Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 190 of 438
Found at i:58908096 original size:47 final size:48
Alignment explanation
Indices: 58908020--58908294 Score: 165
Period size: 47 Copynumber: 5.8 Consensus size: 48
58908010 AGGGTATAAT
* **
58908020 GCCGACGCCATGTCCCAGACATGGCCTTACACTAGCTCAT-CCATCGA-
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT-ATAAAATCGAG
* ** *
58908067 GTCGGTGCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTAT-AAAATCGAG
* * * * *
58908116 GCCGACGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCAT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTAT-A-AAATCGAG
* * ** * * * *
58908166 GCCAATGCCATGTCCCAGACATTCTCTTACACTGACACCTCT-ATA-CG-T
1 GCCGACGCCATGTCCCAGACATGGTCTTACACT---AGCTATAAAATCGAG
* * * * **
58908214 GCCGATGACATGTCCCAGACAT-GTCGTACACTGGCT-TACATCTCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTATA-AAATCGAG
*
58908261 GCC-AAG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
58908295 CCCGTCTCAA
Statistics
Matches: 181, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 28 0.15
46 6 0.03
47 43 0.24
48 26 0.14
49 35 0.19
50 36 0.20
53 4 0.02
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (48 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTATAAAATCGAG
Found at i:58908194 original size:50 final size:49
Alignment explanation
Indices: 58908072--58908198 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 49
58908062 ATCGAGTCGG
* *
58908072 TGCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCCAGGCCAA
* * * * * * *
58908121 CGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAACTAT-AAAAATCCAGGCCAA
**
58908171 TGCCATGTCCCAGACATTCTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
58908199 GACACCTCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 30 0.47
50 34 0.53
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCCAGGCCAA
Found at i:58919012 original size:43 final size:42
Alignment explanation
Indices: 58918914--58919038 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 42
58918904 CATAAAGCTC
* ** *
58918914 ATACAATGTC-ATATCCCAGACATGGTCTTACACAAAATCAT
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
* *
58918955 ATA-ATGATGCCAATGTCCCAGACATGGTTTTACACGTAATCACA
1 ATACA--ATGTCAATGTCCCAGACATGGTCTTACACGTAATCA-A
** *
58918999 ATACAATGTCAATGTCCTTGACATGGTCTTACATGTAATC
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATC
58919039 TCATCTCTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 4 0.06
43 56 0.82
44 3 0.04
45 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:58919230 original size:35 final size:35
Alignment explanation
Indices: 58919164--58919230 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
58919154 TCCATAGCAG
* **
58919164 TTCAATGACAAATAAGCATATATAATTCAATTCAA
1 TTCAATAACAAATAAGCATATATAACACAATTCAA
* * *
58919199 TTCAATAATAAATAAGCATTTGTAACACAATT
1 TTCAATAACAAATAAGCATATATAACACAATT
58919231 TAAATACGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
TTCAATAACAAATAAGCATATATAACACAATTCAA
Found at i:58927294 original size:43 final size:43
Alignment explanation
Indices: 58927190--58927333 Score: 150
Period size: 43 Copynumber: 3.3 Consensus size: 43
58927180 TATCCCAGAT
* * * *
58927190 ATGGTCTTACATGTTATCTCATATCGGTGCCAATAG-CCC-AAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAAT-GTCCCAAAC
* * *
58927232 TATGGTCTTAGACGAAATCACATAACGATGCCAATGTCCCAAAC
1 -ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
* * *
58927276 ATGGTCTTACGTGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCCAAAC
58927319 ATGGTCTTACATGTA
1 ATGGTCTTACATGTA
58927334 GCCACATGTC
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 79 0.94
44 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
Found at i:58932043 original size:40 final size:40
Alignment explanation
Indices: 58931976--58932152 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
58931966 ACCCAAGTAT
*
58931976 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
58932015 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
58932055 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
58932095 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
58932135 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
58932153 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:58940024 original size:40 final size:40
Alignment explanation
Indices: 58939957--58940133 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
58939947 ACCCAAGTAT
*
58939957 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
58939996 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
58940036 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
58940076 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
58940116 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
58940134 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:58941069 original size:40 final size:40
Alignment explanation
Indices: 58941000--58941176 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
58940990 ACCCAAGTAT
*
58941000 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
58941039 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
58941079 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * * *
58941119 CTTTGGGACATAGCCCGGATATAGCAACTCGTACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
58941159 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
58941177 TTATCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:58942113 original size:40 final size:40
Alignment explanation
Indices: 58942061--58942147 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
58942051 GATTTAGCCG
58942061 GATATAACAACTCGCACAAATGCCTTCGGCTCTTAGCCAA
1 GATATAACAACTCGCACAAATGCCTTCGGCTCTTAGCCAA
* * * **
58942101 GATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGCTCTTAGCCAA
58942141 GATATAA
1 GATATAA
58942148 TCTTTATGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGCTCTTAGCCAA
Found at i:58942762 original size:2 final size:2
Alignment explanation
Indices: 58942755--58942790 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
58942745 TTAAATTGCC
58942755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58942791 CTACATAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58951212 original size:42 final size:43
Alignment explanation
Indices: 58951151--58951267 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
58951141 ATAGGATTTC
* *
58951151 CGATATCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATCTGATTT-CGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
58951195 CG-TATCTGATTTCGTGTAAGACCCTGTCTAGGATAGTGGCAT
1 CGATATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * * *
58951237 CGATGTTTGATTACATGTAAGACCACGTCTG
1 CGATATCTGATTTCGTGTAAGACCATGTCTG
58951268 AGACGCCGAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.47
43 30 0.50
44 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:58951259 original size:43 final size:42
Alignment explanation
Indices: 58951167--58951266 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
58951157 CTGTTTTGCG
* * * *
58951167 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATCTGATTACA
* * * *
58951209 TGTAAGACCCTGTCTAGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCG-TATCTGATTACA
*
58951252 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
58951267 GAGACGCCGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.55
43 21 0.45
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATCTGATTACA
Found at i:58954798 original size:20 final size:19
Alignment explanation
Indices: 58954772--58954820 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
58954762 CCTGTCTAAA
58954772 TTTTTTTATTTTTATGTAT
1 TTTTTTTATTTTTATGTAT
*
58954791 TATTTTTTA-TTTTATTTAT
1 T-TTTTTTATTTTTATGTAT
*
58954810 TTATTTTATTT
1 TTTTTTTATTT
58954821 ATTTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTTATGTAT
Found at i:58954810 original size:4 final size:4
Alignment explanation
Indices: 58954790--58954839 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
58954780 TTTTTATGTA
*
58954790 TTAT TT-T TTATT TTAT TTAT TTATT TTAT TTAT TTAT TTAC TTA- TTAT
1 TTAT TTAT TTA-T TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT
58954838 TT
1 TT
58954840 CCTTTGTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
3 6 0.15
4 27 0.66
5 8 0.20
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:58954812 original size:13 final size:13
Alignment explanation
Indices: 58954790--58954828 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
58954780 TTTTTATGTA
58954790 TTATTT-TTTATT
1 TTATTTATTTATT
58954802 TTATTTATTTATT
1 TTATTTATTTATT
58954815 TTATTTATTTATT
1 TTATTTATTTATT
58954828 T
1 T
58954829 ACTTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:58961928 original size:40 final size:40
Alignment explanation
Indices: 58961873--58962040 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
58961863 TGAATGATAC
*
58961873 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
58961913 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * ** *
58961953 CCGGGCTAAGACCCGAAGGCA-TTAGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTA-TGCTAGTGATTATAT
* * * * * *
58961993 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
58962033 CC-GGCTAA
1 CCGGGCTAA
58962041 ATTCCGAAGA
Statistics
Matches: 102, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
39 7 0.07
40 91 0.89
41 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:58962011 original size:80 final size:80
Alignment explanation
Indices: 58961873--58962040 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
58961863 TGAATGATAC
* * ** *
58961873 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
58961937 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
58961953 CCGGGCTAAGACCCGAAGGCA-TTAGTGCAAGTTACCAAATCCGGGTTAAGACCTGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTA-TGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
58962017 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
58962033 CC-GGCTAA
1 CCGGGCTAA
58962041 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 9 0.12
80 63 0.84
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:58970319 original size:44 final size:44
Alignment explanation
Indices: 58970175--58970820 Score: 452
Period size: 44 Copynumber: 14.3 Consensus size: 44
58970165 ATCCTATGCT
*
58970175 CTGAAGTTGCAGTGGGACAGATTGAAGTCATCGTAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAG----C-TA-CAAATCTTATCTCC
** * * * *
58970225 CCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
*
58970268 TTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * * *
58970312 CTGAAGTTGCAGTGGAGCAGATTAAAGTTAGCAAATCTTATTTTC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * *
58970357 TTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATT---G----AAGCTACAAATCTTATCTCC
* ** * * *
58970408 CTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* *
58970452 CTGAAGTTACAGTAGAGA-AGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGA-ACAGATTGAAGCTACAAATCTTATCTCC
* * ** * *
58970496 CTAAAGTTACAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * *
58970541 CTGAAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * *
58970585 CTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * * * * * *
58970630 CTGAAGTTGCAATAGAGCAGATTAAAACCATAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
** * * * * *
58970674 CAAAAGTTACAGTGGAGCAGATTAAAGCCATAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * * * * *
58970718 CTGAAATTACAGT-GAAGTAGATTAAAACTACAAATCTCATATCC
1 CTGAAGTTGCAGTGGAA-CAGATTGAAGCTACAAATCTTATCTCC
* * * * ** * ** * * *
58970762 TTGAGGTTGTAGCGGAGTAAATTGAAATTACAATTCCTATATCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
58970806 CTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGG
58970821 GTTGGAATGA
Statistics
Matches: 480, Mismatches: 101, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
43 38 0.08
44 275 0.57
45 109 0.23
46 1 0.00
50 21 0.04
51 30 0.06
52 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
Found at i:58970389 original size:89 final size:89
Alignment explanation
Indices: 58970211--58970700 Score: 488
Period size: 89 Copynumber: 5.5 Consensus size: 89
58970201 GTCATCGTAG
* * * * *
58970211 CAAATCTTATCTCCCCAAAGTTGTAGTGGAGCAGATTGAAA-CTA--TAATCTTATCTCCTTGAA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGATAGCAAATCTTATTTCCTTGAA
*
58970273 GTTGCAGTGGAACAGATTGAAGCTA
65 GTTGCAGTAGAACAGATTGAAGCTA
* * *
58970298 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTAGCAAATCTTATTTTCTTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCTTGAAG
* * *
58970363 TTGTAGTGGAACAGATTAAAGTTACAAGTTA
66 TTGCAGTAGAACAGATT---G----AAGCTA
* ** ** * *
58970394 CAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTA-CAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCTTGAAG
*
58970458 TTACAGTAGAGA-AGATTGAAGCTA
66 TTGCAGTAGA-ACAGATTGAAGCTA
* * * *
58970482 CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCTTGAAG
*
58970547 TTGCAGTAGAATAGATTGAAGCTA
66 TTGCAGTAGAACAGATTGAAGCTA
* * * * * *
58970571 TAAATCTTTTCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCT-CTCTGAA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCT-TGAA
* * * * *
58970635 GTTGCAATAGAGCAGATTAAAACCA
65 GTTGCAGTAGAACAGATTGAAGCTA
* * * *
58970660 TAAATCTTATCTCTCAAAAGTTACAGTGGAGCAGATTAAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
58970701 CCATAAATCT
Statistics
Matches: 338, Mismatches: 51, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
86 3 0.01
87 36 0.11
88 45 0.13
89 179 0.53
92 2 0.01
95 30 0.09
96 43 0.13
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (89 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCTTGAAG
TTGCAGTAGAACAGATTGAAGCTA
Found at i:58970415 original size:51 final size:52
Alignment explanation
Indices: 58970336--58970440 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 52
58970326 GAGCAGATTA
* * * * ** *
58970336 AAGTTAGCAAATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTAAAGTTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
*
58970388 AAGTTA-CAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
58970439 AA
1 AA
58970441 ATCTTATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 39 0.87
52 6 0.13
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (52 bp):
AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
Found at i:58970569 original size:133 final size:133
Alignment explanation
Indices: 58970208--58970754 Score: 526
Period size: 133 Copynumber: 4.1 Consensus size: 133
58970198 GAAGTCATCG
* * * * * *
58970208 TAGCAAATCTTATCTCCCCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCCTTGA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
* * *
58970272 AGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
66 AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAA
*
58970337 AGT
131 AGC
* * * * * * *
58970340 TAGCAAATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATT
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA---AC----TACAAATCTTATC
* * * * *
58970405 TCCCTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCCCTGAAGTTACAGTAGAGA
59 TCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGC
*
58970470 AGATTGAAGC
124 AGATTAAAGC
* *
58970480 TA-CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGA-TAGCAAATCTTATCTCCCT
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA-ACTA-CAAATCTTATCTCCCT
* * * * * **
58970543 GAAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCCCTGAAGTTGTAGTGGAGCAGATT
64 AAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
* *
58970608 GAAGA
129 AAAGC
* * * * * * * *
58970613 TAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAACCATAAATCTTATCTCTCAAA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
* * * * * * * *
58970678 AGTTACAGTGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAATTACAGTGAAGTAGATTAA
66 AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAA
*
58970743 AAC
131 AGC
58970746 TA-CAAATCT
1 TAGCAAATCT
58970755 CATATCCTTG
Statistics
Matches: 336, Mismatches: 68, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
132 45 0.13
133 146 0.43
134 35 0.10
135 2 0.01
137 1 0.00
139 34 0.10
140 73 0.22
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (133 bp):
TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAA
AGC
Found at i:58972794 original size:41 final size:41
Alignment explanation
Indices: 58972749--58972916 Score: 144
Period size: 41 Copynumber: 4.1 Consensus size: 41
58972739 CCTTCGGAAT
* *
58972749 CAAGCCCGATTCTTAGCACTGGCTCAAAAGCCCTTCAAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCAAGAC
* * *
58972790 CAAGCTCGGATTA-GACCACTGGCTCAAAGGCCCTTCGAA-AC
1 CAAGC-CCGATTATGAGCACTGGCTCAAAAGCCCTTC-AAGAC
* * * * *
58972831 TAAGTCCGGTTATGA-CACTGGCTCTAAAGCCCTTCAAAAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCAAGAC
* ** * * * *
58972871 TAAGTTCGGTTATTAGCACTGGCTCAAAAGCCCATCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCAAGAC
58972912 CAAGC
1 CAAGC
58972917 TCGGATTTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 38 0.37
41 56 0.54
42 7 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (41 bp):
CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCAAGAC
Found at i:58972863 original size:40 final size:41
Alignment explanation
Indices: 58972765--58972908 Score: 161
Period size: 41 Copynumber: 3.5 Consensus size: 41
58972755 CGATTCTTAG
*
58972765 CACTGGCTCAAAAGCCCTTC-AAGACCAAG-CTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGAA-ACTAAGTC-CGG-TTATGAC
*
58972806 CACTGGCTCAAAGGCCCTTCGAAACTAAGTCCGGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATGAC
* * * * *
58972846 CACTGGCTCTAAAGCCCTTCAAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATGAC
*
58972887 CACTGGCTCAAAAGCCCATCGA
1 CACTGGCTCAAAAGCCCTTCGA
58972909 GACCAAGCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
40 38 0.43
41 48 0.54
42 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATGAC
Found at i:58975725 original size:19 final size:21
Alignment explanation
Indices: 58975695--58975737 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
58975685 CTGTCTAATT
58975695 TTTTTTATTTTTATGTA-TTA
1 TTTTTTATTTTTATGTATTTA
*
58975715 TTTTTTA-TTTTATTTATTTA
1 TTTTTTATTTTTATGTATTTA
58975735 TTT
1 TTT
58975738 ACTTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTATTTTTATGTATTTA
Found at i:58980957 original size:2 final size:2
Alignment explanation
Indices: 58980950--58980982 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58980940 TCACTACTGT
58980950 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
58980983 ACAAACATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:58982578 original size:50 final size:50
Alignment explanation
Indices: 58982520--58982622 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
58982510 TGAATCAGAA
*
58982520 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAATTATTAGTC
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTC
*
58982570 CGACTTGGTTGGTCAAATCAATTGGGCTGAGAATTGATTAAGTATTAGTC
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTC
58982620 CGA
1 CGA
58982623 AAAAAGACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (50 bp):
CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTC
Found at i:58984596 original size:17 final size:16
Alignment explanation
Indices: 58984570--58984608 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
58984560 AAAATTTTAA
58984570 TAAAAATTTCAGAAAAT
1 TAAAAATTTCA-AAAAT
*
58984587 TAAAATTTTCAAAAAT
1 TAAAAATTTCAAAAAT
58984603 TAAAAA
1 TAAAAA
58984609 AAAACTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAAAATTTCAAAAAT
Found at i:58988419 original size:38 final size:40
Alignment explanation
Indices: 58988303--58988465 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 40
58988293 TCTTCGGAAT
* * *
58988303 TTAGCCGGATATAA-CCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * ** *
58988342 TTAACCCGGATTTGGT-AACTTGCACAAATGCCTTCGGGTC
1 TT-AGCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * *
58988382 TTAGCC-GATATAA-CAACTCGCACGAATGCCATCGGGTC
1 TTAGCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* *
58988420 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAG-CCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
58988460 TTAGCC
1 TTAGCC
58988466 CGGGTATCAT
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
38 29 0.30
39 9 0.09
40 59 0.60
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:58988428 original size:78 final size:79
Alignment explanation
Indices: 58988294--58988465 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 79
58988284 AAACCGAGTT
* * * * * **
58988294 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCATCGGGTCTTAACCCGGATATAATA
*
58988359 ACTTGCACAAATGC
66 ACTAGCACAAATGC
* ** *
58988373 CTTCGGGTCTTAGCC-GATATAACAACTCGCACGAA-TGCCATCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCGGATATAACAACAAGCAC-AATTGCCATCGGGTCTTAACCCGGATATAAT
* *
58988436 CACTAGCATAAATGC
65 AACTAGCACAAATGC
58988451 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
58988466 CGGGTATCAT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 63 0.82
79 14 0.18
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCATCGGGTCTTAACCCGGATATAATA
ACTAGCACAAATGC
Found at i:58996458 original size:40 final size:40
Alignment explanation
Indices: 58996409--58996576 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
58996399 TCTTCGGAAT
* * *
58996409 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
58996448 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
58996488 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
58996528 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
58996568 TTAGCCCGG
1 TTAGCCCGG
58996577 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:59004557 original size:40 final size:40
Alignment explanation
Indices: 59004508--59004675 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59004498 TCTTCGGAAT
* * *
59004508 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
59004547 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59004587 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59004627 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
59004667 TTAGCCCGG
1 TTAGCCCGG
59004676 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:59007255 original size:20 final size:21
Alignment explanation
Indices: 59007230--59007268 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59007220 ATTATTTAAT
59007230 AATATT-TA-TAATATTTTTAC
1 AATATTATACTAA-ATTTTTAC
59007250 AATATTATACTAAATTTTT
1 AATATTATACTAAATTTTT
59007269 GTCTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTATACTAAATTTTTAC
Found at i:59008597 original size:20 final size:20
Alignment explanation
Indices: 59008572--59008827 Score: 271
Period size: 20 Copynumber: 12.8 Consensus size: 20
59008562 AATGTATCTA
59008572 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
59008592 TTTGCACTACGATGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
* *
59008612 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
59008632 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* **
59008652 -TTGGACTTCAATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
59008671 TATGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
59008691 TTTGTACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
59008711 TTTGTACTTCCGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
59008731 TATGCACTTCAGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
59008751 TTTGCACTTTGGTGCCTCTT
1 TTTGCACTTCGGTGCCTCTG
* * *
59008771 TTTGGATTTCGATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* ** *
59008791 TTTGCACTTCAGCACCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
59008811 TTTGCACTTCAGTGCCT
1 TTTGCACTTCGGTGCCT
59008828 TTATATGCAC
Statistics
Matches: 194, Mismatches: 41, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
19 15 0.08
20 179 0.92
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:59008836 original size:20 final size:20
Alignment explanation
Indices: 59008793--59008849 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
59008783 TGCCTCTGTT
** * *
59008793 TGCACTTCAGCACCTCTATT
1 TGCACTTCAGTGCCTTTATA
59008813 TGCACTTCAGTGCCTTTATA
1 TGCACTTCAGTGCCTTTATA
* *
59008833 TGCACTTTAATGCCTTT
1 TGCACTTCAGTGCCTTT
59008850 GTTCAGCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.40
Consensus pattern (20 bp):
TGCACTTCAGTGCCTTTATA
Found at i:59019729 original size:27 final size:28
Alignment explanation
Indices: 59019699--59019768 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
59019689 ATAATAAGTC
*
59019699 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
59019726 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
59019754 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59019769 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59027802 original size:27 final size:28
Alignment explanation
Indices: 59027772--59027841 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
59027762 ATAATAAGTC
*
59027772 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
59027799 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
59027827 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59027842 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59036300 original size:40 final size:40
Alignment explanation
Indices: 59036217--59036384 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
59036207 AAATTGAATG
* * * ** *
59036217 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
59036257 ATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
59036297 ATATCCGGGCTAAGACCCGAAGAC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
59036337 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
59036377 ATATCCGG
1 ATATCCGG
59036385 TTATATTCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 4 0.04
40 96 0.94
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:59036351 original size:80 final size:80
Alignment explanation
Indices: 59036217--59036368 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
59036207 AAATTGAATG
* * *
59036217 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
59036282 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* ** *
59036297 ATATCCGGGCTAAGACCCGAAGAC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
59036360 CATTTGTGC
64 CAATTGTGC
59036369 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.06
80 58 0.94
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:59038771 original size:40 final size:41
Alignment explanation
Indices: 59038682--59038831 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
59038672 CGCTGACTCA
* *
59038682 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
59038723 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
59038763 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
59038804 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
59038832 TAAACCCCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:59042201 original size:28 final size:28
Alignment explanation
Indices: 59042122--59042203 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
59042112 CTATGAACGA
* *
59042122 CACTTAGTGTGCGAGATATTGAGTGTGG
1 CACTTAGTGTGCGAGATATTAAGTATGG
* * *
59042150 CACTGAGTGTACGAGATATCAAGTATGG
1 CACTTAGTGTGCGAGATATTAAGTATGG
**
59042178 CACTTAGTGTGCGAGGCATTAAGTAT
1 CACTTAGTGTGCGAGATATTAAGTAT
59042204 TCAACGGCAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTAAGTATGG
Found at i:59050162 original size:2 final size:2
Alignment explanation
Indices: 59050155--59050180 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59050145 TTCAGCCTAT
59050155 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
59050181 CACTAGCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59060702 original size:40 final size:39
Alignment explanation
Indices: 59060647--59060783 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 39
59060637 GTAACTTGCA
* * **
59060647 TTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAAC-ACTAGCATAAATGCC
* * *
59060687 TTCGGGTCTTAGCCCGGATATAATGACTAGCATAAATGTC
1 TTCGGGACTTAGCCCGGATATAA-CACTAGCATAAATGCC
*
59060727 TTCTGGACTTAGCCCGGATATAATCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAA-CACTAGCATAAATGCC
59060767 TTCGGGACTTAGCCCGG
1 TTCGGGACTTAGCCCGG
59060784 GTATCATTCA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
TTCGGGACTTAGCCCGGATATAACACTAGCATAAATGCC
Found at i:59064168 original size:40 final size:40
Alignment explanation
Indices: 59064123--59064289 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
59064113 CGGAATATAA
*
59064123 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
59064163 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59064203 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
59064243 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59064282 CCGGATAT
1 CCGGATAT
59064290 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59071879 original size:40 final size:40
Alignment explanation
Indices: 59071830--59072037 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
59071820 TCTTCGGAAT
* * *
59071830 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
59071869 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
59071909 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
59071949 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
59071989 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
59072029 TTAGCCCGG
1 TTAGCCCGG
59072038 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59075631 original size:26 final size:26
Alignment explanation
Indices: 59075591--59075649 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
59075581 AAATACATCG
59075591 AATTA-TTTTTATATTGGATAAATAT
1 AATTATTTTTTATATTGGATAAATAT
* *
59075616 AATTATTTTTTATATTGTATAGATAT
1 AATTATTTTTTATATTGGATAAATAT
59075642 AATTATTT
1 AATTATTT
59075650 CTATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (26 bp):
AATTATTTTTTATATTGGATAAATAT
Found at i:59076143 original size:25 final size:27
Alignment explanation
Indices: 59076099--59076152 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
59076089 TGTTTTAACA
59076099 TTATTTTAAAAAATCATT-AATTT-TT
1 TTATTTTAAAAAATCATTAAATTTATT
* **
59076124 TTATTTTTAAAAATTTTTAAATTTATT
1 TTATTTTAAAAAATCATTAAATTTATT
59076151 TT
1 TT
59076153 TAAATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 5 0.21
27 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TTATTTTAAAAAATCATTAAATTTATT
Found at i:59076153 original size:12 final size:12
Alignment explanation
Indices: 59076123--59076159 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59076113 CATTAATTTT
59076123 TTTATTTTTAAA
1 TTTATTTTTAAA
*
59076135 --AATTTTTAAA
1 TTTATTTTTAAA
59076145 TTTATTTTTAAA
1 TTTATTTTTAAA
59076157 TTT
1 TTT
59076160 CTTATAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTATTTTTAAA
Found at i:59077209 original size:11 final size:11
Alignment explanation
Indices: 59077188--59077245 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 11
59077178 CATGTTTTTT
59077188 AAATAATTATAA
1 AAAT-ATTATAA
59077200 AAATATTAT-A
1 AAATATTATAA
*
59077210 AAATATTATTTTA
1 AAATATTA--TAA
*
59077223 AAAT-TTATTA
1 AAATATTATAA
59077233 AAA-ATTATAA
1 AAATATTATAA
59077243 AAA
1 AAA
59077246 ATAATATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
10 23 0.56
11 5 0.12
12 8 0.20
13 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTATAA
Found at i:59077213 original size:22 final size:21
Alignment explanation
Indices: 59077188--59077245 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
59077178 CATGTTTTTT
59077188 AAATAATTATAAAAATATTATA
1 AAATAATTATAAAAAT-TTATA
* *
59077210 AAAT-ATTATTTTAAAATTTATT
1 AAATAATTA--TAAAAATTTATA
59077232 AAA-AATTATAAAAA
1 AAATAATTATAAAAA
59077246 ATAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.17
21 4 0.13
22 15 0.50
23 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAATTATAAAAATTTATA
Found at i:59077224 original size:13 final size:12
Alignment explanation
Indices: 59077193--59077238 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
59077183 TTTTTAAATA
*
59077193 ATTATAAAA-AT
1 ATTATAAAATTT
59077204 ATTATAAAATATT
1 ATTATAAAAT-TT
*
59077217 ATTTTAAAATTT
1 ATTATAAAATTT
59077229 ATTA-AAAATT
1 ATTATAAAATT
59077239 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 15 0.50
12 5 0.17
13 10 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTATAAAATTT
Found at i:59077253 original size:22 final size:21
Alignment explanation
Indices: 59077186--59077245 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
59077176 GACATGTTTT
59077186 TTAAATAATTATAAAAATATTA
1 TTAAA-AATTATAAAAATATTA
*
59077208 -TAAAATATTATTTTAAAAT-TTA
1 TTAAAA-ATTA--TAAAAATATTA
59077230 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
59077246 ATAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
20 6 0.19
21 8 0.25
22 7 0.22
23 11 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTATAAAAATATTA
Found at i:59077269 original size:35 final size:35
Alignment explanation
Indices: 59077182--59077284 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 35
59077172 CCTAGACATG
*
59077182 TTTTTTAAATAATTA-TAAAAA-TATTATAAAATATTA
1 TTTTTTAAAT--TTATTAAAAATTA-TATAAAATAATA
* *
59077218 -TTTTAAAATTTATTAAAAATTATAAAAAATAATA
1 TTTTTTAAATTTATTAAAAATTATATAAAATAATA
*
59077252 TTTTTTAAATTTATTAAAAATTATTTAAAATAA
1 TTTTTTAAATTTATTAAAAATTATATAAAATAA
59077285 CTTCCAGAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 3 0.05
34 16 0.28
35 39 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
TTTTTTAAATTTATTAAAAATTATATAAAATAATA
Found at i:59077631 original size:11 final size:11
Alignment explanation
Indices: 59077583--59077633 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
59077573 ATTACTTATA
*
59077583 AATTTTTTTAT
1 AATTTTTTAAT
*
59077594 AA-TTCTTAAT
1 AATTTTTTAAT
* * *
59077604 AATGTTTAAAC
1 AATTTTTTAAT
59077615 AATTTTTTAAT
1 AATTTTTTAAT
59077626 AATTTTTT
1 AATTTTTT
59077634 CAAAAATCAC
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:59092574 original size:37 final size:37
Alignment explanation
Indices: 59092515--59092660 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
59092505 AGCTCAGACG
* *
59092515 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59092552 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59092589 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59092626 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59092661 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59093069 original size:31 final size:31
Alignment explanation
Indices: 59093034--59093128 Score: 127
Period size: 32 Copynumber: 3.0 Consensus size: 31
59093024 CCCCCCCAAA
59093034 AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
*
59093065 AAAAACCTAACCCCAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAA-CCCAAAAAAAAAAAG-AAAAAG
** *
59093098 AAAAACCTAACAAAAAAAATAAAAATAAAAA
1 AAAAACCTAACCCAAAAAA-AAAAAGAAAAA
59093129 CCTAACCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
31 10 0.18
32 26 0.46
33 20 0.36
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
Found at i:59093112 original size:27 final size:26
Alignment explanation
Indices: 59093050--59093134 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 26
59093040 CTAACCCAAA
*
59093050 AAAAAAAAGAAAAAGAAAAACCTAACCCC
1 AAAAAAAATAAAAAGAAAAACCTAA---C
*
59093079 AAAAAAAAGAAGAAAAAAGAAAAACCTAAC
1 --AAAAAA-AA-TAAAAAGAAAAACCTAAC
*
59093109 AAAAAAAATAAAAATAAAAACCTAAC
1 AAAAAAAATAAAAAGAAAAACCTAAC
59093135 CACCTAACCA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 16 0.33
27 2 0.04
28 6 0.12
30 1 0.02
31 6 0.12
32 2 0.04
33 16 0.33
ACGTcount: A:0.74, C:0.14, G:0.06, T:0.06
Consensus pattern (26 bp):
AAAAAAAATAAAAAGAAAAACCTAAC
Found at i:59093365 original size:18 final size:17
Alignment explanation
Indices: 59093325--59093363 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
59093315 CCTAAAGGTG
*
59093325 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
59093342 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
59093359 ATTTT
1 ATTTT
59093364 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:59093436 original size:13 final size:13
Alignment explanation
Indices: 59093418--59093467 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
59093408 TGTATACATC
59093418 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
59093431 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
59093444 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
59093459 ATAA-AAAAA
1 ATAATAAAAA
59093468 TTACATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 19 0.59
14 6 0.19
15 6 0.19
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:59093651 original size:29 final size:29
Alignment explanation
Indices: 59093595--59093651 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
59093585 CTCTCTTTTT
* *
59093595 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
59093624 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
59093652 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:59093912 original size:11 final size:11
Alignment explanation
Indices: 59093894--59093923 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59093884 GTGTATATTG
59093894 TATATATTATA
1 TATATATTATA
*
59093905 TTTATATTATA
1 TATATATTATA
59093916 TATATATT
1 TATATATT
59093924 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:59095217 original size:47 final size:47
Alignment explanation
Indices: 59095140--59095425 Score: 396
Period size: 47 Copynumber: 6.1 Consensus size: 47
59095130 TTACGTCGCT
* * * * *
59095140 ACATTGACCATTCGGCTTTACCACATATATGCATGTCCATATTCACC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTCCACATTCATC
*
59095187 ACATTGGCCATTCGGCCTTATCACACATATGCATG-CTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTC-CACATTCATC
*
59095234 ACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTCCACATTCATC
* * * *
59095281 ACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTCCACATTCATC
*
59095328 ACATTGGCCATTCGGCCTTATCACACATATGCATG-CTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTC-CACATTCATC
* ** *
59095375 ACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACATATATGCATGTCCACATTCATC
59095422 ACAT
1 ACAT
59095426 AAAATCCTAA
Statistics
Matches: 214, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.00
47 213 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
ACATTGGCCATTCGGCCTTATCACATATATGCATGTCCACATTCATC
Found at i:59095401 original size:141 final size:141
Alignment explanation
Indices: 59095147--59095426 Score: 506
Period size: 141 Copynumber: 2.0 Consensus size: 141
59095137 GCTACATTGA
*
59095147 CCATTCGGCTTTACCACATATATGCATGTCCATATTCACCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTACCACATATATGCATGTCCATATTCACCACATTGGCCATTCGGCCTTATCACA
* **
59095212 CATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
66 CATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
59095277 CATCACATAGG
131 CATCACATAGG
* *
59095288 CCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTACCACATATATGCATGTCCATATTCACCACATTGGCCATTCGGCCTTATCACA
59095353 CATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
66 CATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
59095418 CATCACATA
131 CATCACATA
59095427 AAATCCTAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 133 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (141 bp):
CCATTCGGCCTTACCACATATATGCATGTCCATATTCACCACATTGGCCATTCGGCCTTATCACA
CATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
CATCACATAGG
Found at i:59100852 original size:39 final size:39
Alignment explanation
Indices: 59100765--59101019 Score: 395
Period size: 39 Copynumber: 6.5 Consensus size: 39
59100755 ACAAAGCATG
* * * *
59100765 CGGGACTTTAAGCCCAGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
59100805 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
59100844 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
59100883 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
59100922 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
59100961 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
59101000 TGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
59101020 TATCTCACAC
Statistics
Matches: 200, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
38 19 0.09
39 176 0.88
40 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:59103496 original size:40 final size:40
Alignment explanation
Indices: 59103447--59103652 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
59103437 TCTTCGGAAT
* * *
59103447 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
59103486 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
*
59103525 TTAGCCCGGATATAA-CAACT-GCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
59103564 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
59103604 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCAGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
59103644 TTAGCCCGG
1 TTAGCCCGG
59103653 GTATCATTCA
Statistics
Matches: 143, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.09
39 43 0.30
40 87 0.61
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59103572 original size:78 final size:77
Alignment explanation
Indices: 59103438--59103652 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 77
59103428 AACCGAGCTT
* * * * * **
59103438 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAA-CAC-TGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAAT
*
59103502 AACTTGCACAAATGC
63 AACTAGCACAAATGC
* *
59103517 CTTC-GGTCTTAGCCCGGATATAACAACTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 CTTCGGGACTTAGCCCGGATATAAC-ACTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATA
*
59103581 ACTAGCATAAATGC
64 ACTAGCACAAATGC
* * *
59103595 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCAGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAA-CACT-GCA-CAATGCCTTCGGGTCTTAGCCCGG
59103653 GTATCATTCA
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 50 0.44
79 39 0.34
80 25 0.22
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CTTCGGGACTTAGCCCGGATATAACACTGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAAC
TAGCACAAATGC
Found at i:59109051 original size:40 final size:40
Alignment explanation
Indices: 59109006--59109173 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59108996 CGGAATATAA
59109006 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59109046 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59109086 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
59109126 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59109166 CCGGATAT
1 CCGGATAT
59109174 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59117048 original size:40 final size:40
Alignment explanation
Indices: 59117003--59117169 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59116993 CGGAATATAA
59117003 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59117043 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59117083 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59117123 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59117162 CCGGATAT
1 CCGGATAT
59117170 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59124178 original size:40 final size:40
Alignment explanation
Indices: 59124085--59124301 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
59124075 AAGCCAAGTA
* * *
59124085 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59124123 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59124163 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59124203 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59124243 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59124283 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59124302 TTATCATCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 133 0.82
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59126320 original size:20 final size:20
Alignment explanation
Indices: 59126282--59126320 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59126272 TTAAGTTCTT
59126282 ATTTAATGTGAATGAATGAC
1 ATTTAATGTGAATGAATGAC
*
59126302 ATTTACTGT-AATGATATGA
1 ATTTAATGTGAATGA-ATGA
59126321 TTATTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTTAATGTGAATGAATGAC
Found at i:59126751 original size:22 final size:23
Alignment explanation
Indices: 59126726--59126775 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
59126716 AAGTACTGGC
*
59126726 AGTTTTAACTACAAA-CACTGAT
1 AGTTTTAACTACAAATCACTGAA
* *
59126748 AG-TTTATCTACAAATTACTGAA
1 AGTTTTAACTACAAATCACTGAA
59126770 AGTTTT
1 AGTTTT
59126776 CATCTGCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 9 0.39
23 3 0.13
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (23 bp):
AGTTTTAACTACAAATCACTGAA
Found at i:59129036 original size:26 final size:25
Alignment explanation
Indices: 59129000--59129052 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
59128990 CATCGATTTA
59129000 TTTTTATATTGGATAAATATAATTAT
1 TTTTTATATTGGATAAATA-AATTAT
*
59129026 TTTTTATATTGGATAGATAAATTAT
1 TTTTTATATTGGATAAATAAATTAT
59129051 TT
1 TT
59129053 CTATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (25 bp):
TTTTTATATTGGATAAATAAATTAT
Found at i:59129563 original size:19 final size:20
Alignment explanation
Indices: 59129541--59129601 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 20
59129531 TTTTGTATTA
*
59129541 TTTTTAAATTT-TTA-AATT
1 TTTTTTAATTTCTTATAATT
59129559 TTTTTTAATTTCTTATAATT
1 TTTTTTAATTTCTTATAATT
*
59129579 TAATATTTTAATAT-TTATAATT
1 T--T-TTTTAATTTCTTATAATT
59129601 T
1 T
59129602 AAAAGTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 10 0.28
19 3 0.08
20 5 0.14
22 10 0.28
23 8 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTAATTTCTTATAATT
Found at i:59129599 original size:22 final size:23
Alignment explanation
Indices: 59129561--59129603 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59129551 TTTAAATTTT
*
59129561 TTTTAATTTCTTATAATTTAATA
1 TTTTAATATCTTATAATTTAATA
59129584 TTTTAATAT-TTATAATTTAA
1 TTTTAATATCTTATAATTTAA
59129604 AAGTAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATCTTATAATTTAATA
Found at i:59130619 original size:21 final size:20
Alignment explanation
Indices: 59130590--59130652 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
59130580 CCTAGACATG
59130590 ATTT-TTAAATAATTATAAAA
1 ATTTATTAAA-AATTATAAAA
*
59130610 ATATTA-TAAAATATTATTTAAA
1 AT-TTATTAAAA-ATTA-TAAAA
*
59130632 ATTTATTAAAACTTATAAAA
1 ATTTATTAAAAATTATAAAA
59130652 A
1 A
59130653 AATAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
20 8 0.23
21 16 0.46
22 11 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTATTAAAAATTATAAAA
Found at i:59132233 original size:31 final size:31
Alignment explanation
Indices: 59132191--59132266 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
59132181 TCGTTGCCAA
*
59132191 GCAACCTGGGGTGGC-AGATCATCACTACCGT
1 GCAACCCGGGGTGGCGAG-TCATCACTACCGT
*
59132222 GCAACCCGGGGTGGCGAGTCATCACTGCCGT
1 GCAACCCGGGGTGGCGAGTCATCACTACCGT
* *
59132253 GCAACTCAGGGTGG
1 GCAACCCGGGGTGG
59132267 TTGGCCATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (31 bp):
GCAACCCGGGGTGGCGAGTCATCACTACCGT
Found at i:59134996 original size:19 final size:19
Alignment explanation
Indices: 59134972--59135012 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
59134962 GACATAGCAT
*
59134972 ATAATGGTACATGGTTATA
1 ATAATGGTACATGGTCATA
59134991 ATAATGGTACATGGTCATA
1 ATAATGGTACATGGTCATA
59135010 ATA
1 ATA
59135013 TGGCCTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (19 bp):
ATAATGGTACATGGTCATA
Found at i:59148579 original size:40 final size:40
Alignment explanation
Indices: 59148520--59148688 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
59148510 CGGGACTTTA
* * *
59148520 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
59148560 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
59148600 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
59148640 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
59148680 CCCGGATAT
1 CCCGGATAT
59148689 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:59156598 original size:36 final size:37
Alignment explanation
Indices: 59156552--59156660 Score: 141
Period size: 36 Copynumber: 2.9 Consensus size: 37
59156542 TATCACGATT
59156552 TGCACAAATGCCTTCGGGTCTTAGCCCGGATA-A-AAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAC
*
59156588 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAC
* *
59156626 TAGCACAATTGCCTTCGGGTCTTAACCCGGTTATA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
59156661 ATTTCCAGCA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
36 31 0.48
37 1 0.02
38 5 0.08
39 28 0.43
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (37 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATATAGAAC
Found at i:59156655 original size:39 final size:36
Alignment explanation
Indices: 59156521--59156660 Score: 138
Period size: 36 Copynumber: 3.7 Consensus size: 36
59156511 CCGCACCAAG
* * *
59156521 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-AC-A-CTGCAC-AAT
* *
59156561 GCCTTCGGGTCTTAGCCCGGATA-AAACTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACACTGCAC-AAT
*
59156597 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CACT-GCACAA-T
*
59156636 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
59156661 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
36 31 0.36
37 2 0.02
38 6 0.07
39 28 0.32
40 20 0.23
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (36 bp):
GCCTTCGGGTCTTAACCCGGATATACACTGCACAAT
Found at i:59163921 original size:28 final size:28
Alignment explanation
Indices: 59163852--59163952 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59163842 GACAAGATTG
* * * *
59163852 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59163882 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59163910 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59163939 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59163953 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59166267 original size:50 final size:50
Alignment explanation
Indices: 59166145--59166319 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 50
59166135 TGAGGTCGCA
* * * ** * *
59166145 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAGTG-GGTCACG
* ** *
59166196 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAGTG-GGTCACG
* *
59166246 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGGTTGCA--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAGTGGGT-CACG
59166295 TGTGTAGTACTAAGTGCAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
59166320 TTGCGTACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 25 0.24
50 44 0.42
51 36 0.34
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAGTGGGTCACG
Found at i:59172556 original size:46 final size:46
Alignment explanation
Indices: 59172506--59172681 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59172496 TATTTGGGCA
59172506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59172552 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59172599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59172645 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59172682 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59172661 original size:93 final size:93
Alignment explanation
Indices: 59172502--59172673 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59172492 TGGATATTTG
* *
59172502 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59172567 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59172595 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59172660 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59172674 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59177299 original size:42 final size:42
Alignment explanation
Indices: 59177248--59177401 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
59177238 TAAGACTATG
**
59177248 TGTAAGACCATATCTGGGATATGGCATTTATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* *
59177290 TGTAAGACCATATCTAGGATATGGCATCGACATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * *
59177332 TGTAATACCATAACTGGGCTATTGGCATCGATACGAGA-TTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-CA
59177375 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
59177402 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 63 0.65
43 34 0.35
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:59181465 original size:27 final size:27
Alignment explanation
Indices: 59181435--59181500 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
59181425 ATCAGACTTT
*
59181435 CTTGTGCTTACTGTCCCAACA-GACTAC
1 CTTGTGTTTACTGTCCCAA-AGGACTAC
* *
59181462 CTTGTGTTTATTGTCTCAAAGGACTAC
1 CTTGTGTTTACTGTCCCAAAGGACTAC
*
59181489 CCTGTGTTTACT
1 CTTGTGTTTACT
59181501 TTCTCGATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (27 bp):
CTTGTGTTTACTGTCCCAAAGGACTAC
Found at i:59181505 original size:27 final size:28
Alignment explanation
Indices: 59181455--59181527 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
59181445 CTGTCCCAAC
*
59181455 AGACTACCTTGTGTTTA-TTGTCTC-AA
1 AGACTACCCTGTGTTTACTTGTCTCGAA
*
59181481 AGGACTACCCTGTGTTTACTT-TCTCGAT
1 A-GACTACCCTGTGTTTACTTGTCTCGAA
* *
59181509 AGAATACCCCGTGTTTACT
1 AGACTACCCTGTGTTTACT
59181528 ATCCAGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 35 0.88
28 4 0.10
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (28 bp):
AGACTACCCTGTGTTTACTTGTCTCGAA
Found at i:59186126 original size:25 final size:25
Alignment explanation
Indices: 59186092--59186167 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
59186082 CCTAAAAAGG
59186092 TATTAAAACTTTGACAAGAGGCCTT
1 TATTAAAACTTTGACAAGAGGCCTT
59186117 TATTAAAACTTTGACAAGAGGCCTT
1 TATTAAAACTTTGACAAGAGGCCTT
*
59186142 TATTAAGACTTTGACAAGAGGCCTT
1 TATTAAAACTTTGACAAGAGGCCTT
59186167 T
1 T
59186168 CCTTAACACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (25 bp):
TATTAAAACTTTGACAAGAGGCCTT
Found at i:59191108 original size:46 final size:46
Alignment explanation
Indices: 59191058--59191230 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
59191048 TTGAGCATCT
*
59191058 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
59191104 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACCAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C--G--TCC
*
59191151 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
59191197 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59191231 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:59191211 original size:93 final size:93
Alignment explanation
Indices: 59191052--59191223 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59191042 GGATGGTTGA
* * *
59191052 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59191117 TGAGTCCGAGTTCGTGAGATGTAACCAG
66 TGAGTCCGAGTTCGTGAGATGTAACCAG
*
59191145 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59191210 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59191224 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACCAG
Found at i:59193399 original size:6 final size:6
Alignment explanation
Indices: 59193388--59193412 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59193378 TATTCGATGA
59193388 ACTGTT ACTGTT ACTGTT ACTGTT A
1 ACTGTT ACTGTT ACTGTT ACTGTT A
59193413 TTATTACTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ACTGTT
Found at i:59199188 original size:13 final size:13
Alignment explanation
Indices: 59199170--59199199 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59199160 CACACGCCTG
59199170 TGTGTCTAGCCCA
1 TGTGTCTAGCCCA
*
59199183 TGTGTCTAGCCCT
1 TGTGTCTAGCCCA
59199196 TGTG
1 TGTG
59199200 CCCTTCGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.27, G:0.27, T:0.37
Consensus pattern (13 bp):
TGTGTCTAGCCCA
Found at i:59202480 original size:93 final size:93
Alignment explanation
Indices: 59202372--59202543 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59202362 CGCCCATAAG
* * *
59202372 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59202437 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59202465 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59202530 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59202544 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59202540 original size:46 final size:46
Alignment explanation
Indices: 59202365--59202540 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59202355 CATTAACCGC
* * *
59202365 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59202411 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59202461 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59202504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59202541 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59215159 original size:58 final size:58
Alignment explanation
Indices: 59215084--59215206 Score: 210
Period size: 58 Copynumber: 2.1 Consensus size: 58
59215074 ACAATTGAGC
*
59215084 TACTCACGGGACTTTCTATCAAGTCAGGACCCATACCCCATAGTTATCATGTAACATT
1 TACTCATGGGACTTTCTATCAAGTCAGGACCCATACCCCATAGTTATCATGTAACATT
* *
59215142 TACTCATGGGCCTTTCTATCAAGTCAGGACCTATACCCCATAGTTATCATGTAACATT
1 TACTCATGGGACTTTCTATCAAGTCAGGACCCATACCCCATAGTTATCATGTAACATT
*
59215200 TGCTCAT
1 TACTCAT
59215207 TGAGCCACTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
TACTCATGGGACTTTCTATCAAGTCAGGACCCATACCCCATAGTTATCATGTAACATT
Found at i:59228251 original size:40 final size:39
Alignment explanation
Indices: 59228188--59228273 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
59228178 TAATGACTTA
*
59228188 TCGGCTAAAATGGCACTTAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * *
59228227 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
59228267 TCGGCTA
1 TCGGCTA
59228274 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:59231124 original size:38 final size:40
Alignment explanation
Indices: 59231082--59231283 Score: 160
Period size: 38 Copynumber: 4.8 Consensus size: 40
59231072 TTAACATGAA
*
59231082 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATG
* *
59231120 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGTATG
59231167 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATG------TA--TG
*** * *
59231215 TAATATTGGTATATCCACTTAGCACCACGTTACAGGTA--
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATG
*
59231253 TAACCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
59231284 TTTTCATTCC
Statistics
Matches: 134, Mismatches: 13, Indels: 34
0.74 0.07 0.19
Matches are distributed among these distances:
38 55 0.41
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 4 0.03
47 28 0.21
48 33 0.25
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATG
Found at i:59231189 original size:47 final size:48
Alignment explanation
Indices: 59231120--59231248 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
59231110 GTTACATGTT
59231120 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
59231167 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
***
59231215 TAATATTGGTATATCCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACA
59231249 GGTATAACCG
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 31 0.42
48 43 0.58
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:59234383 original size:43 final size:43
Alignment explanation
Indices: 59234287--59234399 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
59234277 TGGCATCGAC
** *
59234287 TCGATATGTGATTACATGTAAGACCATGTATGGGACATTGGCA
1 TCGATATGTGATTACATGTAAGACCATGTATAAGACAGTGGCA
* * * * *
59234330 TTG-TATTGTGATTTCGTGTAAGACCCTGTGTAAGACAGTGGCA
1 TCGATA-TGTGATTACATGTAAGACCATGTATAAGACAGTGGCA
*
59234373 TCGATATGTGATAACATGTAAGACCAT
1 TCGATATGTGATTACATGTAAGACCAT
59234400 ATCTAGGATA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 2 0.04
43 51 0.93
44 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCATGTATAAGACAGTGGCA
Found at i:59236428 original size:30 final size:30
Alignment explanation
Indices: 59236392--59236452 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
59236382 AGTATATAGA
59236392 TAGACGGATAGTTGGAATAAAGAAACTATG
1 TAGACGGATAGTTGGAATAAAGAAACTATG
59236422 TAGACGGATAGTTGGAATAAAGAAACTATG
1 TAGACGGATAGTTGGAATAAAGAAACTATG
59236452 T
1 T
59236453 TCTCGAGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.25
Consensus pattern (30 bp):
TAGACGGATAGTTGGAATAAAGAAACTATG
Found at i:59239570 original size:46 final size:46
Alignment explanation
Indices: 59239503--59239595 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
59239493 GCATGTATAG
*
59239503 GGGCTTTATCTTTTGTAATTATGTCATTACAAATGTGGCCAAATGT
1 GGGCTTTATCTTTTGTAATTATGCCATTACAAATGTGGCCAAATGT
**
59239549 GGGCTTTATCTTTTGTAATTATGCCATTATTAATGTGGCCAAATGT
1 GGGCTTTATCTTTTGTAATTATGCCATTACAAATGTGGCCAAATGT
59239595 G
1 G
59239596 TTGGCCTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (46 bp):
GGGCTTTATCTTTTGTAATTATGCCATTACAAATGTGGCCAAATGT
Found at i:59246035 original size:46 final size:46
Alignment explanation
Indices: 59245968--59246139 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
59245958 AACCCGCCCC
* *
59245968 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
59246014 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACATCCA
* * * *
59246062 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
59246107 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
59246140 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 58 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
Found at i:59246081 original size:93 final size:93
Alignment explanation
Indices: 59245973--59246143 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59245963 GCCCCTAAGT
*
59245973 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59246038 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * *
59246066 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
59246131 CGAGTTCGGATGC
66 CAAGTTCGGATGC
59246144 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59246597 original size:30 final size:30
Alignment explanation
Indices: 59246563--59246622 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
59246553 ATTTAATACG
59246563 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
59246593 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
59246623 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:59246877 original size:20 final size:20
Alignment explanation
Indices: 59246852--59246892 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
59246842 CACAAATTTC
59246852 ACCTATGGGTATTTTTCCAA
1 ACCTATGGGTATTTTTCCAA
59246872 ACCTATGGGTATTTTTCCAA
1 ACCTATGGGTATTTTTCCAA
59246892 A
1 A
59246893 TATAAACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (20 bp):
ACCTATGGGTATTTTTCCAA
Found at i:59251410 original size:40 final size:40
Alignment explanation
Indices: 59251325--59251475 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
59251315 AATTGAATGA
* * * *
59251325 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
59251365 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
59251406 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
59251445 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
59251476 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:59251489 original size:40 final size:40
Alignment explanation
Indices: 59251362--59251491 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
59251352 ATGCTGGAAA
* * *
59251362 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
59251402 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
59251442 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
59251482 TTATATCCGG
1 TTATATCCGG
59251492 TTATATCCGA
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:59251490 original size:80 final size:80
Alignment explanation
Indices: 59251324--59251491 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
59251314 AAATTGAATG
* *
59251324 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
59251389 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
59251404 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
59251467 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
59251484 ATATCCGG
1 ATATCCGG
59251492 TTATATCCGA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:59259420 original size:40 final size:40
Alignment explanation
Indices: 59259335--59259485 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
59259325 AATTGAATGA
* * * *
59259335 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
59259375 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
59259416 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
59259455 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
59259486 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:59259499 original size:40 final size:40
Alignment explanation
Indices: 59259372--59259501 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
59259362 ATGCTGGAAA
* * *
59259372 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
59259412 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
59259452 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
59259492 TTATATCCGG
1 TTATATCCGG
59259502 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:59259500 original size:80 final size:80
Alignment explanation
Indices: 59259334--59259501 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
59259324 AAATTGAATG
* *
59259334 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
59259399 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
59259414 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
59259477 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
59259494 ATATCCGG
1 ATATCCGG
59259502 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:59267100 original size:2 final size:2
Alignment explanation
Indices: 59267093--59267128 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59267083 TTAAACTTCC
59267093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59267129 TAATTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59267370 original size:16 final size:16
Alignment explanation
Indices: 59267349--59267380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59267339 AAAGTTTAGA
59267349 CTTTAAATTTTAAAGC
1 CTTTAAATTTTAAAGC
59267365 CTTTAAATTTTAAAGC
1 CTTTAAATTTTAAAGC
59267381 TTAAGCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
CTTTAAATTTTAAAGC
Found at i:59275030 original size:16 final size:16
Alignment explanation
Indices: 59275009--59275050 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
59274999 TACATGACAA
59275009 GTGATATATGAAATAT
1 GTGATATATGAAATAT
59275025 GTGATATATGAAATAT
1 GTGATATATGAAATAT
59275041 GTGATATATG
1 GTGATATATG
59275051 TTATGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (16 bp):
GTGATATATGAAATAT
Found at i:59275474 original size:49 final size:49
Alignment explanation
Indices: 59275359--59275532 Score: 258
Period size: 49 Copynumber: 3.5 Consensus size: 49
59275349 CGAGGTCGCA
* * **
59275359 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
59275409 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
** *
59275458 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
59275507 TTTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
59275533 TGCGTACCCA
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 77 0.67
50 38 0.33
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:59278056 original size:26 final size:26
Alignment explanation
Indices: 59277972--59278056 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 26
59277962 ATCCACTCGT
*
59277972 GGTCTTCCAACCAACTCAAACTCAAG
1 GGTCCTCCAACCAACTCAAACTCAAG
*** * *
59277998 GGTCCTTGGACCCATTCAAACTCAAG
1 GGTCCTCCAACCAACTCAAACTCAAG
* * *
59278024 GGACCTCCAACCAACTCAAAGTCAAA
1 GGTCCTCCAACCAACTCAAACTCAAG
59278050 GGTCCTC
1 GGTCCTC
59278057 AGACTGACTC
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (26 bp):
GGTCCTCCAACCAACTCAAACTCAAG
Found at i:59279623 original size:29 final size:29
Alignment explanation
Indices: 59279591--59279650 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
59279581 ATATTTTCAA
* *
59279591 TTGTAACTATTTAATTTTTAAAGTTACAT
1 TTGTAACTATTAAATTTTTAAAGTTAAAT
* *
59279620 TTGTAATTATTAAATTTTTACAGTTAAAT
1 TTGTAACTATTAAATTTTTAAAGTTAAAT
59279649 TT
1 TT
59279651 ATGGAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (29 bp):
TTGTAACTATTAAATTTTTAAAGTTAAAT
Found at i:59284178 original size:21 final size:22
Alignment explanation
Indices: 59284154--59284196 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
59284144 AAATCAGTTT
* *
59284154 GATAATTTTAAAA-AAATTAAA
1 GATAATTTCAAAACAAAATAAA
59284175 GATAATTTCAAAACAAAATAAA
1 GATAATTTCAAAACAAAATAAA
59284197 AAATATAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (22 bp):
GATAATTTCAAAACAAAATAAA
Found at i:59286746 original size:46 final size:46
Alignment explanation
Indices: 59286694--59286811 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 46
59286684 GATATTTGGG
59286694 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
59286740 CATCCGAACTCGTTGAGTTGCGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
59286786 CGTCCGAACTCGTTGCGTTGAGTCCG
1 CATCCGAACTCGTTGAGTTGAGTCCG
59286812 GATTTGTGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:59289886 original size:30 final size:28
Alignment explanation
Indices: 59289845--59289900 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
59289835 ATAGTATCGT
59289845 ATCTCGGATTTCTTTATTCTGGGTTTTCCA
1 ATCTCGGATTTCTTTATTC--GGTTTTCCA
*
59289875 ATCTTGGATTTCTTTATTCGGTTTTC
1 ATCTCGGATTTCTTTATTCGGTTTTC
59289901 TTGTTATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
30 18 0.72
ACGTcount: A:0.12, C:0.18, G:0.16, T:0.54
Consensus pattern (28 bp):
ATCTCGGATTTCTTTATTCGGTTTTCCA
Found at i:59292211 original size:46 final size:46
Alignment explanation
Indices: 59292159--59292272 Score: 219
Period size: 46 Copynumber: 2.5 Consensus size: 46
59292149 GATATTTGGG
59292159 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
59292205 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
59292251 CGTCCGAACTCGTTGAGTTGAG
1 CATCCGAACTCGTTGAGTTGAG
59292273 GCCGGATTCG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Done.