Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 152 of 373
Found at i:50405099 original size:27 final size:26
Alignment explanation
Indices: 50405049--50405232 Score: 174
Period size: 27 Copynumber: 6.8 Consensus size: 26
50405039 AGAAAGTCAA
**
50405049 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-CAG
**
50405076 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
* * *
50405102 AGGGTATTTCGATAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAAC-AG
* *
50405130 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
50405157 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
*
50405184 GGGTATTTTGGTAATTTTATTC-TACAG
1 GGGTATTTTGGTAATTTTA--CAAACAG
* *
50405211 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
50405233 TCGAAGGTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 2 0.02
27 126 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:50405188 original size:81 final size:81
Alignment explanation
Indices: 50405050--50405200 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
50405040 GAAAGTCAAG
* ** *
50405050 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGAT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGAT
50405115 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
*
50405131 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCG
*
50405194 GTAATTT
64 ATAATTT
50405201 TATTCTACAG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 59 0.95
82 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGAT
AATTTCACAAACTAGT
Found at i:50405271 original size:27 final size:27
Alignment explanation
Indices: 50405231--50405428 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
50405221 GTAATTTCAC
*
50405231 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
50405258 AA-CTGAGGGTAAAATGGTAATTTTTTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
50405285 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
50405312 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
50405339 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
50405366 AATCGAGGGTGAAACGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
50405393 AATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
50405420 AATCGAGGG
1 AATCGAGGG
50405429 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:50405306 original size:54 final size:54
Alignment explanation
Indices: 50405231--50405428 Score: 272
Period size: 54 Copynumber: 3.7 Consensus size: 54
50405221 GTAATTTCAC
* * *
50405231 AATCGAAGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
50405285 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
50405339 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * **
50405393 AATCGATGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
50405429 CATTTCAGTA
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 129 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:50405348 original size:81 final size:81
Alignment explanation
Indices: 50405231--50405428 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
50405221 GTAATTTCAC
* * * * *
50405231 AATCGAAGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTTTAAATCGAGGGT
1 AATCGAAGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
**
50405295 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTACA
* *
50405312 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
50405377 AAACGGTAATTCTACA
66 AAACGGTAATTCTACA
* *
50405393 AATCGATGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAAGGTAAAATGGTAATTCTATAAATCGAGGG
50405429 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 104 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
AATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTACA
Found at i:50405440 original size:81 final size:81
Alignment explanation
Indices: 50405274--50405448 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
50405264 GGGTAAAATG
* ** *
50405274 GTAATTTTTTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAATGGTAATTCTACA
* *
50405339 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
50405355 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTACAAATCGATGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAATGGTAATTCTACA
***
50405420 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
50405436 GTAATTTGGTAAA
1 GTAATTTTGTAAA
50405449 CTAAAGTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:50408759 original size:23 final size:20
Alignment explanation
Indices: 50408722--50408773 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 20
50408712 ACGTATTATA
50408722 TATATTTTATAATTATTTACT
1 TATATTTTATAATTA-TTACT
50408743 TATATTTTATTATATTATTACT
1 TATATTTTA-TA-ATTATTACT
50408765 TCATATTTT
1 T-ATATTTT
50408774 TCTATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.32
22 8 0.29
23 11 0.39
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTTTATAATTATTACT
Found at i:50416717 original size:46 final size:46
Alignment explanation
Indices: 50416665--50416800 Score: 184
Period size: 47 Copynumber: 3.0 Consensus size: 46
50416655 TTAGGATTTT
*
50416665 ATGTGATGAATGTGAGCATGCATAATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATAATGTGATAAGGCCGAATGGCCA
*
50416711 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATA-ATGTGATAAGGCCGAATGGCCA
* * * * **
50416758 ATGTGGTGAATATGAACATGCAT-ATGTGGTAAAACCGAATGGC
1 ATGTGATGAATGTGAGCATGCATAATGTGATAAGGCCGAATGGC
50416801 TAGTGTGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 16 0.20
46 24 0.30
47 40 0.50
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (46 bp):
ATGTGATGAATGTGAGCATGCATAATGTGATAAGGCCGAATGGCCA
Found at i:50416759 original size:47 final size:47
Alignment explanation
Indices: 50416665--50416785 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
50416655 TTAGGATTTT
* *
50416665 ATGTGATGAATGTGAGCATGCATA-ATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
50416711 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
50416758 ATGTGGTGAATATGAACATGCATATGTG
1 ATGTGATGAATGTGAGCATGCATATGTG
50416786 GTAAAACCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 24 0.35
47 45 0.65
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:50417071 original size:37 final size:37
Alignment explanation
Indices: 50416967--50417071 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
50416957 ATATATTCCA
* *
50416967 GGTAAGACCTGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
50417004 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
50417041 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
50417072 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:50425369 original size:206 final size:206
Alignment explanation
Indices: 50425015--50426599 Score: 2668
Period size: 206 Copynumber: 7.7 Consensus size: 206
50425005 GCAGATTTGG
** *
50425015 CTGAAGCAAGATCCAAGATGGTTTGGCGTCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * * *
50425080 GATTTGGCTTTCACGT-CGTACGATGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAG
65 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * **
50425144 AGAACAAATCGAAGTTTGGCGTCTCCATGTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
* *
50425209 CAGATGTTTATA
195 CAGATGATTAGA
* * *
50425221 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
50425286 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
50425351 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACATAGCAAATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
*
50425416 TGATGATTAGA
196 AGATGATTAGA
50425427 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* **
50425492 ATTTGGTTTTCGCGTGCTTACGCTAAAGCATGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
50425557 GAACAAATCGAAGTGTGGCGTCTCCATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
50425622 AGATGATTAGA
196 AGATGATTAGA
* *
50425633 CTGAAGGAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGGAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
50425698 ATTTGGTTTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
50425763 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
50425828 AGATGATTAGA
196 AGATGATTAGA
*
50425839 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
50425904 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGTTAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
50425969 GAACAAATTGAAGTTTGGCATCTCCATATTCGACGAAGGGTAGACACATAGCAGATCTAACCTTT
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
50426034 AGATGATTAGA
196 AGATGATTAGA
*
50426045 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
50426110 ATTTGGTTTTCGCGTGCTTACACTGAAGCAAATCTAATATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
50426175 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCATATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
50426240 AGATGATTAGA
196 AGATGATTAGA
50426251 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
50426316 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
50426381 GAACAAATCAAAATTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTT
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
50426446 AGATGATTAGA
196 AGATGATTAGA
*
50426457 CTGAAGCAGATCCAAGATGGTTTGGAATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
50426522 ATTTGGTTTTCGCGTGCTTACGCGGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGGCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
50426587 GAACAAATTGAAG
131 GAACAAATCGAAG
50426600 AAGCAGATTT
Statistics
Matches: 1297, Mismatches: 81, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
205 69 0.05
206 1228 0.95
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:50426644 original size:44 final size:43
Alignment explanation
Indices: 50426562--50426644 Score: 96
Period size: 44 Copynumber: 1.9 Consensus size: 43
50426552 AATCTAAGAT
*
50426562 GATTTGGCATCTTTGTATTGGCAGAGAACAAATTGAAGAAGCA
1 GATTTGGCATCTTTGTATTGGCAGAGAACAAATCGAAGAAGCA
* * * *
50426605 GATTTGGCGTCTCTGTGT-TTGGCGGAGAGCAGATCGAAGA
1 GATTTGGCATCT-T-TGTATTGGCAGAGAACAAATCGAAGA
50426645 TATCAACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
43 11 0.33
44 19 0.58
45 3 0.09
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (43 bp):
GATTTGGCATCTTTGTATTGGCAGAGAACAAATCGAAGAAGCA
Found at i:50428465 original size:23 final size:20
Alignment explanation
Indices: 50428428--50428479 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 20
50428418 ACGTATTATA
50428428 TATATTTTATAATTATTTACT
1 TATATTTTATAATTA-TTACT
50428449 TATATTTTATTATATTATTACT
1 TATATTTTA-TA-ATTATTACT
50428471 TCATATTTT
1 T-ATATTTT
50428480 TCTATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.32
22 8 0.29
23 11 0.39
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTTTATAATTATTACT
Found at i:50434189 original size:18 final size:16
Alignment explanation
Indices: 50434166--50434199 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
50434156 CAACATTCTC
50434166 CTTCATTCACCACTCAAA
1 CTTCATTC-CCAC-CAAA
50434184 CTTCATTCCCACCAAA
1 CTTCATTCCCACCAAA
50434200 TACCCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (16 bp):
CTTCATTCCCACCAAA
Found at i:50437532 original size:21 final size:18
Alignment explanation
Indices: 50437508--50437550 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 18
50437498 AATTCGGTTA
50437508 AATTCTTATCAAAAGATAATT
1 AATTCTTAT--AAA-ATAATT
*
50437529 AATTTTTATAAAATAATT
1 AATTCTTATAAAATAATT
50437547 AATT
1 AATT
50437551 TGCACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
21 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTCTTATAAAATAATT
Found at i:50441315 original size:28 final size:27
Alignment explanation
Indices: 50441252--50441456 Score: 315
Period size: 28 Copynumber: 7.6 Consensus size: 27
50441242 ATATTAAGTC
* * *
50441252 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
50441279 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
50441307 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
50441334 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
50441362 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
50441389 CG--CACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
50441415 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
50441442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50441457 GCACAATTTA
Statistics
Matches: 167, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
25 19 0.11
26 5 0.03
27 71 0.43
28 72 0.43
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50441336 original size:55 final size:55
Alignment explanation
Indices: 50441252--50441456 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
50441242 ATATTAAGTC
* * * *
50441252 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
50441307 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
50441362 CGCACACTTAGTGCTACATAGTCAATTCG--CACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
50441415 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
50441457 GCACAATTTA
Statistics
Matches: 143, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
53 53 0.37
55 90 0.63
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:50441445 original size:108 final size:109
Alignment explanation
Indices: 50441252--50441456 Score: 340
Period size: 108 Copynumber: 1.9 Consensus size: 109
50441242 ATATTAAGTC
*
50441252 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCG-ACACTTAGTGCTACATAATCAAACTCGCACACTTA
50441317 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
65 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* * * *
50441362 CGCACACTTAGTGCTACATAGTCAATTCG-CACTTAGTGCTACATAGTCAAACTCGCACACTTAG
1 CGCACACTCAGTGCTACATAATCAACTCGACACTTAGTGCTACATAATCAAACTCGCACACTTAG
*
50441426 TGCTACATAGTCAATTCGCACACTTAGTGCT
66 TGCTACATAGTCAACTCGCACACTTAGTGCT
50441457 GCACAATTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 64 0.72
110 25 0.28
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (109 bp):
CGCACACTCAGTGCTACATAATCAACTCGACACTTAGTGCTACATAATCAAACTCGCACACTTAG
TGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:50449369 original size:27 final size:27
Alignment explanation
Indices: 50449352--50449558 Score: 189
Period size: 27 Copynumber: 7.6 Consensus size: 27
50449342 ATATTAAGTC
50449352 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
50449379 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50449407 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50449434 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
50449462 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50449489 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* ** * * *
50449517 CGAACACTTGGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
50449544 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
50449559 GCACAATTTA
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
27 90 0.54
28 77 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:50449436 original size:55 final size:55
Alignment explanation
Indices: 50449352--50449558 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
50449342 ATATTAAGTC
* * * *
50449352 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
50449407 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
50449462 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* * *
50449517 CGAACACTTGGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
50449559 GCACAATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:50458042 original size:21 final size:23
Alignment explanation
Indices: 50458016--50458064 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
50458006 CTACTAGCAT
50458016 CAAATTCACAA-CATTTTAT-AC
1 CAAATTCACAACCATTTTATAAC
*
50458037 CAAATTCTCAACCATTTTATAAC
1 CAAATTCACAACCATTTTATAAC
50458060 CAAAT
1 CAAAT
50458065 CATACATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 10 0.40
22 8 0.32
23 7 0.28
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (23 bp):
CAAATTCACAACCATTTTATAAC
Found at i:50458968 original size:42 final size:42
Alignment explanation
Indices: 50458891--50459004 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 42
50458881 AGCTCGTACA
* * * *
50458891 ATGCCAACGTCCCAGAC-GTGGTCTTA-TCGTAATCAAATATTG
1 ATGCCAATGTCCCAAACAG-GGTCTTACACGAAATCAAATA-TG
*
50458933 -TAGCCAA-GTCCCAAACAGGGTCTTACACGAAATCAAGTATG
1 AT-GCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATG
* *
50458974 ATGCCAATGTCCCAGACATGGTCTTACACGA
1 ATGCCAATGTCCCAAACAGGGTCTTACACGA
50459005 TAACACATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
41 23 0.38
42 38 0.62
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATG
Found at i:50462441 original size:20 final size:20
Alignment explanation
Indices: 50462416--50462458 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
50462406 ATGATACAAC
50462416 ATTGCATTATTTACACATGA
1 ATTGCATTATTTACACATGA
50462436 ATTGCATTATTTACACATGA
1 ATTGCATTATTTACACATGA
50462456 ATT
1 ATT
50462459 TACACTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (20 bp):
ATTGCATTATTTACACATGA
Found at i:50464224 original size:12 final size:12
Alignment explanation
Indices: 50464207--50464236 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50464197 AAATTTGGGT
50464207 AAAGAACATATC
1 AAAGAACATATC
50464219 AAAGAACATATC
1 AAAGAACATATC
*
50464231 CAAGAA
1 AAAGAA
50464237 GTGGCACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.13
Consensus pattern (12 bp):
AAAGAACATATC
Found at i:50468636 original size:43 final size:42
Alignment explanation
Indices: 50468574--50468726 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 42
50468564 TACAATGCTG
* * * *
50468574 ATGTCCCGGAC-GTGGTCTTACATGTAATTCAGCTTCGATGCCT
1 ATGTCCCAGACAG-GGTCTTACACGTAATT-AGATACGATGCCT
* **
50468617 CTGTCCCAGACAGGGTCTTACACAAAATTAGATACGATGCCT
1 ATGTCCCAGACAGGGTCTTACACGTAATTAGATACGATGCCT
* * * *
50468659 ATGTCCCTGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCCT
1 ATGTCCCAGACAGGGTCTTACACGT-AAT-T-AGATACGATGCCT
* * *
50468703 GTGTCCCAAACACGGTCTTACACG
1 ATGTCCCAGACAGGGTCTTACACG
50468727 ATATCTCAGA
Statistics
Matches: 88, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 31 0.35
43 25 0.28
44 29 0.33
45 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (42 bp):
ATGTCCCAGACAGGGTCTTACACGTAATTAGATACGATGCCT
Found at i:50474227 original size:93 final size:93
Alignment explanation
Indices: 50474115--50474286 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
50474105 CGCCCATAAG
*
50474115 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
50474179 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
50474208 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50474273 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50474287 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50474281 original size:46 final size:46
Alignment explanation
Indices: 50474108--50474283 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
50474098 TGTAACCCGC
* *
50474108 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
50474154 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
50474204 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50474247 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50474284 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50487928 original size:20 final size:20
Alignment explanation
Indices: 50487892--50487929 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50487882 TTTAGGATTT
*
50487892 TTAAAAAATATATATTAATC
1 TTAAAAAATATACATTAATC
50487912 TTAAAATAATA-ACATTAA
1 TTAAAA-AATATACATTAA
50487930 GGTTAGTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAAAAATATACATTAATC
Found at i:50492207 original size:6 final size:6
Alignment explanation
Indices: 50492196--50492228 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
50492186 TGCAATTATT
50492196 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATT
50492229 CAGTTCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTC
Found at i:50496269 original size:28 final size:28
Alignment explanation
Indices: 50496228--50496283 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
50496218 ATGCTATTGA
*
50496228 ATACTCAATGTCTCACACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGTC
* *
50496256 ATACTCGATATCTCGCACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGTC
50496284 GTACATAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGTC
Found at i:50496332 original size:40 final size:40
Alignment explanation
Indices: 50496271--50496364 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
50496261 CGATATCTCG
* *
50496271 CACACTAAGTGTCGTACATAGCCGAAGCTATGTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATGTTGAATCA
* * *
50496311 CACACTAAGTGCCATATATAGCCGAAGCTATGTTGTATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATGTTGAATCA
50496351 CACACTAAGTGCCA
1 CACACTAAGTGCCA
50496365 CAAATAACTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATGTTGAATCA
Found at i:50497621 original size:38 final size:37
Alignment explanation
Indices: 50497571--50497645 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
50497561 AGGTATGCTT
50497571 GAATAAGCTAGTAAGTTCACTTAATAAATCGGTAAGC
1 GAATAAGCTAGTAAGTTCACTTAATAAATCGGTAAGC
*
50497608 GAATAAAGCTAGTAAGTTCATTTAATAAATCGGTAAGC
1 GAAT-AAGCTAGTAAGTTCACTTAATAAATCGGTAAGC
50497646 CTTTCCAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (37 bp):
GAATAAGCTAGTAAGTTCACTTAATAAATCGGTAAGC
Found at i:50504563 original size:37 final size:37
Alignment explanation
Indices: 50504504--50504612 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
50504494 AGCTCAGACG
* *
50504504 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50504541 AAATCTCAACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
**
50504578 TGATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50504613 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50504813 original size:48 final size:48
Alignment explanation
Indices: 50504759--50505139 Score: 579
Period size: 48 Copynumber: 7.8 Consensus size: 48
50504749 GCACATCGCC
50504759 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
50504807 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
50504857 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
50504905 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
50504953 TATATATATTC-CACATTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATAT-TTCACAC-TAG-CCATTCGGCTTTACCACATATACATATCTCA
50505003 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
50505053 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
50505101 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
50505140 TGCATGTTCA
Statistics
Matches: 306, Mismatches: 15, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
48 163 0.53
49 18 0.06
50 125 0.41
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:50504912 original size:98 final size:98
Alignment explanation
Indices: 50504762--50505139 Score: 695
Period size: 98 Copynumber: 3.9 Consensus size: 98
50504752 CATCGCCTAC
*
50504762 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
50504826 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
50504860 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
50504925 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
50504958 ATATTCCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
50505023 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
50505056 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
50505121 TTCAGCTTTACCACATATA
66 TTCGGCTTTACCACATATA
50505140 TGCATGTTCA
Statistics
Matches: 273, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 272 1.00
99 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:50505181 original size:22 final size:22
Alignment explanation
Indices: 50505155--50505273 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
50505145 GTTCATATTC
50505155 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
50505177 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
50505201 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
50505224 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
50505248 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
50505271 ATC
1 ATC
50505274 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:50505188 original size:47 final size:47
Alignment explanation
Indices: 50505109--50505302 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
50505099 CATACATATT
* * * * *
50505109 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
50505156 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50505203 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
50505250 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50505297 TCACAT
1 TCACAT
50505303 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:50505230 original size:94 final size:93
Alignment explanation
Indices: 50505061--50505302 Score: 299
Period size: 94 Copynumber: 2.6 Consensus size: 93
50505051 TATATATATT
* * *
50505061 TCACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATAT-TTCACATTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCCACATATGCATA-CTC--ACAT-TCATCACATTAGCCATTC
* *
50505124 AGCTTTACCACATATATGCATGTTCATATTCA
62 AGCCTTACCACATATATGCATGTTCACATTCA
* * *
50505156 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACATTAGCCATTCAGC
*
50505221 CTTATCACATATATGCATGTTCACATTCA
65 CTTACCACATATATGCATGTTCACATTCA
* * * *
50505250 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACAT
50505303 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.72
95 20 0.16
96 4 0.03
97 11 0.09
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (93 bp):
TCACATTGGCCATTCGGCCTTATCCACATATGCATACTCACATTCATCACATTAGCCATTCAGCC
TTACCACATATATGCATGTTCACATTCA
Found at i:50509646 original size:180 final size:181
Alignment explanation
Indices: 50509375--50509913 Score: 789
Period size: 180 Copynumber: 3.0 Consensus size: 181
50509365 GAGCTACGAA
* * * ** *
50509375 ACTCCAAATTAAGATCCATTAA-TTTGCTTAGAAACTAGACTCACATATATTCTCACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCCCAAGAAACTAGACTCACATATATTCTTACCATAAAAT
* * *
50509439 TTTTAGAATTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGATACCCTTGTTTCATTGT
66 TTTAAGAATTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGATACCCCTGTTTCACTGT
*
50509504 CCAACAGTTCCGACCTCTCTTCACTAAATATTATTTATCTCATGGTACAGG
131 CCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAGG
* * *
50509555 ACTCTAAATTAAGAACCACTAATTTT-TCAAGAAACTACACTCACATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCCCAAGAAACTAGACTCACATATATTCTTACCATAAAAT
** ** *
50509619 TTTAAGAATTTTTTATTTAGCCAATTAATACAGTTTATTCATTAAATTTACCCCTATTTCACTGT
66 TTTAAGAATTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGATACCCCTGTTTCACTGT
* * *
50509684 CCAATAGGTCCGACCTCTCTTCACTAAAAATTATTTAACTCATGGTACAGG
131 CCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAGG
50509735 ACTCCAAATTAAGAACCACTAATTTTCCCAA-AAACTAGACTCACATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCCCAAGAAACTAGACTCACATATATTCTTACCATAAAAT
* *
50509799 TTTCAA-AATTTTTGGTTTAGCCAATTAGTACGGTTTATTCATTAAAGATACCCCTGTTTCACTG
66 TTT-AAGAATTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGATACCCCTGTTTCACTG
** * * *
50509863 TCTGACAGTTCTGATCTTTCTTCACTAAAAATTATTTATCTCATGGTACAG
130 TCCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAG
50509914 ATCTCGGATG
Statistics
Matches: 318, Mismatches: 38, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
180 310 0.97
181 8 0.03
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (181 bp):
ACTCCAAATTAAGAACCACTAATTTTCCCAAGAAACTAGACTCACATATATTCTTACCATAAAAT
TTTAAGAATTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGATACCCCTGTTTCACTGT
CCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAGG
Found at i:50512618 original size:19 final size:19
Alignment explanation
Indices: 50512594--50512635 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
50512584 CAACTCCAAA
50512594 TTATCA-CTATTTCACACAC
1 TTATCATCTATTTCACA-AC
*
50512613 TTATCATCTATTTTACAAC
1 TTATCATCTATTTCACAAC
50512632 TTAT
1 TTAT
50512636 GCAAAATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATCATCTATTTCACAAC
Found at i:50516372 original size:37 final size:37
Alignment explanation
Indices: 50516322--50516399 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
50516312 GAACCCTTTT
50516322 TACTCTTATAGCAACTCCAAATTCCCACTATTTCACA
1 TACTCTTATAGCAACTCCAAATTCCCACTATTTCACA
50516359 TACTCTTATAGCAACTCCAAATTCCCACTATTTCACA
1 TACTCTTATAGCAACTCCAAATTCCCACTATTTCACA
50516396 TACT
1 TACT
50516400 TAACATCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (37 bp):
TACTCTTATAGCAACTCCAAATTCCCACTATTTCACA
Found at i:50520141 original size:47 final size:47
Alignment explanation
Indices: 50520072--50520161 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
50520062 CCACACGTTC
*
50520072 GTGTGGTTTACTCGTAGGGCCCACATCATCCATTTCGGCCCAAGTTA
1 GTGTGGTTTACTCGTAGGGCCCACATCACCCATTTCGGCCCAAGTTA
50520119 GTGTGGTTTACTCGTAGGGCCCACATCACCCATTTCGGCCCAA
1 GTGTGGTTTACTCGTAGGGCCCACATCACCCATTTCGGCCCAA
50520162 CATGGCCCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (47 bp):
GTGTGGTTTACTCGTAGGGCCCACATCACCCATTTCGGCCCAAGTTA
Found at i:50531940 original size:21 final size:21
Alignment explanation
Indices: 50531916--50531956 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50531906 AGCTTAAATG
50531916 ATGGTTGTAAAAGT-TGAATTC
1 ATGGTTG-AAAAGTATGAATTC
*
50531937 ATGGTTGAAAGGTATGAATT
1 ATGGTTGAAAAGTATGAATT
50531957 GAAATTGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:50533257 original size:40 final size:39
Alignment explanation
Indices: 50533213--50533398 Score: 203
Period size: 40 Copynumber: 4.7 Consensus size: 39
50533203 ATTTGATGTG
* *
50533213 GTATCCGGGTATAAAGACCTGCAGGCTATATGCTGGAAGT
1 GTATCCGGGT-TAAAGACCCGCAGGCTATATGCTGGAATT
* ** *
50533253 GTATCCAGGCTTAAAGACCCATAGGTTATATGCTGGAATT
1 GTATCC-GGGTTAAAGACCCGCAGGCTATATGCTGGAATT
*
50533293 GTATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATT
1 GTATCCGGG-TTAAAGACCCGCAGGCTATATGCTGGAATT
* ** * *
50533333 GTATCTGAGCATAAAGACCCGCAGGCT-TCGTGCTGGAATG
1 GTATCCG-GGTTAAAGACCCGCAGGCTAT-ATGCTGGAATT
*
50533373 GTATCCGGGTTAAAGACCCGTAGGCT
1 GTATCCGGGTTAAAGACCCGCAGGCT
50533399 TGCGCTAGAA
Statistics
Matches: 121, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 19 0.16
40 98 0.81
41 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
GTATCCGGGTTAAAGACCCGCAGGCTATATGCTGGAATT
Found at i:50533316 original size:80 final size:79
Alignment explanation
Indices: 50533211--50533390 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 79
50533201 ATATTTGATG
* *
50533211 TGGTATCCGGGTATAAAGACCTGCAGGCTATATGCTGGAAGTGTATCCAG-GCTTAAAGACCCAT
1 TGGTATCCGGGT-TAAAGACCTGCAGGCTATATGCTGGAAGTGTAT-CAGAGCATAAAGACCCAC
*
50533275 AGG-TTATATGCTGGAA
64 AGGCTT-CATGCTGGAA
* * * *
50533291 TTGTATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATTGTATCTGAGCATAAAGACCCGCA
1 TGGTATCCGGG-TTAAAGACCTGCAGGCTATATGCTGGAAGTGTATCAGAGCATAAAGACCCACA
*
50533356 GGCTTCGTGCTGGAA
65 GGCTTCATGCTGGAA
50533371 TGGTATCCGGGTTAAAGACC
1 TGGTATCCGGGTTAAAGACC
50533391 CGTAGGCTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
79 11 0.12
80 74 0.84
81 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
TGGTATCCGGGTTAAAGACCTGCAGGCTATATGCTGGAAGTGTATCAGAGCATAAAGACCCACAG
GCTTCATGCTGGAA
Found at i:50534399 original size:31 final size:31
Alignment explanation
Indices: 50534363--50534426 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
50534353 CCTTTTCATA
50534363 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
50534394 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
50534425 TT
1 TT
50534427 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:50534691 original size:25 final size:25
Alignment explanation
Indices: 50534635--50534717 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
50534625 CTGGAGGCCT
50534635 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
50534659 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
* *
50534684 AGCCCTTTTGATAAGCTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
50534709 AGCCCTTTT
1 AGCCCTTTT
50534718 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
23 8 0.15
24 13 0.24
25 34 0.62
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:50534787 original size:20 final size:20
Alignment explanation
Indices: 50534764--50534826 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
50534754 TTATGAATAC
*
50534764 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
50534784 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50534804 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
50534824 ATC
1 ATC
50534827 GTGTATATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50534794 original size:40 final size:39
Alignment explanation
Indices: 50534750--50534826 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
50534740 CCCAAACCAA
*
50534750 TGCATTATGAATAC-ATCATGTGCATATCGTACATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATACATATCATG
* *
50534790 TGCATATCATACATATCATGTGCATATCATGCATATC
1 TGCATATAATACA-ATCATGTGCATATCATACATATC
50534827 GTGTATATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.12
39 3 0.09
40 25 0.78
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATACATATCATG
Found at i:50534797 original size:11 final size:11
Alignment explanation
Indices: 50534764--50534820 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
50534754 TTATGAATAC
50534764 ATCATGTGCAT
1 ATCATGTGCAT
*
50534775 ATC--GTACAT
1 ATCATGTGCAT
50534784 ATCATGTGCAT
1 ATCATGTGCAT
*
50534795 ATCA--TACAT
1 ATCATGTGCAT
50534804 ATCATGTGCAT
1 ATCATGTGCAT
50534815 ATCATG
1 ATCATG
50534821 CATATCGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:50534822 original size:9 final size:9
Alignment explanation
Indices: 50534770--50534836 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
50534760 ATACATCATG
*
50534770 TGCATATCG
1 TGCATATCA
*
50534779 TACATATCA
1 TGCATATCA
50534788 TGTGCATATCA
1 --TGCATATCA
*
50534799 TACATATCA
1 TGCATATCA
50534808 TGTGCATATCA
1 --TGCATATCA
*
50534819 TGCATATCG
1 TGCATATCA
*
50534828 TGTATATCA
1 TGCATATCA
50534837 AAATCCCATG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 30 0.65
11 16 0.35
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (9 bp):
TGCATATCA
Found at i:50542737 original size:25 final size:25
Alignment explanation
Indices: 50542694--50542764 Score: 135
Period size: 25 Copynumber: 2.9 Consensus size: 25
50542684 CTATTTTAAT
50542694 AACTGGGGC-AAAGCCCTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTGATA
50542718 AACTGGGGCAAAAGCCCTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTGATA
50542743 AACTGGGGCAAAAGCCCTTTTG
1 AACTGGGGCAAAAGCCCTTTTG
50542765 CACTTCCTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 9 0.20
25 37 0.80
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGATA
Found at i:50542833 original size:20 final size:20
Alignment explanation
Indices: 50542810--50542856 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
50542800 CTATGAATAC
50542810 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50542830 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
*
50542850 ATAATGT
1 ATCATGT
50542857 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50542841 original size:11 final size:11
Alignment explanation
Indices: 50542810--50542846 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50542800 CTATGAATAC
50542810 ATCATGTGCAT
1 ATCATGTGCAT
*
50542821 ATCA--TACAT
1 ATCATGTGCAT
50542830 ATCATGTGCAT
1 ATCATGTGCAT
50542841 ATCATG
1 ATCATG
50542847 CATATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:50549841 original size:10 final size:11
Alignment explanation
Indices: 50549806--50549834 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
50549796 GACCAAGAGT
50549806 AAAAAGGAGCC
1 AAAAAGGAGCC
50549817 AAAAAGGAGCC
1 AAAAAGGAGCC
50549828 AAAAAGG
1 AAAAAGG
50549835 GACAAAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAAGGAGCC
Found at i:50552175 original size:40 final size:39
Alignment explanation
Indices: 50552114--50552359 Score: 312
Period size: 40 Copynumber: 6.2 Consensus size: 39
50552104 CGGAATTTAG
* * *
50552114 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATA-AATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
50552154 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
50552194 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
50552234 CCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
50552273 CTGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGAT-AAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
50552313 CCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGAT-AAATCACTAGCACAAATGCCTTCGGGTCTTAAC
50552353 CCGGATA
1 CCGGATA
50552360 TCATTCAAAT
Statistics
Matches: 187, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
39 34 0.18
40 153 0.82
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:50552316 original size:119 final size:120
Alignment explanation
Indices: 50552101--50552360 Score: 339
Period size: 119 Copynumber: 2.2 Consensus size: 120
50552091 ACCCAAGTTT
* * * * *
50552101 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
* * * *
50552165 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGC
66 AACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCACAAATGC
* * * * *
50552220 CTTCGGGTCTTAGCCCGGATA-AATCACTAGCACAAATGCCTTCGGGTCTTAACCTGGATAAAAT
1 CTTCGGGACTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGAT-AAAG
*
50552284 C-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCATAAATGC
65 CAACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAAATGC
50552339 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
50552361 CATTCAAATG
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
119 107 0.88
120 14 0.12
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
AACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAAATGC
Found at i:50554533 original size:14 final size:13
Alignment explanation
Indices: 50554514--50554543 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
50554504 TTTAGTTTAA
50554514 TTAGTTAATTATGT
1 TTAGTTAATTA-GT
50554528 TTAGTTAATTAGT
1 TTAGTTAATTAGT
50554541 TTA
1 TTA
50554544 ATAAACAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:50555602 original size:45 final size:45
Alignment explanation
Indices: 50555504--50555991 Score: 723
Period size: 45 Copynumber: 10.9 Consensus size: 45
50555494 TTTTCCCAAA
* * * *
50555504 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCTG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * ** *
50555546 TCACCGGCATTATAGTCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATT
** * * *
50555591 TCACCAACATTATAGCCTGCTAGGCTCAAAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
50555636 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
50555681 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAAAAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
50555726 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATCACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
50555771 TCACCGGCATTATAGCCTGCTATGCTCAAAGGCCGGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
**
50555816 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTGGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
50555861 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
50555906 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
50555951 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
50555992 TCAAATCAAC
Statistics
Matches: 405, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
42 11 0.03
43 12 0.03
44 7 0.02
45 375 0.93
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:50556368 original size:45 final size:45
Alignment explanation
Indices: 50556304--50556398 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
50556294 ATAACATTTC
* *
50556304 ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-ATAAT
1 ATTTCACCGGCATCATAGCCTGCTAGGCCCAAA-GCCCGATATAAT
* *
50556349 ATTTCACCGGCATCATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 ATTTCACCGGCATCATAGCCTGCTAGGCCCAAAGCCCGATATAAT
50556394 ATTTC
1 ATTTC
50556399 GATAAACAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 6 0.13
45 39 0.87
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
ATTTCACCGGCATCATAGCCTGCTAGGCCCAAAGCCCGATATAAT
Found at i:50558479 original size:80 final size:80
Alignment explanation
Indices: 50558374--50558559 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
50558364 AGTAACTCAT
* * *
50558374 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
50558437 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
50558453 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
50558518 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
50558534 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
50558560 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:50558519 original size:40 final size:40
Alignment explanation
Indices: 50558376--50558559 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
50558366 TAACTCATAC
* *
50558376 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
50558416 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
50558456 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
50558496 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
50558537 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50558560 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:50566259 original size:79 final size:80
Alignment explanation
Indices: 50566169--50566353 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 80
50566159 AGTAACTCAT
* * *
50566169 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
50566232 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
50566247 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
50566312 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
50566328 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
50566354 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
78 8 0.09
79 42 0.45
80 33 0.35
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:50566274 original size:40 final size:40
Alignment explanation
Indices: 50566134--50566353 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
50566124 CTCGTTCAAG
* * * **
50566134 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAAA
* * *
50566173 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAGTAACTCGCACAAA
*
50566213 TGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* *
50566252 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
** * *
50566292 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACAAA
*
50566333 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
50566354 CAGCATTCAA
Statistics
Matches: 152, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 61 0.40
40 75 0.49
41 13 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
Found at i:50579287 original size:79 final size:81
Alignment explanation
Indices: 50579184--50579368 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
50579174 GCTAGTCGTT
* *
50579184 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCC
* *
50579247 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
50579264 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
50579328 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
50579344 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50579369 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 56 0.61
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:50579368 original size:40 final size:40
Alignment explanation
Indices: 50579184--50579368 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
50579174 GCTAGTCGTT
* *
50579184 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
50579224 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
50579264 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
50579303 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
50579344 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50579369 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:50580943 original size:39 final size:40
Alignment explanation
Indices: 50580900--50581067 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
50580890 CTCGTTCAAG
* * * *
50580900 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
50580939 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
50580979 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
50581019 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
50581059 TGCCTTCGG
1 TGCCTTCGG
50581068 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:50581051 original size:80 final size:80
Alignment explanation
Indices: 50580935--50581120 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
50580925 AGTAACTCAT
* * *
50580935 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
50580999 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
50581014 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
50581078 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
50581095 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
50581121 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:50581080 original size:40 final size:40
Alignment explanation
Indices: 50580937--50581120 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
50580927 TAACTCATAC
* *
50580937 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
50580977 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
50581017 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
50581057 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
50581098 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50581121 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:50588832 original size:80 final size:80
Alignment explanation
Indices: 50588727--50588912 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
50588717 GGTAACTCAT
* * *
50588727 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
50588790 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
50588806 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
50588871 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
50588887 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
50588913 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:50588872 original size:40 final size:40
Alignment explanation
Indices: 50588729--50588912 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
50588719 TAACTCATAC
* *
50588729 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
50588769 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
50588809 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
50588849 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
50588890 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50588913 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:50592970 original size:22 final size:22
Alignment explanation
Indices: 50592945--50593048 Score: 66
Period size: 22 Copynumber: 4.4 Consensus size: 22
50592935 GCAATTTAAT
50592945 TTAATTTAATTATTATTATTTA
1 TTAATTTAATTATTATTATTTA
*
50592967 TTAATTTATCAATTTTTATTACTTTA
1 TTAA-TT-T-AATTATTATTA-TTTA
*** * *
50592993 GCCATTT-ATTTTTCTTGCAATTTAA
1 TTAATTTAATTATTATT---ATTT-A
50593018 TTTAATTTAATTATTATTATTTA
1 -TTAATTTAATTATTATTATTTA
50593041 TTAATTTA
1 TTAATTTA
50593049 TTTTTTTCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
22 20 0.32
23 3 0.05
24 9 0.15
25 14 0.23
26 9 0.15
27 7 0.11
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (22 bp):
TTAATTTAATTATTATTATTTA
Found at i:50592985 original size:74 final size:74
Alignment explanation
Indices: 50592901--50593049 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
50592891 TTAGGAACGC
50592901 TCAATTTTTATTACTTTAGCCATTTATTTTTCTTGCAATTTAATTTAATTTAATTATTATTATTT
1 TCAATTTTTATTACTTTAGCCATTTATTTTTCTTGCAATTTAATTTAATTTAATTATTATTATTT
50592966 ATTAATTTA
66 ATTAATTTA
50592975 TCAATTTTTATTACTTTAGCCATTTATTTTTCTTGCAATTTAATTTAATTTAATTATTATTATTT
1 TCAATTTTTATTACTTTAGCCATTTATTTTTCTTGCAATTTAATTTAATTTAATTATTATTATTT
50593040 ATTAATTTA
66 ATTAATTTA
50593049 T
1 T
50593050 TTTTTTCTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.60
Consensus pattern (74 bp):
TCAATTTTTATTACTTTAGCCATTTATTTTTCTTGCAATTTAATTTAATTTAATTATTATTATTT
ATTAATTTA
Found at i:50603247 original size:48 final size:48
Alignment explanation
Indices: 50603192--50603287 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
50603182 CTCAAAACAT
50603192 ACCTCAATCAAGCTATGCAAGTGTTGAAAATAAAAGCTCTATTTTATC
1 ACCTCAATCAAGCTATGCAAGTGTTGAAAATAAAAGCTCTATTTTATC
50603240 ACCTCAATCAAGCTATGCAAGTGTTGAAAATAAAAGCTCTATTTTATC
1 ACCTCAATCAAGCTATGCAAGTGTTGAAAATAAAAGCTCTATTTTATC
50603288 TTTCTTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (48 bp):
ACCTCAATCAAGCTATGCAAGTGTTGAAAATAAAAGCTCTATTTTATC
Found at i:50612924 original size:40 final size:40
Alignment explanation
Indices: 50612866--50613090 Score: 231
Period size: 40 Copynumber: 5.7 Consensus size: 40
50612856 GGATATAACC
* * * *
50612866 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
50612905 ACTAGCATAAATGCCTTCGGGTCTTAGCCC-GAATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
50612945 ACTCGCACAGATGCCTTCGGGACATAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
50612985 ACTTGCACCAATGCCTTTGGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
50613025 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
50613065 ACTAGCACACATGTCTTCGCGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
50613091 ACCTCATTAG
Statistics
Matches: 155, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 7 0.05
40 144 0.93
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:50621452 original size:40 final size:41
Alignment explanation
Indices: 50621387--50621480 Score: 124
Period size: 40 Copynumber: 2.3 Consensus size: 41
50621377 CTATGTTCGA
* *
50621387 CACTAAGTGTGCG-ATTTGAAGTAGCTTCGGTTATAAAT-A-G
1 CACTAAGTGTGCGAATTGGAAGTAGCTTCGGCTAT--ATGAGG
50621427 CACTAAGTGTGCGAATTGGAA-TAGCTTCGGCTATATGAGG
1 CACTAAGTGTGCGAATTGGAAGTAGCTTCGGCTATATGAGG
50621467 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
50621481 TACCAAGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 40 0.82
41 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (41 bp):
CACTAAGTGTGCGAATTGGAAGTAGCTTCGGCTATATGAGG
Found at i:50624791 original size:64 final size:64
Alignment explanation
Indices: 50624713--50624841 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
50624703 GATTTATCCT
*
50624713 CCTACATAATGGGAGCAATATCTTAGTCCTCTTT-ATAGAGTAAGACTAGAAATGCATGGTCATA
1 CCTACATAATGGGAGCAATATCTTAGTCCT-TTTGATAGAGTAAGACTAGAAATGCATGGCCATA
*
50624777 CCTACATAATGGGAGCAATATCTTAGTCCTTTTGATGGAGTAAGACTAGAAATGCATGGCCATA
1 CCTACATAATGGGAGCAATATCTTAGTCCTTTTGATAGAGTAAGACTAGAAATGCATGGCCATA
50624841 C
1 C
50624842 TCGAATAAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 3 0.05
64 59 0.95
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (64 bp):
CCTACATAATGGGAGCAATATCTTAGTCCTTTTGATAGAGTAAGACTAGAAATGCATGGCCATA
Found at i:50630484 original size:25 final size:25
Alignment explanation
Indices: 50630437--50630484 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50630427 TTATAGTATG
* * *
50630437 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
50630462 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
50630485 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50630545 original size:20 final size:20
Alignment explanation
Indices: 50630512--50630564 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
50630502 ATACGTGGGC
50630512 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
50630529 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
50630550 TATGAAATGCACATG
1 TATGATATGCACATG
50630565 TTGTATTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 8 0.26
20 21 0.68
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:50630671 original size:26 final size:26
Alignment explanation
Indices: 50630616--50630687 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
50630606 GAGGAAGTGA
* **
50630616 AAAAGGACTTATGCCCCCAGTTTATTG
1 AAAAGGGCTTATG-CCCCAGTTTACCG
50630643 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
50630669 -AAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
50630688 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 10 0.24
25 9 0.21
26 11 0.26
27 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:50630700 original size:24 final size:25
Alignment explanation
Indices: 50630616--50630700 Score: 93
Period size: 24 Copynumber: 3.4 Consensus size: 25
50630606 GAGGAAGTGA
*
50630616 AAAAGGACTTATGCCCCCAGTTTATT
1 AAAAGGGCTTATG-CCCCAGTTTATT
**
50630642 GAAAAGGGCTTATGCCCCAGTTTACC
1 -AAAAGGGCTTATGCCCCAGTTTATT
*
50630668 GAAAGGGCTT-TGCCCCAG-TTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
50630691 AAAAGAGGCT
1 AAAAG-GGCT
50630701 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 7 0.14
24 12 0.24
25 9 0.18
26 10 0.20
27 12 0.24
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:50642954 original size:137 final size:135
Alignment explanation
Indices: 50642691--50642960 Score: 292
Period size: 137 Copynumber: 2.0 Consensus size: 135
50642681 AGCTGTAAAA
* * * *
50642691 TGGGTCTGCTCAAACAAGCTATCGGTCAGAATGTATGCTACATGTTGCTGCTCACACAAGCCATC
1 TGGGTCTGCTCAAACAAGCTATCAGTCAGAACGTATGCTACACGATGCTGCTCACACAAGCCATC
* * * * * *
50642756 GAGTATTAACTAATGCCAGACCTCAGCCATCGGTTGGACATTCAAGACCAGCACACGAAACATGG
66 GAGTATCAACTAATACCAAAACTCAGCCATCGGTAGGACATTCAAGACCAGCACACAAAACATGG
50642821 TAACT
131 TAACT
* * * * * *
50642826 TGGGTCTGCTCACACAAGCTGTTAGTCAGAACGTA-GCTACGCGATGCTGTTCACACAAGCTATC
1 TGGGTCTGCTCAAACAAGCTATCAGTCAGAACGTATGCTACACGATGCTGCTCACACAAGCCATC
* * * * *
50642890 GAGTATCCGCAACTAATACCAAAACTTAGCCA-CTGGTAGTACATTGAAGACCAGTACCCAAAAC
66 GAGTAT---CAACTAATACCAAAACTCAGCCATC-GGTAGGACATTCAAGACCAGCACACAAAAC
*
50642954 ATTGTAA
127 ATGGTAA
50642961 TGTAATGACA
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
134 30 0.28
135 30 0.28
136 1 0.01
137 48 0.44
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (135 bp):
TGGGTCTGCTCAAACAAGCTATCAGTCAGAACGTATGCTACACGATGCTGCTCACACAAGCCATC
GAGTATCAACTAATACCAAAACTCAGCCATCGGTAGGACATTCAAGACCAGCACACAAAACATGG
TAACT
Found at i:50648579 original size:42 final size:42
Alignment explanation
Indices: 50648532--50648682 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
50648522 TATGAATTTA
*
50648532 CGTGTAAGACCATATCTGGGATATGGCATCGTTATGAGAATT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATT
* *
50648574 CGTGTAAGACCATGTCTGGGACATGGCATCGATATGAGAA-T
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATT
* * * *
50648615 CGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAG-ATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAAT-T
*
50648658 CATGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
50648683 ACATTGGTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.22
42 54 0.58
43 19 0.20
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATT
Found at i:50659072 original size:42 final size:40
Alignment explanation
Indices: 50658920--50659073 Score: 121
Period size: 42 Copynumber: 3.7 Consensus size: 40
50658910 GTTGAGTTTA
* * * *
50658920 CATGTAATACCATATATGGGATATGACATCGTTATGAGATTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAGA--T
* * * *
50658962 CGTGTAAGACCATGTCTGGGACATGGCATCGATATAAGAAT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAG-AT
* * * *
50659003 CTTGTAAGACCATAGCT-GGCTATTGGCATCAATATGAGAT
1 CATGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAT
* *
50659043 CCCATGTAAGACCATATTTGGAATATGGCAT
1 --CATGTAAGACCATATCTGGGATATGGCAT
50659074 TGGCATGATT
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
40 5 0.06
41 28 0.32
42 50 0.57
43 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (40 bp):
CATGTAAGACCATATCTGGGATATGGCATCGATATGAGAT
Found at i:50668351 original size:15 final size:15
Alignment explanation
Indices: 50668333--50668363 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50668323 ATGTTATTGT
50668333 AATGTTCCTATGTAA
1 AATGTTCCTATGTAA
*
50668348 AATGTTGCTATGTAA
1 AATGTTCCTATGTAA
50668363 A
1 A
50668364 TGAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (15 bp):
AATGTTCCTATGTAA
Found at i:50675297 original size:50 final size:49
Alignment explanation
Indices: 50675182--50675425 Score: 229
Period size: 50 Copynumber: 4.9 Consensus size: 49
50675172 TCTATTGTGA
* * * *** * * *
50675182 GGTCATGTGTGTAGCACTAAGTGCATGCTACTACATATACCGGGTTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
50675231 GGTCGCATGTGTAGTACTAAGTGCAGG-TACTATGCGTACCCGATAAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-AATT
* * * ** **
50675280 CGATCACGTGTGTAGTACTAATTGCAGGCTACTACGTGTATTAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
*
50675330 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * **
50675380 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTGTGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
50675426 GCTTTGGCTA
Statistics
Matches: 157, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
48 11 0.07
49 66 0.42
50 68 0.43
51 12 0.08
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:50687765 original size:40 final size:40
Alignment explanation
Indices: 50687702--50687882 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
50687692 ATTCGGATTG
*
50687702 ATAACCGGGCTAAG-CACGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
50687741 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
50687781 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50687821 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
50687861 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50687883 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 28 0.22
40 99 0.78
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50689434 original size:26 final size:26
Alignment explanation
Indices: 50689405--50689456 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
50689395 TGTAATAAAT
*
50689405 TGTTTTAATATGTACATTTTGGATTA
1 TGTTTTAATATGTACATTTTAGATTA
*
50689431 TGTTTTAATCTGTACATTTTAGATTA
1 TGTTTTAATATGTACATTTTAGATTA
50689457 AGTCATAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (26 bp):
TGTTTTAATATGTACATTTTAGATTA
Found at i:50694367 original size:46 final size:45
Alignment explanation
Indices: 50694315--50694487 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
50694305 TGGTTGAGCA
* *
50694315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGTAAACG
* ** * *
50694361 TTCGAACTCGTTGAGTTGAGTCCGAGTT-TGTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGTAA--A--CG
* *
50694408 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGTAAACG
*
50694454 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50694488 AGGGCGGTTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 26 0.25
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGTAAACG
Found at i:50694471 original size:93 final size:93
Alignment explanation
Indices: 50694312--50694481 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
50694302 GGATGGTTGA
* * *
50694312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCAAACGCTCGAACTCGTTGAGT
50694377 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* ** *
50694405 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCAAACGCTC-GAACTCGTTGAG
50694469 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
50694482 CACTTAAGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCAAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:50695875 original size:24 final size:24
Alignment explanation
Indices: 50695821--50695872 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
50695811 GAGTTCAAGC
* *
50695821 GAGCC-ATGTCAGGAAGCTTATAA
1 GAGCCTATATCAGGAAGCTTAGAA
*
50695844 GAGCCTATATCAGGATGCTTACGAA
1 GAGCCTATATCAGGAAGCTTA-GAA
50695869 GAGC
1 GAGC
50695873 TATGTTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (24 bp):
GAGCCTATATCAGGAAGCTTAGAA
Found at i:50703951 original size:27 final size:26
Alignment explanation
Indices: 50703893--50704000 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
50703883 CAATCGCCAA
* *
50703893 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
50703919 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
50703947 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* *
50703974 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAA-TGTGGCAGAGCCACCAG
50704001 GACACTTCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 2 0.03
27 55 0.74
28 17 0.23
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:50703983 original size:54 final size:54
Alignment explanation
Indices: 50703893--50704000 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
50703883 CAATCGCCAA
*
50703893 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * *
50703947 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
50704001 GACACTTCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:50711698 original size:27 final size:26
Alignment explanation
Indices: 50711663--50711774 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
50711653 AGCATGGCTG
* *
50711663 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
50711689 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
50711717 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
50711744 CCAGATCAGATAATTATGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
50711771 CCAG
1 CCAG
50711775 GACCCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50711770 original size:54 final size:54
Alignment explanation
Indices: 50711663--50711774 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
50711653 AGCATGGCTG
* *
50711663 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAAAGCCA
* * **
50711717 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTATGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAAAGCCA
50711771 CCAG
1 CCAG
50711775 GACCCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAAAGCCA
Found at i:50714291 original size:37 final size:37
Alignment explanation
Indices: 50714245--50714318 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
50714235 ATGGCTCATA
50714245 GTTACATAAACCGAAATTAAACAATTCAAAATATAAT
1 GTTACATAAACCGAAATTAAACAATTCAAAATATAAT
50714282 GTTACATAAACCGAAATTAAACAATTCAAAATATAAT
1 GTTACATAAACCGAAATTAAACAATTCAAAATATAAT
50714319 CCAGCCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (37 bp):
GTTACATAAACCGAAATTAAACAATTCAAAATATAAT
Found at i:50725914 original size:6 final size:6
Alignment explanation
Indices: 50725903--50726089 Score: 172
Period size: 6 Copynumber: 30.8 Consensus size: 6
50725893 AACCAAAATG
*
50725903 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
50725951 AGTAA-C AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
50726000 AGAACC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
50726048 AGAACC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
50726090 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 15, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.83
7 11 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:50725918 original size:30 final size:29
Alignment explanation
Indices: 50725882--50726089 Score: 203
Period size: 30 Copynumber: 7.1 Consensus size: 29
50725872 AAGAAACATT
* * *
50725882 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
50725912 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
50725942 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
50725972 ATCAGAATCAGGTGACAGAATCAGAATCAGA
1 ATCAGAAT--TGTAACAGAATCAGAATCAGA
*
50726003 A-C--CA--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
* *
50726027 ATCAGTATTAGTAACAGAATCAGAACCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
50726057 ATCAGAATTACGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
50726088 AT
1 AT
50726090 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
24 20 0.13
25 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 82 0.55
31 44 0.29
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:50726002 original size:85 final size:85
Alignment explanation
Indices: 50725903--50726089 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
50725893 AACCAAAATG
*
50725903 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
*
50725968 CAGAATCAGAATCAGGTGAC
66 CAGAATCAGAATCACGTGAC
* *
50725988 AGAATCAGAATCAGAACCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
*
50726053 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATCACGTGAC
50726073 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
50726090 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
CAGAATCAGAATCACGTGAC
Found at i:50726243 original size:27 final size:28
Alignment explanation
Indices: 50726212--50726272 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
50726202 GGCTACCAGA
*
50726212 ACAGATATCGTGACAGAGTCACCA-AAT
1 ACAGATATCGTGACAGAGCCACCAGAAT
* **
50726239 ACAGATATTGTGGTAGAGCCACCAGAAT
1 ACAGATATCGTGACAGAGCCACCAGAAT
50726267 -CAGATA
1 ACAGATA
50726273 ATGTGGCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (28 bp):
ACAGATATCGTGACAGAGCCACCAGAAT
Found at i:50726277 original size:27 final size:27
Alignment explanation
Indices: 50726226--50726278 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50726216 ATATCGTGAC
* *
50726226 AGAGTCACCAAATACAGATATTGTGGT
1 AGAGCCACCAAATACAGATAATGTGGT
50726253 AGAGCCACCAGAAT-CAGATAATGTGG
1 AGAGCCACCA-AATACAGATAATGTGG
50726279 CAAACCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
AGAGCCACCAAATACAGATAATGTGGT
Found at i:50726287 original size:27 final size:27
Alignment explanation
Indices: 50726231--50726288 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
50726221 GTGACAGAGT
* * * *
50726231 CACCAAATACAGATATTGTGGTAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
50726258 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
50726285 CACC
1 CACC
50726289 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:50726493 original size:22 final size:22
Alignment explanation
Indices: 50726445--50726501 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
50726435 GTAAATACGT
*
50726445 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
50726467 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
50726489 TTGGCACAGAGCC
1 TTGGCACAAAGCC
50726502 TGTGACACCC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:50729314 original size:47 final size:47
Alignment explanation
Indices: 50729258--50729604 Score: 550
Period size: 47 Copynumber: 7.4 Consensus size: 47
50729248 GATGTACAAG
* * *
50729258 GTGTTTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
50729305 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
50729352 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
50729399 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
50729446 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
50729493 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
50729540 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
50729587 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
50729605 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:50731163 original size:27 final size:27
Alignment explanation
Indices: 50731133--50731310 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50731123 ATATTGAGTC
* * * *
50731133 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50731160 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50731187 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50731215 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50731242 CGCACACTTAGTGC-ATCATATTCATGT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50731269 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50731296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50731311 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50731272 original size:82 final size:81
Alignment explanation
Indices: 50731154--50731309 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50731144 TGCTATATAA
* *
50731154 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50731219 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50731236 TCAATTCGCACACTTAGTGC-ATCATATTCATGTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50731300 CACTTAGTGC
65 CACTTAGTGC
50731310 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50731809 original size:12 final size:12
Alignment explanation
Indices: 50731792--50731817 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50731782 ATGGCATACT
50731792 TATGTATATATA
1 TATGTATATATA
50731804 TATGTATATATA
1 TATGTATATATA
50731816 TA
1 TA
50731818 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:50734208 original size:27 final size:27
Alignment explanation
Indices: 50734178--50734236 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
50734168 GTGATAGAGT
50734178 CACCAAATAAAGATA-TTGTGGCACAGC
1 CACCAAA-AAAGATATTTGTGGCACAGC
* * *
50734205 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAAAAAAGATATTTGTGGCACAGC
50734232 CACCA
1 CACCA
50734237 TAACGCTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (27 bp):
CACCAAAAAAGATATTTGTGGCACAGC
Found at i:50734488 original size:27 final size:27
Alignment explanation
Indices: 50734439--50734634 Score: 194
Period size: 27 Copynumber: 7.3 Consensus size: 27
50734429 GGGGCAAAAT
* * * *
50734439 GGTAATTGTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50734466 GGTAATTCTACCCTACATGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50734493 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
50734520 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
50734547 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
50734574 AGTAATTCTACCCTATAGGGGTGTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
50734601 GGAAATTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50734628 AGTAATT
1 GGTAATT
50734635 TCACAATCAA
Statistics
Matches: 138, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:50734633 original size:81 final size:81
Alignment explanation
Indices: 50734458--50734634 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
50734448 ACCCCACAAA
* * * * *
50734458 GGTATCTCGGTAATTCTACCCTACATGGGTATTTTGGTATTTCTACCTTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGAT
50734523 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * * *
50734539 GGTATTTTGGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTGTTTCGGA
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTC-GA
*
50734604 -AATTCTACCCTACCGG
65 TAATTCTACCCTACAGG
*
50734620 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
50734635 TCACAATCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 79 0.98
82 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:50734676 original size:27 final size:27
Alignment explanation
Indices: 50734644--50735289 Score: 752
Period size: 27 Copynumber: 23.9 Consensus size: 27
50734634 TTCACAATCA
*
50734644 AGGGTAAAATGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50734671 AGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * **
50734698 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATTG
* ** *
50734725 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
*
50734752 AAGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * * *
50734779 AGGGTAAAACAGTAATTTTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * * *
50734806 AGGGTAAAATGGAAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50734833 AGGGTAAAACAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
*
50734860 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
**
50734887 AGGGTAAAACGGTAATTCTGTAAACAG
1 AGGGTAAAACGGTAATTCTGTAAATTG
*
50734914 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50734941 AGGGTAAAGCGATAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50734968 AGGGTAAAACAGTAATTCTATAAATGG
1 AGGGTAAAACGGTAATTCTGTAAATTG
*
50734995 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735022 AGGGTAAAACGGTAATTCTGCAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
** * *
50735049 AGGGTAAAACAATATTTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735076 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735103 AGGGTAAAACGGTAATTCTGTGAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735130 AGGGTAAAATGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50735157 AGGATAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735184 AGGGTAAAACGGTAATTTTGTAAAGTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50735211 AGGATAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
50735238 AGGGTAAAACAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
50735265 AGGGAAAAACAGTAATTCTGTAAAT
1 AGGGTAAAACGGTAATTCTGTAAAT
50735290 CGGGAGTACT
Statistics
Matches: 517, Mismatches: 102, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 517 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATTG
Found at i:50737313 original size:6 final size:6
Alignment explanation
Indices: 50737302--50737469 Score: 177
Period size: 6 Copynumber: 27.8 Consensus size: 6
50737292 AACCAAAATG
* *
50737302 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
50737350 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
50737399 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
50737447 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
50737470 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.07
6 117 0.85
7 8 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:50737317 original size:30 final size:30
Alignment explanation
Indices: 50737302--50737463 Score: 221
Period size: 30 Copynumber: 5.6 Consensus size: 30
50737292 AACCAAAATG
* *
50737302 AGAATCAGAATCAGAATCAGTAACAAAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
50737332 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
50737362 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
50737387 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
50737417 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
50737447 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
50737464 CAGAATGTGA
Statistics
Matches: 117, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
24 2 0.02
25 19 0.16
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 88 0.75
31 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:50737402 original size:85 final size:85
Alignment explanation
Indices: 50737302--50737463 Score: 306
Period size: 85 Copynumber: 1.9 Consensus size: 85
50737292 AACCAAAATG
50737302 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
50737367 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
50737387 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
50737452 CAGAATCAGAAT
66 CAGAATCAGAAT
50737464 CAGAATGTGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:50737624 original size:27 final size:26
Alignment explanation
Indices: 50737587--50737652 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
50737577 AGCATGGCTG
*
50737587 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
50737613 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
50737640 CCAGAATCAGATA
1 CCAGAA-CAGATA
50737653 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:50737657 original size:27 final size:27
Alignment explanation
Indices: 50737587--50737660 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
50737577 AGCATGGCTG
* *
50737587 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
50737613 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
50737640 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
50737661 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:50737667 original size:27 final size:27
Alignment explanation
Indices: 50737611--50737668 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50737601 GTGACAGAGT
* * *
50737611 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
50737638 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
50737665 CACC
1 CACC
50737669 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:50737873 original size:22 final size:22
Alignment explanation
Indices: 50737825--50737883 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
50737815 GTAAATACGT
*
50737825 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
50737847 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
50737869 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
50737884 TAATAACTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:50738050 original size:27 final size:26
Alignment explanation
Indices: 50737971--50738053 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
50737961 TTGATTGGTC
* * *
50737971 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
50737997 ATAAAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
50738024 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
50738051 AAC
1 AAC
50738054 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:50738284 original size:27 final size:27
Alignment explanation
Indices: 50738254--50738439 Score: 178
Period size: 27 Copynumber: 6.9 Consensus size: 27
50738244 GGCAAAATGG
* *
50738254 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTTTACCCTACAAGGGTATTTCGA
* *
50738281 TAATTTTACCCTACAGGGGTATTTCGG
1 TAATTTTACCCTACAAGGGTATTTCGA
50738308 T-ATTTCTACCCTACAAGGGTATTTCGA
1 TAATTT-TACCCTACAAGGGTATTTCGA
* * * * *
50738335 TAATTCTACCTTACAGGGGTATTTTGG
1 TAATTTTACCCTACAAGGGTATTTCGA
* * *
50738362 TAATTCTATCCTATAAGGGTATTTC-A
1 TAATTTTACCCTACAAGGGTATTTCGA
* * *
50738388 GTAATTCTACCCTATAGGGGTATTTCGA
1 -TAATTTTACCCTACAAGGGTATTTCGA
* * *
50738416 AAATTCTACCCTACAGGGGTATTT
1 TAATTTTACCCTACAAGGGTATTT
50738440 TAGTAATTTC
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 126 0.94
28 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGA
Done.