Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 152 of 255
Found at i:49318904 original size:48 final size:47
Alignment explanation
Indices: 49318661--49318933 Score: 220
Period size: 47 Copynumber: 5.7 Consensus size: 47
49318651 GTATAATATA
49318661 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCC
* * * * *
49318708 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGCC
*** * *
49318757 GACATCATGTCCTAGACATGGTCTTACACTAGCTCTTACA-AATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAAT--GTGCC
* * * * *
49318807 GATGTCATGTTCCAGACATAGTCTTACACTAGCTCTCGTCTCAA--TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGCC
* *
49318855 GATGCCATGTCCCAGACATGGTCTCACATTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCC
49318903 GATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
49318934 ACACAAATAA
Statistics
Matches: 182, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 14 0.08
47 47 0.26
48 43 0.24
49 29 0.16
50 37 0.20
51 4 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCC
Found at i:49321882 original size:27 final size:27
Alignment explanation
Indices: 49321853--49322058 Score: 270
Period size: 27 Copynumber: 7.6 Consensus size: 27
49321843 ATACAGAGAT
*
49321853 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
49321880 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
49321907 ATTACGATCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
49321934 ATTACGGTCATTTTACCCTACT-GGGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGC
49321961 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
** * *
49321988 ATTACAATCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
49322015 ATTACGGTTATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
49322042 ATTACGTTCATTTTACC
1 ATTACGGTCATTTTACC
49322059 TATTTTAGGG
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:49328573 original size:50 final size:49
Alignment explanation
Indices: 49328411--49328684 Score: 255
Period size: 48 Copynumber: 5.7 Consensus size: 49
49328401 TAGGGTATAA
*
49328411 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TATC-CATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-TCATATC-AG
* * * * *
49328460 T--CGATGCCATGTCCCAAACATGGTCGTACACTAACTATTGATATCGAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTCATATC-AG
* *
49328508 -GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTT-CATATCAG
* * * *
49328557 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTCATATCAG
* * * *
49328605 TGCCGATGCCATGTCCTAGACATGGTCTTATACTGGTTC-TCATA--ATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTCATATCA-G
* *
49328652 TGGCCAATG-CATGTCCCAAACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
49328685 GGCACACAAA
Statistics
Matches: 186, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
46 10 0.05
47 46 0.25
48 53 0.28
49 36 0.19
50 41 0.22
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTCATATCAG
Found at i:49336924 original size:44 final size:43
Alignment explanation
Indices: 49336839--49336924 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
49336829 GTAGACAGGC
* * **
49336839 TGCCATGTAGGTTGTTGATAAACTGCCAAATTCACAGATAAGA
1 TGCCATGTAGGTTGTAGAAAAACCACCAAATTCACAGATAAGA
* *
49336882 TGCCATGTAGGTTGTAGACAAAACCATCAAATTTACAGATAAG
1 TGCCATGTAGGTTGTAGA-AAAACCACCAAATTCACAGATAAG
49336925 CTATCAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (43 bp):
TGCCATGTAGGTTGTAGAAAAACCACCAAATTCACAGATAAGA
Found at i:49337742 original size:14 final size:16
Alignment explanation
Indices: 49337723--49337754 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49337713 ACTAACAAAT
49337723 AAATAATA-AA-AGAA
1 AAATAATATAATAGAA
49337737 AAATAATATAATAGAA
1 AAATAATATAATAGAA
49337753 AA
1 AA
49337755 GATTAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAATATAATAGAA
Found at i:49345228 original size:27 final size:27
Alignment explanation
Indices: 49345198--49345375 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49345188 ATATTGAGTC
* * * *
49345198 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49345225 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49345252 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49345280 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49345307 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49345334 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49345361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49345376 GTACAATAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49345337 original size:82 final size:81
Alignment explanation
Indices: 49345219--49345374 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49345209 TGCTATATAA
* *
49345219 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49345284 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49345301 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49345365 CACTTAGTGC
65 CACTTAGTGC
49345375 TGTACAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49353384 original size:27 final size:27
Alignment explanation
Indices: 49353354--49353531 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49353344 ATATTGAGTC
* * * *
49353354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49353381 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49353408 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49353436 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49353463 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49353490 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49353517 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49353532 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49353493 original size:82 final size:81
Alignment explanation
Indices: 49353375--49353530 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49353365 TGCTATATAA
* *
49353375 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49353440 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49353457 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49353521 CACTTAGTGC
65 CACTTAGTGC
49353531 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49355482 original size:43 final size:43
Alignment explanation
Indices: 49355391--49355530 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
49355381 ACCGGCACGA
* * *
49355391 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCA-CTGGCATT-T
1 AGCCTGCTAGGCTTAAAGCCTGATA-TCATTTCATC-GGCATTAT
*
49355432 CGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
1 AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
** * * *
49355475 AGCCTGCTAGGCTCGAAGCCCGATATTATCTCATCGGCATTAT
1 AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
49355518 AGCCTGCTAGGCT
1 AGCCTGCTAGGCT
49355531 CGAAGCCTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 22 0.26
42 11 0.13
43 52 0.61
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (43 bp):
AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
Found at i:49355531 original size:43 final size:43
Alignment explanation
Indices: 49355425--49355537 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
49355415 CTCATTCACT
* ** * *
49355425 GGCATT-TCGCCTGCTAGGCTTAAAGCCTGATATCATTTCATC
1 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
*
49355467 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATCTCATC
1 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
49355510 GGCATTATAGCCTGCTAGGCTCGAAGCC
1 GGCATTATAGCCTGCTAGGCTCGAAGCC
49355538 TAATAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 6 0.09
43 58 0.91
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (43 bp):
GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
Found at i:49357890 original size:20 final size:20
Alignment explanation
Indices: 49357829--49357906 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
49357819 AGTATGTCAC
* *
49357829 AAAGCTAACAGAATGCCAAA
1 AAAGGTAACAGAATGCCACA
* * * *
49357849 AAAGCCATATCATAATGTCACA
1 AAAG--GTAACAGAATGCCACA
49357871 AAAGGTAACAGAATGCCAC-
1 AAAGGTAACAGAATGCCACA
*
49357890 AAAGGCTAACAAAATGC
1 AAAGG-TAACAGAATGC
49357907 TCCATAAAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.11
20 25 0.56
22 15 0.33
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.14
Consensus pattern (20 bp):
AAAGGTAACAGAATGCCACA
Found at i:49360870 original size:23 final size:23
Alignment explanation
Indices: 49360844--49360913 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
49360834 CCGCAAGTTA
49360844 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
49360867 AAGTGTTTAAGTACTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
49360890 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
49360913 A
1 A
49360914 GATGTTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (23 bp):
AAGTGTTTAAATGCTGTAAATTG
Found at i:49366073 original size:46 final size:46
Alignment explanation
Indices: 49365896--49366149 Score: 204
Period size: 46 Copynumber: 5.5 Consensus size: 46
49365886 ATTGTGAGCT
* *
49365896 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-CGCATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCACG-A-GATGTA-AGCC
* * * *
49365942 AGTGTAAGACCATGTCTGGGACATGGCATTGAGAACGAGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG-GCACGAGATGTA-AGCC
** * *
49365990 AGTGTAAGA-CATGTCTGGGACATGTGTTGGCATCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCA-CGAGATGTAAGCC
*
49366036 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATG--A--T
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTAAGCC
*** * *
49366078 AGTCGTAAGACCATGTCTGGGACATGCATCGGGTTGAGATATGAGCC
1 AGT-GTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
*
49366125 AGTGTAAGACCATGTCTTGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
49366150 GTATCGGTAC
Statistics
Matches: 172, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
42 3 0.02
43 11 0.06
44 22 0.13
45 3 0.02
46 76 0.44
47 32 0.19
48 21 0.12
49 2 0.01
50 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
Found at i:49375871 original size:30 final size:30
Alignment explanation
Indices: 49375814--49375871 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
49375804 TTTTCGGGCG
* **
49375814 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
49375844 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
49375872 ATATGAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:49377857 original size:93 final size:93
Alignment explanation
Indices: 49377745--49377917 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
49377735 CGCCCATAAG
* * * *
49377745 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
49377810 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
49377838 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
49377903 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
49377918 CAAACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:49377913 original size:46 final size:46
Alignment explanation
Indices: 49377738--49377913 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
49377728 TGTAACCCGC
* * * * *
49377738 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
49377784 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
49377830 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
49377877 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49377914 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
46 67 0.63
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:49377932 original size:46 final size:46
Alignment explanation
Indices: 49377789--49377932 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
49377779 CGTATCCATA
* *
49377789 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
49377838 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
49377882 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
49377928 AGTGA
1 AGTGA
49377933 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 31 0.41
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:49380206 original size:44 final size:43
Alignment explanation
Indices: 49380074--49380224 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 43
49380064 TAATGTCAAC
* * * *
49380074 GTCCCAGACATGGTCTTACATGT-AATTCAGTATCGATGCTTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
49380117 GTCCCAGACAAGATCTTATACG-AAATT-AGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
*
49380159 GTCCTAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
*
49380203 GTCCCAGACACGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
49380225 ATAATCTGTC
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 25 0.29
44 30 0.34
45 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:49387390 original size:42 final size:42
Alignment explanation
Indices: 49387290--49387451 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
49387280 GAATGCCAAC
* * * * * *
49387290 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATACCTCT
1 GTCCCAGACAAGGTCTTACACGAAATTCAG-ATCAATGCCTGT
*
49387333 GTCCCAGACAAGGTCTTATACGAAA-TCAGATACAATGCC-GAT
1 GTCCCAGACAAGGTCTTACACGAAATTCAGAT-CAATGCCTG-T
* * *
49387375 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACAAGGTCTTACACG-AAA-TTCAGATCAATGCCTGT
*
49387419 GTCCCAGACACGGTCTTACACGATAATTCAGAT
1 GTCCCAGACAAGGTCTTACACGA-AATTCAGAT
49387452 TAATACCAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 31 0.31
44 30 0.30
45 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACAAGGTCTTACACGAAATTCAGATCAATGCCTGT
Found at i:49387426 original size:44 final size:43
Alignment explanation
Indices: 49387290--49387448 Score: 157
Period size: 44 Copynumber: 3.7 Consensus size: 43
49387280 GAATGCCAAC
* * * *
49387290 GTCCCAGACATGGTCTTACATGT-AATTCAGTATCGATACCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
49387333 GTCCCAGACAAGGTCTTATACG-AAA-TCAGATACAATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
49387375 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
*
49387419 GTCCCAGACACGGTCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
49387449 GATTAATACC
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 29 0.30
44 30 0.31
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:49388842 original size:46 final size:46
Alignment explanation
Indices: 49388745--49388875 Score: 124
Period size: 46 Copynumber: 2.8 Consensus size: 46
49388735 GGTATGGGCA
* * * * *
49388745 TCGAGACGAGT-GCTAGTGTAAGACATGTCTAGGACCTGCATCGGCC
1 TCGAGACGA-TAGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
49388791 TCGAGACG-TAAGCCAGTGTAAGACATGTCTGGGACATGCACCAG-C
1 TCGAGACGAT-AGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
* * * *
49388836 TACGAGATGATAGTCAGTGTAAGACCATATCCGGGACATG
1 T-CGAGACGATAGCCAGTGTAAGA-CATGTCTGGGACATG
49388876 GCATCGGCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 54 0.76
47 14 0.20
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
TCGAGACGATAGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
Found at i:49390891 original size:75 final size:76
Alignment explanation
Indices: 49390808--49391011 Score: 261
Period size: 75 Copynumber: 2.7 Consensus size: 76
49390798 TTGATCTACC
** *
49390808 ATACTTAAATTATAAATTTATTTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCAC-TTA
1 ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
49390872 GACAT-TTTTTA
66 -ACATCTTTTTA
* * * * *
49390883 ATACTTAAATTATAAATTTAACTATTAAATATAAAATATTAAATTACAAGTTGAGCTTTACGTCA
1 ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
49390948 ACATCTTTTTA
66 ACATCTTTTTA
* * *
49390959 ATATTTAAATTATAAA-TTAACTATTAAACCTAAAATATATTAAATTTTAAGTT
1 ATACTTAAATTATAAATTTAACTATTAAATCT-AAAT-TATTAAATTATAAGTT
49391012 GGGCTTATAT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
75 71 0.64
76 26 0.23
77 14 0.13
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (76 bp):
ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
ACATCTTTTTA
Found at i:49391887 original size:28 final size:32
Alignment explanation
Indices: 49391854--49391923 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
49391844 AGTCTCTCAA
49391854 CTTCTTTTTTTTC-TG-CTAT-ATT-TTTTCT
1 CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
* *
49391882 GTTCTTTTTGTTCTTGACTATCATTCTTTTCT
1 CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
*
49391914 CTTCTCTTTT
1 CTTCTTTTTT
49391924 ATTTGTCTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 11 0.33
29 2 0.06
30 4 0.12
31 3 0.09
32 13 0.39
ACGTcount: A:0.07, C:0.20, G:0.06, T:0.67
Consensus pattern (32 bp):
CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
Found at i:49393786 original size:37 final size:37
Alignment explanation
Indices: 49393729--49393803 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
49393719 TACGAAGTCG
* *
49393729 TACCCGGACATAATCTCCACACGAAGTTATCGGGTCT
1 TACCCGGACAAAATCTCCACACGAAGTCATCGGGTCT
*
49393766 TACCCGGACAAAAT-TCCCACACGTAGTCATCGGGTCT
1 TACCCGGACAAAATCT-CCACACGAAGTCATCGGGTCT
49393803 T
1 T
49393804 TAGAGCTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
TACCCGGACAAAATCTCCACACGAAGTCATCGGGTCT
Found at i:49394000 original size:47 final size:47
Alignment explanation
Indices: 49393923--49394461 Score: 880
Period size: 47 Copynumber: 11.4 Consensus size: 47
49393913 CCTTTGGGAT
* * * * * * * *
49393923 TTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
* * *
49393970 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
* *
49394017 TTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
*
49394064 TTATGACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
49394111 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
49394158 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
*
49394205 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
* * *
49394252 TTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGAC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
49394299 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
*
49394346 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
* *
49394393 TTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATA-CACTTTCACATTCATCACATCGGCTATTAGGCC
49394441 TTATCACATATATACACTTTC
1 TTATCACATATATACACTTTC
49394462 GGCCATTAGG
Statistics
Matches: 466, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 421 0.90
48 45 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
Found at i:49394191 original size:141 final size:141
Alignment explanation
Indices: 49393923--49394635 Score: 996
Period size: 141 Copynumber: 5.1 Consensus size: 141
49393913 CCTTTGGGAT
* * * * * * * * * * *
49393923 TTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
*
49393988 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTTACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
49394053 GCCATTAGGCC
131 GCCATTAGGCC
* *
49394064 TTATGACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
*
49394129 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
49394194 GCTATTAGGCC
131 GCCATTAGGCC
*
49394205 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
*
49394270 TTCACATTCATCACATCGGCCATTAGGACTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
49394335 GCTATTAGGCC
131 GCCATTAGGCC
*
49394346 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACCAC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA-CAC
*
49394411 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCGGC---CAT----T
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC-ACATTCATCACAT
* *
49394469 AGGCC-TTA-TCAC
129 CGGCCATTAGGC-C
* *
49394481 ATATAT-ACACT-T-T-CACA------TTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 -T-TATCACA-TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
* *
49394536 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49394601 TCGGCCATTAGGCC
128 TCGGCCATTAGGCC
49394615 TTATCACATATATACACTTTC
1 TTATCACATATATACACTTTC
49394636 TTGGCTGAAT
Statistics
Matches: 517, Mismatches: 33, Indels: 47
0.87 0.06 0.08
Matches are distributed among these distances:
126 1 0.00
127 52 0.10
128 36 0.07
129 3 0.01
132 4 0.01
133 10 0.02
134 9 0.02
135 9 0.02
136 9 0.02
137 3 0.01
140 3 0.01
141 324 0.63
142 53 0.10
143 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCC
Found at i:49394465 original size:33 final size:33
Alignment explanation
Indices: 49394427--49394494 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
49394417 ATTCATCACA
49394427 TCGGCCATTAGGCCTTATCACATATATACACTT
1 TCGGCCATTAGGCCTTATCACATATATACACTT
49394460 TCGGCCATTAGGCCTTATCACATATATACACTT
1 TCGGCCATTAGGCCTTATCACATATATACACTT
49394493 TC
1 TC
49394495 ACATTCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (33 bp):
TCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:49394475 original size:128 final size:127
Alignment explanation
Indices: 49394332--49394588 Score: 460
Period size: 128 Copynumber: 2.0 Consensus size: 127
49394322 ATTCATCACA
* *
49394332 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
49394397 CACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
66 CACACATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTT
*
49394460 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
49394525 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
66 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTT
49394587 TC
1 TC
49394589 ACATTCATCA
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
127 52 0.42
128 72 0.58
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (127 bp):
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTT
Found at i:49394514 original size:80 final size:81
Alignment explanation
Indices: 49394379--49394541 Score: 292
Period size: 80 Copynumber: 2.0 Consensus size: 81
49394369 ATTCATCACA
*
49394379 TCGGCTATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
49394444 TCACATATATACACTT
66 TCACACATATACACTT
*
49394460 TCGGCCATTAGGCCTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
49394524 TCACACATATACACTT
66 TCACACATATACACTT
49394540 TC
1 TC
49394542 ACATTCATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 53 0.67
81 26 0.33
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (81 bp):
TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACACATATACACTT
Found at i:49394515 original size:47 final size:47
Alignment explanation
Indices: 49394460--49394635 Score: 325
Period size: 47 Copynumber: 3.7 Consensus size: 47
49394450 ATATACACTT
*
49394460 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
49394507 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
*
49394554 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
*
49394601 TCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCGGCCATTAGGCCTTATCACACATATACACTTTC
49394636 TTGGCTGAAT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
Found at i:49399773 original size:39 final size:40
Alignment explanation
Indices: 49399673--49399896 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
49399663 TTGAATGATG
*
49399673 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
49399712 ATCCGGACCAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
49399753 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49399792 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49399831 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
49399870 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
49399897 AACAAGGGCT
Statistics
Matches: 159, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 73 0.46
40 73 0.46
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49399848 original size:79 final size:79
Alignment explanation
Indices: 49399677--49399896 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 79
49399667 ATGATGTCCG
* * * * * *
49399677 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACCAAGAT-CCGAAGGCATTTGT
1 GGCTAAG-CCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGT
* *
49399740 ACGAGATACTAATTCCG
63 ACGAGATACTAAATCCA
* *
49399757 GGCTAAGCCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTG
1 GGCTAAGCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGTA
*
49399819 CGAGTTACTAAATCCA
64 CGAGATACTAAATCCA
* *
49399835 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAG-CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
49399897 AACAAGGGCT
Statistics
Matches: 120, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
78 35 0.29
79 54 0.45
80 30 0.25
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
GGCTAAGCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACG
AGATACTAAATCCA
Found at i:49399858 original size:40 final size:39
Alignment explanation
Indices: 49399673--49399896 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 39
49399663 TTGAATGATG
*
49399673 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* * * * *
49399713 TCCGGACCAAGATCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
*
49399753 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
*
49399792 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
* *
49399831 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
49399872 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
49399897 AACAAGGGCT
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 72 0.45
40 74 0.47
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:49403763 original size:19 final size:19
Alignment explanation
Indices: 49403739--49403779 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
49403729 GGGTTGCGTA
49403739 TTGATGCAAGAAGGTCGAG
1 TTGATGCAAGAAGGTCGAG
49403758 TTGATGCAAGAAGGTCGAG
1 TTGATGCAAGAAGGTCGAG
49403777 TTG
1 TTG
49403780 TGGCCTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (19 bp):
TTGATGCAAGAAGGTCGAG
Found at i:49407301 original size:39 final size:40
Alignment explanation
Indices: 49407206--49407428 Score: 230
Period size: 39 Copynumber: 5.7 Consensus size: 40
49407196 TTGAATGATG
*
49407206 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
49407244 ATCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
49407285 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
49407324 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49407363 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
49407402 AACCAGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
49407429 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 91 0.58
40 55 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49418642 original size:710 final size:710
Alignment explanation
Indices: 49415144--49418651 Score: 6098
Period size: 709 Copynumber: 5.0 Consensus size: 710
49415134 ATTAATTCAA
49415144 AAGTAAAA-TTTATG-CCCG-ATTTTT-AGTTAAGT-AAGTAA--CCTCG-GCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
*
49415201 ATGGTCTCGGGTAAGGGG-GTTAC-GCTCCCCGGACTATCCGTAA-TTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
*
49415263 AAGTTACCAATCT-GTAG-CCATTTGTTTTAACTTCTTATATT-CCACCCTCC-AGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
49415324 TACCTTCTTAA-TTTTTCCAAA--GTCCTAAGTACCTC-CTGCCAAGCTTC---TAT-ATC--TT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
49415379 TTG-TTC-TCATTTTTTGCCCAG-A-ACCTCATA-TTAAAACAAAGTCTAGGATCCCTAAGG-T-
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
* *
49415437 TATCTTGGCC-TCTCCATTG-GTATCTAAAATGATCGC-TC-TGATCAGAGCTAGA-TGAC-GAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
*
49415496 CA--ATGG-TTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAAT-AAGAAGCGGTTCGAGT
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGG-TCGAGT
* * *
49415557 CTTTCTTTAAACATCCTTGTACCCTCATTGTTATTCACCCAGGTAAAACCACTCATTGTCTATCT
455 CTTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGT-AAACCACTCATTGTCTGTCT
* *
49415622 TCAACTCCCACCATTGAGAGCTCATCGACGATTTCACAGAAATCTTCCATAAGGGCATTTTTGGT
519 TCAACT-CCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCA--TTTGGT
*
49415687 TTTCTCCTGCCACCTTCTTCGAGGCT-CC-CACATCCAAGCACC-AGGTTTCTGATGGTGTCCGA
581 TTTCTCCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGA
49415749 -GCTCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCG-GGCTATCTGAG-CACCAAGGTT
646 GGCTCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
* *
49415811 AAGTTAAAATTTTATACCCCGAATTTTTAAGTTAAGTAAAGTAATG-CTCGAGCTCGACTTCGGC
1 AAG-TAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGC
*
49415875 AATGGTCTCGGGTAAGGGGTTGTTACAGCTCCCCGGACTATCCGTAA-TTTTTTTATATTCGCCT
65 AATGGTCTCGGGTAAGGGG-TGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCT
*
49415939 A-AAGTTACC-ATCTGGTAGCGCATTTGTTTTAACTTCTTATATTGCCCACCCTCCAAGCTCTTT
129 ACAAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTG-CCACCCTCCAAGCTCTTT
*
49416002 ACCTACCTTCTTAATTTTTTCCAAAGTGTCCTAAAGTACCTCTCTGCCAAGCTTCATTTATGATT
193 ACCTACCTTCTTAATTTTTTCCAAAGTGTCCT-AAGTACCTCTCTGCCAAGCTTCATTTATGATC
*
49416067 TTTTTTGCTTCTTCATTTTTTGCCCAGCAAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAA
257 TTTTTTGCTTCTTCATTTTTTGCCCAG-TAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAA
* *
49416132 GGTTATCTGTTGGCCTTCTCCCTTG-GATATCTAAAATGGATCGCATCTTATGATCAGAGCTAGA
321 GGTTGTCTCTTGGCCTTCTCCCTTGAG-TATCTAAAAT-GATCGCATC--ATGATCAGAGCTAGA
49416196 TTGACGGAGCACCTTGG-TTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGC
382 TTGACGGAGCACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGC
49416260 GGTGCGAGTCTTTC-TTAACCATCGTTGTACCCTCATTGTT-TTCACCCAGGTAAACCACTCATT
447 GGT-CGAGTCTTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATT
49416323 GTCTGTCTTCAACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATTAA-GGCA
511 GTCTGTCTTCAACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCA-TAAGGGCA
49416387 TTTGGTTTTCTTCCTGCCACCTTCTTCG-GGCTCCCGCACATCCAAGCACCAAGGGTTTCTGAAT
575 TTTGGTTTTC-TCCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAA-GGTTTCTG-AT
49416451 GGTGTTCGAGGCTCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCC
637 GGTGTTCGAGGCTCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCC
49416516 ACCAAGGTT
702 ACCAAGGTT
49416525 AAGTAAAAATTTTATGCCCCGAATTTTT-AGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGC
1 AAGT-AAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGC
49416589 AATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTA
65 AATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTA
*
49416654 CAAGTTACCAATCTGGTAGTGTATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTAC
130 CAAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTAC
*
49416719 CTACCTTCTTAATTTTTTTCCAAAGTGTCCTAAGTACCTTTCTGCCAAGCTTCATTTATGATCTT
195 CTACCTTCTTAA-TTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTT
*
49416784 TTTTGCTTCTTCATTTTTTGCCCAGTAGACTTCATATTTAAAACAAAGTCTAGGATCCCTAAGGT
259 TTTTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGT
49416849 TGTCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGG
324 TGTCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGG
49416914 AGCACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAG
389 AGCACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAG
*
49416979 TCTTTCTTTAACCATCGTTGGACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCT
454 TCTTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCT
49417044 TCAACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTT
519 TCAACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTT
*
49417109 CTCCTACCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTC--GGC
584 CTCCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGC
49417172 TCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
649 TCCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
49417234 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
49417299 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
49417364 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
49417429 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
49417494 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
49417559 TCTCTTGGCCTTCT-CCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
49417623 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
49417688 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
*
49417753 AACTCCACCATCGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
* *
49417818 CCTGCCACCTTATTCGAGGCTCCCGTACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
49417883 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
49417943 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
49418008 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTC-GACTATCCGTAATTTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
49418072 AAGTTACCAATCTGGTAGTGCATTTGTTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTAC
131 AAGTTACCAATCTGGTAGTGCATTTG-TTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTAC
49418137 CTACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTT
195 CTACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTT
49418202 TTTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTT
260 TTTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTT
49418267 GTCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGA
325 GTCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGA
*
49418332 GCACCTTGGTTTTCAGAAAGGGGAAGTTTTTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGT
390 GCACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGT
49418397 CTTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTT
455 CTTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTT
* *
49418462 CAACTCCACCATCGAGAGCTCATCGATGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTC
520 CAACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTC
*
49418527 TCCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTCCGAGGCT
585 TCCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCT
49418592 CCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGT
650 CCTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGT
49418652 GCCGATGGTG
Statistics
Matches: 2725, Mismatches: 40, Indels: 109
0.95 0.01 0.04
Matches are distributed among these distances:
667 3 0.00
668 5 0.00
669 5 0.00
670 4 0.00
671 6 0.00
672 8 0.00
673 6 0.00
674 4 0.00
675 31 0.01
676 4 0.00
677 17 0.01
678 61 0.02
680 9 0.00
681 22 0.01
682 10 0.00
684 5 0.00
685 9 0.00
686 12 0.00
689 3 0.00
690 2 0.00
692 5 0.00
693 3 0.00
694 15 0.01
696 1 0.00
697 8 0.00
698 27 0.01
699 1 0.00
700 8 0.00
701 9 0.00
702 10 0.00
703 6 0.00
704 2 0.00
706 14 0.01
707 331 0.12
708 274 0.10
709 625 0.23
710 383 0.14
711 128 0.05
712 162 0.06
713 181 0.07
714 157 0.06
715 98 0.04
716 51 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (710 bp):
AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
Found at i:49418792 original size:43 final size:42
Alignment explanation
Indices: 49418643--49418976 Score: 262
Period size: 43 Copynumber: 7.9 Consensus size: 42
49418633 CTATCTGAGC
49418643 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * * * * * *
49418685 CGCCAAGGCTGCTGATGGT-ATCTAAAGCTCCCGCACATCAAAG
1 CACCAAGG-TGCCGATGGTGCTC-GAGGCTCCAGCACATCCAAG
* * * * * *
49418728 CACCAAGGTCCCTATGCTGCTCGAGACTCCAGCACATTCGAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * *
49418770 CCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCAAATCCAAG
1 -CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * *
49418813 CACCAAAGTTGCCAATGGTG-TCTAAGGCT-CACGCACATCCAAG
1 CACC-AAGGTGCCGATGGTGCTC-GAGGCTCCA-GCACATCCAAG
* * * **
49418856 CACCAAGGTGCCGGTGCTGCTCGAGGCTCC-TCACATCTGAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * * * ** *
49418897 CTACCAAGGTGTCGATGCTGCTTGAAGAACCCGCACATCCAAG
1 C-ACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* ** *
49418940 CACCAAGGTGCTGATTTTGCTCGAGGCTCCCGCACAT
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACAT
49418977 TCGAGCCATC
Statistics
Matches: 221, Mismatches: 60, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
41 9 0.04
42 102 0.46
43 110 0.50
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (42 bp):
CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
Found at i:49418798 original size:128 final size:126
Alignment explanation
Indices: 49418635--49418954 Score: 399
Period size: 128 Copynumber: 2.5 Consensus size: 126
49418625 GCTCGAGGCT
* * *
49418635 ATCTGAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAGCGCCAAGGCTGCTGA
1 ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCTGA
* *
49418700 TGGTATCTAAAGCTCCCGCACATCAAAGCACCAAGGTCCCTATGCTGCTCGAGACTCCAGCAC
65 TGGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCC-GCAC
* * **
49418763 AT-TCGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCAAATCCAAGCACCAAAGTTGCCA
1 ATCT-GAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACC-AAGGTGCTG
* * * * * * *
49418827 ATGGTGTCTAAGGCTCACGCACATCCAAGCACCAAGGTGCCGGTGCTGCTCGAGGCTCCTCAC
64 ATGGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCCGCAC
* * * * **
49418890 ATCTGAGCTACCAAGGTGTCGATGCTGCTTGAAGAACCCGCACATCCAAGCACCAAGGTGCTGAT
1 ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCTGAT
49418955 TTTGCTCGAG
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
126 8 0.05
127 49 0.30
128 103 0.63
129 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (126 bp):
ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCTGAT
GGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCCGCAC
Found at i:49430997 original size:27 final size:27
Alignment explanation
Indices: 49430966--49431115 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
49430956 ATATTGAGCC
* * * *
49430966 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCCACGTAATCAAAT
49430993 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACGTAATCAAAT
* * **
49431020 CGCACACTTAGTGCCACATAGTCCATTT
1 CGCACACTTAGTGCCACGTAAT-CAAAT
* * ** *
49431048 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACGTAATCAAAT
* * **
49431075 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CGTAATCAAAT
49431102 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49431116 TGTACAATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.77
28 23 0.22
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACGTAATCAAAT
Found at i:49431059 original size:55 final size:54
Alignment explanation
Indices: 49430992--49431115 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 54
49430982 TGTAATCAAC
*
49430992 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCCA-CATAGTCCATT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTG-CATCATA-TCCATT
* ** * *
49431047 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCATCATATCCATT
49431101 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
49431116 TGTACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
54 22 0.35
55 40 0.65
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (54 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCATCATATCCATT
Found at i:49434747 original size:84 final size:84
Alignment explanation
Indices: 49434606--49434777 Score: 344
Period size: 84 Copynumber: 2.0 Consensus size: 84
49434596 ATATTTTCAC
49434606 ATATTTCATTAATTTATTAAACAATTACTTAGTTTTAACAACGAATTTAAGTAAAAAGGTGATAA
1 ATATTTCATTAATTTATTAAACAATTACTTAGTTTTAACAACGAATTTAAGTAAAAAGGTGATAA
49434671 ATGACATAGGAAAAATCCT
66 ATGACATAGGAAAAATCCT
49434690 ATATTTCATTAATTTATTAAACAATTACTTAGTTTTAACAACGAATTTAAGTAAAAAGGTGATAA
1 ATATTTCATTAATTTATTAAACAATTACTTAGTTTTAACAACGAATTTAAGTAAAAAGGTGATAA
49434755 ATGACATAGGAAAAATCCT
66 ATGACATAGGAAAAATCCT
49434774 ATAT
1 ATAT
49434778 ATTTTTCAGT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (84 bp):
ATATTTCATTAATTTATTAAACAATTACTTAGTTTTAACAACGAATTTAAGTAAAAAGGTGATAA
ATGACATAGGAAAAATCCT
Found at i:49435193 original size:23 final size:22
Alignment explanation
Indices: 49435167--49435221 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
49435157 GGGTTGATGA
49435167 TGAATTGAAATAAGATTATGAAT
1 TGAATTGAAATAAGA-TATGAAT
* * *
49435190 TGAATGTAAAATTATATATGAAT
1 TGAAT-TGAAATAAGATATGAAT
*
49435213 TGGATTGAA
1 TGAATTGAA
49435222 TTGAAATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 16 0.62
24 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (22 bp):
TGAATTGAAATAAGATATGAAT
Found at i:49435349 original size:30 final size:31
Alignment explanation
Indices: 49435264--49435349 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 31
49435254 GTGATTGAAC
* *
49435264 TGTGATCGATTACAGGGTATGAA-ATACAAA
1 TGTGAACGATTACAGGGTATGAATATGCAAA
* **
49435294 TGTGACCGATTACAGAATATG-ATATGCAAA
1 TGTGAACGATTACAGGGTATGAATATGCAAA
*
49435324 TGTGAATGA-TACAGGGTATGAATATG
1 TGTGAACGATTACAGGGTATGAATATG
49435350 TTAATAAGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 10 0.22
30 36 0.78
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (31 bp):
TGTGAACGATTACAGGGTATGAATATGCAAA
Found at i:49436575 original size:21 final size:21
Alignment explanation
Indices: 49436549--49436591 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
49436539 AATATGGTGA
49436549 AAGGCAAGTTATGATTGCTGT
1 AAGGCAAGTTATGATTGCTGT
49436570 AAGGCAAGTTATGATTGCTGT
1 AAGGCAAGTTATGATTGCTGT
49436591 A
1 A
49436592 CGAGGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (21 bp):
AAGGCAAGTTATGATTGCTGT
Found at i:49438141 original size:48 final size:47
Alignment explanation
Indices: 49438070--49438257 Score: 272
Period size: 48 Copynumber: 4.0 Consensus size: 47
49438060 ACCATGCTAA
49438070 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAAAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATG-AAT
*
49438118 ATGTGCCTGTGTAAGACCATGTCTGGGACATAGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA-AT
*
49438166 ATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGCGATG-AT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAAT
* * * *
49438212 ATGTGTACTAGTGTAA-ACTATTTCTGGGACATGGCATCGCCGATGA
1 ATGTG-CCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
49438258 TTTGTGGATT
Statistics
Matches: 130, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
46 7 0.05
47 30 0.23
48 93 0.72
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAAT
Found at i:49438274 original size:47 final size:47
Alignment explanation
Indices: 49438078--49438296 Score: 203
Period size: 48 Copynumber: 4.6 Consensus size: 47
49438068 AAATGTGCCT
* * *
49438078 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAAATATGT-GCCT-
1 GTGTAA-ACTATGTCTGGGACATGGCATCGCCGATG--ATATGTGGACTA
* * * * *
49438126 GTGTAAGACCATGTCTGGGACATAGCATCGGCGATGATATATGTGCCT-
1 GTGTAA-ACTATGTCTGGGACATGGCATCGCCGATGATATGTG-GACTA
* *
49438174 GTGTAAGACTATGTCTGGGACATGGCATCGGCGATGATATGTGTACTA
1 GTGTAA-ACTATGTCTGGGACATGGCATCGCCGATGATATGTGGACTA
* * *
49438222 GTGTAAACTATTTCTGGGACATGGCATCGCCGATGATTTGTGGATTCA
1 GTGTAAACTATGTCTGGGACATGGCATCGCCGATGATATGTGGACT-A
* *
49438270 -TGTAAAACCATGTCGGGGACATGGCAT
1 GTGT-AAACTATGTCTGGGACATGGCAT
49438297 TGGTACTTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
46 5 0.03
47 40 0.26
48 106 0.70
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTAAACTATGTCTGGGACATGGCATCGCCGATGATATGTGGACTA
Found at i:49438283 original size:95 final size:95
Alignment explanation
Indices: 49438070--49438296 Score: 264
Period size: 95 Copynumber: 2.4 Consensus size: 95
49438060 ACCATGCTAA
* * *
49438070 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAAATATGTGCCTGTGTAAGAC
1 ATGTGACTATGTAAGACCATGTCTGGGACATGGCATCGGCGATG-AATATGTGACTGTGTAAGAC
*
49438135 CATGTCTGGGACATAGCATCGGCGATGATAT
65 CATGTCTGGGACATAGCATCGCCGATGATAT
* * *
49438166 ATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGCGATG-ATATGTGTACTAGTGTAA-A
1 ATGTGACTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGAATATGTG-ACT-GTGTAAGA
* * *
49438229 CTATTTCTGGGACATGGCATCGCCGATGAT-T
64 CCATGTCTGGGACATAGCATCGCCGATGATAT
* * *
49438260 -TGTGGATTCATGTAAAACCATGTCGGGGACATGGCAT
1 ATGT-GACT-ATGTAAGACCATGTCTGGGACATGGCAT
49438297 TGGTACTTTA
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
93 3 0.03
94 10 0.09
95 53 0.46
96 49 0.43
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (95 bp):
ATGTGACTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGAATATGTGACTGTGTAAGACC
ATGTCTGGGACATAGCATCGCCGATGATAT
Found at i:49461632 original size:39 final size:39
Alignment explanation
Indices: 49461428--49461650 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
49461418 TTGAATGCTG
* * * * *
49461428 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
49461468 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
49461507 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
49461548 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
49461588 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * * *
49461627 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49461651 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 103 0.66
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:49468534 original size:80 final size:79
Alignment explanation
Indices: 49468438--49468607 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
49468428 GGACTAAGAT
* *
49468438 CCGAAGGCATTTGTGCGAGATA-CAAATTCCCGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCCGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
49468502 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
49468518 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCCGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
49468583 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
49468597 CCGAAGGCATT
1 CCGAAGGCATT
49468608 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCCGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:49468589 original size:39 final size:39
Alignment explanation
Indices: 49468438--49468607 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
49468428 GGACTAAGAT
* * * *
49468438 CCGAAGGCATTTGTGCGAGATAC-AAATTCCCGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
49468478 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
49468518 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
49468558 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
49468597 CCGAAGGCATT
1 CCGAAGGCATT
49468608 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 38 0.33
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:49468627 original size:79 final size:79
Alignment explanation
Indices: 49468467--49468642 Score: 176
Period size: 79 Copynumber: 2.2 Consensus size: 79
49468457 ATACAAATTC
** * * * *
49468467 CCGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
1 CCGGTTAAATCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
* * *
49468532 GCGAGTTATTAAAT
66 ACGAGTGACTAAAT
** * * * *
49468546 CCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 CC-GGTTAAATCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
*
49468610 AACGAG-GAGCTATAT
65 AACGAGTGA-CTAAAT
49468625 CCGGTTAAATCCCGAAGG
1 CCGGTTAAATCCCGAAGG
49468643 TACGTGATTT
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
78 15 0.19
79 50 0.63
80 14 0.18
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGTTAAATCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
ACGAGTGACTAAAT
Found at i:49473391 original size:232 final size:232
Alignment explanation
Indices: 49472985--49473448 Score: 883
Period size: 232 Copynumber: 2.0 Consensus size: 232
49472975 CTTCCTAGAA
49472985 CAAATAAATCCTTAGGGTACCTCAAGAGAGACAGTCATAATCCACTCACTGTAAGCTGTTACACT
1 CAAATAAATCCTTAGGGTACCTCAAGAGAGACAGTCATAATCCACTCACTGTAAGCTGTTACACT
*
49473050 CAAATGTCATACATTTCAAATATTATTCCTTCAATTATTTTTGTCATCACTAATCTCGTATTATT
66 CAAATGTCATACATTTCAAATATTATTCCTTCAATTATTTTTGTCATCAATAATCTCGTATTATT
49473115 TCTTTCACTGAAAAAAATAAGTTCAAAAGAATTCTGGTTACCACATTCTTTCAACATCGTGTCTA
131 TCTTTCACTGAAAAAAATAAGTTCAAAAGAATTCTGGTTACCACATTCTTTCAACATCGTGTCTA
* *
49473180 AATCAGTCGGTTTACCAAAGTTAATTTCTCTTCTCAT
196 AATCAGTCGGTTTACCAAAGCTAATTTCTCCTCTCAT
49473217 CAAATAAATCCTTAGGGTACCTCAAGAGAGACAGTCATAATCCACTCACTGTAAGCTGTTACACT
1 CAAATAAATCCTTAGGGTACCTCAAGAGAGACAGTCATAATCCACTCACTGTAAGCTGTTACACT
49473282 CAAATGTCATACATTTCAAATATTATTCCTTCAATTATTTTTGTCATCAATAATCTCGTATTATT
66 CAAATGTCATACATTTCAAATATTATTCCTTCAATTATTTTTGTCATCAATAATCTCGTATTATT
*
49473347 TCTTTCACTGAAGAAAATAAGTTCAAAAGAATTCTGGTTACCACATTCTTTCAACATCGTGTCTA
131 TCTTTCACTGAAAAAAATAAGTTCAAAAGAATTCTGGTTACCACATTCTTTCAACATCGTGTCTA
*
49473412 AATTAGTCGGTTTACCAAAGCTAATTTCTCCTCTCAT
196 AATCAGTCGGTTTACCAAAGCTAATTTCTCCTCTCAT
49473449 TATGATATTT
Statistics
Matches: 227, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 227 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (232 bp):
CAAATAAATCCTTAGGGTACCTCAAGAGAGACAGTCATAATCCACTCACTGTAAGCTGTTACACT
CAAATGTCATACATTTCAAATATTATTCCTTCAATTATTTTTGTCATCAATAATCTCGTATTATT
TCTTTCACTGAAAAAAATAAGTTCAAAAGAATTCTGGTTACCACATTCTTTCAACATCGTGTCTA
AATCAGTCGGTTTACCAAAGCTAATTTCTCCTCTCAT
Found at i:49476592 original size:35 final size:36
Alignment explanation
Indices: 49476499--49476603 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 36
49476489 ACACTATAAG
*
49476499 ATTATTTTATCATATATATATTATTATTATTTATCGTAT
1 ATTATTTT-TCATATAT-TATTATTATTATTT-TCGCAT
* *
49476538 ATTATTTTTTCACAAATTATTATTATTATTTTC-CAT
1 ATTA-TTTTTCATATATTATTATTATTATTTTCGCAT
49476574 CATTATTTTTC-TATATTATTATTA-TATTTT
1 -ATTATTTTTCATATATTATTATTATTATTTT
49476604 ACTTGTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
34 6 0.10
35 11 0.19
36 8 0.14
37 6 0.10
38 14 0.24
39 10 0.17
40 4 0.07
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (36 bp):
ATTATTTTTCATATATTATTATTATTATTTTCGCAT
Found at i:49476614 original size:35 final size:35
Alignment explanation
Indices: 49476499--49476614 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 35
49476489 ACACTATAAG
*
49476499 ATTATTTTATCATATATATATTATTAT-TATTTATCGTAT
1 ATTATTTT-TCATATAT-TATTATTATAT-TTTA-CAT-T
* * * *
49476538 ATTATTTTTTCACAAATTATTATTATTATTTTCCATC
1 ATTA-TTTTTCATATATTATTATTA-TATTTTACATT
*
49476575 ATTATTTTTC-TATATTATTATTATATTTTACTTGT
1 ATTATTTTTCATATATTATTATTATATTTTACAT-T
49476610 ATTAT
1 ATTAT
49476615 ATATTTATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
34 8 0.13
35 16 0.25
36 6 0.10
37 4 0.06
38 10 0.16
39 14 0.22
40 5 0.08
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (35 bp):
ATTATTTTTCATATATTATTATTATATTTTACATT
Found at i:49476750 original size:30 final size:31
Alignment explanation
Indices: 49476710--49476776 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
49476700 TATATTCAAC
*
49476710 TTATATTTTATTATATAACATTTATTATATT
1 TTATATTTTATTATATAACACTTATTATATT
* ** *
49476741 TTAT-TTTTATTCTATATTACTTATTATTTT
1 TTATATTTTATTATATAACACTTATTATATT
49476771 TTATAT
1 TTATAT
49476777 ATGTTATGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (31 bp):
TTATATTTTATTATATAACACTTATTATATT
Found at i:49477103 original size:13 final size:12
Alignment explanation
Indices: 49477071--49477104 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
49477061 TATTGTACAA
49477071 TAAATATTATTT
1 TAAATATTATTT
49477083 TAAA-ATTATTAT
1 TAAATATTATT-T
49477095 TAAATATTAT
1 TAAATATTAT
49477105 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 9 0.45
13 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAATATTATTT
Found at i:49488777 original size:206 final size:206
Alignment explanation
Indices: 49488468--49489151 Score: 994
Period size: 206 Copynumber: 3.3 Consensus size: 206
49488458 TGGGGAGTAG
** **
49488468 ATCGAAGACATAGCTGATTTGGCTTTCAATTGTTTACGATGAAGCAAAATCTAAGATGATTTGTT
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGC-AAATCTAAGATGATTTGGC
* * * * * * * * *
49488533 GTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCAATTCAATGGAGAGCAGATACAT
65 ATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACAT
* * *
49488598 AGCAGATCTGACCTTCAGGTGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTCTGCT
130 AGCAGATCTGGCCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCT
49488663 TATAAGGAACAA
195 TATAAGGAACAA
* * *
49488675 ATCGAAGACATAGTTGATTTGGATTTCACGTGTTTACGATGAAGCAAATCTAAGATAATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCA
*
49488740 TCTCTGTATTGGCTGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATA
66 TCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATA
* * * *
49488805 GTAGATTTGGCCATCAGATGATTAGACTGAAGTAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGGCCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
49488870 ATAAGGAACAA
196 ATAAGGAACAA
* *
49488881 ATTGAATACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * *
49488946 TCTCTGTATTTGCGGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAAACACATA
66 TCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATA
49489011 GCAGATCTGGCCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGGCCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
*
49489076 ACAAGGAACAA
196 ATAAGGAACAA
* * * ** *
49489087 ATCGAAGACATAGCAGATCTGGCCTTCA-GATAATTA-GACTGAAGCAAGATCCAAGATGATTTG
1 ATCGAAGACATAGCTGATTTGGCTTTCACG-TGTTTACGA-TGAAGCAA-ATCTAAGATGATTTG
49489150 GC
63 GC
49489152 GTCTTTGTGA
Statistics
Matches: 429, Mismatches: 45, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
205 3 0.01
206 369 0.86
207 57 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATA
GCAGATCTGGCCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
ATAAGGAACAA
Found at i:49490978 original size:13 final size:13
Alignment explanation
Indices: 49490962--49491028 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
49490952 TATGTTCCAT
49490962 TATTATTTTTATA
1 TATTATTTTTATA
*
49490975 TATTATTATTATA
1 TATTATTTTTATA
* * *
49490988 TTTTACTTGTAT-
1 TATTATTTTTATA
*
49491000 TA-TATATTTAT-
1 TATTATTTTTATA
*
49491011 TAATTATTTATATA
1 T-ATTATTTTTATA
49491025 TATT
1 TATT
49491029 GTCCTTACAT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
11 7 0.17
12 2 0.05
13 30 0.75
14 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (13 bp):
TATTATTTTTATA
Found at i:49490980 original size:35 final size:34
Alignment explanation
Indices: 49490901--49490986 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
49490891 TTTTATCATA
49490901 TATATATTATTATTATTTATCGTATATTATTTTTT
1 TATATATTATTATTA-TTATCGTATATTATTTTTT
* * *
49490936 CACAAATTATTATTATTAT-GT-TCCATTATTATTTT
1 TATATATTATTATTATTATCGTAT--ATTATT-TTTT
49490971 TATATATTATTATTAT
1 TATATATTATTATTAT
49490987 ATTTTACTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
32 1 0.02
33 2 0.05
34 10 0.24
35 29 0.69
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (34 bp):
TATATATTATTATTATTATCGTATATTATTTTTT
Found at i:49491138 original size:30 final size:31
Alignment explanation
Indices: 49491098--49491164 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
49491088 TATATTCAAC
*
49491098 TTATATTTTATTATATAAAATTTATTATATT
1 TTATATTTTATTATATAAAACTTATTATATT
* ** *
49491129 TTAT-TTTTATTCTATATTACTTATTATTTT
1 TTATATTTTATTATATAAAACTTATTATATT
49491159 TTATAT
1 TTATAT
49491165 ATTTTATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (31 bp):
TTATATTTTATTATATAAAACTTATTATATT
Found at i:49491193 original size:39 final size:41
Alignment explanation
Indices: 49491117--49491207 Score: 100
Period size: 39 Copynumber: 2.3 Consensus size: 41
49491107 ATTATATAAA
* * *
49491117 ATTTATTATATTTTATTTTTATTCTATATTACTTATTAT-TT
1 ATTTA-TATATTTTATGTATATTATATATTACTTATTATATT
*
49491158 -TTTATATATTTTATGTATATTATATGTTA-TCTATTATATT
1 ATTTATATATTTTATGTATATTATATATTACT-TATTATATT
49491198 ATTTAT-TATT
1 ATTTATATATT
49491208 CATTATATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
38 1 0.02
39 27 0.63
40 10 0.23
41 5 0.12
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (41 bp):
ATTTATATATTTTATGTATATTATATATTACTTATTATATT
Found at i:49491492 original size:13 final size:12
Alignment explanation
Indices: 49491460--49491493 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
49491450 TATTGTACAG
49491460 TAAATATTATTT
1 TAAATATTATTT
49491472 TAAA-ATTATTAT
1 TAAATATTATT-T
49491484 TAAATATTAT
1 TAAATATTAT
49491494 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 9 0.45
13 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAATATTATTT
Found at i:49498757 original size:17 final size:17
Alignment explanation
Indices: 49498737--49498779 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
49498727 AAAATGGGTG
*
49498737 TGTGGGCCCCATGGGCT
1 TGTGGGCCCCACGGGCT
49498754 TGTGGGCCCCACGGGCT
1 TGTGGGCCCCACGGGCT
49498771 TGTGGGCCC
1 TGTGGGCCC
49498780 TATACGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.05, C:0.33, G:0.42, T:0.21
Consensus pattern (17 bp):
TGTGGGCCCCACGGGCT
Found at i:49499400 original size:33 final size:34
Alignment explanation
Indices: 49499338--49499402 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
49499328 TGCATTTTAT
** *
49499338 ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
1 ACTGATACTACTACTGAATAGGGCTAAGGCCCAC
49499372 ACTGATACTACTACTGAA-AGGGCTAAGGCCC
1 ACTGATACTACTACTGAATAGGGCTAAGGCCC
49499403 TAATTGAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (34 bp):
ACTGATACTACTACTGAATAGGGCTAAGGCCCAC
Found at i:49515351 original size:38 final size:38
Alignment explanation
Indices: 49515309--49515399 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
49515299 AAAGGTCCGC
*
49515309 AGGCTTCGTGTTGGTATTATATCCGGGTTAAATCCCGT
1 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGT
49515347 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGT
1 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGT
* *
49515385 AGGTTTTGTGCTGGT
1 AGGCTTCGTGCTGGT
49515400 GACTGGATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (38 bp):
AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGT
Found at i:49524669 original size:42 final size:42
Alignment explanation
Indices: 49524599--49524740 Score: 221
Period size: 42 Copynumber: 3.4 Consensus size: 42
49524589 AAGGAAAGCA
*
49524599 TTCATTGCATTTAAAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
49524641 TTGATTGCAGTTAGAGGCCCAGGGGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
*
49524683 TTCATCGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
*
49524725 TTCATTACATTTAGAG
1 TTCATTGCATTTAGAG
49524741 TGTAACACCC
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:49524875 original size:14 final size:14
Alignment explanation
Indices: 49524856--49524883 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49524846 TAAAAGTCAT
49524856 TCAAACATATGCAA
1 TCAAACATATGCAA
49524870 TCAAACATATGCAA
1 TCAAACATATGCAA
49524884 AACGACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
TCAAACATATGCAA
Found at i:49527114 original size:42 final size:43
Alignment explanation
Indices: 49527058--49527152 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
49527048 GAGATTTATG
** * *
49527058 TGTAAGACCATGTCTGGGACATCGACATCGTATCTGAATT-CA
1 TGTAAGACCATGTCTGGGACAAAGACATCGAAACTGAATTACA
* * *
49527100 TGTAAGACCCTGTCTGGGATAAAGGCATCGAAACTGAATTACA
1 TGTAAGACCATGTCTGGGACAAAGACATCGAAACTGAATTACA
49527143 TGTAAGACCA
1 TGTAAGACCA
49527153 CGTCCAGGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.75
43 11 0.25
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAAAGACATCGAAACTGAATTACA
Found at i:49529035 original size:40 final size:40
Alignment explanation
Indices: 49528937--49529199 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
49528927 TCCTCGTTCA
* * * * *
49528937 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
49528976 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
49529016 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
49529056 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
49529096 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
49529136 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
49529176 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
49529200 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:49533229 original size:40 final size:41
Alignment explanation
Indices: 49533172--49533389 Score: 254
Period size: 40 Copynumber: 5.5 Consensus size: 41
49533162 CGGATGATAA
* *
49533172 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
49533212 CTGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAATAT
* * *
49533252 CTGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
**
49533292 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* *
49533332 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATAT
* *
49533372 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49533390 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 22 0.14
40 133 0.84
41 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:49541444 original size:40 final size:40
Alignment explanation
Indices: 49541201--49541432 Score: 328
Period size: 40 Copynumber: 5.8 Consensus size: 40
49541191 CGGATGATAA
* *
49541201 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
49541241 CCGGGCTAAGTCTCGAAGGCA-TTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAATT
*
49541281 TCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAATT
49541321 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
49541361 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
49541401 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
49541433 AGCTATATCC
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 5 0.03
40 169 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:49542948 original size:19 final size:20
Alignment explanation
Indices: 49542910--49542948 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49542900 ATATCTGTGA
49542910 TTCTGTATTGATCTGTAATG
1 TTCTGTATTGATCTGTAATG
49542930 TTCTGT-TTG-TCTGGTAATG
1 TTCTGTATTGATCT-GTAATG
49542949 GCCTTACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 9 0.50
20 6 0.33
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.51
Consensus pattern (20 bp):
TTCTGTATTGATCTGTAATG
Found at i:49543539 original size:27 final size:27
Alignment explanation
Indices: 49543508--49543615 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
49543498 GTACCCTATC
*
49543508 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CGGTAATTTTATAAATCGAGGGTAAAA
*
49543535 CGGTAATTTTATAAATTGAGGGTAAAA
1 CGGTAATTTTATAAATCGAGGGTAAAA
49543562 CGGTAATTTTATAAATCGAGGGTAAAA
1 CGGTAATTTTATAAATCGAGGGTAAAA
** ** *
49543589 TAGTAATCCTGTAAATCGAGGGTAAAA
1 CGGTAATTTTATAAATCGAGGGTAAAA
49543616 TAATAATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
CGGTAATTTTATAAATCGAGGGTAAAA
Found at i:49543711 original size:27 final size:27
Alignment explanation
Indices: 49543661--49543785 Score: 109
Period size: 27 Copynumber: 4.7 Consensus size: 27
49543651 TTTACATGTC
*
49543661 GAGGGTA-TTCAGTAA-TTTAGCAAACT
1 GAGGGTATTTCGGTAATTTTA-CAAACT
49543687 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
* * * *
49543713 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
*
49543741 GGGGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
*
49543767 -AGCGGTATTTCAGTAATTT
1 GAG-GGTATTTCGGTAATTT
49543786 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
25 4 0.05
26 22 0.27
27 48 0.59
28 7 0.09
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:49543756 original size:54 final size:53
Alignment explanation
Indices: 49543634--49543764 Score: 140
Period size: 54 Copynumber: 2.5 Consensus size: 53
49543624 TTTGTAATTT
* ** * *
49543634 GAGGGTACTTTGATAATTTTACATGTCGAGGGTATTCAGTAATTTAGCAAACT
1 GAGGGTACTTTGGTAATTTTACAAATCGAGGATATTCAGTAATTTAGCAAACC
** *
49543687 GAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTA-TAAACC
1 GAGGGTACTTT-GGTAATTTTACAAATCGAGGATA-TTCAGTAA-TTTAGCAAACC
*
49543741 GGGGGTACTTTGGTAATTTTACAA
1 GAGGGTACTTTGGTAATTTTACAA
49543765 CTAGCGGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.05
53 26 0.40
54 29 0.45
55 7 0.11
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.37
Consensus pattern (53 bp):
GAGGGTACTTTGGTAATTTTACAAATCGAGGATATTCAGTAATTTAGCAAACC
Found at i:49546155 original size:6 final size:6
Alignment explanation
Indices: 49546137--49546177 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
49546127 AAGAAACATT
*
49546137 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
49546178 GTGACAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:49546193 original size:31 final size:30
Alignment explanation
Indices: 49546151--49546230 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
49546141 GAACTAGAAT
* *
49546151 CAGAATTAGAATCAGAATCAGAATCAGGTGA
1 CAGAATAAGAATCAGAAT-AGAATCAGGTAA
*
49546182 CAGAATAAGAATCAGAAATAGTATCAGGTAA
1 CAGAATAAGAATCAG-AATAGAATCAGGTAA
*
49546213 CTGAATCAA-AATCAGAAT
1 CAGAAT-AAGAATCAGAAT
49546231 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 3 0.07
31 35 0.81
32 5 0.12
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (30 bp):
CAGAATAAGAATCAGAATAGAATCAGGTAA
Found at i:49546453 original size:71 final size:67
Alignment explanation
Indices: 49546376--49546517 Score: 187
Period size: 67 Copynumber: 2.1 Consensus size: 67
49546366 TCGCCAGATA
* *
49546376 CAGATATTATGGCTAG-GCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCG
1 CAGATATTATGAC-AGAGCCACCAGAAC--A-A-ATATATGTGGCGAAGCCACCAGATTGCAACG
49546440 AGGCTGC
61 AGGCTGC
* * *
49546447 CAGATATTATGACGGAGTCACCAGAACAAATATATGTGGCGAGGCCACCAGATTGCAACGAGGCT
1 CAGATATTATGACAGAGCCACCAGAACAAATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
49546512 GC
66 GC
49546514 CAGA
1 CAGA
49546518 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
67 40 0.62
68 1 0.02
69 1 0.02
70 1 0.02
71 22 0.34
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (67 bp):
CAGATATTATGACAGAGCCACCAGAACAAATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:49546766 original size:27 final size:27
Alignment explanation
Indices: 49546735--49546982 Score: 286
Period size: 27 Copynumber: 9.2 Consensus size: 27
49546725 AACACCCTAG
*
49546735 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
49546762 TGGTAAAAT-GATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
49546789 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * ***
49546816 GGGTAAAACAGCAATTCAATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
49546843 GGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
49546870 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
** *
49546897 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
49546924 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
49546951 GGG-AAAATAATAATTTTTGTAATTCGA
1 GGGTAAAATAGTAA-TTTTGTAAATCGA
49546978 GGGTA
1 GGGTA
49546983 CTTTGATAAT
Statistics
Matches: 189, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
26 10 0.05
27 176 0.93
28 3 0.02
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:49547048 original size:53 final size:53
Alignment explanation
Indices: 49546975--49547126 Score: 157
Period size: 53 Copynumber: 2.9 Consensus size: 53
49546965 TTTTGTAATT
**
49546975 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTA-TTCAGTAATTTTACAAAC
1 CGAGGGTACTTTG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * * ** *
49547028 TGAGGGTATTTTAGTAATTTTACAAATCGA-GGAATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * *
49547081 CGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 CGAGGGTACTTT-GTAATTTTACAAATCGAGGGTATTTCAGTAATTT
49547127 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
52 4 0.05
53 74 0.94
54 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (53 bp):
CGAGGGTACTTTGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:49547050 original size:27 final size:27
Alignment explanation
Indices: 49547003--49547126 Score: 114
Period size: 26 Copynumber: 4.7 Consensus size: 27
49546993 TTTACATGTC
49547003 GAGGGTA-TTCAGTAATTTTACAAACT
1 GAGGGTATTTCAGTAATTTTACAAACT
*
49547029 GAGGGTATTTTAGTAATTTTACAAA-T
1 GAGGGTATTTCAGTAATTTTACAAACT
* ** * *
49547055 CGA-GGAATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCAGTAATTTTACAAACT
* *
49547082 GGGGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCAGTAATTTTACAAACT
*
49547108 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
49547127 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
25 3 0.04
26 44 0.54
27 31 0.38
28 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCAGTAATTTTACAAACT
Found at i:49585116 original size:49 final size:49
Alignment explanation
Indices: 49585056--49585224 Score: 212
Period size: 49 Copynumber: 3.4 Consensus size: 49
49585046 CTGGTACGCA
* * *
49585056 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*** * * * * *
49585105 TAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTCAGGTTCGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCAGGTACACG
*
49585156 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
49585205 TAGTAGCCTGCACTTAGTAC
1 TAGTAGCCTGCACTTAGTAC
49585225 CACATACGTG
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
49 59 0.60
50 2 0.02
51 37 0.38
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:49590123 original size:21 final size:21
Alignment explanation
Indices: 49590097--49590139 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
49590087 GAGGACTTAG
49590097 TAGTCTATTGAATATTTACAC
1 TAGTCTATTGAATATTTACAC
49590118 TAGTCTATTGAATATTTACAC
1 TAGTCTATTGAATATTTACAC
49590139 T
1 T
49590140 GGGGATCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (21 bp):
TAGTCTATTGAATATTTACAC
Found at i:49602648 original size:40 final size:40
Alignment explanation
Indices: 49602604--49602694 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
49602594 CTACATGTGG
*
49602604 CACTTAGTGTGCGATTCGAGATAGTTTCGACTATGTACAA
1 CACTTAGTGTGCGATTCGAGATAGCTTCGACTATGTACAA
* * ***
49602644 CACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGG
1 CACTTAGTGTGCGATTCGAGATAGCTTCGACTATGTACAA
49602684 CACTTAGTGTG
1 CACTTAGTGTG
49602695 TGATATATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGAGATAGCTTCGACTATGTACAA
Found at i:49602754 original size:68 final size:68
Alignment explanation
Indices: 49602644--49602789 Score: 220
Period size: 68 Copynumber: 2.1 Consensus size: 68
49602634 CTATGTACAA
* * * * * * * *
49602644 CACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCACTTAGTGTGTGATATATTGAGTA
1 CACTTAGTGTCCAATTTGAGATAGCTTCGGCTATGTACGGCACTTACTGTGCGAAACATTGAGAA
49602709 TGG
66 TGG
49602712 CACTTAGTGTCCAATTTGAGATAGCTTCGGCTATGTACGGCACTTACTGTGCGAAACATTGAGAA
1 CACTTAGTGTCCAATTTGAGATAGCTTCGGCTATGTACGGCACTTACTGTGCGAAACATTGAGAA
49602777 TGG
66 TGG
49602780 CACTTAGTGT
1 CACTTAGTGT
49602790 GCGAGATGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (68 bp):
CACTTAGTGTCCAATTTGAGATAGCTTCGGCTATGTACGGCACTTACTGTGCGAAACATTGAGAA
TGG
Found at i:49602823 original size:28 final size:28
Alignment explanation
Indices: 49602770--49602823 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
49602760 GTGCGAAACA
* *
49602770 TTGAGAATGGCACTTAGTGTGCGAGATG
1 TTGAGAATGGAACTTAGTATGCGAGATG
* *
49602798 TTGAGCATGGAACTTAGTATGTGAGA
1 TTGAGAATGGAACTTAGTATGCGAGA
49602824 CGTCGAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (28 bp):
TTGAGAATGGAACTTAGTATGCGAGATG
Found at i:49605561 original size:48 final size:48
Alignment explanation
Indices: 49605509--49605682 Score: 181
Period size: 48 Copynumber: 3.6 Consensus size: 48
49605499 ATGTGTGCCT
* * * *
49605509 GTGTAAGACCTTGTTTGGGACATGGCATCGGCCACATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCTA
* * * *
49605557 GTGTAAGACCGTGTCTGGCACATGGCATCGG-CA-ATGAGACGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT--CATGAGAGCTA
* * ** * *
49605605 GTGTAAGACCATATCTGGGACATGGCATCAGCTTCAACATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCTA
*
49605653 GTGTAAGACCATGTCCGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
49605683 ACATTTTACC
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 2 0.02
47 2 0.02
48 98 0.95
50 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCTA
Found at i:49605629 original size:96 final size:96
Alignment explanation
Indices: 49605509--49605682 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 96
49605499 ATGTGTGCCT
* * * * ** * *
49605509 GTGTAAGACCTTGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCGTGTCTG
1 GTGTAAGACCATATCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCCG
49605574 GCACATGGCATCGGCAATGAGACGAGAGCTA
66 GCACATGGCATCGGCAATGAGACGAGAGCTA
** * *
49605605 GTGTAAGACCATATCTGGGACATGGCATCAGCTTCAACATGTGAGCTAGTGTAAGACCATGTCCG
1 GTGTAAGACCATATCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCCG
*
49605670 GGACATGGCATCG
66 GCACATGGCATCG
49605683 ACATTTTACC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (96 bp):
GTGTAAGACCATATCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCCG
GCACATGGCATCGGCAATGAGACGAGAGCTA
Found at i:49609145 original size:28 final size:28
Alignment explanation
Indices: 49609105--49609177 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
49609095 CGACTAAATG
49609105 TGGCACTTAGTGTGCGAAACATTGAGAA
1 TGGCACTTAGTGTGCGAAACATTGAGAA
* ** *
49609133 TGGCACTTAGTGTGCGAGATGTTGAGTA
1 TGGCACTTAGTGTGCGAAACATTGAGAA
* *
49609161 TGGAACTTAGTGGGCGA
1 TGGCACTTAGTGTGCGA
49609178 GACGTCGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.27
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAACATTGAGAA
Found at i:49609190 original size:28 final size:28
Alignment explanation
Indices: 49609132--49609190 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
49609122 AACATTGAGA
* * * * *
49609132 ATGGCACTTAGTGTGCGAGATGTTGAGT
1 ATGGAACTTAGTGGGCGAGACGTCGAAT
49609160 ATGGAACTTAGTGGGCGAGACGTCGAAT
1 ATGGAACTTAGTGGGCGAGACGTCGAAT
49609188 ATG
1 ATG
49609191 CAACAGTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (28 bp):
ATGGAACTTAGTGGGCGAGACGTCGAAT
Found at i:49612753 original size:27 final size:27
Alignment explanation
Indices: 49612722--49612897 Score: 167
Period size: 27 Copynumber: 6.6 Consensus size: 27
49612712 TATATGAGCC
* *
49612722 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
49612749 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49612776 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
49612803 CGCAC-CTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49612829 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
49612856 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49612883 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
49612898 GTACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.18
27 101 0.81
28 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49612864 original size:80 final size:81
Alignment explanation
Indices: 49612743--49612896 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 81
49612733 TGCTATATAA
* * *
49612743 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCA-
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
49612807 CCTTAGTGCCGCATGG
66 CCTTAGTGCCGCATGG
* * **
49612823 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49612887 CCCTTAGTGC
65 CCCTTAGTGC
49612897 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 54 0.83
81 9 0.14
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:49620727 original size:27 final size:27
Alignment explanation
Indices: 49620697--49620874 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
49620687 ATATTGAGCC
* * **
49620697 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
49620724 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
49620751 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
49620779 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
49620806 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
49620833 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
49620860 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
49620875 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:49620836 original size:82 final size:81
Alignment explanation
Indices: 49620723--49620873 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
49620713 TATAATCATC
* * * *
49620723 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
49620788 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
49620805 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
49620869 AGTGC
65 AGTGC
49620874 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:49622771 original size:40 final size:40
Alignment explanation
Indices: 49622688--49622950 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
49622678 TTGAATGCTG
* * * * * *
49622688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * *
49622728 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
49622768 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
49622808 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
49622848 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
49622888 TCCGGGTTATGTCCTGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
49622927 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49622951 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:49622970 original size:79 final size:80
Alignment explanation
Indices: 49622727--49622985 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
49622717 AAGTGAATAT
* * * * * * *
49622727 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
49622791 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
49622807 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
49622872 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
49622887 ATCCGGGTTATGTCCTGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
49622951 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
49622966 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
49622986 TACGTGATTT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 13 0.08
79 48 0.31
80 94 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:49630707 original size:40 final size:40
Alignment explanation
Indices: 49630663--49630886 Score: 326
Period size: 40 Copynumber: 5.6 Consensus size: 40
49630653 AAGTGAATAT
* * * * *
49630663 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAA
49630703 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
49630743 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
49630783 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
49630823 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
49630862 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
49630887 TGAACGAGGA
Statistics
Matches: 173, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 36 0.21
40 137 0.79
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
Found at i:49630838 original size:120 final size:119
Alignment explanation
Indices: 49630625--49630886 Score: 330
Period size: 120 Copynumber: 2.2 Consensus size: 119
49630615 TGAATGCTGT
** * * * * * *
49630625 CCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGATTAAGATCCGAAGGCATTC
* *
49630689 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAA
* *
49630745 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGAT-CCGAAGGCATTC
* * * *
49630809 GTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAA
*
49630864 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
49630887 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
119 35 0.29
120 82 0.67
121 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGATCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAA
Found at i:49630906 original size:79 final size:80
Alignment explanation
Indices: 49630654--49630921 Score: 265
Period size: 80 Copynumber: 3.4 Consensus size: 80
49630644 CTTTATGCTA
* * * * * * * *
49630654 AGTGAATATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCC
1 AGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCC
**
49630718 CGAAGGCATTCGTGCG
65 CGAAGGCATTCGAACG
* * * * *
49630734 AGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
1 AGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCC
**
49630799 GAAGGCATTCGTGCG
66 GAAGGCATTCGAACG
* * * * *
49630814 AGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCC
1 AGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCC
*
49630878 GAAGGCATTTGAACG
66 GAAGGCATTCGAACG
* *
49630893 AG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 AGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
49630922 TACGTGATTT
Statistics
Matches: 164, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 15 0.09
79 46 0.28
80 103 0.63
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
AGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCC
GAAGGCATTCGAACG
Found at i:49649352 original size:27 final size:27
Alignment explanation
Indices: 49649322--49649499 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
49649312 TTATTGAGCC
* * * *
49649322 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49649349 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49649376 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAGT-CAAAT
** * *
49649404 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49649431 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49649458 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49649485 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49649500 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49649461 original size:82 final size:81
Alignment explanation
Indices: 49649343--49649498 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
49649333 TGCTATATAA
* * **
49649343 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
49649408 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49649425 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49649489 CACTTAGTGC
65 CACTTAGTGC
49649499 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49659042 original size:43 final size:43
Alignment explanation
Indices: 49658968--49659134 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
49658958 GCTAGTATTA
*
49658968 TATTCAGGCCTTCGTG-CTAGCAGGCTTAGTGCCGGTAATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
49659010 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
49659053 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
49659096 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
49659135 AATGATATGT
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 15 0.13
43 99 0.87
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:49659518 original size:45 final size:45
Alignment explanation
Indices: 49659453--49659558 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
49659443 GACTTGATTG
* *
49659453 TTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGA-T-ACTA
1 TTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA-ATTGA-TA
**
49659498 TTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAATTGATA
1 TTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAATTGATA
49659543 TT-GGGCC-TCGAGCCTA
1 TTCGGGCCTTCGAGCCTA
49659559 ACAGGTGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 9 0.16
44 6 0.11
45 39 0.71
46 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAATTGATA
Found at i:49676652 original size:52 final size:52
Alignment explanation
Indices: 49676573--49676676 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
49676563 TGAGGGTCAA
49676573 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
1 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
* * *
49676625 GGAGACTGATGTTTATAAGACAGTGTTTAGGACTCGTTATGGTCATTACGAG
1 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
49676677 TTCCTAGTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (52 bp):
GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
Found at i:49683540 original size:14 final size:14
Alignment explanation
Indices: 49683521--49683550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49683511 TAGAGAGAAT
*
49683521 GATGATGGATGAGG
1 GATGATGAATGAGG
49683535 GATGATGAATGAGG
1 GATGATGAATGAGG
49683549 GA
1 GA
49683551 ATGAAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:49699034 original size:29 final size:28
Alignment explanation
Indices: 49698992--49699047 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
49698982 ACTTTCATTT
* *
49698992 ATTTCACATTTTAACCACATATTTTGCAC
1 ATTTCACAATTTAACC-CATATTATGCAC
*
49699021 ATTTCACAATTTAATCCATATTATGCA
1 ATTTCACAATTTAACCCATATTATGCA
49699048 TTTTCATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTCACAATTTAACCCATATTATGCAC
Found at i:49707420 original size:37 final size:37
Alignment explanation
Indices: 49707370--49707448 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49707360 TTATTACGAA
* * *
49707370 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49707407 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49707444 GTCTT
1 GTCTT
49707449 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49707631 original size:47 final size:47
Alignment explanation
Indices: 49707567--49708031 Score: 759
Period size: 47 Copynumber: 9.8 Consensus size: 47
49707557 CCTTTCGGGA
* * * * * * *
49707567 CTTATCACATTTTTACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49707614 CCTGTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49707661 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49707708 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49707755 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49707804 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49707851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49707898 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49707947 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49707994 CTTATCACATATATACACTTTCACATTCATCACATCGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGG
49708032 ATCCTAAATC
Statistics
Matches: 391, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 299 0.76
49 92 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49707799 original size:96 final size:94
Alignment explanation
Indices: 49707567--49708031 Score: 759
Period size: 96 Copynumber: 4.9 Consensus size: 94
49707557 CCTTTCGGGA
* * * * * * * * *
49707567 CTTATCACATTTTTACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49707632 TTTCACATTCATTACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
49707661 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49707726 TTTCACATTCATCACGTCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
49707755 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49707820 ACTTTCACATTCATCACATTGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49707851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
49707916 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
49707947 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49708012 TTTCACATTCATCACATCGG
66 TTTCACATTCATCACATCGG
49708032 ATCCTAAATC
Statistics
Matches: 348, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 166 0.48
96 182 0.52
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:49707823 original size:143 final size:143
Alignment explanation
Indices: 49707567--49708031 Score: 790
Period size: 143 Copynumber: 3.3 Consensus size: 143
49707557 CCTTTCGGGA
* * * * * * * * *
49707567 CTTATCACATTTTTACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
49707630 ACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
49707695 TCGACCATTAGGC
131 TTGGCCATTAGGC
*
49707708 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
49707773 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49707838 TTGGCCATTAGGC
131 TTGGCCATTAGGC
49707851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49707916 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49707981 TTGGCCATTAGGC
131 TTGGCCATTAGGC
49707994 CTTATCACATATATACACTTTCACATTCATCACATCGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGG
49708032 ATCCTAAATC
Statistics
Matches: 308, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 47 0.15
143 261 0.85
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TTGGCCATTAGGC
Found at i:49709957 original size:56 final size:56
Alignment explanation
Indices: 49709890--49710009 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
49709880 TATTAGTTTA
49709890 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
49709946 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
49710002 TTGCCCAT
1 TTGCCCAT
49710010 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:49711504 original size:47 final size:47
Alignment explanation
Indices: 49711309--49711571 Score: 258
Period size: 47 Copynumber: 5.7 Consensus size: 47
49711299 TTTGTGTGCT
* * * *
49711309 AGTGTAACACCATGTTTGGGACATGGCATCGGGA-TTGAGATGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC--GACTTGATA-GATGAGCC
* *
49711357 AGTGTAAGA-TATGTCTGGGACAT-GCATCGGCCTTG--AGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAGATG--AGCC
* * *
49711403 AGTGTAAGA-AATGTCTGGGACAT-GCATCGAC-T-ATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAT-AGATGAGCC
* * *
49711447 AATGTAAGACCATGTCTGGGACATGGCATTGACTTGATAGATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
49711494 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
* * *
49711541 AGTGTAAGACCATGTCCGAGACATGCCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
49711572 GCATTATACC
Statistics
Matches: 185, Mismatches: 19, Indels: 23
0.81 0.08 0.10
Matches are distributed among these distances:
43 2 0.01
44 13 0.07
45 17 0.09
46 50 0.27
47 93 0.50
48 10 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
Found at i:49713501 original size:40 final size:41
Alignment explanation
Indices: 49713446--49713753 Score: 383
Period size: 40 Copynumber: 7.5 Consensus size: 41
49713436 TATTCGGATG
*
49713446 ATATCTGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* *
49713486 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA--AGTTACT
* *
49713529 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* ** *
49713569 ATATCCGGGCTAAGTACCGAAGGCATTCATGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
*
49713609 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* * *
49713649 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA--AGTTACT
* * *
49713692 ATACCCGGGCAAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* *
49713732 ATATCCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49713754 ATACTTGGGT
Statistics
Matches: 232, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
40 158 0.68
41 2 0.01
43 72 0.31
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
Found at i:49713694 original size:123 final size:122
Alignment explanation
Indices: 49713446--49713753 Score: 410
Period size: 123 Copynumber: 2.5 Consensus size: 122
49713436 TATTCGGATG
* * *
49713446 ATATCTGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATATCCGGGCTAAGACCCGAAGGC
*
49713510 ATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
65 ATTTGTGCGAG-AGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
49713569 ATATCCGGGCTAAGTACCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
49713634 TTTGTGC-A-AGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
66 TTTGTGCGAGAGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* * *
49713692 ATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCCGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGA-CCCGAAG
49713754 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
120 36 0.22
122 2 0.01
123 123 0.75
124 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGAGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49713722 original size:163 final size:163
Alignment explanation
Indices: 49713446--49713753 Score: 544
Period size: 163 Copynumber: 1.9 Consensus size: 163
49713436 TATTCGGATG
* * *
49713446 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
49713511 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG
66 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
*
49713576 GGCTAAGTACCGAAGGCATTCATGCTAGTGACT
131 GGCTAAATACCGAAGGCATTCATGCTAGTGACT
*
49713609 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
49713674 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
66 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
*
49713739 GGCTAAATCCCGAAG
131 GGCTAAATACCGAAG
49713754 ATACTTGGGT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (163 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
GGCTAAATACCGAAGGCATTCATGCTAGTGACT
Found at i:49722146 original size:46 final size:45
Alignment explanation
Indices: 49722016--49722179 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 45
49722006 GTGCCGACAC
* * * * *
49722016 CATGTCCCAGACACGATCTTACACTGGCTCACATCTCCT-GTCAATG
1 CATGTCCCAGACATG-TCTTACACTGGCTTAC-TCTCGTAGCCGATG
*
49722062 CCATGTCCCAGACATGGTCTTACACTGACTATTA-TCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC--TTACTCTCGTAGCCGATG
*
49722110 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAC-TCTCGTA-GCCGATG
49722156 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
49722180 AGCACTCGTC
Statistics
Matches: 102, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 47 0.46
47 43 0.42
48 6 0.06
49 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACTCTCGTAGCCGATG
Found at i:49722190 original size:46 final size:45
Alignment explanation
Indices: 49722063--49722208 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 45
49722053 CTGTCAATGC
**
49722063 CATGTCCCAGACATGGTCTTACACTG-ACTATTATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGCAC--TCGTCTCGTAGCCGATG
* *
49722110 CATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACT-GCACT-CGTCTCGTA-GCCGATG
*
49722156 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GCACTCGTCTCGTA-GCCGATG
49722202 CCATGTC
1 -CATGTC
49722209 TTGGACATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
45 2 0.02
46 60 0.71
47 22 0.26
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGCACTCGTCTCGTAGCCGATG
Found at i:49722207 original size:93 final size:94
Alignment explanation
Indices: 49722015--49722208 Score: 211
Period size: 93 Copynumber: 2.1 Consensus size: 94
49722005 GGTGCCGACA
* *
49722015 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCTGTCAATGCCATGTCCCAGACATGGT
1 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGCAATGCCATGTCCCAGACATGGT
* *
49722080 CTTACACTGACTATTATCTCGTAGCCGATG
66 CTTACACTGAC-ATCATCTCATAGCCGATG
* * * * *
49722110 -CATGTCCCAGACATG-TCTTACACTGGCTTACGTCTCGAGGCTGATG-CATGTCCCAGACAT-G
1 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGC-AATGCCATGTCCCAGACATGG
*
49722171 TCTTACACT-AGCACTCGTCTCA-ATGCCGATG
65 TCTTACACTGA-CA-TCATCTCATA-GCCGATG
49722202 CCATGTC
1 CCATGTC
49722209 TTGGACATGG
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
91 3 0.04
92 23 0.27
93 41 0.49
94 17 0.20
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (94 bp):
CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGCAATGCCATGTCCCAGACATGGT
CTTACACTGACATCATCTCATAGCCGATG
Found at i:49736819 original size:6 final size:6
Alignment explanation
Indices: 49736797--49736842 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
49736787 AATAAAAACA
*
49736797 TAAAA- TAAGAAT AAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
1 TAAAAT TAA-AAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
49736843 CATCATCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 3 0.08
6 32 0.86
7 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (6 bp):
TAAAAT
Done.