Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 149 of 333
Found at i:48829120 original size:43 final size:43
Alignment explanation
Indices: 48829072--48829183 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
48829062 CCGGCATTAC
*
48829072 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
48829115 GCCTGCTGGGCATGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
48829158 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
48829184 TAATACTAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:48829313 original size:40 final size:38
Alignment explanation
Indices: 48829176--48829376 Score: 224
Period size: 38 Copynumber: 5.3 Consensus size: 38
48829166 GGCACGAAGG
* * * * *
48829176 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
48829214 CCTGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * * **
48829252 CCCGGATATTTTACTAGCACGAAGCTTGCAGGTCTTTAAA
1 CCCGGATATAATACCAGCACGAAGCCTGC-GGGATTT-AA
* *
48829292 CCTGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
48829330 CCCGGATATAATACCAGCACGATGCCTGCGGGA-TTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
48829367 CCCGTATATA
1 CCCGGATATA
48829377 CATCAAATAT
Statistics
Matches: 134, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
37 13 0.10
38 86 0.64
39 10 0.07
40 25 0.19
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:48835058 original size:12 final size:12
Alignment explanation
Indices: 48835038--48835069 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
48835028 ATGCAAACAC
*
48835038 AAAACAAACCAA
1 AAAAAAAACCAA
48835050 AAAAAAAACCAA
1 AAAAAAAACCAA
48835062 AAAAAAAA
1 AAAAAAAA
48835070 ACCATAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACCAA
Found at i:48835064 original size:13 final size:13
Alignment explanation
Indices: 48835038--48835073 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48835028 ATGCAAACAC
*
48835038 AAAACAAACC-AA
1 AAAAAAAACCAAA
48835050 AAAAAAAACCAAA
1 AAAAAAAACCAAA
48835063 AAAAAAAACCA
1 AAAAAAAACCA
48835074 TAAACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACCAAA
Found at i:48837743 original size:131 final size:131
Alignment explanation
Indices: 48837608--48837848 Score: 279
Period size: 131 Copynumber: 1.8 Consensus size: 131
48837598 CCACGGCTAT
* * **
48837608 TAAAAATCCCTT-AAACAAAGGCGATA-TGTGATATTTGGCAATTCACGAAATTGTGCCCTAGCG
1 TAAAAATCCCTTAAAACAAAGGCAATATTGTG-TATTTGACAATTC-CGAAATCATGCCCTAGCG
* * *
48837671 TGCTGGGTTGCAATTTCTCGTTTTCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCGTGTC
64 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCATTCGTGTC
48837736 TTC
129 TTC
** * * * * * *
48837739 TAAAAATCTGTTAAAACGAAGGCAATATTTTGTGTTTGACAATTCGGGAATCATGCCCTATCGTG
1 TAAAAATCCCTTAAAACAAAGGCAATATTGTGTATTTGACAATTCCGAAATCATGCCCTAGCGTG
** * *
48837804 CTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTT
66 CTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTT
48837849 TAGGTTTTCA
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
131 63 0.71
132 23 0.26
133 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (131 bp):
TAAAAATCCCTTAAAACAAAGGCAATATTGTGTATTTGACAATTCCGAAATCATGCCCTAGCGTG
CTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCATTCGTGTCTT
C
Found at i:48837858 original size:131 final size:129
Alignment explanation
Indices: 48837661--48837990 Score: 315
Period size: 129 Copynumber: 2.5 Consensus size: 129
48837651 CACGAAATTG
* * * *
48837661 TGCCCTAGCGTGCTGGGTTGCAATTTCTCGTTTTCTTAAAATAATCAAATATCCCTTCAAAATTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
* * * * * *
48837726 CATTCGTGTCTT-CTAAAAATCTGTT-AAAACGAAGGCAATATTTTG-TGTTTGACAATTCGGGA
66 CACTCATGT-TTGCTAAAAACCT-TTCAAAAC-AAGG-AAT-GTTCGATGTTTGACAATTCGAGA
48837788 ATCA
126 ATCA
** * * * ***
48837792 TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
* * * * *
48837857 CACTCATGTTTGTTAAAAACCTTTCAAAACAAGGGATGTTCGATGTTTGGCAATTTGAGAATCG
66 CACTCATGTTTGCTAAAAACCTTTCAAAACAAGGAATGTTCGATGTTTGACAATTCGAGAATCA
* * * * * * * *
48837921 TGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGTTCTAAATAATCGAATATCCCTTCTAAATTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
48837986 CACTC
66 CACTC
48837991 GTATTTTCTA
Statistics
Matches: 159, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
128 3 0.02
129 75 0.47
130 8 0.05
131 73 0.46
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (129 bp):
TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
CACTCATGTTTGCTAAAAACCTTTCAAAACAAGGAATGTTCGATGTTTGACAATTCGAGAATCA
Found at i:48849573 original size:44 final size:44
Alignment explanation
Indices: 48849499--48850194 Score: 851
Period size: 44 Copynumber: 15.8 Consensus size: 44
48849489 GCAAATCCTA
* *
48849499 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* * **
48849543 CAGATTTGGCGTCTCTGTATTGGC-GAAGAGCAGATTAAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAG-AGAGCAGATCGAAGATAG
* * *
48849587 CAGATTTGGAATCTCTGTATTGACAGGGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* ** * * * *
48849631 CAGATTTAGTGTCTTTGTATTGTCAAAGGGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
**
48849675 CAGATTTGGCATCTCTGTATTGTTAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* *** *
48849719 CAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
*
48849763 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
** *
48849807 CAGATTTGGTGTTTCTGTATTGACAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* * * *
48849851 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
*
48849895 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* * * *
48849939 TAGATTTGGCATCTCTGTGTTGACAGAGAGCAAACCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
** * *
48849983 CAGATTTGGTGTCTCTATATTGACAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* * * *
48850027 TAGATTTGGCGTCTCTGTATTGGCAGGGAGC-GTATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAG-ATCGAAGATAG
* * *
48850071 CAGATTTGGCATCTCTGTATTGTCAGAG-GACAGATTGAGGATAG
1 CAGATTTGGCATCTCTGTATTGACAGAGAG-CAGATCGAAGATAG
* * * *
48850115 TAGATTTGGCATCTCTGTGTTGATAGAGAGCAAATCGAAGAT-G
1 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
* *
48850158 ACAGATTTGGCATCTCCGTATTGGCAGAGAGCAGATC
1 -CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATC
48850195 AAAAATTACT
Statistics
Matches: 560, Mismatches: 85, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.01
44 553 0.99
45 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
Found at i:48851812 original size:28 final size:25
Alignment explanation
Indices: 48851780--48851845 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 25
48851770 TGTATTTACG
48851780 AATTATCCTTCCATTTTAACGTGATTTC
1 AATTATCCTTCC--TTT-ACGTGATTTC
* *
48851808 AATTAGGCCCTCTCCTTTATGTGATTTC
1 AATTA--TCCT-TCCTTTACGTGATTTC
48851836 AATTATCCTT
1 AATTATCCTT
48851846 TTTTTAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
28 19 0.59
29 3 0.09
30 3 0.09
31 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (25 bp):
AATTATCCTTCCTTTACGTGATTTC
Found at i:48853257 original size:131 final size:131
Alignment explanation
Indices: 48853014--48853392 Score: 339
Period size: 131 Copynumber: 2.9 Consensus size: 131
48853004 GTTTCACAAT
* * * * * *
48853014 TATTAAAAATCCTTTAAAACAAAGGTGATATTCGATACTCGATAATTCGTGGAATCGTGCCCTAA
1 TATTAAAAATCCCTTAAAACAAAGGCGATATTCGATATTTGACAATTC-CGGAATCGTGCCCTAA
* * * * * * **
48853079 CGTGTTGGGCTGCAATTCCTCGTTTTCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCACG
65 CGTGCTGGGTTGCAATTTCTCATTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACCCACG
48853144 AC
130 AC
* * * * *
48853146 TATTAAAAATCCCTT-AAACTAAGGCGATATGCGATATTTGGCAATTCACGGAATTGTGCCCTAG
1 TATTAAAAATCCCTTAAAACAAAGGCGATATTCGATATTTGACAATTC-CGGAATCGTGCCCTAA
* * * * *****
48853210 CGTGCTGGGTTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTTGTG
65 CGTGCTGGGTTGCAATTTCTCATTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACCCACG
*
48853275 TC
130 AC
* * * * * * * * *
48853277 T-TCTAAAAATCCGTTAAAACGAAGGCAATATTTGGTGTTTGACAATTCGGGAATCATGCCCTAT
1 TAT-TAAAAATCCCTTAAAACAAAGGCGATATTCGATATTTGACAATTCCGGAATCGTGCCCTAA
** * *
48853341 CGTGCTGGGTTGTGATTTCTCATTTGCTCAAAACAATCGAATATTCCTTTAG
65 CGTGCTGGGTTGCAATTTCTCATTTGCTCAAAATAATCGAATATCCCTTTAG
48853393 GTTTTCACTC
Statistics
Matches: 195, Mismatches: 50, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
130 1 0.01
131 155 0.79
132 39 0.20
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
TATTAAAAATCCCTTAAAACAAAGGCGATATTCGATATTTGACAATTCCGGAATCGTGCCCTAAC
GTGCTGGGTTGCAATTTCTCATTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACCCACGA
C
Found at i:48855240 original size:27 final size:27
Alignment explanation
Indices: 48855210--48855301 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
48855200 CCCCAAAATA
*
48855210 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
48855237 GGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
48855264 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
48855291 GGTAAAATGAC
1 GGTAAAATGAC
48855302 GATTATGCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:48855481 original size:27 final size:26
Alignment explanation
Indices: 48855437--48855487 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
48855427 ATGGAGAAAG
*
48855437 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGACTATGCCACATT
48855463 TACTGTTACTGGTCG-CTATGCCACA
1 TACTG-TACTGGT-GACTATGCCACA
48855488 ACTGCTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 16 0.73
28 1 0.05
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGACTATGCCACATT
Found at i:48855754 original size:33 final size:34
Alignment explanation
Indices: 48855705--48855776 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
48855695 CTTATGTCCA
* * *
48855705 CACTGTTACTGCATAGGGCTAAGGCCTAGACTGT
1 CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
*
48855739 -ACTGATACTGAATAGGGCTCAGGCCAAGACTGT
1 CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
48855772 CACTG
1 CACTG
48855777 TATGCACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (34 bp):
CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
Found at i:48858329 original size:68 final size:65
Alignment explanation
Indices: 48858193--48858541 Score: 170
Period size: 68 Copynumber: 5.3 Consensus size: 65
48858183 TGGAACCACG
* ** * * *
48858193 CATGCGACCTAGCTACAT-AT-ATCCCGTAGCTCTCTTGTCTACATGGTGTACACAT-AGTA-TC
1 CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTC-ACATGATGTGCAC-TCAGCACT-
*
48858254 ACC
63 ACA
48858257 CATGTGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCAGCACT
1 CATGTGACCTAGCTACATCATAA--TCTTGTAGCTCTCTTGT-CACATGATGTGCACTCAGCACT
*
48858322 ATA
63 ACA
* ** * * * *
48858325 CATGTGACCTAGCTAGAT-ACCATC-TGTATCATCCAATCTT-TC-C--GAAGGTTCAAC-CGGG
1 CATGTGACCTAGCTACATCATAATCTTGTAGC-T-C--TCTTGTCACATG-ATGTGC-ACTC--A
* * *
48858383 GAACCACG
58 GCACTACA
* ** * * *
48858391 CATGCGACCTAGCTACAT-AT-ATCCCGTAGCTCTCTTGTCTACATGGTGTACACGT-AGTA-TC
1 CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTC-ACATGATGTGCAC-TCAGCACT-
*
48858452 ACC
63 ACA
*
48858455 CATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCAGCACT
1 CATGTGACCTAGCTACATCATAA--TCTTGTAGCTCTCTTGT-CACATGATGTGCACTCAGCACT
*
48858520 ATA
63 ACA
48858523 CATGTGACCTAGCTACATC
1 CATGTGACCTAGCTACATC
48858542 CCATCTATAT
Statistics
Matches: 215, Mismatches: 39, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
62 4 0.02
63 3 0.01
64 50 0.23
65 17 0.08
66 32 0.15
67 6 0.03
68 99 0.46
69 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (65 bp):
CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTCACATGATGTGCACTCAGCACTACA
Found at i:48858435 original size:198 final size:198
Alignment explanation
Indices: 48858184--48858580 Score: 749
Period size: 198 Copynumber: 2.0 Consensus size: 198
48858174 TCCTTCACTT
48858184 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
1 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
*
48858249 GTATCACCCATGTGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
* *
48858314 TCAGCACTATACATGTGACCTAGCTAGATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTATATCATCCAATCTTTCCGAAGGTTCAAC
48858379 CGG
196 CGG
*
48858382 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACGTA
1 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
48858447 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
*
48858512 TCAGCACTATACATGTGACCTAGCTACATCCCATCTATATCATCCAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTATATCATCCAATCTTTCCGAAGGTTCAAC
48858577 CGG
196 CGG
48858580 G
1 G
48858581 ATTTCTCTCT
Statistics
Matches: 194, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
198 194 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (198 bp):
GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
TCAGCACTATACATGTGACCTAGCTACATACCATCTATATCATCCAATCTTTCCGAAGGTTCAAC
CGG
Found at i:48861149 original size:14 final size:14
Alignment explanation
Indices: 48861130--48861160 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48861120 TGATAGTTGG
48861130 AAATTTCGAGGACA
1 AAATTTCGAGGACA
*
48861144 AAATTTCGAGGGCA
1 AAATTTCGAGGACA
48861158 AAA
1 AAA
48861161 GTTCTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (14 bp):
AAATTTCGAGGACA
Found at i:48863832 original size:7 final size:7
Alignment explanation
Indices: 48863820--48863845 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48863810 TTTTATGAAA
48863820 CCCAAAG
1 CCCAAAG
48863827 CCCAAAG
1 CCCAAAG
48863834 CCCAAAG
1 CCCAAAG
48863841 CCCAA
1 CCCAA
48863846 TTCATCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.46, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:48867531 original size:42 final size:43
Alignment explanation
Indices: 48867431--48867568 Score: 145
Period size: 42 Copynumber: 3.2 Consensus size: 43
48867421 TGTGTTATCA
* * *
48867431 TGTAAGACCAC-GTCTAGGACATTGGTATCGATTTGTGATTTACG
1 TGTAAGACC-CTGTCTAGGACATTGGCATCGATATATGATTT-CG
* *
48867475 TGTAAGACCATGTCTAGAACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCCTGTCTAGGACATTGGCATCGATATATGATTTCG
* * * * * *
48867517 TGTAAGACCCTGTCTGGGACAATAGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTAGGACATTGGCATCGATATATGATTTCG
48867560 TGTAAGACC
1 TGTAAGACC
48867569 ACATCTGGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
42 27 0.34
43 26 0.33
44 26 0.33
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TGTAAGACCCTGTCTAGGACATTGGCATCGATATATGATTTCG
Found at i:48867576 original size:43 final size:43
Alignment explanation
Indices: 48867416--48867587 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
48867406 CATAGGATTC
* *
48867416 CGATATGTG-TTATCATGTAAGACCACGTCTAGGACATTGGTAT
1 CGATATTTGATTA-CATGTAAGACCACGTCTAGGACATTGGCAT
* * *
48867459 CGAT-TTGTGATTTACGTGTAAGACCATGTCTAGAACATTGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTAGGACATTGGCAT
* * * * * *
48867503 CG-TATATGATTTCGTGTAAGACC-CTGTCTGGGACAATAGCAT
1 CGATATTTGATTACATGTAAGACCAC-GTCTAGGACATTGGCAT
* * *
48867545 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
48867588 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.28
43 41 0.40
44 30 0.29
45 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
Found at i:48867789 original size:21 final size:22
Alignment explanation
Indices: 48867750--48867793 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48867740 AAAGAATGTT
48867750 ATGTGATGTATATGGAAATGAA
1 ATGTGATGTATATGGAAATGAA
* *
48867772 ATGTGA-GTATGTGTAAATGAA
1 ATGTGATGTATATGGAAATGAA
48867793 A
1 A
48867794 CAGGAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (22 bp):
ATGTGATGTATATGGAAATGAA
Found at i:48875848 original size:26 final size:27
Alignment explanation
Indices: 48875819--48875869 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48875809 CACAAGTTAG
*
48875819 TCATTT-ACGCACGAGGGGCAAAATAA
1 TCATTTAACACACGAGGGGCAAAATAA
* *
48875845 TCATTTAACACCCTAGGGGCAAAAT
1 TCATTTAACACACGAGGGGCAAAAT
48875870 GGTAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
TCATTTAACACACGAGGGGCAAAATAA
Found at i:48875928 original size:27 final size:27
Alignment explanation
Indices: 48875894--48876039 Score: 213
Period size: 27 Copynumber: 5.4 Consensus size: 27
48875884 ACAAGGTTTC
48875894 TCGATAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
48875921 TTGATAATTCTATCCTACAGGGGTA-T
1 TCGATAATTCTACCCTACAGGGGTATT
*
48875947 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
**
48875974 TTAATAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
48876001 TCGGTAATTCTACCTTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
48876028 TCGGTAATTCTA
1 TCGATAATTCTA
48876040 TAACTTATCC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 23 0.22
27 83 0.78
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
TCGATAATTCTACCCTACAGGGGTATT
Found at i:48875929 original size:53 final size:53
Alignment explanation
Indices: 48875888--48876028 Score: 219
Period size: 53 Copynumber: 2.6 Consensus size: 53
48875878 TACCCCACAA
* * *
48875888 GGTTTCTCGATAATTCTACCCTACAGGGGTATTTTGATAATTCTATCCTACAGG
1 GGTTT-TCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGG
*
48875942 GGTATTCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGG
1 GGTTTTCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGG
*
48875995 GGTATTTCGGTAATTCTACCTTACAGGGGTATTT
1 GGT-TTTCGGTAATTCTACCCTACAGGGGTATTT
48876029 CGGTAATTCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.60
54 32 0.40
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (53 bp):
GGTTTTCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGG
Found at i:48882202 original size:26 final size:27
Alignment explanation
Indices: 48882173--48882223 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48882163 CACAAGTTAG
*
48882173 TCATTT-ACGCACGAGGGGCAAAATAA
1 TCATTTAACACACGAGGGGCAAAATAA
* *
48882199 TCATTTAACACCCTAGGGGCAAAAT
1 TCATTTAACACACGAGGGGCAAAAT
48882224 GGTAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
TCATTTAACACACGAGGGGCAAAATAA
Found at i:48882272 original size:27 final size:27
Alignment explanation
Indices: 48882226--48882396 Score: 173
Period size: 27 Copynumber: 6.3 Consensus size: 27
48882216 GGCAAAATGG
* * * *
48882226 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
48882253 TAATTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
48882279 GTAATTCTATCCTATAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* **
48882307 TAATTCTACCCTACAGGGGAATTTTAA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
48882334 TAATTCTACCTTACAGGGGTGTTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
48882361 TAATTCTACCTTAGAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
48882388 TAATTCTAC
1 TAATTCTAC
48882397 AACTTATCCA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 122 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:48882283 original size:54 final size:54
Alignment explanation
Indices: 48882225--48882396 Score: 191
Period size: 54 Copynumber: 3.2 Consensus size: 54
48882215 GGGCAAAATG
* * * * *
48882225 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * *
48882279 GTAATTCTATCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGAATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * * * *
48882333 ATAATTCTACCTTACAGGGGTGTTTCGGTAATTCTACCTTAGAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
48882387 GTAATTCTAC
1 GTAATTCTAC
48882397 AACTTATCCA
Statistics
Matches: 95, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:48886257 original size:40 final size:40
Alignment explanation
Indices: 48886191--48886354 Score: 217
Period size: 40 Copynumber: 4.1 Consensus size: 40
48886181 AACTAAGATT
* * * * *
48886191 CGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCT
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
* *
48886231 CGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACC
*
48886271 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
48886311 CGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAA-ATCC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA-CC
48886350 CGAAG
1 CGAAG
48886355 ATACTTGGGT
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.14
40 92 0.84
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
Found at i:48886622 original size:22 final size:22
Alignment explanation
Indices: 48886582--48886623 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
48886572 GAATGTGCAT
*
48886582 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
48886604 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
48886624 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:48891376 original size:40 final size:40
Alignment explanation
Indices: 48891283--48891460 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
48891273 AAGCCAAGTA
* * *
48891283 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48891321 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48891361 CCTTCGGGACTTAGCCCAGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48891401 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
48891442 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48891461 TTATCATCCA
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
38 12 0.10
39 17 0.14
40 65 0.54
41 23 0.19
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48899427 original size:40 final size:40
Alignment explanation
Indices: 48899334--48899551 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
48899324 AAGCCAAGTA
* * *
48899334 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48899372 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48899412 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48899452 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48899492 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
48899533 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48899552 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48906295 original size:13 final size:13
Alignment explanation
Indices: 48906277--48906326 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
48906267 CCAAAATAAG
*
48906277 GTCACACGCCTGT
1 GTCACACGCCCGT
*
48906290 GTCACACTCCCGT
1 GTCACACGCCCGT
*
48906303 GTCACACTCCCGT
1 GTCACACGCCCGT
48906316 GTCACACGCCC
1 GTCACACGCCC
48906327 ATGTGGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.16, C:0.46, G:0.18, T:0.20
Consensus pattern (13 bp):
GTCACACGCCCGT
Found at i:48908837 original size:35 final size:36
Alignment explanation
Indices: 48908762--48908837 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
48908752 GCTCATTTCA
48908762 AGATTACCCATTCGGGCTAAATCCTTTCTATAATTG
1 AGATTACCCATTCGGGCTAAATCCTTTCTATAATTG
*
48908798 -GATTACCCATTTGGGCTAAATCCTTTCTATAA-TG
1 AGATTACCCATTCGGGCTAAATCCTTTCTATAATTG
48908832 AGATTA
1 AGATTA
48908838 ATGGATTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
34 2 0.05
35 36 0.95
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
AGATTACCCATTCGGGCTAAATCCTTTCTATAATTG
Found at i:48917376 original size:38 final size:38
Alignment explanation
Indices: 48917333--48917548 Score: 198
Period size: 38 Copynumber: 5.2 Consensus size: 38
48917323 TTTCAAATTG
*
48917333 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
48917371 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
48917412 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
48917456 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
48917497 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
*
48917541 ACACGTAT
1 ACATGTAT
48917549 CAATATGTGT
Statistics
Matches: 146, Mismatches: 14, Indels: 36
0.74 0.07 0.18
Matches are distributed among these distances:
38 62 0.42
39 2 0.01
40 6 0.04
41 4 0.03
42 2 0.01
43 2 0.01
44 4 0.03
45 6 0.04
46 2 0.01
47 56 0.38
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:48917432 original size:47 final size:47
Alignment explanation
Indices: 48917378--48917637 Score: 331
Period size: 48 Copynumber: 5.7 Consensus size: 47
48917368 GTTACATGTT
48917378 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
48917425 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
48917463 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
48917510 TAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* * * *
48917558 TAATCGTGGTATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
**
48917606 TAATTGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
48917638 CACGTATAAA
Statistics
Matches: 189, Mismatches: 14, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
38 28 0.15
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 59 0.31
48 86 0.46
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:48917436 original size:85 final size:85
Alignment explanation
Indices: 48917340--48917674 Score: 463
Period size: 85 Copynumber: 3.8 Consensus size: 85
48917330 TTGACATGTA
*
48917340 TAACCGTGGCATATCCACTTAGCACTACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
48917405 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
48917425 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
48917490 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
48917510 TAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACG-T-----TA-C---ATGTTTAACCGTGGTATATCCA
* * *
48917575 CTTAGCACCATGTTACATGTATCAATATGTG
56 CTTAGCACCACGTTA-ATGAATCAATATATG
** * * * *
48917606 TAATTGTGGTATATCCACTTAGCACCACGTTACACGTATAAACGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
48917671 CGTT
66 CGTT
48917675 TTTCCATTCC
Statistics
Matches: 226, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
85 113 0.50
86 33 0.15
89 1 0.00
90 2 0.01
91 2 0.01
92 1 0.00
95 35 0.15
96 39 0.17
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:48919337 original size:27 final size:26
Alignment explanation
Indices: 48919322--48919389 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
48919312 ATTAAGTCCG
48919322 CACACTCAGTGCTATATAATCAACTCA
1 CACACTCAGTGCTATAT-ATCAACTCA
* *
48919349 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTCAGTGCTATAT-ATC-AACTCA
*
48919377 CACACTTAGTGCT
1 CACACTCAGTGCT
48919390 GTACAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (26 bp):
CACACTCAGTGCTATATATCAACTCA
Found at i:48919383 original size:28 final size:28
Alignment explanation
Indices: 48919320--48919415 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
48919310 ATATTAAGTC
*
48919320 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48919347 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48919375 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48919404 CGCACACTTAGT
1 CGCACACTTAGT
48919416 TCCAATCTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.35
28 22 0.37
29 17 0.28
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48930103 original size:21 final size:21
Alignment explanation
Indices: 48930052--48930093 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48930042 AAATAAAGCC
48930052 AAAATCAGCCATTTTTCTCCT
1 AAAATCAGCCATTTTTCTCCT
48930073 AAAATCAGCCATTTTTCTCCT
1 AAAATCAGCCATTTTTCTCCT
48930094 TCATCCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATCAGCCATTTTTCTCCT
Found at i:48939952 original size:15 final size:15
Alignment explanation
Indices: 48939932--48939977 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
48939922 TTAAATTTAG
*
48939932 TATTTACTTTTTCAA
1 TATTTAATTTTTCAA
*
48939947 TATTTAAATTTTCAGA
1 TATTTAATTTTTCA-A
48939963 TA-TTAATTTTTCAA
1 TATTTAATTTTTCAA
48939977 T
1 T
48939978 TTACCGAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.81
16 3 0.11
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTTAATTTTTCAA
Found at i:48940142 original size:15 final size:15
Alignment explanation
Indices: 48940124--48940154 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48940114 TGTTTGATAA
48940124 ATTGAAAATTTAAGT
1 ATTGAAAATTTAAGT
48940139 ATTGAAAATTTAAGT
1 ATTGAAAATTTAAGT
48940154 A
1 A
48940155 CTGGATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTGAAAATTTAAGT
Found at i:48940193 original size:22 final size:22
Alignment explanation
Indices: 48940168--48940227 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
48940158 GATTTAAATT
*
48940168 ATAAATTTATTTGATATATTAC
1 ATAAATTTATTTGATATATAAC
*
48940190 ATAAATTTGATTATGAAATATAAC
1 ATAAATTT-ATT-TGATATATAAC
*
48940214 -TAAA-TTGTTTGATA
1 ATAAATTTATTTGATA
48940228 AATATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 10 0.31
23 7 0.22
24 9 0.28
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (22 bp):
ATAAATTTATTTGATATATAAC
Found at i:48945109 original size:18 final size:17
Alignment explanation
Indices: 48945075--48945120 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
48945065 ACATTTAATT
48945075 AATATTTTAAAATTTAA
1 AATATTTTAAAATTTAA
48945092 AATACTTTTATAAA-TT-A
1 AATA-TTTTA-AAATTTAA
48945109 AATAATTTTAAA
1 AAT-ATTTTAAA
48945121 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 8 0.31
19 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATTTTAAAATTTAA
Found at i:48945125 original size:18 final size:17
Alignment explanation
Indices: 48945078--48945125 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
48945068 TTTAATTAAT
*
48945078 ATTTTAAAATTTAAAATA
1 ATTTTAAAAATT-AAATA
* *
48945096 CTTTTATAAATTAAATA
1 ATTTTAAAAATTAAATA
48945113 ATTTTAAATAATT
1 ATTTTAAA-AATT
48945126 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTAAAAATTAAATA
Found at i:48945528 original size:7 final size:7
Alignment explanation
Indices: 48945518--48945561 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
48945508 TAAAAGTTAA
48945518 AAAAATT
1 AAAAATT
48945525 AAAAATT
1 AAAAATT
48945532 AAAAATT
1 AAAAATT
48945539 AAAAATT
1 AAAAATT
48945546 --AAATT
1 AAAAATT
*
48945551 AAAGATT
1 AAAAATT
48945558 AAAA
1 AAAA
48945562 TAACTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:48945551 original size:12 final size:12
Alignment explanation
Indices: 48945520--48945560 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
48945510 AAAGTTAAAA
48945520 AAATTAAAAATT
1 AAATTAAAAATT
48945532 AAAAATTAAAAATT
1 --AAATTAAAAATT
*
48945546 AAATTAAAGATT
1 AAATTAAAAATT
48945558 AAA
1 AAA
48945561 ATAACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATTAAAAATT
Found at i:48946296 original size:53 final size:53
Alignment explanation
Indices: 48946235--48946338 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
48946225 AAAAAAAGAT
* * * *
48946235 TAACTCTAATGTTTAGGTTTGTGGTTC-ATCATATTGATTTTAAAAATTATTTC
1 TAACTCTAATATTTAAGCTTGTGG-TCGAACATATTGATTTTAAAAATTATTTC
48946288 TAACTCTAATATTTAAGCTTGTGGTCGAACATATTGATTTTAAAAATTATT
1 TAACTCTAATATTTAAGCTTGTGGTCGAACATATTGATTTTAAAAATTATT
48946339 ATAAATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 2 0.04
53 44 0.96
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (53 bp):
TAACTCTAATATTTAAGCTTGTGGTCGAACATATTGATTTTAAAAATTATTTC
Found at i:48946533 original size:11 final size:11
Alignment explanation
Indices: 48946519--48946566 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
48946509 AATTATTAAA
48946519 AATAATAAGAT
1 AATAATAAGAT
*
48946530 AATAATAAAAT
1 AATAATAAGAT
*
48946541 -AT-TTAA-A-
1 AATAATAAGAT
48946548 AATAATAAGAT
1 AATAATAAGAT
48946559 AATAATAA
1 AATAATAA
48946567 AATATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.10
9 6 0.20
10 3 0.10
11 18 0.60
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAAGAT
Found at i:48946550 original size:29 final size:29
Alignment explanation
Indices: 48946514--48946579 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
48946504 GCAATAATTA
48946514 TTAAAAATAATAAGATAATAATAAAATAT
1 TTAAAAATAATAAGATAATAATAAAATAT
48946543 TTAAAAATAATAAGATAATAATAAAATAT
1 TTAAAAATAATAAGATAATAATAAAATAT
48946572 TTAAAAAT
1 TTAAAAAT
48946580 TATTAAGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
TTAAAAATAATAAGATAATAATAAAATAT
Found at i:48947470 original size:11 final size:11
Alignment explanation
Indices: 48947394--48947477 Score: 60
Period size: 12 Copynumber: 7.0 Consensus size: 11
48947384 TTTTTTTTCT
*
48947394 TTTTATTTCTA
1 TTTTATTTTTA
*
48947405 TTTCTATTTTTC
1 TTT-TATTTTTA
*
48947417 TTGTTATTTTTG
1 TT-TTATTTTTA
48947429 TTTTATATTTTACA
1 TTTTAT-TTTT--A
* *
48947443 CTTATATGTTCTA
1 -TTTTAT-TTTTA
48947456 TTTTATTTTTA
1 TTTTATTTTTA
48947467 TTTTATTTTTA
1 TTTTATTTTTA
48947478 CTGTTATTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
11 22 0.38
12 26 0.45
13 2 0.03
15 8 0.14
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:48947652 original size:2 final size:2
Alignment explanation
Indices: 48947645--48947671 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48947635 AGCAATTTCA
48947645 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
48947672 TAAATATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:48949115 original size:37 final size:37
Alignment explanation
Indices: 48949074--48949231 Score: 298
Period size: 37 Copynumber: 4.3 Consensus size: 37
48949064 ATATGAAGTT
*
48949074 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
48949111 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
*
48949148 ATCGGGTCTTACCCGCACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
48949185 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
48949222 ATCGGGTCTT
1 ATCGGGTCTT
48949232 TAGAGCTCGG
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 118 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
Found at i:48949428 original size:47 final size:47
Alignment explanation
Indices: 48949350--48949650 Score: 458
Period size: 47 Copynumber: 6.4 Consensus size: 47
48949340 CCCTTCAGGA
* * * * * *
48949350 CTTATCACATCTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48949397 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48949444 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48949491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48949538 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48949587 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48949634 CTCATCACATATATACA
1 CTTATCACATATATACA
48949651 TCACATATAT
Statistics
Matches: 232, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 187 0.81
49 45 0.19
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48949511 original size:94 final size:94
Alignment explanation
Indices: 48949350--48949720 Score: 474
Period size: 94 Copynumber: 3.8 Consensus size: 94
48949340 CCCTTCAGGA
* * * * ** *
48949350 CTTATCACATCTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC-TGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGCCCTTATCACATATATACA
48949414 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
48949444 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGCCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATACAC
*
48949509 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
48949538 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATAC
*
48949603 ACTTTCACATTCATCACATCGGCTATTAGGCCTCATC
64 ACTTTCACATTCATCACATCGGCCATTAGG------C
*
48949640 ACATATATACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 -C---T-T--ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATA
48949705 TATACACTTTCACATT
59 TATACACTTTCACATT
48949721 TATTCAAATA
Statistics
Matches: 246, Mismatches: 15, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
93 5 0.02
94 87 0.35
96 80 0.33
102 1 0.00
103 1 0.00
106 1 0.00
107 66 0.27
109 5 0.02
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:48949606 original size:143 final size:145
Alignment explanation
Indices: 48949349--48949720 Score: 527
Period size: 143 Copynumber: 2.5 Consensus size: 145
48949339 GCCCTTCAGG
* * * * * * * *
48949349 ACTTATCACATCTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 ACTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
48949414 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
48949479 CGGCTATTA-G-C-C
131 CGGCTATTAGGCCAC
*
48949491 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
1 ACTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
48949555 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
48949620 ATCGGCTATTAGGCCTCATC
129 ATCGGCTATTAGG-C-CA-C
48949640 ACATATATACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 AC---T-T--ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
48949705 TATACACTTTCACATT
60 TATACACTTTCACATT
48949721 TATTCAAATA
Statistics
Matches: 204, Mismatches: 11, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
141 46 0.23
143 82 0.40
144 1 0.00
147 1 0.00
149 1 0.00
150 1 0.00
153 1 0.00
154 20 0.10
156 51 0.25
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (145 bp):
ACTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCTATTAGGCCAC
Found at i:48949654 original size:13 final size:13
Alignment explanation
Indices: 48949636--48949663 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48949626 TATTAGGCCT
48949636 CATCACATATATA
1 CATCACATATATA
48949649 CATCACATATATA
1 CATCACATATATA
48949662 CA
1 CA
48949664 CTTTCACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (13 bp):
CATCACATATATA
Found at i:48949657 original size:60 final size:60
Alignment explanation
Indices: 48949590--48949710 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
48949580 ATTAGGCCTT
*
48949590 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATAC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
48949650 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
48949710 A
1 A
48949711 CTTTCACATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (60 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
Found at i:48949702 original size:31 final size:31
Alignment explanation
Indices: 48949607--48949703 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
48949597 ATATACACTT
* *
48949607 TCACATTCATCACATCGGCTATTAGGCCTCA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* **
48949638 TCACATAT-AT-ACATC--ACATATATACACTT-
1 TCACAT-TCATCACATCGGCCAT-TAGGC-CTTA
48949667 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
48949698 TCACAT
1 TCACAT
48949704 ATATACACTT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
28 3 0.06
29 11 0.22
30 15 0.30
31 17 0.34
32 4 0.08
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:48953844 original size:37 final size:37
Alignment explanation
Indices: 48953780--48953918 Score: 206
Period size: 37 Copynumber: 3.8 Consensus size: 37
48953770 AGCTCAGACG
* * * * *
48953780 AAATCTCCATATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48953817 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
48953854 TAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48953891 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
48953919 TAGAGCTCGG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48954107 original size:47 final size:47
Alignment explanation
Indices: 48954036--48954392 Score: 608
Period size: 47 Copynumber: 7.6 Consensus size: 47
48954026 GCCCTTCGGA
* * * * * *
48954036 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48954083 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48954130 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48954176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48954223 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48954272 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48954319 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48954366 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48954393 TATTCAAATA
Statistics
Matches: 297, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 46 0.15
47 204 0.69
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48954114 original size:25 final size:25
Alignment explanation
Indices: 48954086--48954164 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
48954076 ACTCGGCCCT
48954086 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
48954111 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
48954133 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
48954158 ATCACAT
1 ATCACAT
48954165 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:48958516 original size:37 final size:37
Alignment explanation
Indices: 48958452--48958590 Score: 206
Period size: 37 Copynumber: 3.8 Consensus size: 37
48958442 AGCTCAGACG
* * * * *
48958452 AAATCTCCATATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48958489 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
48958526 TAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48958563 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
48958591 TAGAGCTCGG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48958787 original size:25 final size:25
Alignment explanation
Indices: 48958757--48958834 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
48958747 CACTCGGCCT
48958757 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
*** *** *
48958782 TCACAT-TGGCCA-TTAGGCCTT-A
1 TCACATATATACACTTTCACATTCA
48958804 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
48958829 TCACAT
1 TCACAT
48958835 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:48958826 original size:47 final size:47
Alignment explanation
Indices: 48958708--48959063 Score: 608
Period size: 47 Copynumber: 7.6 Consensus size: 47
48958698 CCCTTCGGGA
* * * * * *
48958708 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48958755 C-T-TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48958800 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48958847 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48958894 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48958943 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48958990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48959037 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48959064 TATTCAAATA
Statistics
Matches: 297, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
45 39 0.13
46 2 0.01
47 209 0.70
49 47 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48958962 original size:143 final size:141
Alignment explanation
Indices: 48958708--48959063 Score: 608
Period size: 143 Copynumber: 2.5 Consensus size: 141
48958698 CCCTTCGGGA
* * * * * *
48958708 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-T-TCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
48958771 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
48958836 GGCCATTAGGC
131 GGCCATTAGGC
48958847 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
48958912 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
48958977 TCGGCTATTAGGC
129 TCGGCCATTAGGC
48958990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
48959055 TTTCACATT
66 TTTCACATT
48959064 TATTCAAATA
Statistics
Matches: 205, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
139 42 0.20
140 1 0.00
141 23 0.11
143 139 0.68
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:48975650 original size:46 final size:46
Alignment explanation
Indices: 48975585--48975685 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
48975575 TATGGTAAAC
48975585 ATAT-ATGT-TTTAAAAAAAAGGTAAGTTTGAATACATGTGATGAT
1 ATATCATGTATTTAAAAAAAAGGTAAGTTTGAATACATGTGATGAT
48975629 ATATCATGTATTTAAAAAAAAGGTAAGTTTGAATACATGTGATGAT
1 ATATCATGTATTTAAAAAAAAGGTAAGTTTGAATACATGTGATGAT
48975675 ATATCATGTAT
1 ATATCATGTAT
48975686 AATGTTAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 4 0.07
45 4 0.07
46 47 0.85
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (46 bp):
ATATCATGTATTTAAAAAAAAGGTAAGTTTGAATACATGTGATGAT
Found at i:48977641 original size:24 final size:25
Alignment explanation
Indices: 48977614--48977661 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
48977604 CAAAAATAAA
48977614 ATACATGTGTAATAAATAT-TGTAC
1 ATACATGTGTAATAAATATATGTAC
* *
48977638 ATACATTTGTAATACATATATGTA
1 ATACATGTGTAATAAATATATGTA
48977662 TTTACTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (25 bp):
ATACATGTGTAATAAATATATGTAC
Found at i:48977817 original size:138 final size:134
Alignment explanation
Indices: 48977594--48977852 Score: 304
Period size: 138 Copynumber: 1.9 Consensus size: 134
48977584 AAAGAGTGAT
* * * * *
48977594 AAGTGTATGGCAAAAATAAAATACATGTGTAATAAATATTGTACATACATTTGTAATACATATAT
1 AAGTGTATGGCAAAAATAAAATACATGTGTAACAAATAGTATACATACACTTGTAATACACATAT
* * * * *
48977659 GTATTTACTTATTATTTAAGTAAATATTATTATTTTATAATTAATTAATTAAAGTAAATAATTAA
66 ATATTTACATATTATATAAGT--ATATTA-TATATTATAATTAA--AAGTAAAGTAAATAATTAA
48977724 ATATAAGAC
126 ATATAAGAC
* ** * *
48977733 AAGTGTATGGTAAAAATAATTTATATGTGT-ACCAATAGTATACATACACTTGTAATACACATAT
1 AAGTGTATGGCAAAAATAAAATACATGTGTAACAAATAGTATACATACACTTGTAATACACATAT
* * *
48977797 ATGTTTGCATATTATATAAGTATATTATATATTATTATTAAAAGTAAAGTAAATAA
66 ATATTTACATATTATATAAGTATATTATATATTATAATTAAAAGTAAAGTAAATAA
48977853 AAAGGAAATA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
133 14 0.14
135 12 0.12
136 6 0.06
138 44 0.43
139 26 0.25
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (134 bp):
AAGTGTATGGCAAAAATAAAATACATGTGTAACAAATAGTATACATACACTTGTAATACACATAT
ATATTTACATATTATATAAGTATATTATATATTATAATTAAAAGTAAAGTAAATAATTAAATATA
AGAC
Found at i:48978558 original size:3 final size:3
Alignment explanation
Indices: 48978550--48978597 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
48978540 GAATGGTAAG
*
48978550 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48978598 GGTATTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:48982229 original size:18 final size:18
Alignment explanation
Indices: 48982172--48982231 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
48982162 GACTGTCTGC
*
48982172 TACTGAATAATTGACTAT
1 TACTGAATAAATGACTAT
* *
48982190 TACAGAATAAAAGACTGA-
1 TACTGAATAAATGACT-AT
*
48982208 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
48982226 TACTGA
1 TACTGA
48982232 TTAACCGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:48985263 original size:40 final size:40
Alignment explanation
Indices: 48985180--48985402 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
48985170 TTGAATGCTG
* * * * *
48985180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
48985220 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
48985260 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
48985300 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
48985340 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
48985379 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48985403 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:48985317 original size:80 final size:79
Alignment explanation
Indices: 48985180--48985404 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
48985170 TTGAATGCTG
* * * * * *
48985180 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
48985243 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
48985260 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
48985325 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
48985340 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
48985404 G
65 G
48985405 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:48985422 original size:79 final size:80
Alignment explanation
Indices: 48985255--48985437 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
48985245 GTGCGAGATA
** *
48985255 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
48985320 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
48985335 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
48985399 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
48985414 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48985438 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:48985422 original size:119 final size:120
Alignment explanation
Indices: 48985180--48985437 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
48985170 TTGAATGCTG
* * * * *
48985180 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
48985245 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
48985300 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
48985362 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
48985419 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48985438 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:49002826 original size:39 final size:39
Alignment explanation
Indices: 49002635--49002844 Score: 217
Period size: 40 Copynumber: 5.3 Consensus size: 39
49002625 GGACTAAGAT
*
49002635 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
* * *
49002675 CCAAAGGCATTTGTGCGAGATAC-AAATTCTGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
49002715 CCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
49002755 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
49002795 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
49002834 CCGAAGGCATT
1 CCGAAGGCATT
49002845 TGAACGAGGA
Statistics
Matches: 149, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.25
40 108 0.72
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:49002864 original size:79 final size:80
Alignment explanation
Indices: 49002705--49002879 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 80
49002695 TACAAATTCT
* * * **
49002705 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
** *
49002770 CGAGTTGTTAAATCC
66 CGAGGAGCTAAATCC
* * * * *
49002785 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
49002849 CGAGGAGCTATATCC
66 CGAGGAGCTAAATCC
*
49002864 -GGTTAAATCCCGAAGG
1 GGGTTAAGTCCCGAAGG
49002880 TACGTGATTT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 14 0.18
79 50 0.63
80 15 0.19
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGGAGCTAAATCC
Found at i:49011551 original size:27 final size:27
Alignment explanation
Indices: 49011521--49011698 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
49011511 ATATTGAGCC
* * *
49011521 CGCACACTCAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
49011548 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
49011575 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
49011603 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
49011630 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
49011657 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
49011684 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49011699 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49011660 original size:82 final size:81
Alignment explanation
Indices: 49011542--49011697 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49011532 TGCTATATAT
* * *
49011542 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
49011607 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49011624 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
49011688 CACTTAGTGC
65 CACTTAGTGC
49011698 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49013936 original size:39 final size:39
Alignment explanation
Indices: 49013732--49013954 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
49013722 TTGAATGCTG
* * * * *
49013732 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
49013772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
49013811 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
49013852 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
49013892 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
49013931 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49013955 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 40 0.26
40 101 0.65
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:49016382 original size:27 final size:27
Alignment explanation
Indices: 49016352--49016414 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
49016342 CCATAAACGG
*
49016352 GTAAATGTGGCAAAGCCACCAGTAATA
1 GTAAATGTGGCAAAGCCACCAGTAACA
* * **
49016379 GTAATTGTGGCATAGTTACCAGTAACA
1 GTAAATGTGGCAAAGCCACCAGTAACA
*
49016406 GTGAATGTG
1 GTAAATGTG
49016415 ACATAGTACT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAAATGTGGCAAAGCCACCAGTAACA
Found at i:49016419 original size:27 final size:27
Alignment explanation
Indices: 49016369--49016421 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49016359 TGGCAAAGCC
* *
49016369 ACCAGTAATAGTAATTGTGGCATAGTT
1 ACCAGTAACAGTAATTGTGACATAGTT
49016396 ACCAGTAACAGTGAA-TGTGACATAGT
1 ACCAGTAACAGT-AATTGTGACATAGT
49016422 ACTAGTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (27 bp):
ACCAGTAACAGTAATTGTGACATAGTT
Found at i:49016600 original size:27 final size:27
Alignment explanation
Indices: 49016570--49016715 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
49016560 AGGGCTACTC
* *
49016570 GTCATTTTACCCTAC-AGAGGCATTACA
1 GTCATTTTACCCTACAAG-GGTATTACG
*
49016597 GTCATTTTATCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
49016624 GTCATTTTACCCTACACGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
*
49016651 GTCATTTTATCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
49016678 ATTATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
49016705 GTCATTTTACC
1 GTCATTTTACC
49016716 TATTTTGGGG
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 101 0.98
28 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:49020413 original size:33 final size:33
Alignment explanation
Indices: 49020347--49020450 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 33
49020337 ACAGTGCATG
* * *
49020347 CAGTAACAGTCTAGGCCTGAGCCCTACT-CAGTAA
1 CAGT-ACAGTCTGGGCCTAAGCCCTA-TATAGTAA
*
49020381 CAGTACAGTCTGGGCCTTAGCCCTATATAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATATAGTAA
* *
49020414 CAGT---G--TGGGCCTAAGCCCAAAATAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATATAGTAA
49020442 CAGTACAGT
1 CAGTACAGT
49020451 GTAATGCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
28 24 0.41
30 1 0.02
31 1 0.02
32 1 0.02
33 28 0.47
34 4 0.07
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATATAGTAA
Found at i:49020422 original size:28 final size:28
Alignment explanation
Indices: 49020385--49020445 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
49020375 CAGTAACAGT
* * *
49020385 ACAGTCTGGGCCTTAGCCCTATATAGTA
1 ACAGTCTGGGCCTAAGCCCAAAATAGTA
*
49020413 ACAGTGTGGGCCTAAGCCCAAAATAGTA
1 ACAGTCTGGGCCTAAGCCCAAAATAGTA
49020441 ACAGT
1 ACAGT
49020446 ACAGTGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAAAATAGTA
Found at i:49020648 original size:27 final size:25
Alignment explanation
Indices: 49020612--49020687 Score: 89
Period size: 27 Copynumber: 2.9 Consensus size: 25
49020602 ACAATAAATG
*
49020612 TGACAAAGCCACCAGTATCAGTAATTA
1 TGACATAGCCACCAGTA-CAGTAA-TA
*
49020639 TGGCATAGCCACCAGTAACAGTGAATA
1 TGACATAGCCACCAGT-ACAGT-AATA
*
49020666 TGACATAGTCACCAGTACAGTA
1 TGACATAGCCACCAGTACAGTA
49020688 CTTCATATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.02
26 5 0.12
27 34 0.79
28 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (25 bp):
TGACATAGCCACCAGTACAGTAATA
Found at i:49020850 original size:27 final size:27
Alignment explanation
Indices: 49020820--49021018 Score: 168
Period size: 27 Copynumber: 7.4 Consensus size: 27
49020810 AGGGCTACTC
* **
49020820 GTCATTTTGCCATACAGGGGTATTATA
1 GTCATTTTACCATACAGGGGTATTACG
* *
49020847 GTCATTTTACCCA-ATAGGGGCATTACG
1 GTCATTTTA-CCATACAGGGGTATTACG
49020874 GTCATTTTAACC-TACAGGGGTATTACG
1 GTCATTTT-ACCATACAGGGGTATTACG
* * *
49020901 GCCATTTTACCCTACAGGGGTGTTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
49020928 GTTATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTACG
* * * * **
49020955 GTCATTTTACCTTATAAGGGTATCAAA
1 GTCATTTTACCATACAGGGGTATTACG
* * *
49020982 GTTATTTTACCCTAGAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
49021009 ATTATTTTAC
1 GTCATTTTAC
49021019 AGTTATTTTG
Statistics
Matches: 140, Mismatches: 28, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
26 3 0.02
27 133 0.95
28 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:49020958 original size:81 final size:81
Alignment explanation
Indices: 49020822--49021018 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 81
49020812 GGCTACTCGT
* * ** * *
49020822 CATTTTGCCATACAGGGGTATTATAGTCATTTTACCCAATAGGGGCATTACGGTCATTTTAACC-
1 CATTTTACCCTACAGGGGTATTACGGTTATTTTACCCAACAGGGGCATTACGGTCATTTT-ACCT
* * **
49020886 TACAGGGGTATTACGGC
65 TACAAGGGTATCAAAGC
* * * *
49020903 CATTTTACCCTACAGGGGTGTTACGGTTATTTTACCCTACAGGGGTATTATGGTCATTTTACCTT
1 CATTTTACCCTACAGGGGTATTACGGTTATTTTACCCAACAGGGGCATTACGGTCATTTTACCTT
* *
49020968 ATAAGGGTATCAAAGT
66 ACAAGGGTATCAAAGC
* * *
49020984 TATTTTACCCTAGAGGGGTATTACGATTATTTTAC
1 CATTTTACCCTACAGGGGTATTACGGTTATTTTAC
49021019 AGTTATTTTG
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 3 0.03
81 92 0.97
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (81 bp):
CATTTTACCCTACAGGGGTATTACGGTTATTTTACCCAACAGGGGCATTACGGTCATTTTACCTT
ACAAGGGTATCAAAGC
Found at i:49020986 original size:54 final size:54
Alignment explanation
Indices: 49020823--49021006 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 54
49020813 GCTACTCGTC
* * * * * *
49020823 ATTTTGCCATACAGGGGTATTATAGTCATTTTACCCAATAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTATAGGGGTATTACGGTT
* * * * *
49020877 ATTTTAACCTACAGGGGTATTACGGCCATTTTACCCTACAGGGGTGTTACGGTT
1 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTATAGGGGTATTACGGTT
* * * **
49020931 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCTTATAAGGGTATCAAAGTT
1 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTATAGGGGTATTACGGTT
*
49020985 ATTTTACCCTAGAGGGGTATTA
1 ATTTTACCCTACAGGGGTATTA
49021007 CGATTATTTT
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (54 bp):
ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTATAGGGGTATTACGGTT
Found at i:49024741 original size:27 final size:26
Alignment explanation
Indices: 49024711--49024782 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
49024701 AGCATAGCTG
49024711 CTAGAAATAGTAAATGTGGCAAAGCCA
1 CTAG-AATAGTAAATGTGGCAAAGCCA
* * * *
49024738 CTAGTATCAGTAATTGGGGCATAGCCA
1 CTAGAAT-AGTAAATGTGGCAAAGCCA
* *
49024765 CCAGTAACAGTAAATGTG
1 CTAG-AATAGTAAATGTG
49024783 ACATAGTCAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (26 bp):
CTAGAATAGTAAATGTGGCAAAGCCA
Found at i:49024787 original size:27 final size:27
Alignment explanation
Indices: 49024719--49024794 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
49024709 TGCTAGAAAT
* * *
49024719 AGTAAATGTGGCAAAGCCACTAGTATC
1 AGTAAATGTGGCATAGCCACCAGTAAC
* *
49024746 AGTAATTGGGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCATAGCCACCAGTAAC
* *
49024773 AGTAAATGTGACATAGTCACCA
1 AGTAAATGTGGCATAGCCACCA
49024795 ACACAGTACT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (27 bp):
AGTAAATGTGGCATAGCCACCAGTAAC
Found at i:49024981 original size:27 final size:27
Alignment explanation
Indices: 49024939--49025287 Score: 358
Period size: 27 Copynumber: 13.0 Consensus size: 27
49024929 AAGGCTACTC
* * *
49024939 GTCATTTTTCCATACAGGGGTATCACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
49024966 GTCATTTTACCGTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
** *
49024993 GTTGTTTTACCCTACAGGGATATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
49025020 TTCATTTTACCCGAAAGGGGTGTTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
49025047 ATCGTTTTACCCTACATGGGTATTGCG
1 GTCATTTTACCCTACAGGGGTATTACG
*
49025074 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
49025101 GTCATTTTACCCTACTGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *** *
49025128 GTTATTTTACTAAATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
49025155 ATCATTTTATCCT-CAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * *
49025181 ATTATTTTACCCCACAGGGGGATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
49025208 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
49025235 ATCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
49025262 ATCATTTTACCTTACAGGGGTATTAC
1 GTCATTTTACCCTACAGGGGTATTAC
49025288 AGTTATTATA
Statistics
Matches: 260, Mismatches: 61, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
26 21 0.08
27 239 0.92
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:49029081 original size:27 final size:26
Alignment explanation
Indices: 49029022--49029094 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
49029012 AGCTGCCAGA
* * *
49029022 AACAGTAGCTGTGGCAAAGCCACCAGT
1 AACAGTA-ATGTGGCATAGCCACCAAT
*
49029049 AGCAGTAATTGTGGCATAGCCACCAAT
1 AACAGTAA-TGTGGCATAGCCACCAAT
*
49029076 AACAGTCAATGTGACATAG
1 AACAGT-AATGTGGCATAG
49029095 TCACTAGTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAAT
Found at i:49029472 original size:27 final size:27
Alignment explanation
Indices: 49029262--49029471 Score: 260
Period size: 27 Copynumber: 7.8 Consensus size: 27
49029252 TGCAATATAG
* *
49029262 GGGTATCACAGTCATTTTACCCTACAA
1 GGGTATTACGGTCATTTTACCCTACAA
* * *
49029289 GGGCATTACGGTCGTTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAA
* *
49029316 GGGTATTACGTTCATTTTACCCAAC-A
1 GGGTATTACGGTCATTTTACCCTACAA
* *
49029342 GGAGTGTTACGGTCATTTTACCCTACAT
1 GG-GTATTACGGTCATTTTACCCTACAA
* *
49029370 GGGTATTACGATCATTTTACCCTACGA
1 GGGTATTACGGTCATTTTACCCTACAA
* *
49029397 GGGTATTACGGTTATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAA
* *
49029424 GGGTATTATGGTCATTTTACCTTACAA
1 GGGTATTACGGTCATTTTACCCTACAA
*
49029451 GGTTATTACGGTCATTTTACC
1 GGGTATTACGGTCATTTTACC
49029472 TATTTTGGGG
Statistics
Matches: 153, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 149 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTACCCTACAA
Found at i:49035368 original size:50 final size:47
Alignment explanation
Indices: 49035304--49035438 Score: 134
Period size: 45 Copynumber: 2.9 Consensus size: 47
49035294 AGACTCAGTA
*
49035304 CAACTCATATGAGCTTACCGATATATCAGCTCGAAAGAGCTTATTGTTTT
1 CAACTCATATGAGCTTACC-AT-T-TCAGCTCGAAAGAGCTTAATGTTTT
* *
49035354 CAACTCAT-TGGAGCTTACCATTTCAGCTCGTATGAGCTTAATG-TTT
1 CAACTCATAT-GAGCTTACCATTTCAGCTCGAAAGAGCTTAATGTTTT
* * * *
49035400 -AGCTCGATA-GAGCTTACCGTTTTAGCTCGATAGAGCTTA
1 CAACTC-ATATGAGCTTACCATTTCAGCTCGAAAGAGCTTA
49035439 CAGTTTATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
45 29 0.40
46 5 0.07
47 18 0.25
48 1 0.01
49 3 0.04
50 17 0.23
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (47 bp):
CAACTCATATGAGCTTACCATTTCAGCTCGAAAGAGCTTAATGTTTT
Found at i:49035390 original size:23 final size:23
Alignment explanation
Indices: 49035364--49035467 Score: 99
Period size: 23 Copynumber: 4.4 Consensus size: 23
49035354 CAACTCATTG
*
49035364 GAGCTTACCATTTCAGCTCG-TA
1 GAGCTTACCATTTTAGCTCGATA
49035386 TGAGCTTA--ATGTTTAGCTCGATA
1 -GAGCTTACCAT-TTTAGCTCGATA
*
49035409 GAGCTTACCGTTTTAGCTCGATA
1 GAGCTTACCATTTTAGCTCGATA
*
49035432 GAGCTTA-CAGTTTATTAGCTCAGAAA
1 GAGCTTACCA--TT-TTAGCTC-GATA
49035458 GAGCTTACCA
1 GAGCTTACCA
49035468 ATCATGGCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.03
22 16 0.24
23 28 0.41
24 3 0.04
25 7 0.10
26 10 0.15
27 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTTAGCTCGATA
Found at i:49035428 original size:45 final size:49
Alignment explanation
Indices: 49035364--49035467 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 49
49035354 CAACTCATTG
*
49035364 GAGCTTACCATTTCAGCTCG-TATGAGCTTA-A-TGT-TTAGCTC-GATA
1 GAGCTTACCATTTCAGCTCGATA-GAGCTTACAGTGTATTAGCTCAGAAA
* * *
49035409 GAGCTTACCGTTTTAGCTCGATAGAGCTTACAGTTTATTAGCTCAGAAA
1 GAGCTTACCATTTCAGCTCGATAGAGCTTACAGTGTATTAGCTCAGAAA
49035458 GAGCTTACCA
1 GAGCTTACCA
49035468 ATCATGGCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
45 25 0.51
46 3 0.06
47 2 0.04
48 7 0.14
49 12 0.24
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (49 bp):
GAGCTTACCATTTCAGCTCGATAGAGCTTACAGTGTATTAGCTCAGAAA
Found at i:49050878 original size:40 final size:40
Alignment explanation
Indices: 49050823--49051003 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
49050813 TATTCGGATG
** * *
49050823 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
49050863 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
49050903 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
* ** *
49050943 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
* *
49050983 ATATCC-GACTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49051004 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 115 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
Found at i:49054889 original size:47 final size:47
Alignment explanation
Indices: 49054827--49055232 Score: 623
Period size: 47 Copynumber: 8.6 Consensus size: 47
49054817 GATAATTGTG
* *
49054827 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49054874 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49054921 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49054970 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49055017 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49055064 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49055113 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
49055160 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49055207 ATGTGATAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49055233 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 240 0.73
49 90 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49054944 original size:96 final size:96
Alignment explanation
Indices: 49054827--49055232 Score: 612
Period size: 96 Copynumber: 4.3 Consensus size: 96
49054817 GATAATTGTG
49054827 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
49054890 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
49054921 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
49054986 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
49055017 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
49055080 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
49055113 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
49055176 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
49055207 ATGTGATAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
49055233 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 18, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
94 98 0.34
95 3 0.01
96 187 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:49054988 original size:143 final size:143
Alignment explanation
Indices: 49054827--49055232 Score: 708
Period size: 143 Copynumber: 2.9 Consensus size: 143
49054817 GATAATTGTG
* *
49054827 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
49054892 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
49054957 GCCGATGTGATGA
131 GCCGATGTGATGA
*
49054970 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
49055035 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
49055100 GCCGATGTGATGA
131 GCCGATGTGATGA
*
49055113 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
49055178 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGATAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
49055233 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 241 0.96
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:49056942 original size:165 final size:165
Alignment explanation
Indices: 49056648--49056952 Score: 380
Period size: 165 Copynumber: 1.8 Consensus size: 165
49056638 GTGAAACTCA
*
49056648 AGATATGATTTTTAAGGTGACAGCGACACAGTTAGCCAACTATCTGGAAAAATTTAAAATGGACT
1 AGATATGATTTTTAAGGTGACAGCGACACAGTTAGCCAACTATCTGGAAAAATTTAAAATGAACT
* * * * * *
49056713 GCGATAGTAAGCGAATTTAGTCTGTGAACCCCTCGTGTCTGACTCCGGCAACGGTCTCGGGTACG
66 GCGATAATAAACGAATTAAGTCCGTGAACACCTCGTGTCTGACTCCGGCAACGGTCTAGGGTACG
*
49056778 GGGTGTTACAATCAATTTTTGAGTTTTGGAACTTG
131 GGGCGTTACAATCAATTTTTGAGTTTTGGAACTTG
* * * * * * * *
49056813 AGATATGATTTTTGAGGTGACTGTGACGCAGTTAGCTAGCTTGTCTGG-AAATTTTAAAATGAAC
1 AGATATGATTTTTAAGGTGACAGCGACACAGTTAGCCAAC-TATCTGGAAAAATTTAAAATGAAC
* * * * * *
49056877 TGTG-TAAATAAATGAATTAAGTCCGTTAACACCTCGTGTTTGACTCTGGCAATGGTCTAGGGTA
65 TGCGAT-AATAAACGAATTAAGTCCGTGAACACCTCGTGTCTGACTCCGGCAACGGTCTAGGGTA
49056941 CGGGGCGTTACA
129 CGGGGCGTTACA
49056953 GCACTCGTTG
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
164 1 0.01
165 109 0.94
166 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (165 bp):
AGATATGATTTTTAAGGTGACAGCGACACAGTTAGCCAACTATCTGGAAAAATTTAAAATGAACT
GCGATAATAAACGAATTAAGTCCGTGAACACCTCGTGTCTGACTCCGGCAACGGTCTAGGGTACG
GGGCGTTACAATCAATTTTTGAGTTTTGGAACTTG
Found at i:49058230 original size:66 final size:66
Alignment explanation
Indices: 49058160--49058299 Score: 212
Period size: 66 Copynumber: 2.1 Consensus size: 66
49058150 TGGAAAACAT
* * *
49058160 TCAATAATGATTAGGGTTTTCTTCAAAATGGAGAAAT-GAAATCATTTGGAAATGAATATGGTTT
1 TCAATAATGATTAGGGCTTTCTCCAAAATGGAGAAATAG-AATCATTTGGAAATAAATATGGTTT
49058224 TC
65 TC
* *
49058226 TCAATAATGATTATGGCTTTCTCCAAAATGGAGAAATAGAATCATTTGGAAATAAATGTGGTTTT
1 TCAATAATGATTAGGGCTTTCTCCAAAATGGAGAAATAGAATCATTTGGAAATAAATATGGTTTT
49058291 C
66 C
49058292 TCAA-AATG
1 TCAATAATG
49058300 GAAATGAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
65 4 0.06
66 63 0.93
67 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (66 bp):
TCAATAATGATTAGGGCTTTCTCCAAAATGGAGAAATAGAATCATTTGGAAATAAATATGGTTTT
C
Found at i:49058255 original size:21 final size:20
Alignment explanation
Indices: 49058209--49058255 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
49058199 AATCATTTGG
*
49058209 AAATGAATATGGTTTTCTCA
1 AAATGAATATGGCTTTCTCA
*
49058229 ATAATGATTATGGCTTTCTCCA
1 A-AATGAATATGGCTTTCT-CA
49058251 AAATG
1 AAATG
49058256 GAGAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATGAATATGGCTTTCTCA
Found at i:49060436 original size:39 final size:40
Alignment explanation
Indices: 49060391--49060562 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
49060381 GCTCCTCGTT
* *
49060391 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
**
49060431 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * * *
49060470 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * * * *
49060510 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCACA
49060550 CAAATGCCTTCGG
1 CAAATGCCTTCGG
49060563 ATCTTAGTTC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
Found at i:49064270 original size:31 final size:31
Alignment explanation
Indices: 49064232--49064294 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
49064222 TCATGTCCAA
49064232 ATCACCAACTTATATAAATAAGGTATAACAT
1 ATCACCAACTTATATAAATAAGGTATAACAT
49064263 ATCACCAACTTATATAAATAAGGTATAACAT
1 ATCACCAACTTATATAAATAAGGTATAACAT
49064294 A
1 A
49064295 CTCAACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (31 bp):
ATCACCAACTTATATAAATAAGGTATAACAT
Found at i:49065396 original size:20 final size:18
Alignment explanation
Indices: 49065373--49065409 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
49065363 ACCAAACATG
49065373 AATTAAATCTAAGACATATT
1 AATTAAAT-TAA-ACATATT
49065393 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
49065410 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:49066988 original size:5 final size:5
Alignment explanation
Indices: 49066978--49067003 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49066968 GTACATATGC
49066978 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
49067004 TTCCCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:49070016 original size:30 final size:30
Alignment explanation
Indices: 49069959--49070016 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
49069949 TGCCTTTGAA
** * *
49069959 AATAGTTACAAAAAGAGGCATCTAATTTCT
1 AATAGTTACAAAAAGAGAAACCAAATTTCT
*
49069989 AATATTTACAAAAAGAGAAACCAAATTT
1 AATAGTTACAAAAAGAGAAACCAAATTT
49070017 TGAAAATAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (30 bp):
AATAGTTACAAAAAGAGAAACCAAATTTCT
Found at i:49074077 original size:27 final size:26
Alignment explanation
Indices: 49074040--49074151 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
49074030 AGCATGGCTG
* *
49074040 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
49074066 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
49074094 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
49074121 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
49074148 CCAG
1 CCAG
49074152 GATGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:49074104 original size:54 final size:54
Alignment explanation
Indices: 49074040--49074151 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
49074030 AGCATGGCTG
* *
49074040 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
49074094 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
49074148 CCAG
1 CCAG
49074152 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:49075614 original size:24 final size:24
Alignment explanation
Indices: 49075579--49075655 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
49075569 CCAACACTGT
* *
49075579 TCTCCCTAATCAGCTTCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
49075603 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* * *
49075627 TCTCCCTTATTAGCTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
49075651 TCTCC
1 TCTCC
49075656 TGACAGCCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:49079132 original size:31 final size:31
Alignment explanation
Indices: 49079097--49079157 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
49079087 ATACTTTAAC
49079097 AAGTGCAATACTCTTATTCCTCAATTGTTTA
1 AAGTGCAATACTCTTATTCCTCAATTGTTTA
49079128 AAGTGCAATACTCTTATTCCTCAATTGTTT
1 AAGTGCAATACTCTTATTCCTCAATTGTTT
49079158 TACTTCTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.43
Consensus pattern (31 bp):
AAGTGCAATACTCTTATTCCTCAATTGTTTA
Found at i:49085306 original size:49 final size:49
Alignment explanation
Indices: 49085209--49085333 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
49085199 AGATGCCGAC
* * * * *
49085209 GCCATGTCCAAGACATGGTCTTACACAGGCTTTCATGTAGCGAGGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTACCGAGGTCGAT
* **
49085259 GCTATGTCTTAGACAGGTCTTACACTGGCTCTCATCTACCG-GTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTACCGAG-GTCGAT
49085308 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
49085334 AACACACCTC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.80
50 12 0.19
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTACCGAGGTCGAT
Found at i:49085420 original size:48 final size:47
Alignment explanation
Indices: 49085354--49085568 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 47
49085344 AAGCTGACGC
* * * * *
49085354 CATGTCCTAGATAAGTCTTACACTAGCTTGTATGTCGTGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTTATATGTC-TGAGGCCGATG
* * * * *
49085402 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATGTCT-GAGGCCGATG
* * * *
49085448 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTGAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATGTCTG-AGGCCGATG
* * *
49085496 CATGTCCCAGAAATGTCTTACAC-AGGCTCT-CATG-CTG-TGCCTGATG
1 CATGTCCCAGACATGTCTTACACTA-GCT-TATATGTCTGAGGCC-GATG
* *
49085542 CATGTCCCAGACAAGTCTCACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
49085569 ACACATATCA
Statistics
Matches: 132, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
45 4 0.03
46 60 0.45
47 7 0.05
48 60 0.45
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATGTCTGAGGCCGATG
Found at i:49085491 original size:94 final size:94
Alignment explanation
Indices: 49085393--49085565 Score: 226
Period size: 94 Copynumber: 1.8 Consensus size: 94
49085383 GTATGTCGTG
* * * *
49085393 AGGCCGATACATGTCCCAGACATGTCTTACACTA-GCTCTCGT-CTCAATGTC-GATGCATGTCC
1 AGGCCAATACATGTCCCAGAAATGTCTTACAC-AGGCTCTCATGCT--ATGCCTGATGCATGTCC
* *
49085455 CAGACATGTCTTACACTGGCTTAAATATCTGA
63 CAGACAAGTCTCACACTGGCTTAAATATCTGA
* *
49085487 AGGCCAATGCATGTCCCAGAAATGTCTTACACAGGCTCTCATGCTGTGCCTGATGCATGTCCCAG
1 AGGCCAATACATGTCCCAGAAATGTCTTACACAGGCTCTCATGCTATGCCTGATGCATGTCCCAG
49085552 ACAAGTCTCACACT
66 ACAAGTCTCACACT
49085566 AGCACACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 4 0.06
94 62 0.91
95 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
AGGCCAATACATGTCCCAGAAATGTCTTACACAGGCTCTCATGCTATGCCTGATGCATGTCCCAG
ACAAGTCTCACACTGGCTTAAATATCTGA
Found at i:49095576 original size:56 final size:55
Alignment explanation
Indices: 49095481--49095646 Score: 208
Period size: 56 Copynumber: 3.0 Consensus size: 55
49095471 CCATGGCATC
** * **
49095481 GATATATGTGTGCGAGTAAGACCAAATTTAATAGGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACC-CGTTTAGTACATTGGCATCGATATGTGATTCT
*
49095537 GATATATGTGTGCGAGTAAGACCGCGTTTAGTTCATTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACC-CGTTTAGTACATTGGCATCGATATGTGATTCT
* * *
49095593 GCTATATGTGTGCGAGTAAGACCCTGTCTTAG-ACAGTGGCATTGATATGTGATT
1 GATATATGTGTGCGAGTAAGACCC-GT-TTAGTACATTGGCATCGATATGTGATT
49095647 ACATGTAAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 92 0.95
57 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (55 bp):
GATATATGTGTGCGAGTAAGACCCGTTTAGTACATTGGCATCGATATGTGATTCT
Found at i:49097709 original size:51 final size:51
Alignment explanation
Indices: 49097594--49097714 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
49097584 ATGCCCGGTG
* ** **
49097594 GCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAAGTG
1 GCCTGCACATAGTACCACACTTGTAACCAAAGCTACCTTCTTCACAAAGCA
* *
49097645 GCCCT-CACATAGTACCACACTTGTAACCAAAGCTATCTT-TTACACATAGCA
1 G-CCTGCACATAGTACCACACTTGTAACCAAAGCTACCTTCTT-CACAAAGCA
*
49097696 GCCTGCACTTAGTACCACA
1 GCCTGCACATAGTACCACA
49097715 AATGTGATCG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
50 5 0.08
51 51 0.86
52 3 0.05
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (51 bp):
GCCTGCACATAGTACCACACTTGTAACCAAAGCTACCTTCTTCACAAAGCA
Found at i:49099373 original size:19 final size:20
Alignment explanation
Indices: 49099349--49099386 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49099339 GGTACCACCA
49099349 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
49099368 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
49099387 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:49099682 original size:46 final size:46
Alignment explanation
Indices: 49099615--49099736 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
49099605 CGCCCCTAAG
*
49099615 TGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAA
* * *
49099661 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
*
49099707 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGCTCGGA
49099737 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
Found at i:49099755 original size:46 final size:45
Alignment explanation
Indices: 49099613--49099755 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
49099603 CCCGCCCCTA
* * *
49099613 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCACCATCC-T
* ** **
49099658 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
49099704 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
49099751 AGTGA
1 AGTGA
49099756 CATGTCACTT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.02
46 76 0.90
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:49100192 original size:30 final size:30
Alignment explanation
Indices: 49100158--49100218 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49100148 CATTTAATAC
49100158 AAACTTTAAAAAAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
*** * *
49100188 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
49100218 A
1 A
49100219 GGATCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCT
Found at i:49106889 original size:19 final size:20
Alignment explanation
Indices: 49106865--49106902 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49106855 GGTACCACCA
49106865 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
49106884 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
49106903 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Done.