Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 156 of 318
Found at i:49006964 original size:15 final size:15
Alignment explanation
Indices: 49006944--49007008 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
49006934 GTATCTTGGG
49006944 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
49006959 TTTCTTTTTTCTGGG
1 TTTCTTTATTCTGGA
49006974 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
49006989 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
49007003 TTTCTT
1 TTTCTT
49007009 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49006976 original size:30 final size:31
Alignment explanation
Indices: 49006940--49007008 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
49006930 TATCGTATCT
*
49006940 TGGGTTTCTT-TAT-TCTGGATTTCTTTTTTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
49006970 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
49007000 -GGTTTTCTT
1 TGGGTTTCTT
49007009 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.07, C:0.13, G:0.17, T:0.62
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:49009323 original size:49 final size:49
Alignment explanation
Indices: 49009141--49009334 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
49009131 TCTATTGCGA
* * *
49009141 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC---AGACTGTT
* * * * ** *
49009193 -ATCACGTGTGTAGTACTAAGTGCAGGCTATTACGAGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* * *
49009242 GGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* * *
49009291 GGTCGCATGTGTAGTACTAAGTGCAGGGTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
49009335 TAGCTTCGGC
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 38 0.33
50 39 0.34
51 33 0.29
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:49014066 original size:21 final size:21
Alignment explanation
Indices: 49014040--49014087 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
49014030 AGAGCGGATG
49014040 CAGCAGCGAGAGAGGCAACGA
1 CAGCAGCGAGAGAGGCAACGA
* *
49014061 CAGCAGCGAGGGAGGCAGCGA
1 CAGCAGCGAGAGAGGCAACGA
49014082 CAGCAG
1 CAGCAG
49014088 TAAGGGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.42, T:0.00
Consensus pattern (21 bp):
CAGCAGCGAGAGAGGCAACGA
Found at i:49014093 original size:21 final size:21
Alignment explanation
Indices: 49014040--49014111 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
49014030 AGAGCGGATG
* * *
49014040 CAGCAGCGAGAGAGGCAACGA
1 CAGCAGCAAGGGAGGCAGCGA
*
49014061 CAGCAGCGAGGGAGGCAGCGA
1 CAGCAGCAAGGGAGGCAGCGA
* * * *
49014082 CAGCAGTAAGGGAAGCAGAGG
1 CAGCAGCAAGGGAGGCAGCGA
49014103 CAGCAGCAA
1 CAGCAGCAA
49014112 TGGTAGCAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.40, T:0.01
Consensus pattern (21 bp):
CAGCAGCAAGGGAGGCAGCGA
Found at i:49014568 original size:43 final size:43
Alignment explanation
Indices: 49014500--49014675 Score: 218
Period size: 43 Copynumber: 4.1 Consensus size: 43
49014490 GTAACATGGA
* * * * *
49014500 TTTTAGCGGTGCTTTTCCCATAAACGCTACTAAAGGCCATGAC
1 TTTTAGCAGCGCTTTTCCTACAAACGCTGCTAAAGGCCATGAC
49014543 TTTTAGCAGCGCTTTTACC-ACAAACGCTGCTAAAGGCCATGAC
1 TTTTAGCAGCGCTTTT-CCTACAAACGCTGCTAAAGGCCATGAC
*
49014586 TTTTAGCA-CGCTTTTCCTACAAACGCCGCTAAAGGCCATGAC
1 TTTTAGCAGCGCTTTTCCTACAAACGCTGCTAAAGGCCATGAC
49014628 TTTTAG-AG-GCATTTTTCCTACAAACGCTGCTAAAAGG-CATGATC
1 TTTTAGCAGCGC--TTTTCCTACAAACGCTGCT-AAAGGCCATGA-C
49014672 TTTT
1 TTTT
49014676 GTGGCATTTT
Statistics
Matches: 120, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
41 5 0.04
42 36 0.30
43 67 0.56
44 12 0.10
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTTAGCAGCGCTTTTCCTACAAACGCTGCTAAAGGCCATGAC
Found at i:49014653 original size:85 final size:86
Alignment explanation
Indices: 49014510--49014675 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 86
49014500 TTTTAGCGGT
* *
49014510 GCTTTTCCCATAAACGCTACTAAAGGCCATGACTTTTAGCAGCGCTTTTACCACAAACGCTGCT-
1 GCTTTTCCCACAAACGCCACTAAAGGCCATGACTTTTAGCAGCGCTTTTACCACAAACGCTGCTA
49014574 AAAGGCCATGA-CTTTTAGCAC
66 AAAGG-CATGATCTTTTAGCAC
* * *
49014595 GCTTTTCCTACAAACGCCGCTAAAGGCCATGACTTTTAG-AG-GCATTTTTCCTACAAACGCTGC
1 GCTTTTCCCACAAACGCCACTAAAGGCCATGACTTTTAGCAGCGC-TTTTACC-ACAAACGCTGC
49014658 TAAAAGGCATGATCTTTT
64 TAAAAGGCATGATCTTTT
49014676 GTGGCATTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 8 0.11
85 52 0.72
86 10 0.14
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (86 bp):
GCTTTTCCCACAAACGCCACTAAAGGCCATGACTTTTAGCAGCGCTTTTACCACAAACGCTGCTA
AAAGGCATGATCTTTTAGCAC
Found at i:49018987 original size:29 final size:28
Alignment explanation
Indices: 49018951--49019027 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 28
49018941 CATGAGATTG
49018951 GCACTAAGTGTGCGGGTTTAAATTGTACAT
1 GCACTAAGTGTGCGGGTTTAAA--GTACAT
*
49018981 -CACTAAGTGTGCGAGTTTAAAGTACAT
1 GCACTAAGTGTGCGGGTTTAAAGTACAT
49019008 GGCACTAAGTGTGCGCGGTT
1 -GCACTAAGTGTGCG-GGTT
49019028 GATTATTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 6 0.14
29 33 0.79
30 3 0.07
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAAAGTACAT
Found at i:49019245 original size:174 final size:174
Alignment explanation
Indices: 49018981--49019307 Score: 600
Period size: 174 Copynumber: 1.9 Consensus size: 174
49018971 AATTGTACAT
49018981 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* *
49019046 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
*
49019111 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
131 TTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
* *
49019155 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
49019220 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
*
49019285 TTTGGACAGTAGAAAAGGTAAGT
131 TTTGGACAGCAGAAAAGGTAAGT
49019308 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
Found at i:49027423 original size:174 final size:174
Alignment explanation
Indices: 49027143--49027615 Score: 910
Period size: 174 Copynumber: 2.7 Consensus size: 174
49027133 AAATTGTACA
*
49027143 GCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
1 GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
*
49027208 ATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTGCG
66 ATTATTTACATTAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTGTGCG
49027273 AACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATG
131 AACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATG
49027317 GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
1 GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
*
49027382 ATTATTTACATTAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAATGTGCG
66 ATTATTTACATTAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTGTGCG
49027447 AACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATG
131 AACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATG
49027491 GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
1 GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
*
49027556 ATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATTATTTACATTAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
49027616 ACCTTGAGTT
Statistics
Matches: 294, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 294 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAA
ATTATTTACATTAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTGTGCG
AACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATG
Found at i:49042349 original size:46 final size:46
Alignment explanation
Indices: 49042250--49042413 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
49042240 TTATGAGAGT
* *
49042250 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAAAGC
* * * *
49042298 TAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGTGAC-ATAAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA-AAGC
* * * * *
49042344 CAGTGTAAGACATGCCTGGGACATGCATTGGCTAT-GAGATG--TGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGC-ATCGAGACGAAAGC
*
49042388 CAGTGTAAGACCATGTCTGAGACATG
1 CAGTGTAAGA-CATGTCTGGGACATG
49042414 GTATCGACTT
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
44 11 0.12
45 14 0.15
46 47 0.49
47 14 0.15
48 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAAAGC
Found at i:49042442 original size:47 final size:47
Alignment explanation
Indices: 49042246--49042468 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 47
49042236 CACATTATGA
49042246 GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGA-
1 GAGTCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TTGATGAC-AT
* *
49042294 GAG-CTAGTGTAAGA-CATGTTTGGGACATGCATCGGCCTCG-TGACAT
1 GAGTC-AGTGTAAGACCATGTCTGGGACATGCATCGG-CTTGATGACAT
* * * * *
49042340 AAGCCAGTGTAAGA-CATGCCTGGGACATGCATTGGC-T-ATGAGAT
1 GAGTCAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGATGACAT
* * * *
49042384 GTGTCAGTGTAAGACCATGTCTGAGACATGGTATCGACTTGATGA-AT
1 GAGTCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGATGACAT
*
49042431 GAGTCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 GAGTCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
49042469 ATTATACCCT
Statistics
Matches: 144, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
44 16 0.11
45 14 0.10
46 46 0.32
47 52 0.36
48 16 0.11
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GAGTCAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGATGACAT
Found at i:49044425 original size:40 final size:40
Alignment explanation
Indices: 49044372--49044555 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
49044362 TATTCGAATG
* * *
49044372 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
* * *
49044412 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CC
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACC
* * * *
49044452 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
49044492 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
*
49044532 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49044556 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
Found at i:49044505 original size:80 final size:80
Alignment explanation
Indices: 49044372--49044555 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
49044362 TATTCGAATG
* * *
49044372 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAG-TCCCGAAGGC
*
49044436 ATTTGTGCGAGTTG-CC
65 ATTTATGCGAG-TGACC
* * *
49044452 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
*
49044517 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
49044532 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49044556 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:49048035 original size:14 final size:14
Alignment explanation
Indices: 49048018--49048044 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49048008 TTCTTTACTT
49048018 TTTTTTAATTTTTG
1 TTTTTTAATTTTTG
49048032 TTTTTTAATTTTT
1 TTTTTTAATTTTT
49048045 CTTGTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTAATTTTTG
Found at i:49053311 original size:5 final size:5
Alignment explanation
Indices: 49053301--49053328 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49053291 CCAATTTGTA
49053301 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
49053329 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49056414 original size:225 final size:221
Alignment explanation
Indices: 49056035--49056471 Score: 721
Period size: 225 Copynumber: 2.0 Consensus size: 221
49056025 TAATTAGATC
* * * * *
49056035 ATTCAACAAAATAAGAAATCTGAATCCTATGTTCTTCGGATTTGGGTGAGTCTGTGTTCAGTTTT
1 ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
* *
49056100 TCATATATTTGGTAGGTTCTTGCCTATCCGTATATATATGTCGAAATGTGTTGAATACAGTTATT
66 TCATATATTTGGTAGGTTCTTGCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGGTATT
49056165 TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
131 TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
49056230 TTGGTAATAATAATGAATCCTATGTT
196 TTGGTAATAATAATGAATCCTATGTT
* *
49056256 ATTCAACAAAACAAGAAATTTGAATACTATGTTATTCGGATTTGGATGAGTTTGAGTTCAGTTTT
1 ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
* *
49056321 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
66 TCATATATTTGGTAGGTTCTT---G-CCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
* *
49056386 TATTTCCGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCATCAGC
127 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGC
49056451 CATATTGGTAATAATAATGAA
192 CATATTGGTAATAATAATGAA
49056472 ACTACGATGC
Statistics
Matches: 199, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
221 77 0.39
224 1 0.01
225 121 0.61
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (221 bp):
ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
TCATATATTTGGTAGGTTCTTGCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGGTATT
TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
TTGGTAATAATAATGAATCCTATGTT
Found at i:49062293 original size:21 final size:21
Alignment explanation
Indices: 49062269--49062321 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
49062259 TGTTGTTTCT
* *
49062269 AATCACACCGCTATAGCATCC
1 AATCTCACCGCTACAGCATCC
** *
49062290 AATCTCACTACTACAGTATCC
1 AATCTCACCGCTACAGCATCC
49062311 AATCTCACCGC
1 AATCTCACCGC
49062322 CACCATTGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGCATCC
Found at i:49062824 original size:53 final size:53
Alignment explanation
Indices: 49062720--49062824 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
49062710 GAACCCCTAT
* * *
49062720 AATCAAGGATTGACTCAATCCTAAATAAAGAAATAAATAAAATATCTTCAAAG
1 AATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCTTCAAAG
*
49062773 AATCAAGGATTGACTTAATCCTAAAGAAAGAAAGAAATAAAAT-CCTATCAAA
1 AATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCT-TCAAA
49062825 TTTGTCTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (53 bp):
AATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCTTCAAAG
Found at i:49072110 original size:12 final size:12
Alignment explanation
Indices: 49072093--49072118 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49072083 ATCATGTTAG
49072093 AAAAAAATTCAA
1 AAAAAAATTCAA
49072105 AAAAAAATTCAA
1 AAAAAAATTCAA
49072117 AA
1 AA
49072119 TATGTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:49072434 original size:13 final size:12
Alignment explanation
Indices: 49072400--49072452 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
49072390 ATAGACTTTA
49072400 TTTTTAAAATAT
1 TTTTTAAAATAT
49072412 TTTTAATAAATATAT
1 TTTT--TAAA-ATAT
49072427 TTTTTAAAAT-T
1 TTTTTAAAATAT
49072438 TTATTTAAAAT-T
1 TT-TTTAAAATAT
49072450 TTT
1 TTT
49072453 ATAATTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.11
12 17 0.46
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTAAAATAT
Found at i:49074388 original size:76 final size:76
Alignment explanation
Indices: 49074308--49074454 Score: 249
Period size: 76 Copynumber: 1.9 Consensus size: 76
49074298 TCAAAGCAGT
* * *
49074308 AAAAAAACCATGCAAGGTTTCATGCTTTCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
1 AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
49074373 AAAAGACAATA
66 AAAAGACAATA
* *
49074384 AAAAAAAACATGCAAGGTTTCATGATTCCATCTAAATAAGTTTCATCCAAATCATTGCCCATATC
1 AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
49074449 AAAAGA
66 AAAAGA
49074455 GGGATATGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (76 bp):
AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
AAAAGACAATA
Found at i:49076404 original size:19 final size:20
Alignment explanation
Indices: 49076380--49076417 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
49076370 AGTCAATTAA
*
49076380 AGCTTAATTAAGAA-AATTT
1 AGCTTAACTAAGAATAATTT
49076399 AGCTTAACTAAGAATAATT
1 AGCTTAACTAAGAATAATT
49076418 AAGTATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
AGCTTAACTAAGAATAATTT
Found at i:49076679 original size:13 final size:13
Alignment explanation
Indices: 49076661--49076685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49076651 TAAAATAAAA
49076661 GAAATAAAGAAAT
1 GAAATAAAGAAAT
49076674 GAAATAAAGAAA
1 GAAATAAAGAAA
49076686 AAGGAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:49076756 original size:19 final size:19
Alignment explanation
Indices: 49076713--49076757 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
49076703 CACGGTTAGC
49076713 AGGG-AAAGAAAGAAGAAA
1 AGGGAAAAGAAAGAAGAAA
*
49076731 AGAGAAAAGAAA-AAGAAAA
1 AGGGAAAAGAAAGAAG-AAA
49076750 AGGGAAAA
1 AGGGAAAA
49076758 CTAGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (19 bp):
AGGGAAAAGAAAGAAGAAA
Found at i:49084526 original size:17 final size:17
Alignment explanation
Indices: 49084504--49084576 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
49084494 CTAGGCATGG
49084504 AAGCTTGAATTTTTTAC
1 AAGCTTGAATTTTTTAC
* *
49084521 AAGCTT-ATTTTTTTCC
1 AAGCTTGAATTTTTTAC
* *
49084537 AATTTGGTATGTATTTTTTAC
1 AA---GCT-TGAATTTTTTAC
49084558 AAGCTTGAATTTTTTAC
1 AAGCTTGAATTTTTTAC
49084575 AA
1 AA
49084577 TTGATTAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
16 10 0.23
17 19 0.44
18 2 0.05
19 2 0.05
20 1 0.02
21 9 0.21
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
AAGCTTGAATTTTTTAC
Found at i:49110080 original size:40 final size:40
Alignment explanation
Indices: 49109998--49110222 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
49109988 TTGAATGATG
* * * * *
49109998 TCCGGGCT-AGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
49110037 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
49110077 TCCGGGTTCAGTCTCGAAGGCATTTCTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
49110117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
49110157 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49110198 -CCGGG-CAATGTCCCGAAGGCATTTG
1 TCCGGGTTAA-GTCCCGAAGGCATTTG
49110223 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 10 0.06
40 146 0.88
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49110229 original size:120 final size:119
Alignment explanation
Indices: 49109998--49110255 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 119
49109988 TTGAATGATG
* *
49109998 TCCGGGCT-AGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
49110062 GTGCGAGTTACTAAATCCGGGTTCAGTCTCGAAGGCATTTCTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGG-TCAGTCCCGAAGGCATTTCAACGAG-TAGCTAAA
* * * **
49110117 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
49110180 TTGTGCGAGTTACTATAA-CCGGG-CAATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTTACTA-AATCCGGGTC-A-GTCCCGAAGGCATTTCAACGAGTAGCTAAA
* *
49110237 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49110256 TACGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
118 1 0.01
119 25 0.21
120 83 0.70
121 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGTCAGTCCCGAAGGCATTTCAACGAGTAGCTAAA
Found at i:49113600 original size:138 final size:138
Alignment explanation
Indices: 49113293--49113815 Score: 708
Period size: 138 Copynumber: 3.8 Consensus size: 138
49113283 GAGAATATAG
* * * *
49113293 ATATAATTAATATATGAATTTGATTCATACTAAATATTAATTCTATTTATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * * *
49113358 AATATAAATACTTATATTTATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAATTTTATT
66 AATATAAATAATTATATTAATTAATTTCGGT-CAAAATATAAAAGACATGGAAATTAATATTCTT
*
49113423 TTGGAAACA
130 TTGGAAAAA
* * *
49113432 ATATAATTAATATATGAATTTGATTCATACAAAATATTACTTGTATATATTTTACCGATTTTATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * *
49113497 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAACGACATTGAAGTTAATGTTCTTT
66 AATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
**
49113562 TGGAAATG
131 TGGAAAAA
* *
49113570 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTATCAAATTTATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
49113635 AATATAAA-AAGTTATATGAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAACATTCTT
66 AATATAAATAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
49113699 CTGGAAAAA
130 TTGGAAAAA
* * *
49113708 ATATAATTAATATATGAATTTGA-CTCATACAAGATATTAATTGTATATATTTCACTGAATTTAT
1 ATATAATTAATATATGAATTTGATC-CATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* **
49113772 TAATATAAATAGTTATATTAATTAATTTTAGTCAAAATATAAAA
65 TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAA
49113816 TTAATATTCT
Statistics
Matches: 341, Mismatches: 40, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
137 3 0.01
138 250 0.73
139 88 0.26
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TGGAAAAA
Found at i:49113790 original size:276 final size:277
Alignment explanation
Indices: 49113292--49113814 Score: 787
Period size: 276 Copynumber: 1.9 Consensus size: 277
49113282 AGAGAATATA
* * * *
49113292 GATATAATTAATATATGAATTTGATTCATACTAAATATTAATTCTATTTATTTTACCGAATTTAT
1 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTATATATTTTACCAAATTTAT
* ** **
49113357 TAATATAAATACTTATATTTATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAATTTTAT
66 TAATATAAAAACTTATATGAATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAACATTAT
* * * * *
49113422 TTTGGAAACAATATAATTAATATATGAATTTGATTCATACAAAATATTACTTGTATATATTTTAC
131 TCTGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCAC
* *
49113487 CGATTTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAACGACATTGAAGTT
196 CGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAACGACATTGAAGTT
49113552 AATGTTCTTTTGGAAAT
261 AATGTTCTTTTGGAAAT
* *
49113569 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTATCAAATTTAT
1 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTATATATTTTACCAAATTTAT
* * * * *
49113634 TAATATAAAAAGTTATATGAATTAATTTTGGT-CAAAATATAAAAGACATGGAAATTAACATTCT
66 TAATATAAAAACTTATATGAATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAACATTAT
*
49113698 TCTGGAAAAAATATAATTAATATATGAATTTGACTCATACAAGATATTAATTGTATATATTTCAC
131 TCTGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCAC
* * * *
49113763 TGAATTTATTAATATAAATAGTTATATTAATTAATTTTAGTCAAAATATAAA
196 CGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAA
49113815 ATTAATATTC
Statistics
Matches: 218, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
276 133 0.61
277 85 0.39
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (277 bp):
GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTATATATTTTACCAAATTTAT
TAATATAAAAACTTATATGAATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAACATTAT
TCTGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCAC
CGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAACGACATTGAAGTT
AATGTTCTTTTGGAAAT
Found at i:49113949 original size:74 final size:75
Alignment explanation
Indices: 49113819--49113964 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 75
49113809 TATAAAATTA
* * *
49113819 ATATTCTTTTGGAAAGAATATAATTTATTTTTCTAACTTTCCATTTGCCTTTTCTATCAATAAGG
1 ATATTCTTTTGGAAAGAAAATAATTTATTTTTCTAACTTTCCATTTGCCTTCTCTATCAATAAAG
49113884 GAATAATTGT
66 GAATAATTGT
* * *
49113894 ATATTCTTTTGGAAA-AAAATAATTTGTTTTTCTAATTTTCCAGTTT-CCTTCTCTATTAATAAA
1 ATATTCTTTTGGAAAGAAAATAATTTATTTTTCTAACTTTCCA-TTTGCCTTCTCTATCAATAAA
49113957 GGAATAAT
65 GGAATAAT
49113965 CTTGGTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 46 0.72
75 18 0.28
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAAAATAATTTATTTTTCTAACTTTCCATTTGCCTTCTCTATCAATAAAG
GAATAATTGT
Found at i:49116450 original size:51 final size:51
Alignment explanation
Indices: 49116372--49116513 Score: 187
Period size: 50 Copynumber: 2.8 Consensus size: 51
49116362 TGTGAGGTCG
* *
49116372 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCA
* * * * * ** *
49116423 CGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCA
49116473 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
49116514 GCTTTGGCTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 41 0.55
51 34 0.45
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCA
Found at i:49119524 original size:15 final size:15
Alignment explanation
Indices: 49119504--49119559 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
49119494 GTATCTTGGG
49119504 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
49119519 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
49119534 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
49119549 TTTCTTTATTC
1 TTTCTTTATTC
49119560 GGTTTTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49123414 original size:50 final size:49
Alignment explanation
Indices: 49123292--49123480 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
49123282 TGAGGTCGCA
* * * * *
49123292 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* * **
49123343 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
49123393 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
49123442 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
49123481 GCTTTGGCTA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 39 0.34
50 44 0.38
51 33 0.28
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:49132976 original size:18 final size:18
Alignment explanation
Indices: 49132897--49133011 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
49132887 ACCGATCAAT
*
49132897 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
49132915 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
49132933 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
** *
49132951 TGGCTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * **
49132969 TAATTGTT-CTGATTGGC
1 TGATTGTTACTGAATAAC
*
49132986 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
49133006 TGATTG
1 TGATTG
49133012 ATTAATTGCT
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
17 12 0.17
18 51 0.73
20 7 0.10
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:49136917 original size:339 final size:339
Alignment explanation
Indices: 49136297--49136974 Score: 1311
Period size: 339 Copynumber: 2.0 Consensus size: 339
49136287 GGTGCCATTT
49136297 TAATGCTCGACTAAAAACTATTATTATAAGCAAATTCAATCAAGGGCAAATACTATTCCCATGTA
1 TAATGCTCGACTAAAAACTATTATTATAAGCAAATTCAATCAAGGGCAAATACTATTCCCATGTA
* *
49136362 CCTTTAAACTTAAGAATGCAACATCTCAACATATCCTCAAGTATCTGAATAATCTGCTCGGATTG
66 CCTTTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGTATCTGAATAATCTGCTCGAATTG
49136427 ACTATATATTTGTACGTGAAAAGCAGTATAAAAGTGCAATTTAGTACCCAGAGCATCTTGTAATT
131 ACTATATATTTGTACGTGAAAAGCAGTATAAAAGTGCAATTTAGTACCCAGAGCATCTTGTAATT
49136492 TCTTCCAGAATCGTGGTGTGAATCTCAGATCTCTGTCTGACACTATAAACAATGGCACACCATGC
196 TCTTCCAGAATCGTGGTGTGAATCTCAGATCTCTGTCTGACACTATAAACAATGGCACACCATGC
*
49136557 AATCTCACGATATTAGAAATGTATAACTCAACTAATTTATCAAGCGAGTAATCGGATCGAACCGG
261 AATCTCACGATATTAGAAATGTATAACTCAACTAATTTATCAAGCGAGTAATCGGATCGAACCAG
49136622 AATAAAATGAGCTG
326 AATAAAATGAGCTG
49136636 TAATGCTCGACTAAAAACTATTATTATAAGCAAATTCAATCAAGGGCAAATACTATTCCCATGTA
1 TAATGCTCGACTAAAAACTATTATTATAAGCAAATTCAATCAAGGGCAAATACTATTCCCATGTA
49136701 CCTTTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGTATCTGAATAATCTGCTCGAATTG
66 CCTTTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGTATCTGAATAATCTGCTCGAATTG
*
49136766 ACTGTATATTTGTACGTGAAAAGCAGTATAAAAGTGCAATTTAGTACCCAGAGCATCTTGTAATT
131 ACTATATATTTGTACGTGAAAAGCAGTATAAAAGTGCAATTTAGTACCCAGAGCATCTTGTAATT
*
49136831 TCTTCGAGAATCGTGGTGTGAATCTCAGATCTCTGTCTGACACTATAAACAATGGCACACCATGC
196 TCTTCCAGAATCGTGGTGTGAATCTCAGATCTCTGTCTGACACTATAAACAATGGCACACCATGC
49136896 AATCTCACGATATTAGAAATGTATAACTCAACTAATTTATCAAGCGAGTAATCGGATCGAACCAG
261 AATCTCACGATATTAGAAATGTATAACTCAACTAATTTATCAAGCGAGTAATCGGATCGAACCAG
49136961 AATAAAATGAGCTG
326 AATAAAATGAGCTG
49136975 ATTTCATCAA
Statistics
Matches: 334, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
339 334 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (339 bp):
TAATGCTCGACTAAAAACTATTATTATAAGCAAATTCAATCAAGGGCAAATACTATTCCCATGTA
CCTTTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGTATCTGAATAATCTGCTCGAATTG
ACTATATATTTGTACGTGAAAAGCAGTATAAAAGTGCAATTTAGTACCCAGAGCATCTTGTAATT
TCTTCCAGAATCGTGGTGTGAATCTCAGATCTCTGTCTGACACTATAAACAATGGCACACCATGC
AATCTCACGATATTAGAAATGTATAACTCAACTAATTTATCAAGCGAGTAATCGGATCGAACCAG
AATAAAATGAGCTG
Found at i:49143559 original size:37 final size:37
Alignment explanation
Indices: 49143500--49143608 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
49143490 AGCTCAGACG
* *
49143500 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
49143537 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49143574 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49143609 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49143842 original size:47 final size:47
Alignment explanation
Indices: 49143771--49143954 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 47
49143761 TTTCACACTA
* * * *
49143771 GCCATTCGGCTTTA-C-CACATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
49143816 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
*
49143863 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
* *
49143910 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACAT
49143955 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
45 13 0.10
46 1 0.01
47 117 0.89
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
Found at i:49143881 original size:22 final size:22
Alignment explanation
Indices: 49143854--49143929 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
49143844 GCTCACATTC
49143854 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
49143876 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
49143900 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
49143923 ATCACAT
1 ATCACAT
49143930 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:49147326 original size:23 final size:23
Alignment explanation
Indices: 49147279--49147327 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49147269 ATATAACACC
* ***
49147279 AGCACGAATGCTCTTTGGGGTTT
1 AGCACGAATGCTCTTCGGAACTT
49147302 AGCACGAATGCTCTTCGGAACTT
1 AGCACGAATGCTCTTCGGAACTT
49147325 AGC
1 AGC
49147328 CCGGATACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
AGCACGAATGCTCTTCGGAACTT
Found at i:49147345 original size:40 final size:40
Alignment explanation
Indices: 49147301--49147421 Score: 215
Period size: 40 Copynumber: 3.0 Consensus size: 40
49147291 CTTTGGGGTT
*
49147301 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
49147341 TAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
49147381 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
49147421 T
1 T
49147422 CTCAATTCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:49148755 original size:37 final size:37
Alignment explanation
Indices: 49148691--49148799 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
49148681 AGCTCAGACG
* * *
49148691 AAATCTCCACACGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
49148728 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49148765 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49148800 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49149033 original size:47 final size:47
Alignment explanation
Indices: 49148962--49149098 Score: 215
Period size: 47 Copynumber: 3.0 Consensus size: 47
49148952 TTTCACACTA
* * *
49148962 GCCATTCGGCTTTA-C-CACATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
*
49149007 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
*
49149054 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACAT
49149099 AAAATCTTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 13 0.15
46 1 0.01
47 70 0.83
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
Found at i:49154540 original size:43 final size:43
Alignment explanation
Indices: 49154401--49154557 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
49154391 ATATTGCACA
* * *
49154401 ATGCCAATGTCCCAGACGTGGTCTTACATGCT-ATCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-TAATCACATATCG
* * * *
49154444 ATGTC-ACTATCCCAGACAGGGTCTTACATG-AATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
49154485 ATGCTAATGTCCCAAACATGGTCTTACACGTAATCACAGATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
49154528 ATGCCAACGTCCCATACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACATGGTCTTACATG
49154558 AGAACACATA
Statistics
Matches: 88, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 22 0.25
42 17 0.19
43 49 0.56
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:49156065 original size:340 final size:340
Alignment explanation
Indices: 49155445--49156124 Score: 1315
Period size: 340 Copynumber: 2.0 Consensus size: 340
49155435 ACCGCCAAAC
49155445 GAAATGAAAGTCACCGCTCATTGATTTCCCCTACACCATAAAAATACAACAACGTTCAAATATTC
1 GAAATGAAAGTCACCGCTCATTGATTTCCCCTACACCATAAAAATACAACAACGTTCAAATATTC
*
49155510 AGAAAAGCGATACGAAGAAAGCCAACGAAAACCCACTTACTGACTACATGAAGAAAAAGCAAGGA
66 AGAAAAGCGATACGAAGAAAGCCAACGAAAACCCACTTACCGACTACATGAAGAAAAAGCAAGGA
49155575 TTCGCGACGCCCCAACAATGAGATTAACAAAAGAATTAAAAATAGAGGAGGAATTTAGTTTGGCA
131 TTCGCGACGCCCCAACAATGAGATTAACAAAAGAATTAAAAATAGAGGAGGAATTTAGTTTGGCA
49155640 AGGAAAACAAAATCAACAAAATGAAACTATGGATTTGTTTCTTTGAAAAAGAAATAACGTCAGAA
196 AGGAAAACAAAATCAACAAAATGAAACTATGGATTTGTTTCTTTGAAAAAGAAATAACGTCAGAA
49155705 GTAGAGGAAATTTGGGAAAAATAAAATTCAATTTTGACAAAAACAAAGATATGATGCATATCCCC
261 GTAGAGGAAATTTGGGAAAAATAAAATTCAATTTTGACAAAAACAAAGATATGATGCATATCCCC
49155770 TGATTTCCTCCCACT
326 TGATTTCCTCCCACT
* * * *
49155785 GAAATGAAAGTCATCGCTCGTTGATTTCCCCTACTCCATAAAAATACAACAACGTTCAAATCTTC
1 GAAATGAAAGTCACCGCTCATTGATTTCCCCTACACCATAAAAATACAACAACGTTCAAATATTC
49155850 AGAAAAGCGATACGAAGAAAGCCAACGAAAACCCACTTACCGACTACATGAAGAAAAAGCAAGGA
66 AGAAAAGCGATACGAAGAAAGCCAACGAAAACCCACTTACCGACTACATGAAGAAAAAGCAAGGA
49155915 TTCGCGACGCCCCAACAATGAGATTAACAAAAGAATTAAAAATAGAGGAGGAATTTAGTTTGGCA
131 TTCGCGACGCCCCAACAATGAGATTAACAAAAGAATTAAAAATAGAGGAGGAATTTAGTTTGGCA
49155980 AGGAAAACAAAATCAACAAAATGAAACTATGGATTTGTTTCTTTGAAAAAGAAATAACGTCAGAA
196 AGGAAAACAAAATCAACAAAATGAAACTATGGATTTGTTTCTTTGAAAAAGAAATAACGTCAGAA
49156045 GTAGAGGAAATTTGGGAAAAATAAAATTCAATTTTGACAAAAACAAAGATATGATGCATATCCCC
261 GTAGAGGAAATTTGGGAAAAATAAAATTCAATTTTGACAAAAACAAAGATATGATGCATATCCCC
49156110 TGATTTCCTCCCACT
326 TGATTTCCTCCCACT
49156125 AACCCACTTC
Statistics
Matches: 335, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
340 335 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (340 bp):
GAAATGAAAGTCACCGCTCATTGATTTCCCCTACACCATAAAAATACAACAACGTTCAAATATTC
AGAAAAGCGATACGAAGAAAGCCAACGAAAACCCACTTACCGACTACATGAAGAAAAAGCAAGGA
TTCGCGACGCCCCAACAATGAGATTAACAAAAGAATTAAAAATAGAGGAGGAATTTAGTTTGGCA
AGGAAAACAAAATCAACAAAATGAAACTATGGATTTGTTTCTTTGAAAAAGAAATAACGTCAGAA
GTAGAGGAAATTTGGGAAAAATAAAATTCAATTTTGACAAAAACAAAGATATGATGCATATCCCC
TGATTTCCTCCCACT
Found at i:49157575 original size:42 final size:43
Alignment explanation
Indices: 49157526--49157626 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
49157516 TAAAACCATG
* *
49157526 TCTGGGACATCGACATCG-TATCTG-ATTTCGTGTAAGACC-CT
1 TCTGGGACATCGACATCGATAT-TGAATTACATGTAAGACCACT
** *
49157567 ATCTGGGACAGAGGCATCGATATTGAATTACATGTAAGACCACT
1 -TCTGGGACATCGACATCGATATTGAATTACATGTAAGACCACT
*
49157611 TCTGGGACGTCGACAT
1 TCTGGGACATCGACAT
49157627 TGTACTTGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
42 17 0.36
43 28 0.60
44 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTGGGACATCGACATCGATATTGAATTACATGTAAGACCACT
Found at i:49168049 original size:21 final size:21
Alignment explanation
Indices: 49168038--49168098 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
49168028 TATAATGAGT
49168038 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
49168059 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
49168080 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
49168099 ATATCAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:49168066 original size:5 final size:5
Alignment explanation
Indices: 49168038--49168109 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
49168028 TATAATGAGT
* * * * *
49168038 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
*
49168090 ATATC ATGT- ATATC AATATC
1 ATATC ATATC ATATC -ATATC
49168110 TCAAGCATCT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
4 3 0.06
5 35 0.69
6 13 0.25
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:49168097 original size:10 final size:10
Alignment explanation
Indices: 49168038--49168104 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
49168028 TATAATGAGT
49168038 ATATCATAG-C
1 ATATCAT-GTC
49168048 ATATCATGTGC
1 ATATCATGT-C
**
49168059 ATATCATAAC
1 ATATCATGTC
49168069 ATATCATGTGC
1 ATATCATGT-C
49168080 ATATCATGTC
1 ATATCATGTC
49168090 ATATCATGT-
1 ATATCATGTC
49168099 ATATCA
1 ATATCA
49168105 ATATCTCAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:49171142 original size:40 final size:40
Alignment explanation
Indices: 49171098--49171319 Score: 206
Period size: 40 Copynumber: 5.6 Consensus size: 40
49171088 TCCTCGTTCG
*
49171098 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
* *
49171138 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACACA
* *
49171178 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCACACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCACACA
* * *
49171217 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACA
1 AATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCACACA
* * * * * *
49171257 AATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACA
*
49171298 AA-GCCTTAGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
49171320 ACATCATTCA
Statistics
Matches: 152, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 108 0.71
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
Found at i:49171197 original size:79 final size:78
Alignment explanation
Indices: 49171098--49171320 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
49171088 TCCTCGTTCG
* *
49171098 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
49171163 TTAGTAACTCGCACA
64 TTAGTAACTCGCACA
* * *
49171178 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACACAAATGCCTTC-GGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGGAT
*
49171242 TTAGTATCTCGCACA
64 TTAGTAACTCGCACA
* * * * * * *
49171257 AATACCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTAGGGACTTAGCCCGGA
1 AATGCCTTCGG-GCTTAGCCCGG-TATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCGGA
49171321 CATCATTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 65 0.54
80 42 0.35
81 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
AATGCCTTCGGGCTTAGCCCGGTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATTT
AGTAACTCGCACA
Found at i:49171280 original size:119 final size:120
Alignment explanation
Indices: 49171098--49171320 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
49171088 TCCTCGTTCG
*
49171098 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATACCTTCGGGACTTAACCCGGAT
* * *
49171163 TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACA
66 ATAGTAACTTAGCACAAA-GCCTTAGGGACTTAGCCCGGAATTAGTATCTCACACA
* * * * **
49171217 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCG
1 AATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACACAAATACCTTCGGGA-CTTAACCCG
* *
49171279 GATATGGTCACTTAGCACAAAGCCTTAGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTAGGGACTTAGCCCGGA
49171321 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 6 0.07
119 60 0.69
120 21 0.24
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTAGGGACTTAGCCCGGAATTAGTATCTCACACA
Found at i:49179145 original size:79 final size:80
Alignment explanation
Indices: 49179047--49179216 Score: 220
Period size: 79 Copynumber: 2.1 Consensus size: 80
49179037 TCCTCGTTCG
* * *
49179047 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACATAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
49179110 ATTTAGTAACTCGCACA
64 ATTTAGTAACTCGCACA
* * **
49179127 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
49179191 TTAGTATCTCGCACA
66 TTAGTAACTCGCACA
*
49179206 AATACCTTCGG
1 AATGCCTTCGG
49179217 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.04
79 63 0.80
80 13 0.16
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
AATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAGTAACTCGCACA
Found at i:49179162 original size:39 final size:40
Alignment explanation
Indices: 49179047--49179266 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
49179037 TCCTCGTTCG
* * *
49179047 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGTACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
49179087 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
49179127 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
49179166 AATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACA
* * * * * *
49179206 AATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
49179247 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
49179267 AGACATCATT
Statistics
Matches: 158, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.21
40 110 0.70
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:49182849 original size:39 final size:39
Alignment explanation
Indices: 49182732--49182980 Score: 394
Period size: 39 Copynumber: 6.3 Consensus size: 39
49182722 GCTCCTCGTT
* *
49182732 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49182772 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
49182812 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
49182851 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
49182890 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
49182929 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
49182968 CAAATGCCTTCGG
1 CAAATGCCTTCGG
49182981 ATCTTAGTCC
Statistics
Matches: 200, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
39 152 0.76
40 46 0.23
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:49183016 original size:39 final size:39
Alignment explanation
Indices: 49182973--49183071 Score: 173
Period size: 39 Copynumber: 2.5 Consensus size: 39
49182963 TCGCACAAAT
49182973 GCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAA
1 GCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAA
49183012 GCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAA
1 GCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAA
*
49183051 GCCTTCGGGA-CTTAGCCCGGA
1 GCCTTC-GGATCTTAGTCCGGA
49183072 CATCATTCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 55 0.95
40 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
GCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAA
Found at i:49183016 original size:117 final size:116
Alignment explanation
Indices: 49182732--49183069 Score: 370
Period size: 117 Copynumber: 2.9 Consensus size: 116
49182722 GCTCCTCGTT
* * * *
49182732 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTAGCACAAATGCCTTCGGG-CTTAGCCC
* *
49182795 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62 GGAATTAGT-ACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
*
49182851 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGCTTAGCCCGGAA
49182916 TTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
66 TTAGTA-CTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
* * * *
49182968 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGATCTTAGTC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCACAAATGCCTTCGG-GCTTAGCC
*
49183029 CGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
61 CGGA-ATTAGT-AC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
49183070 GACATCATTC
Statistics
Matches: 196, Mismatches: 11, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
116 1 0.01
117 91 0.46
118 71 0.36
119 33 0.17
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (116 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGCTTAGCCCGGAA
TTAGTACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
Found at i:49190919 original size:39 final size:40
Alignment explanation
Indices: 49190802--49190985 Score: 243
Period size: 39 Copynumber: 4.7 Consensus size: 40
49190792 GCTCCTCGTT
* * *
49190802 CAAATGCCTTCGGGACATAGTCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49190842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49190882 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49190921 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
49190960 CAAATGCCTTC-GGATCTTAGTCCGGA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA
49190986 TATTGTCACT
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.02
39 73 0.55
40 55 0.42
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:49193598 original size:27 final size:27
Alignment explanation
Indices: 49193568--49193633 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
49193558 GGAGGAAGTG
* *
49193568 TACTGTTACTGGTGGCTTTGTCACATA
1 TACTATTACTGGTGGCTTTGCCACATA
*
49193595 TACTATTATTGGTGGCTTTGCCACATA
1 TACTATTACTGGTGGCTTTGCCACATA
* *
49193622 TATTAATACTGG
1 TACTATTACTGG
49193634 CAGCTTTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
TACTATTACTGGTGGCTTTGCCACATA
Found at i:49193639 original size:27 final size:27
Alignment explanation
Indices: 49193582--49193641 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
49193572 GTTACTGGTG
* * * **
49193582 GCTTTGTCACATATACTATTATTGGTG
1 GCTTTGCCACATATACTAATACTGGCA
*
49193609 GCTTTGCCACATATATTAATACTGGCA
1 GCTTTGCCACATATACTAATACTGGCA
49193636 GCTTTG
1 GCTTTG
49193642 GTGGGTTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (27 bp):
GCTTTGCCACATATACTAATACTGGCA
Found at i:49196843 original size:16 final size:15
Alignment explanation
Indices: 49196822--49196865 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
49196812 TGTAGAATGG
49196822 AAAAAGCTGAAAAGTC
1 AAAAAGCTGAAAAG-C
* *
49196838 AAAAAGCCGACAAGC
1 AAAAAGCTGAAAAGC
49196853 AGAAAAGCTGAAA
1 A-AAAAGCTGAAA
49196866 GAATGGCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.57, C:0.16, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAAGCTGAAAAGC
Found at i:49197472 original size:27 final size:27
Alignment explanation
Indices: 49197433--49197491 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
49197423 GGAGGAAGTG
* *
49197433 TACTGTTATTGGTGGCTTTGTCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
49197460 TACTGTTACTGGTGGCTTTGCCGCATA
1 TACTGTTACTGGTGGCTTTGCCACATA
49197487 TACTG
1 TACTG
49197492 ATATGGCAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:49203964 original size:64 final size:64
Alignment explanation
Indices: 49203859--49204066 Score: 170
Period size: 67 Copynumber: 3.2 Consensus size: 64
49203849 CATCATGTGT
*
49203859 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
49203924 TAG
62 TAG
** * * * * * * * *
49203927 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACTATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
49203992 AG
63 AG
* * * * *
49203994 ACAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGATGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
49204056 TACAAGAGAGC
1 -ACAAGAGAGC
49204067 CGAACTATAT
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 21 0.19
65 10 0.09
66 16 0.14
67 29 0.26
68 16 0.14
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:49211712 original size:40 final size:39
Alignment explanation
Indices: 49211676--49211850 Score: 190
Period size: 39 Copynumber: 4.4 Consensus size: 39
49211666 ATATCCGGAC
* *
49211676 TAAGATCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* *
49211716 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* **
49211756 TAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* * * * *
49211795 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
*
49211834 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
49211851 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 72 0.59
40 50 0.41
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
Found at i:49211776 original size:39 final size:40
Alignment explanation
Indices: 49211629--49211850 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
49211619 TTGAATGCTG
* * * * * *
49211629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
49211669 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
49211709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
49211749 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
49211788 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
49211827 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49211851 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 72 0.45
40 79 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:49211793 original size:79 final size:78
Alignment explanation
Indices: 49211629--49211850 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 78
49211619 TTGAATGCTG
* * * * * * * *
49211629 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCGAAGGCATTC
49211694 GTGCGAGATACTAAA
64 GTGCGAGATACTAAA
* *
49211709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCGAAGGCATTCG
* **
49211774 TGCGAGTTGTTAAA
65 TGCGAGATACTAAA
* * * * *
49211788 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGT-CCGAAGGCATT
49211851 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
78 22 0.18
79 57 0.47
80 38 0.31
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCGAAGGCATTCGT
GCGAGATACTAAA
Found at i:49211870 original size:79 final size:79
Alignment explanation
Indices: 49211704--49211885 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
49211694 GTGCGAGATA
* * *
49211704 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGC
** **
49211769 ATTCGTGCGAGTTG
66 ATTCGAACGAGGAG
* * * *
49211783 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGG
*
49211847 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
* *
49211862 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
49211886 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 36 0.42
79 50 0.58
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGC
ATTCGAACGAGGAG
Found at i:49224814 original size:93 final size:93
Alignment explanation
Indices: 49224703--49224873 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49224693 GCCCCTAAGT
* * *
49224703 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
49224768 CGAGTTCGGATGCCTAGTTACATGTCAC
66 CGAGCTCGGATGCCTAGTTACATGTCAC
* * *
49224796 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
49224861 CGAGCTCGGATGC
66 CGAGCTCGGATGC
49224874 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATGTCAC
Found at i:49224863 original size:46 final size:46
Alignment explanation
Indices: 49224698--49224870 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
49224688 AACCCGCCCC
* * * *
49224698 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
49224744 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--G
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
49224792 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
49224837 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49224871 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.56
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:49226084 original size:11 final size:12
Alignment explanation
Indices: 49226059--49226089 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
49226049 CAATCATATC
49226059 ATAATTATAAAA
1 ATAATTATAAAA
49226071 ATAATTAT-AAA
1 ATAATTATAAAA
49226082 ATAATTAT
1 ATAATTAT
49226090 TTCTATCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATTATAAAA
Found at i:49232411 original size:46 final size:46
Alignment explanation
Indices: 49232250--49232422 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
49232240 AACCCGCCCC
* * * * *
49232250 TAAGTGAACTCGGAATCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
49232296 TAAATGAACTCGGACTCAACTCGACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
49232344 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
49232389 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49232423 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:49232416 original size:93 final size:93
Alignment explanation
Indices: 49232255--49232425 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
49232245 GCCCCTAAGT
* * * *
49232255 GAACTCGGAATCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCGA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
49232320 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
49232348 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
49232413 CGAGCTCGGATGC
66 CGAGCTCGGATGC
49232426 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:49232879 original size:30 final size:30
Alignment explanation
Indices: 49232845--49232904 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
49232835 ATTTAATACG
49232845 AACTTTGAAAAAATTACACTTTTGCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
* * * *
49232875 AACTTTTACATAATTACACTTTTTCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
49232905 GGCTCGGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTGAAAAAATTACACTTTTGCCCCTA
Found at i:49233646 original size:11 final size:12
Alignment explanation
Indices: 49233621--49233651 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
49233611 CAATCATATC
49233621 ATAATTATCAAA
1 ATAATTATCAAA
49233633 ATAATTAT-AAA
1 ATAATTATCAAA
49233644 ATAATTAT
1 ATAATTAT
49233652 TTCTATCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATTATCAAA
Found at i:49236786 original size:20 final size:20
Alignment explanation
Indices: 49236761--49236811 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
49236751 ACTGAAGTGT
49236761 AACAGAGGCA-TCAAAGTCCA
1 AACAGAGGCACT-AAAGTCCA
*
49236781 AACAGAGGCACTAAAGTGCA
1 AACAGAGGCACTAAAGTCCA
*
49236801 AACAAAGGCAC
1 AACAGAGGCAC
49236812 CGAATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.24, G:0.22, T:0.08
Consensus pattern (20 bp):
AACAGAGGCACTAAAGTCCA
Found at i:49243280 original size:11 final size:11
Alignment explanation
Indices: 49243264--49243302 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
49243254 CATAGGATTA
49243264 TTCTTTTCTTT
1 TTCTTTTCTTT
49243275 TTCTTTT-TCTT
1 TTCTTTTCT-TT
49243286 TTCTTTTCTTT
1 TTCTTTTCTTT
49243297 CTTCTT
1 -TTCTT
49243303 CTCTAGCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.72
12 6 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:49243286 original size:17 final size:17
Alignment explanation
Indices: 49243264--49243302 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
49243254 CATAGGATTA
49243264 TTCTTTTCTTTTTCTTT-
1 TTCTTTTC-TTTTCTTTC
49243281 TTCTTTTCTTTTCTTTC
1 TTCTTTTCTTTTCTTTC
49243298 TTCTT
1 TTCTT
49243303 CTCTAGCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTCTTTTCTTTC
Found at i:49244438 original size:25 final size:25
Alignment explanation
Indices: 49244389--49244439 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
49244379 CCCTTATAAT
* * *
49244389 GTGAAAATGACCATTTTGCCTCTAG
1 GTGAAAATGACCATTATACCCCTAG
49244414 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
49244439 G
1 G
49244440 GATATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:49244494 original size:10 final size:10
Alignment explanation
Indices: 49244479--49244518 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
49244469 CTGTTTTGTA
49244479 CATGATATGC
1 CATGATATGC
49244489 CATGATATGC
1 CATGATATGC
*
49244499 ACCTGATATGC
1 -CATGATATGC
49244510 CATGATATG
1 CATGATATG
49244519 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:49244631 original size:25 final size:25
Alignment explanation
Indices: 49244564--49244633 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
49244554 GAAGAAGTGC
* *
49244564 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
49244589 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49244614 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49244634 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49244646 original size:24 final size:24
Alignment explanation
Indices: 49244563--49244660 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
49244553 GGAAGAAGTG
* *
49244563 CAAAAG-GGCTTTGCCCCAATTTAC
1 CAAAAGAGGCTTTGCCCC-AGTTAT
49244587 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
49244612 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
49244636 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
49244661 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 21 0.33
25 42 0.67
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:49244657 original size:50 final size:50
Alignment explanation
Indices: 49244564--49244658 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
49244554 GAAGAAGTGC
* **
49244564 AAAAGGGCTTTGCCCCAATTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
49244614 AAAAGGGCTTTGCCCC-AGTTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAAG-GGCTAGGCC-CCAGTT
49244659 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 11 0.29
50 22 0.58
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAAGTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:49247354 original size:27 final size:27
Alignment explanation
Indices: 49247323--49247464 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
49247313 TTAGTTTACC
* *
49247323 AAATTACCCAAATACCCTCGACTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
*
49247350 AAATTA-CCAAAGTACCCTCAATTTATA
1 AAATTACCCAAA-TACCCTCAATTTGTA
* *
49247377 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
* * * *
49247404 AAATTATCGAAATACCCTCAGTTTGCA
1 AAATTACCCAAATACCCTCAATTTGTA
***
49247431 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
49247458 AAATTAC
1 AAATTAC
49247465 TAAAATAGTC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.05
27 87 0.90
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCAATTTGTA
Found at i:49247405 original size:54 final size:53
Alignment explanation
Indices: 49247317--49247690 Score: 191
Period size: 54 Copynumber: 6.9 Consensus size: 53
49247307 AATACTTTAG
* *
49247317 TTTACCAAATTACCCAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAA
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCAAA-TACCCTCAA
* * * *
49247371 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCCTCAG
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTA-CCAAATACCCTCAA
* *** * * * *
49247425 TTTGCAAAATTATTGAAATACCCTCAATTTGTAAAATTACTAAAATAGTCCTGTAA
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTAC-CAAATA-CCCT-CAA
* * * ** * ** ***** *
49247481 --GATAGAATTA-CCATTTTACCCTTGATTTACAAAATTATTGTCTTACCCTCGA
1 TTTACAAAATTACCCA-AATACCCTCGATTTGTAAAATTA-CCAAATACCCTCAA
* ** * * **
49247533 TTTACAGAATTA-CCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCCA-AATACCCTCGATTTGTAAAATTACCA-AATACCCTCAA
** * * * *
49247587 TTTACAAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACC-AAATACCCTCAA
** * * *
49247641 TCAATAAAATTACCAAAATACCCCTTG-TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCCAAATA-CCCTCGATTTGTAAAATTACC-AAATACCC
49247691 CTGATTTTTG
Statistics
Matches: 244, Mismatches: 64, Indels: 24
0.73 0.19 0.07
Matches are distributed among these distances:
52 1 0.00
53 5 0.02
54 222 0.91
55 15 0.06
56 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (53 bp):
TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCAAATACCCTCAA
Found at i:49247470 original size:27 final size:27
Alignment explanation
Indices: 49247323--49247718 Score: 154
Period size: 27 Copynumber: 14.7 Consensus size: 27
49247313 TTAGTTTACC
* * *
49247323 AAATTACCCAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
* *
49247350 AAATTACCAAAGTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCAATTTGTA
* * *
49247377 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
* * * *
49247404 AAATTATCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCTCAATTTGTA
***
49247431 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
* * *
49247458 AAATTACTAAAATAGTCCTGTAA---GATA
1 AAATTACCAAAATA-CCCT-CAATTTG-TA
* *** ** **
49247485 GAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCAATTTGTA
****** * **
49247512 AAATTATTGTCTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCAATTTGTA
* *** * *
49247539 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTGTA
* *** **
49247566 GAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCAATTTGTA
** *** *
49247593 AAATTACTGAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCAATTTGTA
* ***
49247620 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCAATTTGTA
**
49247647 AAATTACCAAAATACCC-CTTGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTGTA
* * *
49247674 AAATTACCAAAATACCC-CTGATTTTTG
1 AAATTACCAAAATACCCTC-AATTTGTA
49247701 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
49247719 TGTAGGGTAG
Statistics
Matches: 290, Mismatches: 71, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.01
26 5 0.02
27 278 0.96
28 3 0.01
29 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTGTA
Found at i:49247663 original size:81 final size:81
Alignment explanation
Indices: 49247323--49247718 Score: 244
Period size: 81 Copynumber: 4.9 Consensus size: 81
49247313 TTAGTTTACC
* * * ** * * *
49247323 AAATTACCCAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCTCAATTTATAAAATTACCCA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAA-TACCCTCGATTTATAAAATTACCAA
* **
49247387 AATATCCTCGATTTGTA
65 AATACCCTCGATTAATA
* * * * * * * *
49247404 AAATTATCGAAATACCCTCAGTTTGCAAAATTATTGAAATACCCTCAATTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAA
* *
49247469 ATAGTCCT-G-TAAGATA
66 ATA-CCCTCGATTA-ATA
* *** ** * *** * * **
49247485 GAATTACCATTTTACCCTTGATTTACAAAATTATTGTCTTACCCTCGATTTACAGAATTACCATT
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAA
* *
49247550 TTACCCTCGATTTATA
66 ATACCCTCGATTAATA
* *** * *
49247566 GAATTACCATTTTACCCTCAATTTACAAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAA
*
49247631 ATACCCTCGATCAATA
66 ATACCCTCGATTAATA
** ** ** * *
49247647 AAATTACCAAAATACCC-CTTGTTTGTAAAATTACCAAAATACCC-CTGATTTTTGAAATTACCA
1 AAATTACCAAAATACCCTC-AATTTACAAAATTACTGAAATACCCTC-GATTTATAAAATTACCA
49247710 AAATACCCT
64 AAATACCCT
49247719 TGTAGGGTAG
Statistics
Matches: 241, Mismatches: 67, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
80 5 0.02
81 228 0.95
82 8 0.03
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAA
ATACCCTCGATTAATA
Found at i:49247732 original size:27 final size:27
Alignment explanation
Indices: 49247648--49247925 Score: 245
Period size: 27 Copynumber: 10.3 Consensus size: 27
49247638 CGATCAATAA
** *
49247648 AATTACCAAAATACCCCTTGT-TTGTAA
1 AATTACCAAAATA-CCCTTGTAGGGTAG
* *** *
49247675 AATTACCAAAATACCCCTG-ATTTTTG
1 AATTACCAAAATACCCTTGTAGGGTAG
49247701 AAATTACCAAAATACCCTTGTAGGGTAG
1 -AATTACCAAAATACCCTTGTAGGGTAG
*** * * *
49247729 AATTATTGAAATACCCCTATAGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
49247756 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
49247783 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*** * *
49247810 AATTACTGTAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
49247837 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * *
49247864 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*** * * *
49247891 AATTACCGGGATACTCTTGTGGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
49247918 AATTACCA
1 AATTACCA
49247926 TTTTGCCCCT
Statistics
Matches: 204, Mismatches: 44, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
26 8 0.04
27 193 0.95
28 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:49247733 original size:81 final size:81
Alignment explanation
Indices: 49247648--49247925 Score: 271
Period size: 81 Copynumber: 3.4 Consensus size: 81
49247638 CGATCAATAA
* * * *** *
49247648 AATTACCAAAATACCCCTTGTTTGTAAAATTACCAAAATACCCCTG-ATTTTTGAAATTACCAAA
1 AATTACCGAAATACCCCTTG-TGGTAAAATTACCAAAATACCCTTGTAAGGTAGAAATTACCAAA
49247712 ATACCCTTGTAGGGTAG
65 ATACCCTTGTAGGGTAG
** *
49247729 AATTATTGAAATACCCCTATAG-GGTAAAATTACCGAAATACCCTTGTAAGGTAG-AATTACCAA
1 AATTACCGAAATACCCCT-T-GTGGTAAAATTACCAAAATACCCTTGTAAGGTAGAAATTACCAA
49247792 AATACCCTTGTAGGGTAG
64 AATACCCTTGTAGGGTAG
* * * * * *
49247810 AATTACTGTAATACCCC-TGTAAGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAA-TACCGA
1 AATTACCGAAATACCCCTTGT--GGTAAAATTACCAAAATACCCTTGTAAGGTAGAAATTACCAA
*
49247873 AATACCCCTGTAGGGTAG
64 AATACCCTTGTAGGGTAG
** *
49247891 AATTACCGGGATA-CTCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTTGT--GGTAAAATTACCA
49247926 TTTTGCCCCT
Statistics
Matches: 163, Mismatches: 26, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 2 0.01
81 152 0.93
82 6 0.04
83 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (81 bp):
AATTACCGAAATACCCCTTGTGGTAAAATTACCAAAATACCCTTGTAAGGTAGAAATTACCAAAA
TACCCTTGTAGGGTAG
Found at i:49248360 original size:6 final size:6
Alignment explanation
Indices: 49248349--49248383 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
49248339 ATTCTGTCAC
49248349 CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
49248384 AATGTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:49250253 original size:46 final size:46
Alignment explanation
Indices: 49250183--49250358 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
49250173 TGTAACCCGC
* *
49250183 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* * * *
49250229 CCATAAGTGAACTCGGGCTTAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCACAT
* * ** *
49250279 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
49250322 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
49250359 TGACCAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 3 0.03
45 2 0.02
46 60 0.57
47 24 0.23
48 2 0.02
49 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:49255994 original size:4 final size:5
Alignment explanation
Indices: 49255966--49255991 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49255956 CATAGGATTA
49255966 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
49255992 CTTCTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:49256635 original size:74 final size:74
Alignment explanation
Indices: 49256514--49256662 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
49256504 TTTGGTAAGG
*
49256514 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTTCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
*
49256579 GTGGGAGAC
66 GTGAGAGAC
49256588 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
49256653 GTGAGAGAC
66 GTGAGAGAC
49256662 T
1 T
49256663 TTATTGGCGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.34
Consensus pattern (74 bp):
TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
GTGAGAGAC
Found at i:49256662 original size:40 final size:39
Alignment explanation
Indices: 49256544--49256662 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 39
49256534 CATGTTGCGT
*
49256544 AGACTAAGAATGGTGGTAAATAATTGTAGGTTTCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGT-GG
* * * * * *
49256584 AGACTAAGATTTG-GGT--TTGATTAGCATGTTG-CGT--
1 AGACTAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGG
49256618 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGAG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTG-G
49256658 AGACT
1 AGACT
49256663 TTATTGGCGA
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
34 11 0.19
35 3 0.05
36 6 0.10
37 14 0.24
38 5 0.09
39 3 0.05
40 16 0.28
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.31
Consensus pattern (39 bp):
AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGG
Found at i:49257197 original size:25 final size:25
Alignment explanation
Indices: 49257169--49257219 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
49257159 CTCTTATAAT
*
49257169 GTGAAAATGACCATTTTACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
49257194 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
49257219 G
1 G
49257220 GATATGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:49257274 original size:10 final size:10
Alignment explanation
Indices: 49257259--49257298 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
49257249 CTGTTTTGTA
49257259 CATGATATGC
1 CATGATATGC
49257269 CATGATATGC
1 CATGATATGC
*
49257279 ACCTGATATGC
1 -CATGATATGC
49257290 CATGATATG
1 CATGATATG
49257299 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:49258777 original size:12 final size:12
Alignment explanation
Indices: 49258760--49258785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49258750 ATTCTACCAC
49258760 TTAACTTTTTAG
1 TTAACTTTTTAG
49258772 TTAACTTTTTAG
1 TTAACTTTTTAG
49258784 TT
1 TT
49258786 CTACACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTAACTTTTTAG
Found at i:49263444 original size:27 final size:27
Alignment explanation
Indices: 49263413--49263505 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
49263403 TGGATAAGTT
49263413 GTAGAATTACCAAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
49263439 GATAGAATTATCGAAATACCCCTGTAAG
1 G-TAGAATTACCAAAATACCCCTGTAAG
* * * *
49263467 GTAGAATTACCGAGATACCCTTGTGAG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
49263494 GTAAAATTACCA
1 GTAGAATTACCA
49263506 TTTTGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAAG
Found at i:49264273 original size:31 final size:32
Alignment explanation
Indices: 49264225--49264285 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
49264215 CTCGCTGCAA
*
49264225 TCTGGTGGCTTCACCAC-ATATATATATCTGT
1 TCTGGTGGCCTCACCACAATATATATATCTGT
*
49264256 TCTGGTGGCCT-AGCCACAATATCTATATCT
1 TCTGGTGGCCTCA-CCACAATATATATATCT
49264286 AGTGACTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.04
31 14 0.54
32 11 0.42
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTGT
Found at i:49271717 original size:93 final size:93
Alignment explanation
Indices: 49271558--49271734 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 93
49271548 TATTTGGGCA
* *
49271558 TCCGAACTCGTTGAGTTGAGCTCGAGTTCGTGAAATGTAACAAGGCATCCGAGCTCGTTTAGTTG
1 TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTTG
49271623 AGTCCGAGTTCACTTATGGATGTGAACG
66 AGTCCGAGTTCACTTATGGATGTGAACG
* * *
49271651 TCCGAACTCGTTGAGTTGAG-TCTGAGTTCATGAGATGTAACTAGGCATCTGAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTTGAGCTC-GAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTT
*
49271715 GAGTCCGAGTTCGCTTATGG
65 GAGTCCGAGTTCACTTATGG
49271735 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGTGAACG
Found at i:49271718 original size:47 final size:46
Alignment explanation
Indices: 49271554--49271726 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 46
49271544 TAGATATTTG
* *
49271554 GGCATCCGAACTCGTTGAGTTGAG-CTCGAGTTCGTGAAATGTAACAA
1 GGCATCCGAACTCGTTGAGTTGAGTC-CGAGTTCATGAGATGTAAC-A
* * *
49271601 GGCATCCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGTGAAC-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGT-AACA
*
49271650 -G--TCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC-A
* *
49271694 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
49271727 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 27 0.26
47 55 0.53
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACA
Found at i:49273410 original size:46 final size:46
Alignment explanation
Indices: 49273343--49273471 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
49273333 TGTAACCCGC
* * * * *
49273343 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49273389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
49273435 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49273472 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49275018 original size:49 final size:49
Alignment explanation
Indices: 49274931--49275167 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 49
49274921 GAGGTTAGGG
* **
49274931 GTGTAGTACTAAGTGCAGGCTATTATGTGTACTGGATAATTGGTTGCA-T
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTT-CAGT
* * * *
49274980 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTGGTTCA-GT
* * ** **
49275031 GTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGG-TCATGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTTCA-GT
* *
49275081 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA-T
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGT-TCAGT
* *
49275130 GTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
49275168 GCTTTTGCTA
Statistics
Matches: 157, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 75 0.48
50 47 0.30
51 35 0.22
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTCAGT
Found at i:49275791 original size:23 final size:23
Alignment explanation
Indices: 49275761--49275806 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
49275751 GAAGCTGTCA
49275761 AACAGCAAAATAGGGGAGAATTT
1 AACAGCAAAATAGGGGAGAATTT
49275784 AACAGCAAAATAGGGGAGAATTT
1 AACAGCAAAATAGGGGAGAATTT
49275807 GAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.26, T:0.17
Consensus pattern (23 bp):
AACAGCAAAATAGGGGAGAATTT
Found at i:49279324 original size:40 final size:40
Alignment explanation
Indices: 49279140--49279324 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
49279130 GCTCCTCGTT
* *
49279140 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
49279180 CAAATGCCATCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49279220 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
49279259 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
49279300 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49279325 CATCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49284647 original size:18 final size:18
Alignment explanation
Indices: 49284624--49284658 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49284614 ATTTCAGAAT
*
49284624 TATGGGCCCACATGCCCC
1 TATGGGCCCACACGCCCC
49284642 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
49284659 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
TATGGGCCCACACGCCCC
Found at i:49296203 original size:46 final size:45
Alignment explanation
Indices: 49296150--49296317 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 45
49296140 ATTGTGAACT
49296150 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTA-GAGAGCC
* *
49296196 AGTGTAAGACCATGTCT-GAGACATGGCAT---CAACATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAG-GACAT-GCATCGGCCACATT-AGA-GA--GCC
* * *
49296244 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA--AGACGTAAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGA-G--AGCC
49296290 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTAGGACATGCATC
49296318 AGCTACGAGA
Statistics
Matches: 102, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
45 8 0.08
46 50 0.49
47 24 0.24
48 17 0.17
49 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGAGAGCC
Found at i:49329066 original size:46 final size:45
Alignment explanation
Indices: 49329013--49329180 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 45
49329003 ATTGTGAACT
49329013 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTA-GAGAGCC
* *
49329059 AGTGTAAGACCATGTCT-GAGACATGGCAT---CAACATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAG-GACAT-GCATCGGCCACATT-AGA-GA--GCC
* * *
49329107 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA--AGACGTAAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGA-G--AGCC
49329153 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTAGGACATGCATC
49329181 AGCTACGAGA
Statistics
Matches: 102, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
45 8 0.08
46 50 0.49
47 24 0.24
48 17 0.17
49 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGAGAGCC
Found at i:49336976 original size:20 final size:20
Alignment explanation
Indices: 49336960--49337039 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
49336950 TTCTGCAATA
*
49336960 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
* ** * *
49336980 ATAAACACCAAAGTG-TAAT
1 AGAGGCACCAAAGTGCAAAC
**
49336999 AGAGGCACTGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
49337019 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
49337039 A
1 A
49337040 AAGGGACCGA
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
19 12 0.27
20 32 0.73
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:49337052 original size:20 final size:20
Alignment explanation
Indices: 49336962--49337052 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
49336952 CTGCAATAAG
49336962 AGGCACCGAAGTGCAAACATA
1 AGGCACCGAAGTGCAAACA-A
* * * * *
49336983 A-ACACCAAAGTG-TAATAG
1 AGGCACCGAAGTGCAAACAA
* *
49337001 AGGCACTGAAGTGCAAACAG
1 AGGCACCGAAGTGCAAACAA
*
49337021 AGGCACCAAAGTGCAAACAA
1 AGGCACCGAAGTGCAAACAA
*
49337041 AGGGACCGAAGT
1 AGGCACCGAAGT
49337053 TTAATCCTGT
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
18 1 0.02
19 11 0.21
20 40 0.75
21 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAACAA
Found at i:49349347 original size:24 final size:24
Alignment explanation
Indices: 49349296--49349356 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
49349286 AATATCCAAT
* * *
49349296 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
49349320 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
49349344 GCACTACGTGTGC
1 GCACTATGTGTGC
49349357 AAATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:49357914 original size:27 final size:27
Alignment explanation
Indices: 49357848--49357916 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
49357838 ATCGGCACAC
* *
49357848 AGCCATGGGTAAATATGATTGACATAG
1 AGCCATCGGTAAATATGATAGACATAG
* * * *
49357875 AGTCATCGATAAATATGATAGGCATAT
1 AGCCATCGGTAAATATGATAGACATAG
*
49357902 AGCCATTGGTAAATA
1 AGCCATCGGTAAATA
49357917 AGATTTGCAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (27 bp):
AGCCATCGGTAAATATGATAGACATAG
Found at i:49358327 original size:27 final size:27
Alignment explanation
Indices: 49358289--49358487 Score: 165
Period size: 27 Copynumber: 7.4 Consensus size: 27
49358279 CAAAACAGTC
**
49358289 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACAATACAGGGGTATTTCGATA
* *
49358316 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACAATACAGGGGTATTTCGATA
* * * *
49358343 ACTTTACAA-ACTGGGGGTATATCGGTA
1 ATTTTACAATAC-AGGGGTATTTCGATA
* ** *
49358370 ATTTTAAAAT-TTGAGGGTATTTCGGTA
1 ATTTTACAATACAG-GGGTATTTCGATA
**
49358397 ATTTTACAA-ACTAGGGGTATTTTAATA
1 ATTTTACAATAC-AGGGGTATTTCGATA
*
49358424 ATTTTACAATTC-GAGGGTATTTCGATA
1 ATTTTACAATACAG-GGGTATTTCGATA
* * *
49358451 ATTTTACAATTCAAGGGTATTTCGGTA
1 ATTTTACAATACAGGGGTATTTCGATA
49358478 ATTTTA-AATA
1 ATTTTACAATA
49358488 GTTTGGCCTA
Statistics
Matches: 139, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.05
27 130 0.94
28 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACAATACAGGGGTATTTCGATA
Found at i:49358349 original size:54 final size:54
Alignment explanation
Indices: 49358301--49358483 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 54
49358291 TTTACCCTAC
* * * *
49358301 AGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAACTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
* * * * * *
49358355 GGGGGTATATCGGTAATTTTAAAATTTGAGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
** *
49358409 AGGGGTATTTTAATAATTTTACAATTCGAGGGTATTTCGATAATTTTAC-AATT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
* *
49358462 CAAGGGTATTTCGGTAATTTTA
1 -AGGGGTATTTCGATAATTTTA
49358484 AATAGTTTGG
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
53 3 0.03
54 102 0.97
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
Found at i:49358430 original size:81 final size:81
Alignment explanation
Indices: 49358303--49358483 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
49358293 TACCCTACAG
* * * *
49358303 GGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAACTTTACAAACT-GGGGGTATATCG
1 GGGTATTTCGGTAATTTTACACAACAAGGGTATTTCAATAACTTTAC-AACTCGAGGGTATATCG
* **
49358367 GTAATTTTAAAATTTGA
65 ATAATTTTAAAATTCAA
* * * * *
49358384 GGGTATTTCGGTAATTTTACA-AACTAGGGGTATTTTAATAATTTTACAATTCGAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACACAAC-AAGGGTATTTCAATAACTTTACAACTCGAGGGTATATCG
*
49358448 ATAATTTTACAATTCAA
65 ATAATTTTAAAATTCAA
49358465 GGGTATTTCGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
49358484 AATAGTTTGG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.06
81 80 0.94
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACACAACAAGGGTATTTCAATAACTTTACAACTCGAGGGTATATCGA
TAATTTTAAAATTCAA
Found at i:49359888 original size:24 final size:25
Alignment explanation
Indices: 49359825--49359888 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
49359815 CCTTAAATCT
***
49359825 CTCCATAAATCACT-CATTGATTTT
1 CTCCATAAATCACTCCATTGATACA
*
49359849 CTCC-TAATATCTCTCCA-TGATACA
1 CTCCATAA-ATCACTCCATTGATACA
49359873 CTCCATAAATCACTCC
1 CTCCATAAATCACTCC
49359889 TACCTCTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 3 0.09
24 24 0.75
25 5 0.16
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.34
Consensus pattern (25 bp):
CTCCATAAATCACTCCATTGATACA
Found at i:49361769 original size:38 final size:37
Alignment explanation
Indices: 49361718--49361792 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
49361708 TAATCACTTC
* *
49361718 ACTTTGCTTAAGGGTTCGTGTTAAAACACAAGCAAATT
1 ACTTTGCTTAAGGGCTCATG-TAAAACACAAGCAAATT
*
49361756 ACTTTGCTTAAGGGCTCATGTAAAACACAAGCGAATT
1 ACTTTGCTTAAGGGCTCATGTAAAACACAAGCAAATT
49361793 TGAAGGGGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (37 bp):
ACTTTGCTTAAGGGCTCATGTAAAACACAAGCAAATT
Found at i:49366611 original size:47 final size:47
Alignment explanation
Indices: 49366545--49366954 Score: 595
Period size: 47 Copynumber: 8.7 Consensus size: 47
49366535 CCCTTCGGGA
* * * * * * *
49366545 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * * *
49366592 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49366639 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49366686 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49366733 CTTATCACATATATACACTTTCACATTTATCACATCGTCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49366780 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49366827 CTTATAACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49366874 CTTATCACATATATACACTTTCACATTCAACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49366921 CTTATCACATATATACACTTTCACATTCATCACA
1 CTTATCACATATATACACTTTCACATTCATCACA
49366955 AATATAGATT
Statistics
Matches: 338, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 338 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49369865 original size:40 final size:40
Alignment explanation
Indices: 49369820--49370094 Score: 397
Period size: 40 Copynumber: 6.9 Consensus size: 40
49369810 CGAATACACG
* * * *
49369820 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
49369860 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49369900 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49369940 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49369980 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49370020 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49370060 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
49370095 TTATAGTAAC
Statistics
Matches: 213, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49370121 original size:40 final size:40
Alignment explanation
Indices: 49369837--49370254 Score: 309
Period size: 40 Copynumber: 10.5 Consensus size: 40
49369827 CATGATTGCT
* * *
49369837 CTTCGGGACCTAGCCCGGATATA--ACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTAGCACAAATGC
** * * *
49369876 TCTTCGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * * **
49369916 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * * * **
49369956 TCTTCAGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * *
49369996 TCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * * **
49370036 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* *
49370076 TCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * * * *
49370117 CTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
49370157 CTTCGGG-CTTAGCCCGGA-ATTAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGC
* * * *
49370196 CTTC-GGATTTTAGTCCGGATATGGTCACTTAGCACAAA-GC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACAAATGC
*
49370236 CTTCAGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
49370255 CATCATTCGA
Statistics
Matches: 328, Mismatches: 42, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.01
39 30 0.09
40 272 0.83
41 24 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:49370121 original size:80 final size:79
Alignment explanation
Indices: 49369820--49370216 Score: 372
Period size: 80 Copynumber: 5.0 Consensus size: 79
49369810 CGAATACACG
* * * * *
49369820 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGG-ATATAACACCAGCACGAATGCTCTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTATAT-A-ACTAGCACGAATGCTCTTCGGA
** * *
49369884 GTTTAGCACGGATATA
64 ACTTAGCCCGGATACA
* * * * * *
49369900 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCAGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TATATAACTAGCACGAATGCTCTTCGGAA
49369965 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
* *
49369980 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TATATAACTAGCACGAATGCTCTTCGGAA
49370045 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
* * *
49370060 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TATA-TAACTAGCACGAATGCTCTTCGGA
* * **
49370124 ACTTAACCCAGATTTA
64 ACTTAGCCCGGATACA
* * ** * * *
49370140 GTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAATTAGTAACTTGCACAAATGC-CTTCGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTA-TA-TAACTAGCACGAATGCTCTTCGG
** *
49370202 ATTTTAGTCCGGATA
63 AACTTAGCCCGGATA
49370217 TGGTCACTTA
Statistics
Matches: 270, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.00
79 42 0.16
80 199 0.74
81 25 0.09
82 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTATATAACTAGCACGAATGCTCTTCGGAAC
TTAGCCCGGATACA
Done.