
1 AGGGTATTTTGGTAATTTTATAAATCG
** * * *
57539151 AGGGTATTTCAGTAATTTCACAAAT-T
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
57539177 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
57539204 AGGGGTATTTTGGTAGTTTTACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
57539231 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
57539258 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
57539286 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
57539312 AGGGGTATTTTGATAATTT
1 A-GGGTATTTTGGTAATTT
57539331 GGTAAACTAA
Statistics
Matches: 214, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
26 4 0.02
27 207 0.97
28 3 0.01
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:57539322 original size:81 final size:81
Alignment explanation
Indices: 57539124--57539330 Score: 263
Period size: 81 Copynumber: 2.6 Consensus size: 81
57539114 TTGCTAGTTG
* ** * ** *
57539124 AGGGTATTTTAGTAATTTTA-TAGGTGGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTT
1 AGGGTATTTTAGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTT
*
57539188 GGTAATTTTACAAACTA
65 GGTAATTTTACAAACCA
* * * * *
57539205 GGGGTATTTTGGTAGTTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTG
*
57539270 GTAATTTTATAAACCA
66 GTAATTTTACAAACCA
*
57539286 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGATAATTT
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
57539331 GGTAAACTAA
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 104 0.98
82 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTG
GTAATTTTACAAACCA
Found at i:57539339 original size:27 final size:27
Alignment explanation
Indices: 57539152--57539330 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
57539142 TATAGGTGGA
** * *
57539152 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
57539179 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
57539206 GGGTATTTTGGTAGTTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
57539233 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
57539260 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
57539287 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
57539314 GGGTATTTTGATAATTT
1 GGGTATTTTGGTAATTT
57539331 GGTAAACTAA
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:57562697 original size:40 final size:39
Alignment explanation
Indices: 57562530--57562751 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 39
57562520 AACCCAAGTA
* *
57562530 CCTT-GGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
57562568 CCTTCGGGTCTTAGCCCGG--ATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
57562606 CCTTCGGGACTTAGCCTGGGTATAGCAACTACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
57562649 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
57562689 CCTTCGGGATTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
57562729 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57562752 CATCCGAATA
Statistics
Matches: 158, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
38 37 0.23
39 9 0.06
40 76 0.48
41 1 0.01
43 34 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:57566436 original size:40 final size:39
Alignment explanation
Indices: 57566362--57566581 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 39
57566352 AACCCAAGTA
* *
57566362 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
57566401 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
57566441 CCTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
57566483 CCTTCGGGACTT----CGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
57566519 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
57566559 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57566582 CATCCGAATA
Statistics
Matches: 162, Mismatches: 6, Indels: 25
0.84 0.03 0.13
Matches are distributed among these distances:
36 21 0.13
38 4 0.02
39 30 0.19
40 84 0.52
41 2 0.01
42 21 0.13
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:57566519 original size:78 final size:77
Alignment explanation
Indices: 57566362--57566570 Score: 316
Period size: 78 Copynumber: 2.7 Consensus size: 77
57566352 AACCCAAGTA
* *
57566362 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTT---CCGGATATAG
57566426 TCACTAGCACAAATG
63 TCACTAGCACAAATG
57566441 CCTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTT-CGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTCCGGATATAG
57566504 TCACTAGCACAAATG
63 TCACTAGCACAAATG
*
57566519 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTT
57566571 AGCCCGGATA
Statistics
Matches: 122, Mismatches: 3, Indels: 13
0.88 0.02 0.09
Matches are distributed among these distances:
76 25 0.20
78 44 0.36
79 24 0.20
80 5 0.04
82 24 0.20
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTCCGGATATAGTCA
CTAGCACAAATG
Found at i:57576301 original size:29 final size:28
Alignment explanation
Indices: 57576258--57576335 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
57576248 TCATGAGATT
57576258 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
57576288 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
57576315 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
57576336 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:57576601 original size:174 final size:175
Alignment explanation
Indices: 57576288--57576617 Score: 547
Period size: 174 Copynumber: 1.9 Consensus size: 175
57576278 AAATTGTACA
* *
57576288 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
57576353 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
57576418 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
57576465 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
57576530 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
57576593 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
57576618 AGCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 65 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:57578086 original size:40 final size:40
Alignment explanation
Indices: 57578041--57578235 Score: 275
Period size: 40 Copynumber: 4.8 Consensus size: 40
57578031 TACAAAACTC
* *
57578041 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
57578081 GCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA
* *
57578121 CTCGCACAAATGCCTTCGGGACTTCGCTCGGATATAGTCACTA
1 ---GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
** *
57578164 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGGAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
57578204 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
57578236 CATCCGAATA
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 102 0.73
43 35 0.25
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:57578176 original size:83 final size:80
Alignment explanation
Indices: 57578035--57578235 Score: 321
Period size: 83 Copynumber: 2.5 Consensus size: 80
57578025 GGGTGTTACA
* *
57578035 AAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGAC
1 AAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
57578100 TTAGCCCGGGTATAG
66 TTAGCCCGGATATAG
* *
57578115 CAACTACTCGCACAAATGCCTTCGGGACTTCGCTCGGATATAGTCACTAGCACAAATGCCTTCGG
1 -AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
57578180 GACTTAGCCCGGATATAG
63 GACTTAGCCCGGATATAG
*
57578198 GAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 AAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
57578236 CATCCGAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 34 0.31
81 2 0.02
82 1 0.01
83 73 0.66
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (80 bp):
AAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
TTAGCCCGGATATAG
Found at i:57585216 original size:42 final size:42
Alignment explanation
Indices: 57585164--57585266 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
57585154 CCTCTATCCT
* * * *
57585164 AGACAGGGTCTTATACGAAATCAGATAT-GATGCCGATGTCCC
1 AGACACGGTCTTATACGAAATCACA-ATCGAGGCCAATGTCCC
* * *
57585206 AGACATGGTCTTATACATAAATCTCAATCGAGGCCAATGTCCC
1 AGACACGGTCTTATAC-GAAATCACAATCGAGGCCAATGTCCC
*
57585249 AGACACGGTCTTACACGA
1 AGACACGGTCTTATACGA
57585267 TATCTCAGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
42 18 0.36
43 32 0.64
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
AGACACGGTCTTATACGAAATCACAATCGAGGCCAATGTCCC
Found at i:57585287 original size:43 final size:43
Alignment explanation
Indices: 57585184--57585288 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
57585174 TTATACGAAA
* * *
57585184 TCAGATATGATGCCGATGTCCCAGACATGGTCTTATACATAAATC
1 TCAGATA-GATGCCAATGTCCCAGACACGGTCTTACACAT-AATC
* *
57585229 TCA-ATCGAGGCCAATGTCCCAGACACGGTCTTACACGAT-ATC
1 TCAGATAGATGCCAATGTCCCAGACACGGTCTTACAC-ATAATC
*
57585271 TCAGATAGATGTCAATGT
1 TCAGATAGATGCCAATGT
57585289 TCCTTTAGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
42 6 0.12
43 37 0.74
44 4 0.08
45 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
TCAGATAGATGCCAATGTCCCAGACACGGTCTTACACATAATC
Found at i:57586860 original size:61 final size:61
Alignment explanation
Indices: 57586787--57586909 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
57586777 TTCTATTAAT
57586787 GAATATGTATGATTTTTTATGTTTGATGATAGATTGTGAATATTTATTATGAATTATGCAA
1 GAATATGTATGATTTTTTATGTTTGATGATAGATTGTGAATATTTATTATGAATTATGCAA
57586848 GAATATGTATGATTTTTTATGTTTGATGATAGATTGTGAATATTTATTATGAATTATGCAA
1 GAATATGTATGATTTTTTATGTTTGATGATAGATTGTGAATATTTATTATGAATTATGCAA
57586909 G
1 G
57586910 TTTTGTAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (61 bp):
GAATATGTATGATTTTTTATGTTTGATGATAGATTGTGAATATTTATTATGAATTATGCAA
Found at i:57586898 original size:30 final size:30
Alignment explanation
Indices: 57586798--57586898 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 30
57586788 AATATGTATG
*
57586798 ATTTTTTATGTTTGATGATAGATTGTGAAT
1 ATTTATTATGTTTGATGATAGATTGTGAAT
* * * *
57586828 ATTTATTATGAATT-ATGCA-AGAATATGTAT
1 ATTTATTATG-TTTGATG-ATAGATTGTGAAT
*
57586858 GATTTTTTATGTTTGATGATAGATTGTGAAT
1 -ATTTATTATGTTTGATGATAGATTGTGAAT
57586889 ATTTATTATG
1 ATTTATTATG
57586899 AATTATGCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
30 32 0.58
31 23 0.42
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (30 bp):
ATTTATTATGTTTGATGATAGATTGTGAAT
Found at i:57589106 original size:252 final size:251
Alignment explanation
Indices: 57588662--57589165 Score: 999
Period size: 252 Copynumber: 2.0 Consensus size: 251
57588652 CGAATGTGAA
57588662 AATGTTATATTAAGTAATGTATGTGAATTGTGTTAATAATATGAAAAAAAATATATTTAGATGTA
1 AATGTTATATTAAGTAATGTATGTGAATTGTGTTAATAATATGAAAAAAAATATATTTAGATGTA
57588727 TTATAAGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGT
66 TTATAAGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGT
57588792 TTGATCAATGAAGAATTTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGTA
131 TTGATCAATGAAGAATTTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGTA
57588857 TAAATGATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGT
196 TAAATGATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGT
57588913 AATGTTATATTAAGTAATGTATGTGAATTGTGTTAATAATATGAAAAAAATATATATTTAGATGT
1 AATGTTATATTAAGTAATGTATGTGAATTGTGTTAATAATATGAAAAAAA-ATATATTTAGATGT
57588978 ATTATAAGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTG
65 ATTATAAGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTG
57589043 TTTGATCAATGAAGAATTTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGT
130 TTTGATCAATGAAGAATTTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGT
57589108 ATAAATGATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGT
195 ATAAATGATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGT
57589165 A
1 A
57589166 TATTCGGCCA
Statistics
Matches: 252, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
251 50 0.20
252 202 0.80
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (251 bp):
AATGTTATATTAAGTAATGTATGTGAATTGTGTTAATAATATGAAAAAAAATATATTTAGATGTA
TTATAAGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGT
TTGATCAATGAAGAATTTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGTA
TAAATGATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGT
Found at i:57589705 original size:29 final size:28
Alignment explanation
Indices: 57589669--57589746 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
57589659 TCATGAGATT
57589669 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
57589699 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
57589726 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
57589747 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:57590009 original size:173 final size:174
Alignment explanation
Indices: 57589700--57590025 Score: 546
Period size: 173 Copynumber: 1.9 Consensus size: 174
57589690 AATTGTACAG
* * *
57589700 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
* *
57589765 ATGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 ATGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
57589830 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
* * * *
57589874 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGC
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
* *
57589939 GTGC-AACCCTATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 ATGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
57590003 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
57590026 ACCTTGAGTT
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 80 0.57
174 61 0.43
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
ATGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
Found at i:57597494 original size:250 final size:246
Alignment explanation
Indices: 57597060--57597551 Score: 875
Period size: 250 Copynumber: 2.0 Consensus size: 246
57597050 GAAAATGTTA
57597060 TATATTAAGTAATGTATGTGTTGTGTTAATAATATGAAAAAAAATATTTTAGATGTATAATAGTG
1 TATATTAAGTAATGTATGTGTTGTGTTAATAATATGAAAAAAAATATTTTAGATGTATAATAGTG
57597125 ATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTTTGATCAA
66 ATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTTTGATCAA
57597190 TGAAGAATTTGTTGGAAAAATATAGGTGACTTGGTAAGAGTACTCGGCTTAGTGTATAAATGA-A
131 TGAAGAATTTGTTGGAAAAATATAGGTGACTTGGTAAGAGTACTCGGCTTAGTGTAT-AATGATA
57597254 TAAAAGATTTTAGAAATTATTTTTGGGTTAGGTGTATGTATGATTAGGTAATGT
195 T-AAAGATTTTAGAAATTATTTTT-GGTTAGGTGTATGTATGATTAGGTAATGT
*
57597308 TATATTAAGTAATGTATGTGAATTGTGTTAATAATATG-AAAAAAATATATTTAGATGTATTATA
1 TATATTAAGTAATGTATGTG--TTGTGTTAATAATATGAAAAAAAATAT-TTTAGATGTATAAT-
57597372 AGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTG-TTTGA
62 AGTGATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTTTGA
57597436 TCAATGAAGAA-TTGTTGGAAAAATATAGGTGAACTTGGTAAGAGTACTCGGCTTAGTGTATAAT
127 TCAATGAAGAATTTGTTGGAAAAATATAGGTG-ACTTGGTAAGAGTACTCGGCTTAGTGTATAAT
57597500 GATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGTA
191 GATATAAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGTA
57597552 TATTCGGCCA
Statistics
Matches: 237, Mismatches: 1, Indels: 12
0.95 0.00 0.05
Matches are distributed among these distances:
248 45 0.19
249 57 0.24
250 76 0.32
251 59 0.25
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (246 bp):
TATATTAAGTAATGTATGTGTTGTGTTAATAATATGAAAAAAAATATTTTAGATGTATAATAGTG
ATTAAGTATTAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTTTGATCAA
TGAAGAATTTGTTGGAAAAATATAGGTGACTTGGTAAGAGTACTCGGCTTAGTGTATAATGATAT
AAAGATTTTAGAAATTATTTTTGGTTAGGTGTATGTATGATTAGGTAATGT
Found at i:57598079 original size:29 final size:28
Alignment explanation
Indices: 57598047--57598123 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 28
57598037 CATGAGATTG
57598047 GCACTAAGTGTGCGGGTTTAAATTGTACA-
1 GCACTAAGTGTGCGGGTTTAAA--GTACAT
*
57598076 GCACTAAGTGTGCGAGTTTAAAGTACAT
1 GCACTAAGTGTGCGGGTTTAAAGTACAT
57598104 GACACTAAGTGTGCGCGGTT
1 G-CACTAAGTGTGCG-GGTT
57598124 GATTATAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 34 0.79
30 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAAAGTACAT
Found at i:57598340 original size:173 final size:173
Alignment explanation
Indices: 57598077--57598401 Score: 535
Period size: 173 Copynumber: 1.9 Consensus size: 173
57598067 AATTGTACAG
* *
57598077 CACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATAAGCACTATGTG
1 CACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATAAACACTATGCG
* * *
57598142 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAATT
57598207 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
* * * * *
57598250 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGC
1 CACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTA-TAAACACTATGC
*
57598315 GTGC-AACCCTATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAAT
65 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAAT
57598379 TTTGGACAGCGGAAAAGGTAAGT
130 TTTGGACAGCGGAAAAGGTAAGT
57598402 ACCTTGAGTT
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 127 0.91
174 13 0.09
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (173 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATAAACACTATGCG
TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
Found at i:57603649 original size:27 final size:28
Alignment explanation
Indices: 57603586--57603649 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
57603576 CCCCCAGTTG
*
57603586 TAAAATTA-CCAAAGTACCCTCAGTTTA
1 TAAAATTACCCAAAGTACCCTCAATTTA
* *
57603613 TAAAACTACCCAAA-TATCCTCAATTTA
1 TAAAATTACCCAAAGTACCCTCAATTTA
*
57603640 TAGAATTACC
1 TAAAATTACC
57603650 GTTTTACACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (28 bp):
TAAAATTACCCAAAGTACCCTCAATTTA
Found at i:57603665 original size:27 final size:27
Alignment explanation
Indices: 57603630--57603729 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
57603620 ACCCAAATAT
* *
57603630 CCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
57603657 ACTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
57603684 CCTCGATTTACAGAATTATCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
57603711 CCTCGATTTACACAATTAC
1 CCTCGATTTACAGAATTAC
57603730 TAAAATACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:57603738 original size:27 final size:26
Alignment explanation
Indices: 57603681--57603820 Score: 81
Period size: 27 Copynumber: 5.2 Consensus size: 26
57603671 ATTATCGTTT
***
57603681 TACCCTCGATTTACAGAATTA-TCATTT
1 TACCCTCGATTTACA-AATTACT-AAAA
57603708 TACCCTCGATTTACACAATTACTAAAA
1 TACCCTCGATTTACA-AATTACTAAAA
* *
57603735 TACCCT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTAC-AAATTACTAAAA
* *
57603762 TACCCCTAGTTTGTA-AAATTACTAAAA
1 TA-CCCTCGATT-TACAAATTACTAAAA
* * *
57603789 TACCCCTAGTTTGTA-AAATTACCAAAA
1 TA-CCCTCGATT-TACAAATTACTAAAA
57603816 TACCC
1 TACCC
57603821 CTAGCTTATA
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.04
27 83 0.86
28 8 0.08
29 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
TACCCTCGATTTACAAATTACTAAAA
Found at i:57603739 original size:54 final size:55
Alignment explanation
Indices: 57603624--57603758 Score: 132
Period size: 54 Copynumber: 2.5 Consensus size: 55
57603614 AAAACTACCC
* * *
57603624 AAATATCCTCAATTTATAGAATTACCGTTTTACACTCGATTTACAAAATTATCGT
1 AAATACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTATCGT
** * * * *
57603679 -TTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACACAATTA-C-T
1 AAATACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTATCGT
* * *
57603731 AAAATACCCTTAGTTTACAAAATTACCA
1 -AAATACCCTCAATTTACAGAATTACCA
57603759 AAATACCCCT
Statistics
Matches: 62, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.02
53 1 0.02
54 60 0.97
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (55 bp):
AAATACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTATCGT
Found at i:57603821 original size:27 final size:27
Alignment explanation
Indices: 57603724--57603843 Score: 168
Period size: 27 Copynumber: 4.4 Consensus size: 27
57603714 CGATTTACAC
* * *
57603724 AATTACTAAAATACCCTTAGTTTACAA
1 AATTACCAAAATACCCCTAGTTTATAA
*
57603751 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAA
* *
57603778 AATTACTAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAA
*
57603805 AATTACCAAAATACCCCTAGCTTATAA
1 AATTACCAAAATACCCCTAGTTTATAA
*
57603832 AATTAGCAAAAT
1 AATTACCAAAAT
57603844 CCACCTGATT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTATAA
Found at i:57603871 original size:81 final size:81
Alignment explanation
Indices: 57603724--57603903 Score: 181
Period size: 81 Copynumber: 2.2 Consensus size: 81
57603714 CGATTTACAC
* * *
57603724 AATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
57603789 TACCCCTAG-TTTGTAA
66 TA-CCCTAGATTTGTAA
* * ** *
57603805 AATTACCAAAATACCCCTAGCTTATAAAATTAGCAAAAT-CCACCT-GATTTGTGGAATTA-TCG
1 AATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACC-CCTAG-TTTGTAAAATTACT-A
* *
57603867 AAATACTCTCGATTTGTAA
63 AAATACCCTAGATTTGTAA
* *
57603886 AA-TATCGAAATACCCCTA
1 AATTACCAAAATACCCCTA
57603904 TAGGGTAGAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
80 22 0.27
81 61 0.73
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
TACCCTAGATTTGTAA
Found at i:57603950 original size:27 final size:27
Alignment explanation
Indices: 57603885--57603967 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
57603875 TCGATTTGTA
57603885 AAATATCGAAATACCCCTATAGGGTAG
1 AAATATCGAAATACCCCTATAGGGTAG
* * * *
57603912 AATTA-CTAAAATACCCTTGTAGGGTAG
1 AAATATC-GAAATACCCCTATAGGGTAG
*
57603939 AAATATCGAAAT-CTCCTATAGGGTA-
1 AAATATCGAAATACCCCTATAGGGTAG
57603964 AAAT
1 AAAT
57603968 TACCGAGATA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
25 4 0.09
26 11 0.24
27 29 0.64
28 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (27 bp):
AAATATCGAAATACCCCTATAGGGTAG
Found at i:57603983 original size:53 final size:53
Alignment explanation
Indices: 57603882--57603994 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 53
57603872 CTCTCGATTT
* *
57603882 GTAAAATATCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTGTAGG
1 GTAAAATATCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAGG
* * * * *
57603935 GTAGAAATATCGAAAT-CTCCTATAGGGTAAAATTACCGAGATATCCTTGTGGG
1 GTA-AAATATCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAGG
57603988 GTAAAAT
1 GTAAAAT
57603995 TACCATTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.08
53 36 0.69
54 12 0.23
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (53 bp):
GTAAAATATCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAGG
Found at i:57604009 original size:27 final size:27
Alignment explanation
Indices: 57603979--57604041 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
57603969 ACCGAGATAT
*
57603979 CCTTGTGGGGTAAAATTACCATTTTGC
1 CCTTGTGGGGTAAAATGACCATTTTGC
* * *
57604006 CCTTAG-GGTGTTAAATGACTATTTTGC
1 CCTT-GTGGGGTAAAATGACCATTTTGC
*
57604033 CCTTATGGG
1 CCTTGTGGG
57604042 CAAGTGACTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (27 bp):
CCTTGTGGGGTAAAATGACCATTTTGC
Found at i:57604273 original size:24 final size:25
Alignment explanation
Indices: 57604201--57604267 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
57604191 AGGAAGTGCT
* * *
57604201 AAAAGGGGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
57604226 AAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
57604251 AAAAAGGGCTTTGCCCC
1 AAAAAGGGCTTTGCCCC
57604268 GATTATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:57604278 original size:24 final size:25
Alignment explanation
Indices: 57604201--57604278 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
57604191 AGGAAGTGCT
* * * *
57604201 AAAAGGGGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGATTATC
*
57604226 AAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGATTATC
*
57604251 AAAAAGGGCTTTGCCCC-GATTATT
1 AAAAAGGGCTTTGCCCCAGATTATC
57604275 AAAA
1 AAAA
57604279 GAGGCTAGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.19
25 39 0.81
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGATTATC
Found at i:57605763 original size:46 final size:46
Alignment explanation
Indices: 57605695--57605822 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 46
57605685 TAACCCGCCC
** * *
57605695 CTAAGTGAACTTGGACTCAACTCAACGAGCTCGG-G-C-GTTCGCAT
1 CTAAGTGAACTCAGACTCAACTCAACGAGTTCGGAGCCAGTT-ACAT
*
57605739 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT
1 -C-TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-GCC-AGTTACAT
57605789 CT-AGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CTAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
57605823 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
45 1 0.01
46 29 0.41
47 31 0.44
48 2 0.03
49 2 0.03
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCAGACTCAACTCAACGAGTTCGGAGCCAGTTACAT
Found at i:57606279 original size:30 final size:30
Alignment explanation
Indices: 57606245--57606304 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57606235 ATTTAATACG
57606245 AACTTTGAAAAAATTACACTTTTGCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
* * * *
57606275 AACTTTTACATAATTACACTTTTTCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
57606305 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTGAAAAAATTACACTTTTGCCCCTA
Found at i:57611148 original size:33 final size:32
Alignment explanation
Indices: 57611106--57611183 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
57611096 CCGTAGTCCA
*
57611106 ACCATGGTCTTACACATGTATTGCCATGACCC
1 ACCATGGTCTTACACATGTATTGCCATAACCC
** *
57611138 TACCATGGTCTTACATTTGTATTGTCATAACCC
1 -ACCATGGTCTTACACATGTATTGCCATAACCC
*
57611171 AGTCATGGTCTTA
1 A-CCATGGTCTTA
57611184 TCATCAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 1 0.03
33 38 0.97
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (32 bp):
ACCATGGTCTTACACATGTATTGCCATAACCC
Found at i:57613131 original size:26 final size:26
Alignment explanation
Indices: 57613102--57613183 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
57613092 AATTATCCGG
57613102 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * *
57613128 TACACA-CGT-GACCT-AAC-TATCTGA-
1 TACACATAGTAG-CCTGCACTTA-GT-AC
*
57613152 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
57613178 TACACA
1 TACACA
57613184 CGTGATCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
23 2 0.05
24 9 0.22
25 12 0.30
26 15 0.38
27 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:57613261 original size:101 final size:99
Alignment explanation
Indices: 57613043--57613243 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
57613033 TATGTAGCCA
* * * * *
57613043 AACTATCTGGTACGCATAGTAGCCTACACTTAGTACCACACATGCGACCAATTATCCGGTACACA
1 AACTATCTGATACACGTAGTAGCCTACACTTAGTACCACACACGCGACCAATTATCAGGTACACA
*
57613108 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * **
57613142 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATG
1 AACTATCTGATACACGTAGTAGCCTACACTTAGTACCACACACGCGA-CCAA-TTATCAGGTACA
*
57613207 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
57613243 A
1 A
57613244 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 40 0.46
100 3 0.03
101 44 0.51
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTACACTTAGTACCACACACGCGACCAATTATCAGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:57614085 original size:30 final size:30
Alignment explanation
Indices: 57614049--57614109 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57614039 TCCTTAACTC
57614049 AAACTTTGGAAAATTTACAATTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTTCCCCT
* * * **
57614079 AAACTTTTGCATATTTACGCTTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTTCCCCT
57614109 A
1 A
57614110 GGCTCAGAAA
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:0.28, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTTCCCCT
Found at i:57616795 original size:49 final size:49
Alignment explanation
Indices: 57616730--57617000 Score: 419
Period size: 47 Copynumber: 5.6 Consensus size: 49
57616720 AGTATATGTG
57616730 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57616779 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57616826 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57616875 GAATGTGAAAGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTA--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
57616926 GAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57616973 GGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GAATGTGAAAGTGTATATATATGTGATAAG
57617001 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
47 95 0.46
48 1 0.00
49 64 0.31
51 47 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:57618516 original size:40 final size:40
Alignment explanation
Indices: 57618471--57618838 Score: 551
Period size: 40 Copynumber: 9.2 Consensus size: 40
57618461 GGGCTAAATC
*
57618471 CCGAAGAACATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
*
57618511 TCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
*
57618551 TCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
57618591 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * *
57618631 CCGAAGAGCATTCGTGCTAGTGATGTATCC-AAGCTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGA-CTAAGTT
57618671 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
57618711 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* ***
57618751 CCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTT
* * * * * * *
57618791 CCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
57618831 CCGAAGAG
1 CCGAAGAG
57618839 TAATCATGCG
Statistics
Matches: 304, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 300 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
Found at i:57622537 original size:47 final size:47
Alignment explanation
Indices: 57622468--57623016 Score: 990
Period size: 47 Copynumber: 11.6 Consensus size: 47
57622458 AGTATATGTG
57622468 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622517 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622564 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622611 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622658 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622707 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622754 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622801 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622848 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57622895 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
57622942 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
57622989 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
57623017 TCCCGAAGGG
Statistics
Matches: 488, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
47 428 0.88
49 60 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:57628560 original size:17 final size:17
Alignment explanation
Indices: 57628509--57628567 Score: 91
Period size: 17 Copynumber: 3.5 Consensus size: 17
57628499 GATGGGTCAT
57628509 GTAGGCCCAATGGGCTC
1 GTAGGCCCAATGGGCTC
* *
57628526 ATAGGCCCAATAGGCTC
1 GTAGGCCCAATGGGCTC
57628543 GTAGGCCCAATGGGCTC
1 GTAGGCCCAATGGGCTC
*
57628560 GTGGGCCC
1 GTAGGCCC
57628568 CACATGAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.17
Consensus pattern (17 bp):
GTAGGCCCAATGGGCTC
Found at i:57630255 original size:20 final size:20
Alignment explanation
Indices: 57630230--57630276 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57630220 AGCTCCATCT
*
57630230 AGCTCAATTCAGTTCATTTG
1 AGCTCAATTCAGCTCATTTG
* * *
57630250 AGCTCATTTTAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
57630270 AGCTCAA
1 AGCTCAA
57630277 CCGAGCTTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:57630356 original size:20 final size:20
Alignment explanation
Indices: 57630331--57630378 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
57630321 AAGTCCATCC
*
57630331 AGCTCAATTCAGTTCATTTG
1 AGCTCAATTCAGCTCATTTG
* * *
57630351 AGCTCATTTTAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
57630371 AGCTCAAT
1 AGCTCAAT
57630379 CGAGCTTACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:57630398 original size:101 final size:101
Alignment explanation
Indices: 57630223--57630425 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
57630213 CTTCTCGAGC
*
57630223 TCCATCTAGCTCAATTCAGTTCATTTGAGCTCATTTTAGCTCGTTTGAGCTCAACCGAGCTTACC
1 TCCATCCAGCTCAATTCAGTTCATTTGAGCTCATTTTAGCTCGTTTGAGCTCAACCGAGCTTACC
57630288 TTCAGCTCGTTCTTTATTTCAATAAATTAAACTAAG
66 TTCAGCTCGTTCTTTATTTCAATAAATTAAACTAAG
*
57630324 TCCATCCAGCTCAATTCAGTTCATTTGAGCTCATTTTAGCTCGTTTGAGCTCAATCGAGCTTACC
1 TCCATCCAGCTCAATTCAGTTCATTTGAGCTCATTTTAGCTCGTTTGAGCTCAACCGAGCTTACC
57630389 TTCAGCTCGTTCTTTATTTCAATAAATTAAACTAAG
66 TTCAGCTCGTTCTTTATTTCAATAAATTAAACTAAG
57630425 T
1 T
57630426 TTTAGTTTTA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (101 bp):
TCCATCCAGCTCAATTCAGTTCATTTGAGCTCATTTTAGCTCGTTTGAGCTCAACCGAGCTTACC
TTCAGCTCGTTCTTTATTTCAATAAATTAAACTAAG
Found at i:57635290 original size:27 final size:27
Alignment explanation
Indices: 57635243--57635294 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57635233 CATCTGATAT
*
57635243 TGATTCTGTATTAGGCTTAGGCCCACC
1 TGATTCTGTAATAGGCTTAGGCCCACC
*
57635270 TGATTCTGTTAATGGGC-TAGGCCCA
1 TGATTCTG-TAATAGGCTTAGGCCCA
57635295 ACTATTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (27 bp):
TGATTCTGTAATAGGCTTAGGCCCACC
Found at i:57641160 original size:45 final size:45
Alignment explanation
Indices: 57641091--57641251 Score: 261
Period size: 45 Copynumber: 3.6 Consensus size: 45
57641081 TGTATAGTAA
*
57641091 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCTGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
* *
57641136 TATTTGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
*
57641181 TATTTGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
*
57641226 TATTCGGG-CTTTCAAGCCTAGCAGGC
1 TATTCGGGCCTTT-GAGCCTAGCAGGC
57641252 GAAGTGCCAG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.04
45 105 0.96
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
Found at i:57645820 original size:30 final size:30
Alignment explanation
Indices: 57645762--57645822 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57645752 TTCCCGAGCC
*
57645762 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * * *
57645792 TAGGGGCAAAATTGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
57645822 T
1 T
57645823 GAGTTAAGGA
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:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:57646151 original size:18 final size:19
Alignment explanation
Indices: 57646118--57646153 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57646108 TTAAATTTAG
*
57646118 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
57646137 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
57646154 GTGCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:57666376 original size:25 final size:25
Alignment explanation
Indices: 57666347--57666471 Score: 76
Period size: 23 Copynumber: 5.2 Consensus size: 25
57666337 ATTCTACCTT
57666347 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57666372 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
57666394 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57666419 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
57666441 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57666466 ATCACA
1 ATCACA
57666472 TTGGCCATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 12 0.16
23 22 0.30
24 22 0.30
25 18 0.24
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:57666376 original size:47 final size:47
Alignment explanation
Indices: 57666325--57666515 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
57666315 TTCCACGTTT
* * **
57666325 ATCACATTAGTCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57666372 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57666419 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
57666466 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57666513 ATC
1 ATC
57666516 TCATAAAATC
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:57666399 original size:22 final size:22
Alignment explanation
Indices: 57666372--57666446 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
57666362 GTTCACATTC
57666372 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
57666394 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
57666418 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57666441 ATCACA
1 ATCACA
57666447 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57666441 original size:94 final size:94
Alignment explanation
Indices: 57666279--57666515 Score: 298
Period size: 94 Copynumber: 2.5 Consensus size: 94
57666269 CATACATATC
* * * * * * * *
57666279 TCACATTAGCCATTTGG-CTTCACCACATATATACAC-TTCCACGTTTATCACATTAGTCATTCT
1 TCACATTGGCCATTAGGCCTT-ATCACACATATACACATT-CACATTCATCACATTAGCCATTCG
57666342 ACCTTATCACACATATGCATGTTCACATTCA
64 ACCTTATCACACATATGCATGTTCACATTCA
* * ** * *
57666373 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTAGGCCTTATCACACATATACACATTCACATTCATCACATTAGCCATTCGAC
57666438 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
* *
57666467 TCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTCATC
1 TCACATTGGCCATTAGGCCTTATCACACATATACACATTCACATTCATC
57666516 TCATAAAATC
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
94 118 0.96
95 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
TCACATTGGCCATTAGGCCTTATCACACATATACACATTCACATTCATCACATTAGCCATTCGAC
CTTATCACACATATGCATGTTCACATTCA
Found at i:57670427 original size:40 final size:40
Alignment explanation
Indices: 57670383--57670696 Score: 529
Period size: 40 Copynumber: 7.8 Consensus size: 40
57670373 GAATACACAT
* * * *
57670383 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
* * *
57670423 CACCAGCAGGAATGCTCTTTGGGACTTAGCCCAGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
57670463 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
57670503 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
57670543 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
57670583 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
57670623 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
57670663 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
57670697 CTATATAACT
Statistics
Matches: 258, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:57672306 original size:25 final size:25
Alignment explanation
Indices: 57672277--57672354 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
57672267 ATTCTACCTT
57672277 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57672302 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
57672324 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57672349 ATCACA
1 ATCACA
57672355 TTGGCCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:57672306 original size:47 final size:47
Alignment explanation
Indices: 57672255--57672398 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 47
57672245 TTCCACGTTT
* *
57672255 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
*
57672302 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
* * * * * **
57672349 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
57672396 ATC
1 ATC
57672399 TCATAAAATC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
Found at i:57676556 original size:40 final size:40
Alignment explanation
Indices: 57676499--57676716 Score: 368
Period size: 40 Copynumber: 5.5 Consensus size: 40
57676489 CGGATGATAA
57676499 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57676539 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57676579 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57676619 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57676659 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
57676699 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57676717 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.10
40 152 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57678847 original size:28 final size:29
Alignment explanation
Indices: 57678811--57678870 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
57678801 AAAGTAATTT
* *
57678811 TTGACAAAAATGTCAATT-AGGGATTTAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
57678839 TTGATAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
57678868 TTG
1 TTG
57678871 TGAAATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:57679413 original size:43 final size:41
Alignment explanation
Indices: 57679307--57679460 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 41
57679297 ATCGAGATGT
* * * *
57679307 GATTACATGTAAGACCATGTCTAGAACATTGGCATTGTATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCA-T-CATTAA
57679350 GATTACGT-TAAGACCATGTCTGGGACATTGGCATCATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAA
* * * **
57679390 TTGATTTCGTGTAAGACCCTGTCTGAGACAGTT-GCATCGATATGT
1 --GATTACGTGTAAGACCATGTCTGGGACA-TTGGCATC-AT-TAA
* * *
57679435 GATAACATGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
57679461 TATGGTATTG
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
40 5 0.06
41 1 0.01
42 30 0.33
43 49 0.54
44 4 0.04
45 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (41 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAA
Found at i:57683874 original size:19 final size:19
Alignment explanation
Indices: 57683824--57683888 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
57683814 TAAATCATTC
* * *
57683824 TATAACAGCAACTCATCCT
1 TATAACAGTAATTCATCCA
* *
57683843 TTTGAACAATAATTCATCCA
1 TAT-AACAGTAATTCATCCA
57683863 TATAACAGTAATTCATCCA
1 TATAACAGTAATTCATCCA
57683882 TATAACA
1 TATAACA
57683889 CATAGATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.63
20 14 0.37
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAACAGTAATTCATCCA
Found at i:57684087 original size:23 final size:24
Alignment explanation
Indices: 57684057--57684115 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
57684047 GAGCTGATAG
57684057 ATAGTAAGCTCT-ATTGAGTTGA-A
1 ATAGTAAGCTCTGA-TGAGTTGAGA
*
57684080 ATAGTAAGCTTTGATGAGTTGAGA
1 ATAGTAAGCTCTGATGAGTTGAGA
*
57684104 ACAGTAAGCTCT
1 ATAGTAAGCTCT
57684116 TACGAGCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (24 bp):
ATAGTAAGCTCTGATGAGTTGAGA
Found at i:57689010 original size:11 final size:10
Alignment explanation
Indices: 57688984--57689017 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
57688974 GGAGAGCACC
*
57688984 AAGAGTCAAA
1 AAGAGCCAAA
57688994 AAGAGCCAAA
1 AAGAGCCAAA
57689004 AACGAGCCAAA
1 AA-GAGCCAAA
57689015 AAG
1 AAG
57689018 GGACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:57712507 original size:40 final size:40
Alignment explanation
Indices: 57712463--57712647 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
57712453 GCTACTCATT
* *
57712463 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57712503 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57712543 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
57712582 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
57712623 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57712648 CATCATTCCA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.03
39 29 0.23
40 77 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57712563 original size:79 final size:81
Alignment explanation
Indices: 57712465--57712647 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
57712455 TACTCATTCA
* **
57712465 AATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
57712528 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
57712545 AATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
57712608 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
57712624 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57712648 CATCATTCCA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 5 0.06
79 57 0.65
80 24 0.27
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:57719633 original size:16 final size:16
Alignment explanation
Indices: 57719612--57719644 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57719602 CTAGACTCAA
57719612 AGAGGAATCTATACAT
1 AGAGGAATCTATACAT
57719628 AGAGGAATCTATACAT
1 AGAGGAATCTATACAT
57719644 A
1 A
57719645 TATGGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AGAGGAATCTATACAT
Found at i:57720670 original size:40 final size:40
Alignment explanation
Indices: 57720633--57720814 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
57720623 GCTACTCGTT
*
57720633 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57720673 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
57720713 CCAATGCCTT-TGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
57720751 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
57720792 CAAA-GCCTTC-GGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
57720815 ACATCATTCG
Statistics
Matches: 121, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
38 32 0.26
39 11 0.09
40 67 0.55
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57720800 original size:78 final size:79
Alignment explanation
Indices: 57720633--57720815 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 79
57720623 GCTACTCGTT
* *
57720633 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
57720697 GATTTAGTAACTCGCAC
63 GATATAGTAACTAGCAC
* * **
57720714 CAATGCCTTTGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 CAAAGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* *
57720777 TATGGTCACTTAGCA-
65 TATAGTAAC-TAGCAC
57720792 CAAAGCCTTCGGACTTAGCCCGGA
1 CAAAGCCTTCGGACTTAGCCCGGA
57720816 CATCATTCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
77 3 0.03
78 57 0.66
79 18 0.21
80 5 0.06
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:57726751 original size:24 final size:25
Alignment explanation
Indices: 57726723--57726769 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
57726713 TCCGACCCAA
*
57726723 TTTTAATGAAATATG-AATGGAAGC
1 TTTTAATGAAATAAGTAATGGAAGC
* *
57726747 TTTTAGTGGAATAAGTAATGGAA
1 TTTTAATGAAATAAGTAATGGAA
57726770 CTTGGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (25 bp):
TTTTAATGAAATAAGTAATGGAAGC
Found at i:57727226 original size:15 final size:15
Alignment explanation
Indices: 57727206--57727235 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57727196 ATGAGTCTTT
57727206 TCATTACTTCGAGAA
1 TCATTACTTCGAGAA
57727221 TCATTACTTCGAGAA
1 TCATTACTTCGAGAA
57727236 GTTAAGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
TCATTACTTCGAGAA
Found at i:57730041 original size:23 final size:23
Alignment explanation
Indices: 57730011--57730101 Score: 89
Period size: 23 Copynumber: 3.9 Consensus size: 23
57730001 AGGCTGATGG
*
57730011 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAA
57730034 ACAGTAAGCTCTGA-CGAGCTGAA
1 ACAGTAAGCTCT-ATCGAGCTGAA
* * *
57730057 TCAATAAGCTC-ATACGAGTTGAGA
1 ACAGTAAGCTCTAT-CGAGCTGA-A
57730081 ACAGTAAGCTCT-TACGAGCTG
1 ACAGTAAGCTCTAT-CGAGCTG
57730102 CGGTGAGTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.02
23 36 0.64
24 19 0.34
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTATCGAGCTGAA
Found at i:57731837 original size:25 final size:23
Alignment explanation
Indices: 57731803--57731855 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
57731793 TTGAACCCAA
*
57731803 TTTTATTGAAATATG-AATGGAAGC
1 TTTTATTG-AATAAGTAATGGAA-C
57731827 TTTTAGTTGAATAAGTAATGGAAC
1 TTTTA-TTGAATAAGTAATGGAAC
57731851 TTTTA
1 TTTTA
57731856 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.42
Consensus pattern (23 bp):
TTTTATTGAATAAGTAATGGAAC
Found at i:57737249 original size:27 final size:27
Alignment explanation
Indices: 57737211--57737323 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
57737201 CAGCATGGCT
* *
57737211 ACCAGAACAGATA-ATGTGACATAGTC
1 ACCAGAACAGATATATGTGGCATAGCC
* *
57737237 ACCAGATACAGATATTTGTGGCACAGCC
1 ACCAGA-ACAGATATATGTGGCATAGCC
* * *
57737265 ACCAAAACAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCATAGCC
57737292 ACCAGAACAGATA-ATTGTGGCATAGCC
1 ACCAGAACAGATATA-TGTGGCATAGCC
57737319 ACCAG
1 ACCAG
57737324 GACGTTTCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.08
27 55 0.73
28 14 0.19
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (27 bp):
ACCAGAACAGATATATGTGGCATAGCC
Found at i:57745163 original size:27 final size:27
Alignment explanation
Indices: 57745051--57745163 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
57745041 CAGTATGGCT
* * *
57745051 ACCAGAACAGATAA-TGTGACATAGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
* *
57745077 ACCAGATATAGATATTTGTGGCAGAGCC
1 ACCAGA-ACAGATAATTGTGGCAGAGCC
* * *
57745105 ACCAAAACAGATATTTGTGGTAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
57745132 ACCAGAACAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
57745159 ACCAG
1 ACCAG
57745164 GACGTTTCCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.08
27 53 0.73
28 14 0.19
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:57756883 original size:12 final size:12
Alignment explanation
Indices: 57756866--57756893 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57756856 ATTTTAAATT
57756866 CTTAAAAATCAA
1 CTTAAAAATCAA
57756878 CTTAAAAATCAA
1 CTTAAAAATCAA
57756890 CTTA
1 CTTA
57756894 TCAATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.29
Consensus pattern (12 bp):
CTTAAAAATCAA
Found at i:57760232 original size:100 final size:100
Alignment explanation
Indices: 57760054--57760238 Score: 246
Period size: 100 Copynumber: 1.9 Consensus size: 100
57760044 GTCAAGTGTA
* * * *
57760054 TAGTACTAACTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGTAGG
1 TAGTACTAACTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGTAGC
*
57760119 CTACTATGCGTACCCGATAACTTCAAAAACGACTG
66 CTACTACGCGTACCCGATAACTTCAAAAACGACTG
* * * *
57760154 TAGTACTAAGTGCAGGCT-CTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAG
1 TAGTACTAACTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGTGTAG
* * *
57760218 CCTATTACGTGTACCGGATAA
65 CCTACTACGCGTACCCGATAA
57760239 TTGGTCACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 15 0.21
100 57 0.79
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TAGTACTAACTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGTAGC
CTACTACGCGTACCCGATAACTTCAAAAACGACTG
Found at i:57760281 original size:49 final size:49
Alignment explanation
Indices: 57760054--57760286 Score: 211
Period size: 49 Copynumber: 4.7 Consensus size: 49
57760044 GTCAAGTGTA
* * * *
57760054 TAGTACTAACTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
* * * * * * *
57760103 TAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACT--TCAAAAACGACTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC--ACATG--TG
* ** *
57760154 TAGTACTAAGTGCAGGCT-CTACGTGTATCAGATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTG
* * * *
57760203 TAGTACTAAGTGTAGCCTATTACGTGTACCGGATAATTGGTCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
* *
57760252 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57760287 GCTTTGGCTA
Statistics
Matches: 141, Mismatches: 35, Indels: 16
0.73 0.18 0.08
Matches are distributed among these distances:
47 2 0.01
49 90 0.64
50 26 0.18
51 21 0.15
53 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
Found at i:57760656 original size:21 final size:21
Alignment explanation
Indices: 57760630--57760685 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
57760620 AACAACGGTG
*
57760630 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
57760651 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
57760672 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
57760686 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:57760871 original size:18 final size:18
Alignment explanation
Indices: 57760848--57760981 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 18
57760838 TTATTATTAA
57760848 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
57760866 ATATAATTTAAT-AGAAT
1 ATATAATTTAATAAAAAT
*
57760883 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
57760901 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * * *
57760917 ATAAAATATAGTTTAAAAT
1 ATATAATTTA-ATAAAAAT
* *
57760936 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
57760948 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
57760966 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
57760982 TTCTTAGTAT
Statistics
Matches: 84, Mismatches: 21, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.04
16 7 0.08
17 21 0.25
18 40 0.48
19 5 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:57760949 original size:26 final size:25
Alignment explanation
Indices: 57760909--57760971 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
57760899 ATTATAATAT
*
57760909 ATAATATTATAAAATATAGTTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
57760934 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
57760961 AAAATA-TATAA
1 ATAATATTATAA
57760972 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.25
26 20 0.62
27 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:57760967 original size:59 final size:59
Alignment explanation
Indices: 57760904--57761102 Score: 198
Period size: 59 Copynumber: 3.3 Consensus size: 59
57760894 CTAAAATTAT
57760904 AATATATAATATT-ATAAAATATAGTTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAGTTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * *
57760963 AATATATAATTTAATAAAATTCTTAGTATT-AAAT-ATTCTTA-T--AT-GAATTT-ACTAA
1 AATATATAATTTAATAAAA-T-ATAGT-TTAAAATAATTATTATTAAATATAATTTAACAAA
* *
57761018 AATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AAT-AT-ATA-ATT-TA--ATAAAATATAGTTTAAAATAATTATTATTAAATATAATTTAACAAA
57761083 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
57761103 TCTTAGTATT
Statistics
Matches: 113, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
55 7 0.06
56 7 0.06
57 5 0.04
58 7 0.06
59 33 0.29
60 13 0.12
61 17 0.15
62 5 0.04
63 5 0.04
64 7 0.06
65 7 0.06
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAGTTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:57761015 original size:120 final size:120
Alignment explanation
Indices: 57760882--57761121 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
57760872 TTTAATAGAA
* * * *
57760882 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAGTTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
57760947 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
57761002 TATATGAATTTACTAAAATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
57761067 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
57761122 AATGATTGTA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:57768535 original size:14 final size:14
Alignment explanation
Indices: 57768516--57768553 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
57768506 TTTTATTAGG
*
57768516 TTTTATAATTATTA
1 TTTTATAATTACTA
57768530 TTTTATAATTACTA
1 TTTTATAATTACTA
*
57768544 TTTTACAATT
1 TTTTATAATT
57768554 TTTAATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTATAATTACTA
Found at i:57780113 original size:41 final size:40
Alignment explanation
Indices: 57780032--57780120 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 40
57780022 TCTGATATGC
* * * *
57780032 ATTCTGTATCTGATTGTGCTGAGGCCCTAATATATTTCTG
1 ATTCTGTATCTGACTGGGCTAAGGCCCTAATATATATCTG
* * *
57780072 ATTCTGTATCTGAGCTGGGCTAAGGCCTTAATTTGTATCTG
1 ATTCTGTATCTGA-CTGGGCTAAGGCCCTAATATATATCTG
57780113 ATTCTGTA
1 ATTCTGTA
57780121 ATGGGTTCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 13 0.32
41 28 0.68
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (40 bp):
ATTCTGTATCTGACTGGGCTAAGGCCCTAATATATATCTG
Found at i:57783718 original size:46 final size:46
Alignment explanation
Indices: 57783668--57783836 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
57783658 TGAGCATCCA
*
57783668 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * *
57783714 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* **
57783761 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* *
57783807 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
57783837 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 58 0.57
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:57783820 original size:93 final size:93
Alignment explanation
Indices: 57783661--57783831 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57783651 GGATGGTTGA
*** *
57783661 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
57783726 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
57783754 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
57783819 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57783832 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57792833 original size:27 final size:27
Alignment explanation
Indices: 57792803--57793213 Score: 597
Period size: 27 Copynumber: 15.2 Consensus size: 27
57792793 CAAGTTCTAA
* *
57792803 AATTACCATTTTACCTTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAG
* *
57792830 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
*
57792857 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAG
57792884 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* *
57792911 AATTACCATTTTACCTTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
*
57792938 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
*
57792965 AATTATCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* * * *
57792992 AATTACCGTCTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAG
57793019 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* *
57793046 AATTACCATTTTACCTTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* *
57793073 AATTACCATTTTACCCTCAATTTATTG
1 AATTACCATTTTACCCTCGATTTATAG
*
57793100 AATTATCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* * * *
57793127 AATTACCATCTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTATAG
57793154 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAG
* * *
57793181 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTATAG
57793208 AATTAC
1 AATTAC
57793214 TGAAATACCC
Statistics
Matches: 339, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 339 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTATAG
Found at i:57793222 original size:27 final size:27
Alignment explanation
Indices: 57793146--57793277 Score: 93
Period size: 27 Copynumber: 4.9 Consensus size: 27
57793136 CTTACCCTTG
*** *
57793146 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCA
* * ***
57793173 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTACAAAATTACCAAAATACCCTCA
** **
57793200 ATTTACAAAATTACTGAAATACCCTTG
1 ATTTACAAAATTACCAAAATACCCTCA
* * *
57793227 GTTTACAAAATTTCCAAAATACCCTCT
1 ATTTACAAAATTACCAAAATACCCTCA
** *
57793254 ATCAATAAAATTACCAAAATACCC
1 ATTTACAAAATTACCAAAATACCC
57793278 CTGATTTGTG
Statistics
Matches: 82, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTTACAAAATTACCAAAATACCCTCA
Found at i:57793347 original size:81 final size:81
Alignment explanation
Indices: 57793259--57793520 Score: 323
Period size: 81 Copynumber: 3.2 Consensus size: 81
57793249 CCTCTATCAA
* * ** **
57793259 TAAAATTACCAAAATACCCCTGATT-TGT-GAAATTGTTGAAATACCTTTGTAGGGTAGAATTAC
1 TAAAATTACCGAAATACCCCTG-TTAGGTAG-AATTACTGAAATACCCCTGTAGGGTAGAATTAC
*
57793322 TAAAATACCCCTGTAGGG
64 TGAAATACCCCTGTAGGG
* * * * * * *
57793340 TAGAATTACTGGAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTATGGTAGAATTACTG
1 TAAAATTACCGAAATACCCCTGTTAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
57793405 AAATACCCCTGTAGGG
66 AAATACCCCTGTAGGG
*
57793421 TAAAATTACCGAAATACCCCTG-TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
1 TAAAATTACCGAAATACCCCTGTTA-GGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACT
*
57793485 GAAATACCTCTGTAGGG
65 GAAATACCCCTGTAGGG
*
57793502 TAAAATTACCGAGATACCC
1 TAAAATTACCGAAATACCC
57793521 TTGTCGGGTA
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.01
81 151 0.98
82 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (81 bp):
TAAAATTACCGAAATACCCCTGTTAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
AAATACCCCTGTAGGG
Found at i:57793538 original size:27 final size:27
Alignment explanation
Indices: 57793296--57793538 Score: 324
Period size: 27 Copynumber: 9.0 Consensus size: 27
57793286 TGAAATTGTT
** *
57793296 GAAATACCTTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57793323 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
57793350 GGAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57793377 GAAATACCCCTGTATGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
57793404 GAAATACCCCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
57793431 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
57793458 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57793485 GAAATACCTCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
57793512 GAGATACCCTTGTCGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
57793539 ATTTTGCCCC
Statistics
Matches: 192, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:57793822 original size:31 final size:32
Alignment explanation
Indices: 57793784--57793845 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
57793774 CTCGCTGCAA
* *
57793784 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
57793815 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
57793846 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:57794024 original size:6 final size:6
Alignment explanation
Indices: 57794015--57794110 Score: 65
Period size: 6 Copynumber: 15.7 Consensus size: 6
57794005 TACCTGATAT
* * *
57794015 TGATTC TGATTT TGATTC TG-TTAC CGAATAT- TGATTC TGATTC TGATTT
1 TGATTC TGATTC TGATTC TGATT-C TG-AT-TC TGATTC TGATTC TGATTC
* *
57794064 TGATTC TG-TCACC TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
57794111 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.07
6 58 0.83
7 4 0.06
8 2 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:57794029 original size:12 final size:12
Alignment explanation
Indices: 57794008--57794071 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
57793998 ATTCTGTTAC
*
57794008 CTGATATTGATT
1 CTGATTTTGATT
57794020 CTGATTTTGATT
1 CTGATTTTGATT
**
57794032 CTG-TTACCGAATAT
1 CTGATT-TTG-AT-T
*
57794046 -TGATTCTGATT
1 CTGATTTTGATT
57794057 CTGATTTTGATT
1 CTGATTTTGATT
57794069 CTG
1 CTG
57794072 TCACCTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 3 0.07
12 30 0.71
13 6 0.14
14 3 0.07
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGATTTTGATT
Done.