Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 420 of 770
Found at i:129433418 original size:29 final size:29
Alignment explanation
Indices: 129433375--129433437 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
129433365 ACGGCCCACC
129433375 TGGCCCATCAAGCCCAATTCATATTCATA
1 TGGCCCATCAAGCCCAATTCATATTCATA
* *
129433404 TGGCCCATCAGGCCCAATTTATATTCATA
1 TGGCCCATCAAGCCCAATTCATATTCATA
129433433 TGGCC
1 TGGCC
129433438 TATTAGACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGCCCATCAAGCCCAATTCATATTCATA
Found at i:129433448 original size:29 final size:29
Alignment explanation
Indices: 129433375--129433467 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
129433365 ACGGCCCACC
129433375 TGGCCCATCA-AGCCCAATTCATATTCATA
1 TGGCCCATCAGA-CCCAATTCATATTCATA
* *
129433404 TGGCCCATCAGGCCCAATTTATATTCATA
1 TGGCCCATCAGACCCAATTCATATTCATA
* * * ** *
129433433 TGGCCTATTAGACCCAAATCACCTTTATA
1 TGGCCCATCAGACCCAATTCATATTCATA
129433462 TGGCCC
1 TGGCCC
129433468 GTTAAGCCCA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
TGGCCCATCAGACCCAATTCATATTCATA
Found at i:129435343 original size:18 final size:19
Alignment explanation
Indices: 129435322--129435362 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
129435312 GACCTCTCGA
129435322 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
129435340 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
129435359 CGGT
1 CGGT
129435363 CCACGACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:129437932 original size:29 final size:28
Alignment explanation
Indices: 129437861--129437941 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
129437851 ACATACATGT
* *
129437861 ATATGGCCCATTTGGCCC-ATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
*
129437888 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAA-TCACATTC
*
129437917 ATATGGCCTATTAGGCCCAAATCAC
1 ATATGGCCCATTAGGCCC-AATCAC
129437942 CTTATATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.35
28 1 0.02
29 27 0.59
30 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:129442834 original size:39 final size:40
Alignment explanation
Indices: 129442756--129442972 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
129442746 TTCGGATGAC
129442756 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
129442796 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
129442835 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCT-GTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
129442873 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
129442913 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
129442953 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
129442973 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
38 30 0.18
39 68 0.40
40 69 0.41
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:129442962 original size:117 final size:118
Alignment explanation
Indices: 129442756--129442972 Score: 368
Period size: 117 Copynumber: 1.8 Consensus size: 118
129442746 TTCGGATGAC
129442756 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
129442821 GTGCTAGTGACTATATCCGGGCT-AAGCCCGAAGGCATTTGTGCTGTGACTAT
66 GTGCGAGTGACTATATCCGGGCTAAAGCCCGAAGGCATTTGTGCTGTGACTAT
*
129442873 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-T
*
129442938 TGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 TGTGCGAG-TGACTATATCCGGGCTAAAGCCCGAAGG
129442973 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
117 66 0.70
118 26 0.28
119 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (118 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
GTGCGAGTGACTATATCCGGGCTAAAGCCCGAAGGCATTTGTGCTGTGACTAT
Found at i:129445980 original size:58 final size:58
Alignment explanation
Indices: 129445890--129446005 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
129445880 GTACCGAGGT
129445890 AAGTTCGTATGTTAAAAATAAGCTTTAGAATAACAGTACTTAAATGCTTTAATATTGC
1 AAGTTCGTATGTTAAAAATAAGCTTTAGAATAACAGTACTTAAATGCTTTAATATTGC
*
129445948 AAGTTCGTATGTTAAAAATAAGCTTTAGAATAACTGTACTTAAATGCTTTAATATTGC
1 AAGTTCGTATGTTAAAAATAAGCTTTAGAATAACAGTACTTAAATGCTTTAATATTGC
129446006 GTGAATTGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (58 bp):
AAGTTCGTATGTTAAAAATAAGCTTTAGAATAACAGTACTTAAATGCTTTAATATTGC
Found at i:129448161 original size:46 final size:46
Alignment explanation
Indices: 129448108--129448236 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
129448098 TATTTGGGCA
* * *
129448108 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
129448154 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
129448200 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
129448237 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:129451222 original size:15 final size:15
Alignment explanation
Indices: 129451183--129451261 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
129451173 GTATCTTGGG
*
129451183 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
129451198 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
129451213 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
129451227 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
129451242 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
129451256 TTTCTT
1 TTTCTT
129451262 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:129451246 original size:29 final size:29
Alignment explanation
Indices: 129451174--129451260 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
129451164 CATAGTATCG
* * * *
129451174 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
129451204 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
129451233 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
129451261 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:129460353 original size:28 final size:28
Alignment explanation
Indices: 129460288--129460388 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
129460278 ATAGTGAATC
*
129460288 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
129460317 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
129460345 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
129460375 CGCACACTTAGTGC
1 CGCACACTTAGTGC
129460389 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:129462815 original size:12 final size:12
Alignment explanation
Indices: 129462798--129462822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129462788 CAAAAATGTA
129462798 AAAATCATCAAG
1 AAAATCATCAAG
129462810 AAAATCATCAAG
1 AAAATCATCAAG
129462822 A
1 A
129462823 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:129466903 original size:7 final size:7
Alignment explanation
Indices: 129466887--129466916 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
129466877 TTCAAATAAT
129466887 ATAA-TA
1 ATAATTA
129466893 ATAATTA
1 ATAATTA
129466900 ATAATTA
1 ATAATTA
129466907 ATAATTA
1 ATAATTA
129466914 ATA
1 ATA
129466917 TATAACGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATAATTA
Found at i:129466910 original size:14 final size:13
Alignment explanation
Indices: 129466887--129466921 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
129466877 TTCAAATAAT
129466887 ATAATAATAATTA
1 ATAATAATAATTA
129466900 ATAATTAATAATTA
1 ATAA-TAATAATTA
129466914 ATATATAA
1 ATA-ATAA
129466922 CGTACTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:129467221 original size:18 final size:18
Alignment explanation
Indices: 129467200--129467237 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
129467190 GTGAAATAAT
129467200 ATTATATATATA-ACTATA
1 ATTATAT-TATAGACTATA
129467218 ATTATATTATAGACTATA
1 ATTATATTATAGACTATA
129467236 AT
1 AT
129467238 AAAATATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTATATTATAGACTATA
Found at i:129477704 original size:12 final size:13
Alignment explanation
Indices: 129477671--129477710 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
129477661 TATGTATGGC
129477671 TCGATGCCTAAGT
1 TCGATGCCTAAGT
129477684 TCGATGCCTAAGT
1 TCGATGCCTAAGT
129477697 TC-ATGCCTAAGT
1 TCGATGCCTAAGT
129477709 TC
1 TC
129477711 CAAGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (13 bp):
TCGATGCCTAAGT
Found at i:129480217 original size:46 final size:48
Alignment explanation
Indices: 129479987--129480304 Score: 228
Period size: 46 Copynumber: 6.7 Consensus size: 48
129479977 GTATAATGCT
*
129479987 GATGCCATGTCCTAGACATGGTCTTACACTGGC-T-CATTCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACA-TC-TCGAAGTC
* * ** * *
129480034 GATGCCATGTCCCAAACATGGTCTTACACTGAC-TATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGAAGTC
* * * * * * * *
129480083 GACGCCATGTCCCAAACAAGGTCTTACACTAGCTCTCACATATCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCGAAGTC
* * * *
129480133 GATGTCATGTCCTAGACATGGTCTTACACTGAC--ACATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTC
* ** *
129480179 GATG-CATGTCCCAGACGT-GTCTTACACTGGCTTACATCTCGGGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTC
* * *
129480225 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTC-AATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAA-GTC
* *
129480271 GATGCCATATCCCAGACATGGTCTTACATTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
129480305 CTCATAATGT
Statistics
Matches: 215, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
44 12 0.06
45 12 0.06
46 62 0.29
47 44 0.20
48 14 0.07
49 33 0.15
50 35 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTC
Found at i:129480295 original size:94 final size:92
Alignment explanation
Indices: 129480176--129480349 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 92
129480166 ACATCTCGTA
* * *
129480176 GTCGATGCATGTCCCAGACGTGTCTTACACTGGCT-TACAT-CTCGGGGCCGATGCATGTCCCAA
1 GTCGATGCATATCCCAGACATGTCTTACACTGGCTCT-CATAAT-GGGGCCGATGCATGTCCCAA
129480239 ACATGTCTTACACTAGCTCTCGTCTCAAT
64 ACATGTCTTACACTAGCTCTCGTCTCAAT
* * * * *
129480268 GTCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCTGATGCATGTCCTAG
1 GTCGATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCATAATGGGGCCGATGCATGTCCCAA
*
129480333 GCATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
129480350 ACACAAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 48 0.70
95 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
GTCGATGCATATCCCAGACATGTCTTACACTGGCTCTCATAATGGGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:129491082 original size:40 final size:40
Alignment explanation
Indices: 129490905--129491069 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
129490895 GAGTCACGTA
* * *
129490905 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATCACTAGCACAAATG
* * * * * *
129490944 CCTTCGGGTCTTAACCCGAATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
* *
129490984 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACGAATG
1 CCTTCGGGTCTTAACCCGGATATAATC-ACTAGCACAAATG
* *
129491024 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
129491064 CCTTCG
1 CCTTCG
129491070 AGACTTAGCC
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.12
40 90 0.87
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
Found at i:129493850 original size:15 final size:16
Alignment explanation
Indices: 129493821--129493850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
129493811 CAAATATGCT
129493821 TTAACACATTATCAAA
1 TTAACACATTATCAAA
129493837 TTAACACA-TATCAA
1 TTAACACATTATCAA
129493851 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:129500869 original size:39 final size:40
Alignment explanation
Indices: 129500772--129500945 Score: 192
Period size: 40 Copynumber: 4.4 Consensus size: 40
129500762 AACGGTATCC
* * * *
129500772 GGCTAAGT-CCGAAGGCTTTTGTGCTAAGTGACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCG
* *
129500812 GG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCG
1 GGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCG
* *
129500852 GGTTAAGTCCC-AAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCG
* * * *
129500891 GGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCG
*
129500931 GGCTATGTCCCGAAG
1 GGCTAAGTCCCGAAG
129500946 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 36 0.32
40 61 0.54
41 16 0.14
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCG
Found at i:129500907 original size:79 final size:80
Alignment explanation
Indices: 129500772--129500941 Score: 227
Period size: 79 Copynumber: 2.1 Consensus size: 80
129500762 AACGGTATCC
* * *
129500772 GGCTAAGTCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
*
129500837 GAGTTACCAAAACCG
66 GAATTACCAAAACCG
* * *
129500852 GGTTAAGTCCCAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTG
1 GGCTAAGTCCCAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTG
* *
129500915 CGAATTACTATAACCG
65 CGAATTACCAAAACCG
*
129500931 GGCTATGTCCC
1 GGCTAAGTCCC
129500942 GAAGACAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 56 0.72
80 21 0.27
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
GAATTACCAAAACCG
Found at i:129509363 original size:40 final size:39
Alignment explanation
Indices: 129509198--129509381 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
129509188 AAATTGAATG
* * *
129509198 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
129509238 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
129509278 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
129509318 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
129509357 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
129509382 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:129509406 original size:80 final size:81
Alignment explanation
Indices: 129509238--129509426 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
129509228 GCTGGAAATT
* * * *
129509238 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
129509303 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
129509319 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
129509382 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
129509398 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
129509427 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:129519035 original size:29 final size:29
Alignment explanation
Indices: 129518964--129519072 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
129518954 ACCCCTAAAT
* *
129518964 ACATGCATATGGCCCACTAGGCCTAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** *
129518992 TTATTCAAATGGCCCATCT-GGCCCAATTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* *
129519021 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
129519050 ACATTCATATGGCCTATTAGGCC
1 ACATTCATATGGCCCACTAGGCC
129519073 AAAATCATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 20 0.30
29 46 0.70
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:129520562 original size:16 final size:16
Alignment explanation
Indices: 129520541--129520574 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
129520531 GAAAAATTCA
129520541 AGATTTCAAGATTTTT
1 AGATTTCAAGATTTTT
**
129520557 AGATTTCGGGATTTTT
1 AGATTTCAAGATTTTT
129520573 AG
1 AG
129520575 GGCATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (16 bp):
AGATTTCAAGATTTTT
Found at i:129526142 original size:29 final size:29
Alignment explanation
Indices: 129526069--129526186 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 29
129526059 TACATACATG
* *
129526069 ATATGGCCTACTAGGCCCAA-TCTTATTC
1 ATATGGCCCACTAGGCCCAATTCATATTC
* * * *
129526097 AAATGGCCTATTTGGCCCAATTCATATTC
1 ATATGGCCCACTAGGCCCAATTCATATTC
* * * *
129526126 TTATGGTCCACTAGGCCCATTTCACATTC
1 ATATGGCCCACTAGGCCCAATTCATATTC
* *
129526155 ATATGGCCCATTAGGCCCAAATCATATT-
1 ATATGGCCCACTAGGCCCAATTCATATTC
129526183 ATAT
1 ATAT
129526187 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 21 0.30
29 50 0.70
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAATTCATATTC
Found at i:129527671 original size:16 final size:16
Alignment explanation
Indices: 129527646--129527676 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
129527636 AAAAATTCAA
*
129527646 GATTTTGAGATTTTTG
1 GATTTCGAGATTTTTG
129527662 GATTTCGAGATTTTT
1 GATTTCGAGATTTTT
129527677 AAGGCGTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.23, T:0.55
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:129544133 original size:63 final size:63
Alignment explanation
Indices: 129544034--129544275 Score: 290
Period size: 63 Copynumber: 3.8 Consensus size: 63
129544024 CATAATTTTG
129544034 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTTGTA
1 GCTCTCTTGT-CTACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTTGTA
129544097 GCTCTCTTGTCTACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTTGTA
1 GCTCTCTTGTCTACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTTGTA
** * * * * * * **
129544160 GCTCTCTTGTCTACATGGTGTCCTTCGCCTAGAACCACGCATGCGACCTAGCTACA-TATATCCC
1 GCTCTCTTGTCTACATGGTG---AACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTT
129544224 GTA
61 GTA
* * * *
129544227 GCTCTCTTGTCTACATGGCGTACACATAGTATCACCCATGTGACCTAGC
1 GCTCTCTTGTCTACATGGTGAACACTTAGTACCACCCATGTGACCTAGC
129544276 TATATCATAA
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.01
63 81 0.52
64 22 0.14
66 22 0.14
67 27 0.17
68 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTTGTA
Found at i:129546372 original size:40 final size:40
Alignment explanation
Indices: 129546268--129546453 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
129546258 GCTACTTGCT
129546268 CAAATGCCTT--GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
129546306 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
129546345 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
129546385 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
129546425 CAAATGCCTTTAGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
129546454 CATCCGAATA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
38 10 0.07
39 38 0.27
40 93 0.66
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:129558366 original size:47 final size:49
Alignment explanation
Indices: 129558287--129558415 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 49
129558277 GGGGTAAGGT
* * *
129558287 GCGAATGCCGTGTCCCAGACACGGTCTTACACTGGCAC-AT-ATCTC-AA
1 GCGAA-GCCATGTCCTAGACATGGTCTTACACTGGCACTATCATCTCGAA
*
129558334 GTCGAAGCCATGTCCTAGACATGGTCTTACACT--CACTATCATCTCGTA
1 G-CGAAGCCATGTCCTAGACATGGTCTTACACTGGCACTATCATCTCGAA
*
129558382 GCCAA-CGCATGTCCTAGACAT-GTCTTACACTGGC
1 GCGAAGC-CATGTCCTAGACATGGTCTTACACTGGC
129558416 TTACGCCTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
45 3 0.04
46 13 0.19
47 47 0.67
48 7 0.10
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (49 bp):
GCGAAGCCATGTCCTAGACATGGTCTTACACTGGCACTATCATCTCGAA
Found at i:129558472 original size:46 final size:47
Alignment explanation
Indices: 129558388--129558508 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 47
129558378 CGTAGCCAAC
*
129558388 GCATG-TCCTAGACATGTCTTACACTGGCTTACGCCTCAAGGCCGAT-
1 GCATGTTCC-AGACATGTCTTACACTGGCTTACGCCTCAAGGCCAATA
* *
129558434 GCATGTTCCAGACATGTCTTACACTAGGAC-T-CGTCTCAATGCCAATA
1 GCATGTTCCAGACATGTCTTACACT-GG-CTTACGCCTCAAGGCCAATA
* * *
129558481 CCATGTCCCAGACATGGTTTTACACTGG
1 GCATGTTCCAGACAT-GTCTTACACTGG
129558509 TTGTCATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 33 0.52
47 21 0.33
48 10 0.16
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCATGTTCCAGACATGTCTTACACTGGCTTACGCCTCAAGGCCAATA
Found at i:129562581 original size:29 final size:29
Alignment explanation
Indices: 129562491--129562679 Score: 229
Period size: 29 Copynumber: 6.5 Consensus size: 29
129562481 ACTCGATTTC
* * **
129562491 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
129562520 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
129562548 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
129562578 GCACACTTAGTACCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129562607 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129562636 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129562665 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
129562680 ATCTCGTCAC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.01
29 135 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:129570536 original size:29 final size:29
Alignment explanation
Indices: 129570446--129570663 Score: 287
Period size: 29 Copynumber: 7.5 Consensus size: 29
129570436 ACTCGATTTC
* * **
129570446 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
129570475 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
129570503 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
129570533 GCACACTTAGTACCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129570562 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129570591 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129570620 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
129570649 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
129570664 ATCTCGTCAC
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
28 2 0.01
29 164 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:129572839 original size:46 final size:46
Alignment explanation
Indices: 129572786--129572961 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
129572776 TATTTGGGCA
129572786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
129572832 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
129572879 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
129572925 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
129572962 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:129572941 original size:93 final size:93
Alignment explanation
Indices: 129572782--129572953 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
129572772 GGGATATTTG
* *
129572782 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
129572847 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
129572875 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
129572940 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
129572954 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:129575949 original size:15 final size:15
Alignment explanation
Indices: 129575910--129575988 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
129575900 GTATCTTGGG
*
129575910 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
129575925 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
129575940 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
129575954 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
129575969 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
129575983 TTTCTT
1 TTTCTT
129575989 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:129575973 original size:29 final size:29
Alignment explanation
Indices: 129575901--129575987 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
129575891 CATAGTATCG
* * * *
129575901 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
129575931 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
129575960 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
129575988 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:129579589 original size:40 final size:40
Alignment explanation
Indices: 129579520--129579701 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
129579510 TATTCGGATG
*
129579520 ATATCC-GGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
129579560 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
129579600 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
129579640 ATATCCGAGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
129579680 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
129579702 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 12 0.09
40 100 0.76
41 19 0.15
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:129584990 original size:13 final size:13
Alignment explanation
Indices: 129584972--129584997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129584962 ATATTATAAT
129584972 TATTTTATGTTAA
1 TATTTTATGTTAA
129584985 TATTTTATGTTAA
1 TATTTTATGTTAA
129584998 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:129586466 original size:40 final size:40
Alignment explanation
Indices: 129586358--129586575 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
129586348 TTATTCGATG
*
129586358 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
129586397 ATATCCGGGC-AAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
129586435 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
129586475 ATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
129586515 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
129586554 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
129586576 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 50 0.30
39 34 0.20
40 82 0.49
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:129586565 original size:118 final size:117
Alignment explanation
Indices: 129586358--129586575 Score: 343
Period size: 118 Copynumber: 1.9 Consensus size: 117
129586348 TTATTCGATG
* *
129586358 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCAAGTCCGAAGGCATTT
1 ATATCCAGGCTAAGTCCGAAGGCATCTGTGCTAGTTACTATATCCGGGCAAGTCCGAAGGCATTT
* *
129586423 GTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 GTGCGAGTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
129586475 ATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAA-GCA
1 ATATCCAGGCTAAGT-CCGAAGGCATCTGTGCTAGTTACTATATCCGGGC-AAGT-CCGAAGGCA
129586539 TTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
63 TTTGTGCGAG-TGACTATATCCGGGCTAAATCCCGAAGG
129586576 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
117 14 0.15
118 48 0.52
119 24 0.26
120 7 0.08
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (117 bp):
ATATCCAGGCTAAGTCCGAAGGCATCTGTGCTAGTTACTATATCCGGGCAAGTCCGAAGGCATTT
GTGCGAGTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:129588523 original size:16 final size:15
Alignment explanation
Indices: 129588502--129588541 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
129588492 TCGCCCGGGC
129588502 TAAAAAAAACCAAAAA
1 TAAAAAAAA-CAAAAA
129588518 TAAAAATAAACAAAAA
1 TAAAAA-AAACAAAAA
*
129588534 CAAAAAAA
1 TAAAAAAA
129588542 TAAATTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.07
Consensus pattern (15 bp):
TAAAAAAAACAAAAA
Found at i:129588546 original size:22 final size:22
Alignment explanation
Indices: 129588502--129588545 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
129588492 TCGCCCGGGC
129588502 TAAAAAAAACCAAAAATAAAAA
1 TAAAAAAAACCAAAAATAAAAA
*
129588524 TAAACAAAAACAAAAAAATAAA
1 TAAA-AAAAAC-CAAAAATAAA
129588546 TTAAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (22 bp):
TAAAAAAAACCAAAAATAAAAA
Found at i:129589981 original size:18 final size:18
Alignment explanation
Indices: 129589933--129589982 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
129589923 TTTTTTATTA
*
129589933 TATCATTTATATTATTTG
1 TATCATTTATATTAATTG
* *
129589951 TAAT-GTTTGTATTAATTG
1 T-ATCATTTATATTAATTG
129589969 TATCATTTATATTA
1 TATCATTTATATTA
129589983 TTAATTTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (18 bp):
TATCATTTATATTAATTG
Found at i:129602321 original size:80 final size:80
Alignment explanation
Indices: 129602188--129602443 Score: 340
Period size: 80 Copynumber: 3.2 Consensus size: 80
129602178 GATGATAACG
* * *
129602188 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
129602253 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
* * *
129602268 GGGCTAAGTCCCGAAGGCATATGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATATGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
129602333 CGAGTTACTATATCC
66 CGAGTTACTATATCC
** * * *
129602348 GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACT-ATATCCGGGCTAAGTTCTGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
129602412 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
129602428 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
129602444 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 18 0.11
80 139 0.88
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:129602429 original size:40 final size:40
Alignment explanation
Indices: 129602188--129602417 Score: 329
Period size: 40 Copynumber: 5.8 Consensus size: 40
129602178 GATGATAACG
* * *
129602188 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
129602228 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
129602268 GGGCTAAGTCCCGAAGGCATATGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
129602308 GGGCTAAGTCCCGAAGGCATATGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
129602348 GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* * *
129602388 GGGCTAAGTTCTGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
129602418 AGCTATATCC
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 173 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:129619255 original size:27 final size:28
Alignment explanation
Indices: 129619200--129619255 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
129619190 CTAACCATGG
129619200 ACTTTGTGAGTGGGTTGCCCTTGACACC
1 ACTTTGTGAGTGGGTTGCCCTTGACACC
129619228 ACTTTGTGAGTGGGTT-CCCTTGACACC
1 ACTTTGTGAGTGGGTTGCCCTTGACACC
129619255 A
1 A
129619256 TCGAAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (28 bp):
ACTTTGTGAGTGGGTTGCCCTTGACACC
Found at i:129620664 original size:26 final size:26
Alignment explanation
Indices: 129620635--129620742 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
129620625 TGATACAAAT
129620635 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
129620661 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
129620687 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
129620713 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
129620739 TGAT
1 TGAT
129620743 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:129626777 original size:46 final size:46
Alignment explanation
Indices: 129626609--129626784 Score: 137
Period size: 46 Copynumber: 3.8 Consensus size: 46
129626599 TGTAACCCGC
* * * ***
129626609 CCATAAGCAAACTCAGACTCAACTAAACAAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
129626655 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
129626705 -C-TCA-CGAACTC-GAACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
129626748 CCATAAGTGAACTCAGACTTAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
129626785 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 18, Indels: 22
0.72 0.13 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.55
47 27 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:129628850 original size:25 final size:23
Alignment explanation
Indices: 129628810--129628857 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
129628800 TGCATTATGG
129628810 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
129628835 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
129628858 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:129630177 original size:29 final size:29
Alignment explanation
Indices: 129630144--129630302 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
129630134 GTGACGAGAT
129630144 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
129630173 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
129630202 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
129630231 CGGCACT-GGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
129630259 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
129630288 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
129630303 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 22 0.20
29 89 0.80
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:129638262 original size:29 final size:29
Alignment explanation
Indices: 129638229--129638359 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
129638219 GTGACGAGAT
129638229 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
129638258 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
129638287 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
129638316 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
129638345 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
129638360 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:129642873 original size:40 final size:40
Alignment explanation
Indices: 129642779--129642982 Score: 227
Period size: 39 Copynumber: 5.2 Consensus size: 40
129642769 ACATTGAATG
* * *
129642779 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* *
129642818 ATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* *
129642857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTA-C
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* * * *
129642896 AAATCCGGGTTAAGACCCGAAGGCA-TTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* ** * * *
129642935 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
129642975 ATATCCGG
1 ATATCCGG
129642983 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
38 26 0.19
39 65 0.47
40 47 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
Found at i:129650837 original size:40 final size:40
Alignment explanation
Indices: 129650778--129650984 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
129650768 CATTGGAATG
* * *
129650778 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
129650818 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * * **
129650857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
129650897 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
129650937 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
129650977 ATATCCGG
1 ATATCCGG
129650985 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 36 0.26
40 105 0.74
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:129650998 original size:79 final size:79
Alignment explanation
Indices: 129650782--129650988 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 79
129650772 GGAATGATAT
* * *
129650782 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTGT
*** *
129650847 GCGAGTTGTTATAT
66 GCGAGTCACTATAA
* * ** *
129650861 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTG
129650926 TGCGAGTCACTATAA
65 TGCGAGTCACTATAA
** * * *
129650941 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
129650989 ATTCCGAAGG
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 58 0.55
80 48 0.45
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTGT
GCGAGTCACTATAA
Found at i:129657962 original size:4 final size:4
Alignment explanation
Indices: 129657946--129657979 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
129657936 ACAAATGATA
* *
129657946 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
129657980 TTGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:129658432 original size:15 final size:14
Alignment explanation
Indices: 129658412--129658443 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
129658402 TCTTTTGTGA
129658412 CCTCTTTGTTTTGCT
1 CCTCTTTGTTTTG-T
129658427 CCTCTTTGTTTTGT
1 CCTCTTTGTTTTGT
129658441 CCT
1 CCT
129658444 TAATTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.59
Consensus pattern (14 bp):
CCTCTTTGTTTTGT
Found at i:129669559 original size:27 final size:27
Alignment explanation
Indices: 129669539--129669798 Score: 276
Period size: 27 Copynumber: 9.6 Consensus size: 27
129669529 AGGGTATTTT
*
129669539 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
129669566 AGTAATTCTGTAAATCTAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
129669593 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
129669620 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
129669647 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
129669674 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
129669701 GGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
129669728 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
129669755 AATAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
129669782 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
129669799 GGAGTACTTT
Statistics
Matches: 196, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.02
27 190 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:129669625 original size:81 final size:81
Alignment explanation
Indices: 129669540--129669798 Score: 342
Period size: 81 Copynumber: 3.2 Consensus size: 81
129669530 GGGTATTTTA
* * * * * *
129669540 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCTAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTA
* *
129669605 AA-TCGGGGGTAAAATG
66 AACT-GAGGGTAAAACG
* * * *
129669621 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGT
129669685 AAACTGAGGGTAAAACG
65 AAACTGAGGGTAAAACG
* * * *
129669702 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTA
129669767 AACTGAGGGTAAAACG
66 AACTGAGGGTAAAACG
129669783 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
129669799 GGAGTACTTT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 153 0.98
82 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTA
AACTGAGGGTAAAACG
Found at i:129672876 original size:28 final size:28
Alignment explanation
Indices: 129672829--129672898 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
129672819 ATTTAAAACC
*
129672829 CTAGGGGT-ATATCGGTAATTTTGCTCT
1 CTAGGGGTAATTTCGGTAATTTTGCTCT
*
129672856 TTAGGGGTAATTTCGGTAATTTTGCTCT
1 CTAGGGGTAATTTCGGTAATTTTGCTCT
129672884 CTAGGGGTAATTTCG
1 CTAGGGGTAATTTCG
129672899 TGATCTACGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (28 bp):
CTAGGGGTAATTTCGGTAATTTTGCTCT
Found at i:129673409 original size:27 final size:27
Alignment explanation
Indices: 129673379--129673464 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
129673369 TACCATACAG
* *
129673379 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * *
129673406 GGGTATTGTGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
* **
129673433 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
129673460 GGGTA
1 GGGTA
129673465 AAACAGTAAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:129673472 original size:27 final size:27
Alignment explanation
Indices: 129673442--129673728 Score: 296
Period size: 27 Copynumber: 10.6 Consensus size: 27
129673432 AGGGTATTTT
*
129673442 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
129673469 AGTAATTCTGTAAATCAATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
129673496 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
129673523 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
129673550 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
129673577 -GATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
129673604 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
129673631 GGTAATTCTGTAAATCGAGAGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
129673658 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
129673685 AACAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
129673712 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
129673729 GGAATACTTT
Statistics
Matches: 216, Mismatches: 34, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.02
27 207 0.96
28 5 0.02
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:129673728 original size:81 final size:81
Alignment explanation
Indices: 129673444--129673728 Score: 351
Period size: 81 Copynumber: 3.5 Consensus size: 81
129673434 GGTATTTTAG
* * * * *
129673444 TAATTTTGTAAA-TCGAGGGTAAAACAGTAATTCTGTAAATCAATGGTAAAACAGTAATTCTATA
1 TAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
129673508 AATCGAGGGTAAAACGA
65 AATCGAGGGTAAAACAA
* * * * * *
129673525 TAATTATGTAAA-TCGGGGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTAT
1 TAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTAT
* *
129673588 AAATCGAGGGTAAAATAG
64 AAATCGAGGGTAAAACAA
* * *
129673606 TAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTTTACAA
1 TAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAA
129673671 ATCGAGGGTAAAACAA
66 ATCGAGGGTAAAACAA
* *
129673687 CAATTCTATAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
1 TAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
129673729 GGAATACTTT
Statistics
Matches: 176, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 173 0.98
82 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (81 bp):
TAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAA
ATCGAGGGTAAAACAA
Found at i:129673743 original size:81 final size:81
Alignment explanation
Indices: 129673458--129673759 Score: 286
Period size: 81 Copynumber: 3.7 Consensus size: 81
129673448 TTTGTAAATC
* * * * * *
129673458 GAGGGTAAAACAGTAATTCTGTAAATCAATG-GTAAAACAGTAATTCTATAAATCGAGGGTAAAA
1 GAGGGTAAAACGGTAATTCTGTAAATCGA-GAATAAAACGGTAATTTTACAAATCGAGGGTAAAA
* * * *
129673522 CGATAATTATGTAAA-T
65 CAACAATTCTATAAACT
* * * * ** * * *
129673538 CGGGGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTATAAATCGAGGGTAAA
1 -GAGGGTAAAACGGTAATTCTGTAAATCGA-GAATAAAACGGTAATTTTACAAATCGAGGGTAAA
* ** *
129673602 ATAGTAATTCTGTAAACT
64 ACAACAATTCTATAAACT
*
129673620 GAGGGTAAAACGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGAATAAAACGGTAATTTTACAAATCGAGGGTAAAAC
129673685 AACAATTCTATAAACT
66 AACAATTCTATAAACT
* **** *
129673701 GAGGGTAAAACGGTAATTCTGTAAATCGGGAATACTTTGGTAATTTTACAAGTCGAGGG
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGAATAAAACGGTAATTTTACAAATCGAGGG
129673760 CATTTCAGTA
Statistics
Matches: 187, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 183 0.98
82 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTCTGTAAATCGAGAATAAAACGGTAATTTTACAAATCGAGGGTAAAAC
AACAATTCTATAAACT
Found at i:129677369 original size:27 final size:27
Alignment explanation
Indices: 129677348--129677634 Score: 269
Period size: 27 Copynumber: 10.7 Consensus size: 27
129677338 AAGGGTATTT
*
129677348 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
129677375 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
129677402 TAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
129677429 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * * *
129677456 TGGTAATTATGTAAAT-TAGGGGCAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
** * *
129677483 CGGTAATTTTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
129677510 TAGTAATT-TTTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
129677536 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
129677563 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
129677590 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
129677617 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
129677635 GGAGTACTTT
Statistics
Matches: 220, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.00
26 23 0.10
27 192 0.87
28 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:129677436 original size:81 final size:81
Alignment explanation
Indices: 129677349--129677633 Score: 362
Period size: 81 Copynumber: 3.5 Consensus size: 81
129677339 AGGGTATTTT
* ** * *
129677349 AGTAATTTTGTAAA-TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTG
1 AGTAATTTTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTA
129677413 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * * * * * *
129677430 -GATAATTATGTAAA-TCGGGGGTAAAATGGTAATTATGTAAATTAGGGGCAAAACGGTAATTTT
1 AG-TAATTTTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
*
129677493 ATAAATCGAGGGTAAAAT
64 ATAAATCGAGGGTAAAAC
* *
129677511 AGTAATTTT-TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 AGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAT
129677575 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* *
129677591 AGTAATTCTATAAACTGAGGGTAAAACGGTAATTCTGTAAATC
1 AGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATC
129677634 GGGAGTACTT
Statistics
Matches: 176, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
80 69 0.39
81 106 0.60
82 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
AGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAT
AAATCGAGGGTAAAAC
Found at i:129677653 original size:134 final size:134
Alignment explanation
Indices: 129677350--129677634 Score: 349
Period size: 134 Copynumber: 2.1 Consensus size: 134
129677340 GGGTATTTTA
* * * * * *
129677350 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-TCAAGGGTAAAATAGTAATTCTGT
1 GTAATTCTATAAATCGAGGGTAAAATAGTAATT-TTTAAACT-GAGGGTAAAACAGTAATTCTGT
** * ** * *
129677414 AAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATTAGGGGC
64 AAATCGAGGGTAAAACGATAATTATACAAATCGAGGGTAAAACAGTAATTATATAAATGAGGGGC
129677479 AAAACG
129 AAAACG
* *
129677485 GTAATTTTATAAATCGAGGGTAAAATAGTAATTTTTAAACTGAGGGTAAAACGGTAATTCTGTAA
1 GTAATTCTATAAATCGAGGGTAAAATAGTAATTTTTAAACTGAGGGTAAAACAGTAATTCTGTAA
* * * *
129677550 ATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGA-GGGTA
66 ATCGAGGGTAAAACGATAATTATACAAATCGAGGGTAAAACAGTAATTATATAAA-TGAGGGGCA
129677614 AAACG
130 AAACG
*
129677619 GTAATTCTGTAAATCG
1 GTAATTCTATAAATCG
129677635 GGAGTACTTT
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
134 95 0.74
135 34 0.26
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (134 bp):
GTAATTCTATAAATCGAGGGTAAAATAGTAATTTTTAAACTGAGGGTAAAACAGTAATTCTGTAA
ATCGAGGGTAAAACGATAATTATACAAATCGAGGGTAAAACAGTAATTATATAAATGAGGGGCAA
AACG
Found at i:129677678 original size:81 final size:80
Alignment explanation
Indices: 129677365--129677665 Score: 331
Period size: 81 Copynumber: 3.7 Consensus size: 80
129677355 TTTGTAAATC
* * ** * **
129677365 GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
*
129677430 -GATAATTATGTAAA-T
66 AG-TAATT-TATAAACT
* * * * * *
129677445 CGGGGGTAAAATGGTAATTATGTAAAT-TAGGGGCAAAACGGTAATTTTATAAATCGAGGGTAAA
1 -GAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTTTACAAATCGAGGGTAAA
* *
129677509 ATAGTAATTTTTAAACT
64 ACAGTAATTTATAAACT
129677526 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
129677591 AGTAATTCTATAAACT
66 AGTAATT-TATAAACT
**** *
129677607 GAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACGGTAATTTTACAAATCGAGGG
129677666 CATTACAGTA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 71 0.38
81 117 0.62
82 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (80 bp):
GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
AGTAATTTATAAACT
Found at i:129682192 original size:21 final size:21
Alignment explanation
Indices: 129682168--129682211 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
129682158 TCTATATGTT
129682168 AAAGGTGTTAAATAGTTATGG
1 AAAGGTGTTAAATAGTTATGG
129682189 AAAGGTGTTAAATAGTTATGG
1 AAAGGTGTTAAATAGTTATGG
129682210 AA
1 AA
129682212 CCTTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (21 bp):
AAAGGTGTTAAATAGTTATGG
Found at i:129683267 original size:29 final size:29
Alignment explanation
Indices: 129683234--129683317 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
129683224 GTGAGTTATA
**
129683234 CTGATTTGGCTTTGGGCCATGCATATCGG
1 CTGATTTGGCTTCAGGCCATGCATATCGG
*
129683263 CTGATTTGGCTTCAGGCCATGCATATCTG
1 CTGATTTGGCTTCAGGCCATGCATATCGG
*
129683292 CTAATTTGGCTTCAGGCCATG-ATATC
1 CTGATTTGGCTTCAGGCCATGCATATC
129683318 ATTATTTTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 5 0.10
29 46 0.90
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (29 bp):
CTGATTTGGCTTCAGGCCATGCATATCGG
Found at i:129687479 original size:46 final size:46
Alignment explanation
Indices: 129687426--129687601 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
129687416 TATTTGGGCA
*
129687426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
129687472 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
129687519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
129687565 -CCAGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
129687602 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 63 0.58
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:129687581 original size:93 final size:93
Alignment explanation
Indices: 129687422--129687593 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
129687412 GGGATATTTG
*
129687422 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
129687487 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
129687515 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGA
129687579 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
129687594 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:129691149 original size:27 final size:27
Alignment explanation
Indices: 129691119--129691405 Score: 385
Period size: 27 Copynumber: 10.6 Consensus size: 27
129691109 TTAGTTTACC
* *
129691119 AAATTATCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
129691146 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
129691173 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
129691200 AAATTACTAAAATACCGTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
129691227 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
129691254 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
129691281 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
129691308 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
129691335 AAATTGCCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
129691362 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
129691389 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
129691406 TTGTAGGGTA
Statistics
Matches: 223, Mismatches: 37, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 223 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:129691420 original size:27 final size:27
Alignment explanation
Indices: 129691390--129691585 Score: 268
Period size: 27 Copynumber: 7.3 Consensus size: 27
129691380 TGATTTGTGA
*
129691390 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
129691417 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
129691444 AATTACTTG-AATACCCGTGTAGGGTAG
1 AATTAC-CGAAATACCCCTGTAGGGTAG
*
129691471 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
129691498 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
129691525 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
129691552 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
129691579 AATTACC
1 AATTACC
129691586 ATTTTACCCC
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:129691421 original size:54 final size:54
Alignment explanation
Indices: 129691359--129691586 Score: 266
Period size: 54 Copynumber: 4.2 Consensus size: 54
129691349 CCCCTGGTTT
**
129691359 GTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCTGTA-GGGTAG-AATTACCGAAATACCCTTGTAGG
* * * *
129691413 GTAGAATTATCAAAATACCCCTGTAGGGTAGAATTACTTG-AATACCCGTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTAC-CGAAATACCCTTGTAGG
* * *
129691467 GTAGAGTTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACTCC-TGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATAC-CCTTGTAGG
* ** * *
129691521 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
129691575 GTAAAATTACCA
1 GTAAAATTACCA
129691587 TTTTACCCCT
Statistics
Matches: 151, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.02
54 143 0.95
55 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:129691421 original size:108 final size:108
Alignment explanation
Indices: 129691126--129691405 Score: 452
Period size: 108 Copynumber: 2.6 Consensus size: 108
129691116 ACCAAATTAT
* * * * *
129691126 CAAAATAACCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
*
129691191 TAGTTTGTAAAATTACTAAAATACCGTTGGTTTATAAAATCAC
66 TAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCAC
129691234 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
* **
129691299 TAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATTGC
66 TAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCAC
* * *
129691342 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
129691406 TTGTAGGGTA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 160 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (108 bp):
CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
TAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCAC
Found at i:129691448 original size:81 final size:81
Alignment explanation
Indices: 129691251--129691586 Score: 281
Period size: 81 Copynumber: 4.1 Consensus size: 81
129691241 CCCCTGGTTT
** ** *
129691251 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGT-TTGTAAAATTA-
1 GTAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCT-GTAGGGTAGAATTAC
* **
129691314 CTAGAATACCCTTGGT-TT
65 CGA-AATACCCTT-GTAGG
* * ** **
129691332 ATAAAATTGCCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTA
1 GTAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTGTA-GGGTAG-AATTA
129691395 CCGAAATACCCTTGTAGG
64 CCGAAATACCCTTGTAGG
* * * *** * *
129691413 GTAGAATTATCAAAATACCCCT-GTAGGGTAGAATTACTTGAATACCCGTGTAGGGTAGAGTTAC
1 GTAAAATTACCAAAATACCCCTGGT-GGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTAC
*
129691477 CGAAATACCCCTGTAGG
65 CGAAATACCCTTGTAGG
* * * * **
129691494 GTAGAATTACCGAAATACTCCT-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
1 GTAAAATTACCAAAATACCCCTGGT-GGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTAC
* *
129691558 CGAGATACCCTTGTGGG
65 CGAAATACCCTTGTAGG
129691575 GTAAAATTACCA
1 GTAAAATTACCA
129691587 TTTTACCCCT
Statistics
Matches: 214, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.02
81 205 0.96
82 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACC
GAAATACCCTTGTAGG
Found at i:129693744 original size:40 final size:40
Alignment explanation
Indices: 129693659--129693809 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
129693649 AATTGAATGA
* * *
129693659 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
129693699 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
129693740 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
129693779 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
129693810 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:129693823 original size:40 final size:40
Alignment explanation
Indices: 129693696--129693825 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
129693686 ATGCTGGAAA
* * * *
129693696 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
129693736 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
129693776 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
129693816 TTATATCCGG
1 TTATATCCGG
129693826 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:129701714 original size:40 final size:40
Alignment explanation
Indices: 129701662--129701798 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
129701652 TATCCGGGCT
* * *
129701662 CCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGA
1 CCCGAAGGCAATTGTGCTGGAAATTATATCCGGGCTAAGA
* **** *
129701702 CCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGA
1 CCCGAAGGCAATTGTGCTGGAAATTATATCCGGGCTAAGA
* *
129701742 CCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGA
1 CCCGAAGGCAATT-GTGCTG-GAAATTATATCCGGGCTAAGA
*
129701782 CCCGAAGGCATTTGTGC
1 CCCGAAGGCAATTGTGC
129701799 ACATGGTTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
CCCGAAGGCAATTGTGCTGGAAATTATATCCGGGCTAAGA
Found at i:129701812 original size:40 final size:40
Alignment explanation
Indices: 129701685--129701814 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
129701675 ATGCTGGAAA
* * * *
129701685 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
129701725 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
129701765 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
129701805 TTATATCCGG
1 TTATATCCGG
129701815 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:129708781 original size:40 final size:40
Alignment explanation
Indices: 129708673--129708882 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
129708663 CGGGATTTAA
* * * * *
129708673 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
129708713 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
129708753 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
129708793 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
129708833 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
129708873 CCGGATATAT
1 CCGGATATAT
129708883 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:129712981 original size:2 final size:2
Alignment explanation
Indices: 129712974--129712999 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
129712964 GTTACATGCG
129712974 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
129713000 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:129713004 original size:2 final size:2
Alignment explanation
Indices: 129712999--129713030 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
129712989 TCTCTCTCTC
129712999 TA TA TA 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 TA TA TA
129713031 CATAACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129715584 original size:50 final size:50
Alignment explanation
Indices: 129715523--129715961 Score: 415
Period size: 50 Copynumber: 8.7 Consensus size: 50
129715513 AAGCTTTTTC
*
129715523 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
* * *
129715573 GTACACGTAGTAGCCTGCACTTAGTACTACACA--CTGACCTAACCATCTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGC-GACCTAACAATCTG
* * * * * * * *
129715622 ATACACGTAGTAGCCTGTACTTAGTACTACACATGTGATCGAAGCTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTG
**
129715673 GTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
* * *
129715723 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AATCGTCAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC-T--G
* * * * * * * * *
129715775 ATACACGTAGTACCCTGTACTTAGTACTACACA-GTGATCAAAGCTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTG
* *
129715825 GTACGCATAGTTG-CTGGCACTTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCT-GCACTTAGTACTACACATGCGACCTAACAATCTG
* * * * *
129715875 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AACCATT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC-TG
* *
129715925 TTAAACACATAGTAAG-CTGCACATAGTACTACACATG
1 GT--ACACATAGT-AGCCTGCACTTAGTACTACACATG
129715962 TCTTCTCTCA
Statistics
Matches: 315, Mismatches: 58, Indels: 30
0.78 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 51 0.16
50 148 0.47
51 54 0.17
52 56 0.18
53 5 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
Found at i:129715938 original size:152 final size:153
Alignment explanation
Indices: 129715523--129715962 Score: 667
Period size: 152 Copynumber: 2.9 Consensus size: 153
129715513 AAGCTTTTTC
* *
129715523 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
*
129715588 TGCACTTAGTACTACACAC-TGACCT--AACCATCTAATACACGTAGTAGCCTGTACTTAGTACT
66 TGCACTTAGTACTACACACGTGACCTAAAACCATCTAATACACGTAGTAACCTGTACTTAGTACT
* *
129715650 ACACATGTGATCGAAGCTATCGG
131 ACACATGTGATCAAAGCTATCAG
* *
129715673 GTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
* * * *
129715738 TGCACTTAGTACTACACACGTGACCTAAAATCGTCAAATACACGTAGTACCCTGTACTTAGTACT
66 TGCACTTAGTACTACACACGTGACCTAAAACCATCTAATACACGTAGTAACCTGTACTTAGTACT
129715803 ACACA-GTGATCAAAGCTATCAG
131 ACACATGTGATCAAAGCTATCAG
*
129715825 GTACGCATAGTTG-CTGGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GTACGCATAGTAGCCT-GCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* * * * *
129715889 CTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAA-ACACATAGTAAGCTGCACATAGTA
65 CTGCACTTAGTACTACACACGTGACCTAAAACCA-TCTAATACACGTAGTAACCTGTACTTAGTA
129715953 CTACACATGT
129 CTACACATGT
129715963 CTTCTCTCAA
Statistics
Matches: 262, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
150 80 0.31
151 8 0.03
152 131 0.50
153 43 0.16
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (153 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAAAACCATCTAATACACGTAGTAACCTGTACTTAGTACT
ACACATGTGATCAAAGCTATCAG
Found at i:129718740 original size:42 final size:44
Alignment explanation
Indices: 129718658--129718750 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 44
129718648 CTTACATGGG
* *
129718658 ATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACACG-AA
1 ATCTCAAACCGATGCCAATAGCCAAGATATGGTCTTACACGTAA
* * *
129718701 ATCTCATATCGATGCC-ATATCCAAGATATGGTCTTACACGTAA
1 ATCTCAAACCGATGCCAATAGCCAAGATATGGTCTTACACGTAA
129718744 A-CTCAAA
1 ATCTCAAA
129718751 TAACCCTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (44 bp):
ATCTCAAACCGATGCCAATAGCCAAGATATGGTCTTACACGTAA
Found at i:129720668 original size:30 final size:30
Alignment explanation
Indices: 129720632--129720691 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
129720622 CACTAACGTG
129720632 AGAGGAAGAGAGAAAGAAAGAAAGTTTTGC
1 AGAGGAAGAGAGAAAGAAAGAAAGTTTTGC
129720662 AGAGGAAGAGAGAAAGAAAGAAAGTTTTGC
1 AGAGGAAGAGAGAAAGAAAGAAAGTTTTGC
129720692 TTTCTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.33, T:0.13
Consensus pattern (30 bp):
AGAGGAAGAGAGAAAGAAAGAAAGTTTTGC
Found at i:129722506 original size:46 final size:46
Alignment explanation
Indices: 129722458--129722716 Score: 313
Period size: 46 Copynumber: 5.6 Consensus size: 46
129722448 ATGAAATCTG
* * *
129722458 TAAGACCAAGGTTGAAAGATACCATGGCAACATGAAATGAAAT-ATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA-A
* * *
129722504 TAAGGCCATGGTTGAAAGATATCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* **
129722550 TAAGACCATGGTTGAAAGATATCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
** * * *
129722596 TAAGATGATGGTTGAAAGATACTATGACAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * *
129722642 CAAGACCATGGTTGAAAGATACCATGGCAGCATGACAAGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * *
129722688 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
129722717 TTATACTAGA
Statistics
Matches: 181, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
46 180 0.99
47 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:129722607 original size:92 final size:92
Alignment explanation
Indices: 129722458--129722713 Score: 347
Period size: 92 Copynumber: 2.8 Consensus size: 92
129722448 ATGAAATCTG
* *
129722458 TAAGACCAAGGTTGAAAGATACCATGGCAACATGA-AATGAAAT-ATGTAAGGCCATGGTTGAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAA-GAAATGA-GTAAGACCATGGTTGAAA
*
129722521 GATA-TCATGGCAACGTGACATGAAATGAA
64 GATACT-ATGACAACGTGACATGAAATGAA
* ** * **
129722550 TAAGACCATGGTTGAAAGATATCATGGCAACATGACGGGAAATGAATAAGATGATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
129722615 TACTATGACAACGTGACATGAAATGAA
66 TACTATGACAACGTGACATGAAATGAA
* * *
129722642 CAAGACCATGGTTGAAAGATACCATGGCAGCATGACAAGAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
*
129722707 CACTATG
66 TACTATG
129722714 GCATTATACT
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
92 140 0.99
93 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
TACTATGACAACGTGACATGAAATGAA
Found at i:129726705 original size:42 final size:42
Alignment explanation
Indices: 129726607--129726713 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
129726597 GTGCAAATGC
* *
129726607 CATGTCCCAGACATGGTCTTACACGGGACCTCACATCGATAT
1 CATGTCCCAGACCTAGTCTTACACGGGACCTCACATCGATAT
** * *
129726649 CATGTCTGAGACCTAGTATTACACGGGACCTCACATCGATGT
1 CATGTCCCAGACCTAGTCTTACACGGGACCTCACATCGATAT
*
129726691 CATGTCCCAAACCTAGTCTTACA
1 CATGTCCCAGACCTAGTCTTACA
129726714 GGAAATTTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (42 bp):
CATGTCCCAGACCTAGTCTTACACGGGACCTCACATCGATAT
Found at i:129726848 original size:48 final size:47
Alignment explanation
Indices: 129726787--129726905 Score: 141
Period size: 48 Copynumber: 2.5 Consensus size: 47
129726777 ACGCAATATC
* * **
129726787 CCAGATATGGTCTTATACTGGC-ACACATATCAATGCCAATGCCATGT
1 CCAGACATGGTCTTACACTGGCTA-ACATATCAACACCAATGCCATGT
* * *
129726834 CTCAGACATGGTCTTACACTAGCTATCATATCAACACCGATGCCATGT
1 C-CAGACATGGTCTTACACTGGCTAACATATCAACACCAATGCCATGT
129726882 CCTAGACATGGTCTTACACTGGCT
1 CC-AGACATGGTCTTACACTGGCT
129726906 CTCATTAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 58 0.95
49 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
CCAGACATGGTCTTACACTGGCTAACATATCAACACCAATGCCATGT
Found at i:129734447 original size:21 final size:20
Alignment explanation
Indices: 129734413--129734466 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
129734403 CGGCCATGCC
*
129734413 TTTTTT-TTTATACTTATAT
1 TTTTTTATTTTTACTTATAT
*
129734432 TATTTTTATTTTTACTTTTAT
1 T-TTTTTATTTTTACTTATAT
129734453 TTCTATTTATTTTT
1 TT-T-TTTATTTTT
129734467 GAAGACTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 6 0.21
21 13 0.45
22 9 0.31
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTTACTTATAT
Found at i:129769304 original size:40 final size:39
Alignment explanation
Indices: 129769193--129769343 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
129769183 TATAATCAGT
* * *
129769193 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
129769233 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
129769273 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
129769313 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
129769344 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:129769327 original size:80 final size:79
Alignment explanation
Indices: 129769193--129769343 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
129769183 TATAATCAGT
*
129769193 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
129769258 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
129769273 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
129769336 CCGGATAT
64 CCGGATAT
129769344 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:129770186 original size:17 final size:19
Alignment explanation
Indices: 129770163--129770208 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
129770153 AAGAAGCATG
129770163 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
129770181 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
129770199 AATCATGCTC
1 AATCATGCTC
129770209 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:129772250 original size:26 final size:26
Alignment explanation
Indices: 129772221--129772270 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
129772211 ATAACAATAT
*
129772221 GAACTTGGCCCACTCATGGAAGTTAA
1 GAACTTGGCCCACTCATAGAAGTTAA
129772247 GAACTTGGCCCACTCATAGAAGTT
1 GAACTTGGCCCACTCATAGAAGTT
129772271 TTCTTGTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (26 bp):
GAACTTGGCCCACTCATAGAAGTTAA
Found at i:129774270 original size:25 final size:25
Alignment explanation
Indices: 129774241--129774288 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
129774231 TTATAACATG
* * *
129774241 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
129774266 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
129774289 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:129774564 original size:25 final size:24
Alignment explanation
Indices: 129774401--129774568 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
129774391 GAGGAAGTGC
*
129774401 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
129774425 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
* *
129774449 AAAAGGGCTTATGCCCCAATTACT
1 AAAAGGGCTTATGCCCCAGTTATT
129774473 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
129774497 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
129774521 AAAAGGGCTTTTGCCCCAGTAATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
129774545 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
129774569 ATGATAAAGT
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
24 121 0.92
25 10 0.08
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:129782558 original size:25 final size:25
Alignment explanation
Indices: 129782529--129782578 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
129782519 CCTTATAACA
* * *
129782529 TGAAAATGACCGTTTTGCCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
129782554 TGAAAATGACCATTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
129782579 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
TGAAAATGACCATTATACCCCTAGG
Found at i:129782717 original size:24 final size:24
Alignment explanation
Indices: 129782690--129782833 Score: 186
Period size: 24 Copynumber: 6.0 Consensus size: 24
129782680 GGAGGAAGTG
129782690 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
129782714 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
129782738 GAAAAGGACTTATGCCCTAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
129782761 CTAAAA-GGCTTATGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
*
129782785 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
129782809 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
129782834 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
23 19 0.18
24 77 0.72
25 11 0.10
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:129782790 original size:47 final size:46
Alignment explanation
Indices: 129782691--129782814 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 46
129782681 GAGGAAGTGC
129782691 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTAT-AAAA-GGCTTATGCCCCAGTTATG
* * *
129782739 AAAAGGACTTATGCCCTAGTTACTAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGCTTATGCCCCAGTTATG
129782786 AAAAGGGCTTATGCCCCAGTTATTAAAAG
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG
129782815 AGGCTAGGCC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 44 0.64
48 24 0.35
49 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGCTTATGCCCCAGTTATG
Found at i:129791543 original size:14 final size:13
Alignment explanation
Indices: 129791520--129791559 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
129791510 TTTTAATTTC
129791520 TTTC-TTTCTTTT
1 TTTCTTTTCTTTT
129791532 TTTCTTTTTCTTTCT
1 TTTC-TTTTCTTT-T
129791547 TTTCTTTTCTTTT
1 TTTCTTTTCTTTT
129791560 CTTTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 1 0.04
14 15 0.60
15 5 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTCTTTT
Found at i:129791550 original size:5 final size:5
Alignment explanation
Indices: 129791516--129791563 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
129791506 TCTATTTTAA
129791516 TTTC- TTTC- TTTC- TTT-T TTTCT TTT-T CTTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TTTCT TTTCT TTTCT
129791562 TT
1 TT
129791564 AATTTTCCCC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 15 0.38
5 24 0.60
6 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:129791570 original size:10 final size:9
Alignment explanation
Indices: 129791516--129791563 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
129791506 TCTATTTTAA
129791516 TTTC-TTTC
1 TTTCTTTTC
129791524 TTTCTTTT-
1 TTTCTTTTC
129791532 TTTCTTTTTC
1 TTTC-TTTTC
129791542 TTTCTTTTC
1 TTTCTTTTC
129791551 TTTTCTTTTC
1 -TTTCTTTTC
129791561 TTT
1 TTT
129791564 AATTTTCCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.22
9 15 0.42
10 13 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:129795710 original size:26 final size:27
Alignment explanation
Indices: 129795658--129795717 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
129795648 CTTGATTTAA
*
129795658 AAAATTATTGAAATACCCCTGTAGGGT
1 AAAATTATCGAAATACCCCTGTAGGGT
* * *
129795685 AGAATTATCG-AATACCCTTGTGGGGT
1 AAAATTATCGAAATACCCCTGTAGGGT
129795711 AAAATTA
1 AAAATTA
129795718 CCTTTTTGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCTGTAGGGT
Found at i:129795955 original size:28 final size:26
Alignment explanation
Indices: 129795914--129796029 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 26
129795904 TGGAGGAAGC
129795914 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
129795941 GCTTCTGGTGGCTATGCCATAAATATCT
1 G-TTCTGGTGGCTATGCCA-CAATATCT
*
129795969 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
129795995 GTATCTGGTGTCTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
129796022 GTTCTGGT
1 GTTCTGGT
129796030 AGCCATGCTG
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.19
27 41 0.51
28 25 0.31
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:129801032 original size:27 final size:27
Alignment explanation
Indices: 129801002--129801069 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
129800992 CGATTTAAAA
*
129801002 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
129801029 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
129801056 AATTACCGAGATAC
1 AATTATCGAAATAC
129801070 TATTGTGGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:129801080 original size:27 final size:27
Alignment explanation
Indices: 129801009--129801089 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
129800999 AAAAATTATT
* *
129801009 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCACTGTAGGGTAGAATTACC
*
129801036 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCACTGTAGGGTAGAATTACC
* * * * *
129801063 GAGATACTATTGTGGGGTACAATTACC
1 GAAATACCACTGTAGGGTAGAATTACC
129801090 ATTTTGCCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAATACCACTGTAGGGTAGAATTACC
Found at i:129801355 original size:27 final size:27
Alignment explanation
Indices: 129801284--129801398 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
129801274 TAGAGGAAGC
*
129801284 ATTCTGGTGGCTATGCCACAAATATCT
1 ATTCTGGTGGCTATGCCACAAGTATCT
* **
129801311 GTTTCTTATGGCTATGCCACAAGTATCT
1 -ATTCTGGTGGCTATGCCACAAGTATCT
*
129801339 ATTCTGGTGGCTCTGCCAC-AGTATCT
1 ATTCTGGTGGCTATGCCACAAGTATCT
* * * *
129801365 GTATCTGGTGACTCTGTCACAA-TATCT
1 AT-TCTGGTGGCTATGCCACAAGTATCT
*
129801392 GTTCTGG
1 ATTCTGG
129801399 CAACCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.18
27 37 0.50
28 24 0.32
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTCTGGTGGCTATGCCACAAGTATCT
Found at i:129801571 original size:6 final size:6
Alignment explanation
Indices: 129801560--129801609 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
129801550 TATGGGCTTC
* *
129801560 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
129801608 AT
1 AT
129801610 AATGTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:129802950 original size:28 final size:29
Alignment explanation
Indices: 129802919--129803001 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 29
129802909 GTTAAATCTA
*
129802919 TTAATTAAA-GTGT-TTAGTGTGTCTTAGT
1 TTAATTAAATGT-TATTAATGTGTCTTAGT
*
129802947 TTAA-TACATGTTATTAATGTGTCTTAGT
1 TTAATTAAATGTTATTAATGTGTCTTAGT
** *
129802975 TTAA-TACTTGTTTTTAATGTGTCTTAG
1 TTAATTAAATGTTATTAATGTGTCTTAG
129803002 CTGCTGCTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.08
28 45 0.92
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (29 bp):
TTAATTAAATGTTATTAATGTGTCTTAGT
Found at i:129806557 original size:93 final size:93
Alignment explanation
Indices: 129806449--129806620 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
129806439 CGCCCGTAAG
* * *
129806449 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAG-TGAACTCAGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAT-AACTCAGACTCAACTC
129806513 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* *
129806542 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGATAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGATAACTCAGACTCAACTCA
129806607 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
129806621 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGATAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:129806611 original size:46 final size:47
Alignment explanation
Indices: 129806445--129806617 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 47
129806435 AACCCGCCCG
* * * *
129806445 TAAG-TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
129806491 TAAG-TGAACTCAGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
***
129806537 TTTCATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
129806584 TAAGAT-AACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGATGAACTCGGACTCAACTCAACGAGTTCGGA
129806618 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 62 0.59
47 34 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:129809894 original size:40 final size:40
Alignment explanation
Indices: 129809829--129810036 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
129809819 TCTTCGGAAT
* ** *
129809829 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
129809868 TGAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
129809908 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
129809948 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * * *
129809988 TTATCCCGGATATAATC-ACTAGCATAAATACCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
129810028 TTAGCCCGG
1 TTAGCCCGG
129810037 GTATCATTCA
Statistics
Matches: 149, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 146 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:129813285 original size:32 final size:32
Alignment explanation
Indices: 129813249--129813326 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
129813239 TCATTATTTT
*
129813249 AAGTATAATTTCATAATAGTTCATTTCTAGTC
1 AAGTATAATTTCATAATAGTTCATTTCGAGTC
129813281 AAGTATAATTTCATAATAGTTCATTTCGAGTC
1 AAGTATAATTTCATAATAGTTCATTTCGAGTC
* *
129813313 TAG-ATCATTTCATA
1 AAGTATAATTTCATA
129813327 TCAGAACTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
31 10 0.23
32 33 0.77
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (32 bp):
AAGTATAATTTCATAATAGTTCATTTCGAGTC
Found at i:129814128 original size:17 final size:18
Alignment explanation
Indices: 129814086--129814131 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
129814076 TATCATTTAC
* *
129814086 CATTTATTGAGCATTATT
1 CATTTATCGGGCATTATT
*
129814104 -ATTAATCGGGCATT-TT
1 CATTTATCGGGCATTATT
129814120 CATTTATCGGGC
1 CATTTATCGGGC
129814132 TATAACGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:129817890 original size:29 final size:29
Alignment explanation
Indices: 129817857--129817987 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
129817847 GTGACGAGAT
129817857 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
129817886 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
129817915 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
129817944 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
129817973 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
129817988 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:129826017 original size:29 final size:29
Alignment explanation
Indices: 129825984--129826114 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
129825974 GTGACGAGAT
129825984 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
129826013 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
129826042 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
129826071 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
129826100 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
129826115 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Done.