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 464 of 770
Found at i:143169047 original size:46 final size:46
Alignment explanation
Indices: 143168994--143169169 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
143168984 TATTTGGGCA
*
143168994 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
143169040 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
143169087 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
143169133 CCCGAGCTCGTTGAGTTGATTCCGCGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
143169170 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:143170884 original size:115 final size:115
Alignment explanation
Indices: 143170682--143170911 Score: 433
Period size: 115 Copynumber: 2.0 Consensus size: 115
143170672 ATGATAAGTC
*
143170682 TCGGTTCAGAAAAGTATGAATAAAGGTTTATGATACATATGTGATAAATATTCATATTTGCTTAA
1 TCGGTTCAGAAAAGTATGAATAAAGGTTTATGATACATATGTGATAAAAATTCATATTTGCTTAA
143170747 TGCTCATATGATGTAGTGTATGTGGCTTACTTGATAAGATGAACGGAATA
66 TGCTCATATGATGTAGTGTATGTGGCTTACTTGATAAGATGAACGGAATA
143170797 TCGGTTCAGAAAAGTATGAATAAAGGTTTATGATACATATGTGATAAAAATTCATATTTGCTTAA
1 TCGGTTCAGAAAAGTATGAATAAAGGTTTATGATACATATGTGATAAAAATTCATATTTGCTTAA
* *
143170862 TGTTCATATGATGTAGTGTATGTGGCTTACTTGATAAGATGAATGGAATA
66 TGCTCATATGATGTAGTGTATGTGGCTTACTTGATAAGATGAACGGAATA
143170912 AATAGAAAGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (115 bp):
TCGGTTCAGAAAAGTATGAATAAAGGTTTATGATACATATGTGATAAAAATTCATATTTGCTTAA
TGCTCATATGATGTAGTGTATGTGGCTTACTTGATAAGATGAACGGAATA
Found at i:143171417 original size:44 final size:44
Alignment explanation
Indices: 143171354--143171442 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
143171344 GTCATATGTG
143171354 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCT
143171398 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCT
143171442 T
1 T
143171443 TACCGAAGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (44 bp):
TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCT
Found at i:143172295 original size:15 final size:15
Alignment explanation
Indices: 143172247--143172326 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
143172237 GTATCTTGGG
*
143172247 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
**
143172262 CCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
143172277 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
143172292 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
143172307 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
143172321 TTTCTT
1 TTTCTT
143172327 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:143172307 original size:30 final size:30
Alignment explanation
Indices: 143172238--143172325 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
143172228 CATAGTATCG
* * ** *
143172238 TATCTTGGGTTTCTTTATCCTGGACCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
143172268 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
143172298 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
143172326 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 8 0.16
30 40 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:143174204 original size:46 final size:46
Alignment explanation
Indices: 143174152--143174327 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
143174142 ATATTTGGCA
143174152 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
143174198 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
143174245 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
143174291 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
143174328 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:143174307 original size:93 final size:93
Alignment explanation
Indices: 143174148--143174319 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
143174138 CTGGATATTT
* **
143174148 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
143174213 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
143174241 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
143174306 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
143174320 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:143178275 original size:39 final size:40
Alignment explanation
Indices: 143178177--143178363 Score: 195
Period size: 39 Copynumber: 4.7 Consensus size: 40
143178167 AATGATGTCC
* * * *
143178177 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCG
* * *
143178217 GACTAAGAT-CCGAAGGCATTCGTGTGAGTTAATAAATCCG
1 GGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCCG
* *
143178257 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCG
*
143178296 GGTTAAGTCCCGAA-GCATTCGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AATCCG
** *
143178335 GGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGT
143178364 CGTTATATCC
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 65 0.53
40 52 0.42
41 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCG
Found at i:143178309 original size:79 final size:79
Alignment explanation
Indices: 143178177--143178363 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 79
143178167 AATGATGTCC
* * *
143178177 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAA-GCATTCGTG
*
143178241 TGAGTTAATA-AATCCG
64 CGAGTTAATATAA-CCG
* **
143178257 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGCATTCGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGCATTCGTGC
*
143178320 GAGTTACTATAACCG
65 GAGTTAATATAACCG
** * *
143178335 GGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
143178364 CGTTATATCC
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 26 0.29
79 51 0.56
80 14 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGCATTCGTGCG
AGTTAATATAACCG
Found at i:143185733 original size:40 final size:39
Alignment explanation
Indices: 143185568--143185751 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
143185558 AAATTGAATG
* * *
143185568 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
143185608 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
143185648 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
143185688 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
143185727 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
143185752 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:143185776 original size:80 final size:81
Alignment explanation
Indices: 143185608--143185796 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
143185598 GCTGGAAATT
* * * *
143185608 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
143185673 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
143185689 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
143185752 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
143185768 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
143185797 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:143187425 original size:29 final size:29
Alignment explanation
Indices: 143187392--143187580 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
143187382 GTGACGAGAT
143187392 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
143187421 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
143187450 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
143187479 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
143187508 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
143187537 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
143187566 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
143187581 GAAATGGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:143194571 original size:20 final size:20
Alignment explanation
Indices: 143194546--143194604 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
143194536 ACTTTGAAAC
143194546 AGGGCACACGCCCGTGTGGA
1 AGGGCACACGCCCGTGTGGA
* *
143194566 AGGGCAACACACCCATGTGGA
1 AGGGC-ACACGCCCGTGTGGA
* *
143194587 AGGGTGACATGCCCGTGT
1 AGGG-CACACGCCCGTGT
143194605 CCTCCATCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.14
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:143195822 original size:46 final size:44
Alignment explanation
Indices: 143195733--143195901 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 44
143195723 TCATATCTGT
* *
143195733 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTCGTA-
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
*
143195779 GTCGATGCATGT-CCAGGACATGTCTTACACTGGCTTACATCTCGAG
1 GTCGATGCATGTCCCA-GACATGTCTTACACTGAC--ACATCTCGAG
* * * ** *
143195825 GCCGAAGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAAT
1 GTCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGAG
*
143195871 GTCAATGCCATGTCCCAGACATGGTCTTACA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACA
143195902 GTGGCTCTCA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
44 15 0.15
45 10 0.10
46 49 0.49
47 18 0.18
48 9 0.09
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:143195898 original size:94 final size:92
Alignment explanation
Indices: 143195687--143195952 Score: 251
Period size: 94 Copynumber: 2.8 Consensus size: 92
143195677 TCAGGTGCCG
*** * * *
143195687 ATGCCATGTCCCAGACATGGTCTTACACAACCTCTATCATATCTGTGTCGATGCCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATC-GGGCCGAAG-CATGTCCCAAA
*
143195752 CATGGTCTTACACT-GACACCTCTCGTAGTCG
63 CAT-GTCTTACACTAG-CACCTCTCGTAGTCA
* *
143195783 ATG-CATGT-CCAGGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGAAGCATGTCCCAGAC
1 ATGCCATGTCCCA-GACATGGTCTTACACTGGCTCTACATATCG-GGCCGAAGCATGTCCCAAAC
*
143195844 ATGTCTTACACTAGCA-CTCATCTTAATGTCA
64 ATGTCTTACACTAGCACCTC-TCGT-A-GTCA
* *
143195875 ATGCCATGTCCCAGACATGGTCTTACAGTGGCTCT-CATAAT-GTGGCCGACGCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCG-GGCCGAAGCATGTCCCAAAC
*
143195938 ATGTCTTATACTAGC
64 ATGTCTTACACTAGC
143195953 TCACACAAGT
Statistics
Matches: 143, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
89 3 0.02
90 15 0.10
91 16 0.11
92 16 0.11
93 12 0.08
94 66 0.46
95 12 0.08
96 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGGGCCGAAGCATGTCCCAAACAT
GTCTTACACTAGCACCTCTCGTAGTCA
Found at i:143200724 original size:28 final size:28
Alignment explanation
Indices: 143200655--143200755 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
143200645 GACAAGATTG
* * * *
143200655 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
143200685 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
143200713 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
143200742 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
143200756 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:143200749 original size:29 final size:28
Alignment explanation
Indices: 143200684--143200755 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
143200674 AAAATTGTAC
*
143200684 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
143200712 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
143200741 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
143200756 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:143204000 original size:2 final size:2
Alignment explanation
Indices: 143203993--143204025 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
143203983 TCATGACATG
143203993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
143204026 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:143211073 original size:40 final size:40
Alignment explanation
Indices: 143210951--143211098 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
143210941 TGAATGATAC
* * *
143210951 CCGGGCTAAGTCCCGAAGGCATTTATGCTAA-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTATTATAT
* * * *
143210991 CCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
** *
143211031 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
143211071 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
143211099 TTGTGGTTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 90 0.99
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
Found at i:143211084 original size:80 final size:80
Alignment explanation
Indices: 143210951--143211118 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
143210941 TGAATGATAC
* ** *
143210951 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCAGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCAGGCTAAGACCCGAAGGCAATT-
*
143211015 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * * *
143211031 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGACCAAATCCAGGCTAAGACCCGAAGGCAATT
**
143211095 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
143211111 CC-GGCTAA
1 CCGGGCTAA
143211119 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 8 0.11
80 64 0.85
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCAGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:143211113 original size:40 final size:40
Alignment explanation
Indices: 143210951--143211118 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
143210941 TGAATGATAC
* * * *
143210951 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
143210991 CCAGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
143211031 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
143211071 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
143211111 CC-GGCTAA
1 CCGGGCTAA
143211119 ATTCCGAAGA
Statistics
Matches: 101, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
39 8 0.08
40 89 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:143213295 original size:31 final size:31
Alignment explanation
Indices: 143213257--143213319 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
143213247 TGTTAGACTT
143213257 AGTAGATACGCTCGGGAATGTATTTCGTCCG
1 AGTAGATACGCTCGGGAATGTATTTCGTCCG
143213288 AGTAGATACGCTCGGGAATGTATTTCGTCCG
1 AGTAGATACGCTCGGGAATGTATTTCGTCCG
143213319 A
1 A
143213320 TGCTATCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (31 bp):
AGTAGATACGCTCGGGAATGTATTTCGTCCG
Found at i:143219107 original size:40 final size:40
Alignment explanation
Indices: 143219062--143219268 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
143219052 GAATGATACT
* ** * *
143219062 CGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
143219102 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
143219142 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* * *** *
143219182 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* ** *
143219222 CGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATC
143219262 C-GGCTAA
1 CGGGCTAA
143219269 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
Found at i:143222532 original size:44 final size:45
Alignment explanation
Indices: 143222467--143222578 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 45
143222457 GTGTCGATGC
* *
143222467 CATGTCCCA-AAATGGTCTTACACTGAC-ACCTCTCGAGGCCGAAG
1 CATGTCCCAGACAT-GTTTTACACTGACTACCTCTCGAGGCCGAAG
* *
143222511 CATGTCCCAGACATGTTTTACACTGTCTTACGTCTCGAGGCCGAAG
1 CATGTCCCAGACATGTTTTACACTGAC-TACCTCTCGAGGCCGAAG
143222557 CATGTCCCAGACATGTTTTACA
1 CATGTCCCAGACATGTTTTACA
143222579 ATAGCACTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 20 0.33
45 3 0.05
46 38 0.62
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTTTTACACTGACTACCTCTCGAGGCCGAAG
Found at i:143224603 original size:40 final size:40
Alignment explanation
Indices: 143224561--143224710 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
143224551 ATCACGATTT
*
143224561 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
* *
143224601 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
* * * * *
143224641 GCATAAATGTCC-TCGGGACTTAGCCCGGATCTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATTTAACAACTA
* *
143224681 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
143224711 ATAATTTCCA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
Found at i:143224629 original size:80 final size:80
Alignment explanation
Indices: 143224529--143224714 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 80
143224519 CCGCACCAAG
* * * * * * *
143224529 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCC-TCGGGACTTAGCCCGGATCT
*
143224593 AACAACTTGCACGAA-T
65 AACAACTAGCAC-AATT
* * * *
143224609 GCCTTCGGGTCTTAGCCCGGATTTAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATCTA
1 GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATCTA
* *
143224674 GCCACTAGCACAATT
66 ACAACTAGCACAATT
143224689 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAACCCGGATATAA
143224715 TTTCCAGCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 84 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATCTA
ACAACTAGCACAATT
Found at i:143224724 original size:80 final size:80
Alignment explanation
Indices: 143224529--143224750 Score: 205
Period size: 80 Copynumber: 2.8 Consensus size: 80
143224519 CCGCACCAAG
* * * * *** * * *
143224529 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCATAAATGTCC-TCGGGACTTAGCCCGGATCT
*
143224593 AACAACTTGCACGAAT
65 AACAACTAGCACGAAT
* * *
143224609 GCCTTCGGGTCTTAGCCCGGATTTAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATCTA
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCATAAATGTCCTCGGGACTTAGCCCGGATCTA
* *
143224674 GCCACTAGCAC-AATT
66 ACAACTAGCACGAA-T
* * * * * * *
143224689 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACGTCTTCGGGGCTTAGCCTGGAT
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCATAAATGTCCTCGGGACTTAGCCCGGAT
143224751 ATCATTCAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
79 2 0.02
80 112 0.97
81 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
GCCTTCGGGTCTTAACCCGGATATAACTACCAGCATAAATGTCCTCGGGACTTAGCCCGGATCTA
ACAACTAGCACGAAT
Found at i:143226900 original size:15 final size:15
Alignment explanation
Indices: 143226880--143226910 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
143226870 ATTTAGGGTC
143226880 TATTTGAGTAATGTA
1 TATTTGAGTAATGTA
143226895 TATTTGAGTAATGTA
1 TATTTGAGTAATGTA
143226910 T
1 T
143226911 GAAGTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TATTTGAGTAATGTA
Found at i:143231920 original size:28 final size:28
Alignment explanation
Indices: 143231859--143231956 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
143231849 TCACAAATTG
** * *
143231859 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
143231888 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
143231916 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
143231944 GCACTAAGTGTGC
1 GCACTAAGTGTGC
143231957 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:143238750 original size:28 final size:27
Alignment explanation
Indices: 143238687--143238756 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
143238677 ATAGTGAGTC
143238687 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
143238714 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
143238742 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
143238757 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:143246766 original size:28 final size:27
Alignment explanation
Indices: 143246703--143246772 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
143246693 ATAGTGAGTC
143246703 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
143246730 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
143246758 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
143246773 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:143248960 original size:40 final size:40
Alignment explanation
Indices: 143248905--143249198 Score: 373
Period size: 40 Copynumber: 7.4 Consensus size: 40
143248895 TGATAATGGT
* *
143248905 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGG
*
143248945 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGG
* *
143248985 GCTAAGTCCTGAAGGCAGTTGTGCTAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGG
* * *
143249025 GCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGG
* *
143249065 GCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGG
**
143249105 GCTAAGTCCCGAAGGCATTTGTG-TGAACTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCCGG
* *
143249145 GCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCCGG
* *
143249184 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
143249199 TACTTGGTTT
Statistics
Matches: 226, Mismatches: 24, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
39 16 0.07
40 209 0.92
41 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGG
Found at i:143251790 original size:29 final size:29
Alignment explanation
Indices: 143251744--143251804 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
143251734 TACCGGTGAT
143251744 CACATCGAGCGCTAAAGCTTCCTCTCGAG
1 CACATCGAGCGCTAAAGCTTCCTCTCGAG
*
143251773 CACATCGAGCGCTGAAGCTTCCTCTCGAG
1 CACATCGAGCGCTAAAGCTTCCTCTCGAG
143251802 CAC
1 CAC
143251805 GGACCACGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.20
Consensus pattern (29 bp):
CACATCGAGCGCTAAAGCTTCCTCTCGAG
Found at i:143254861 original size:28 final size:27
Alignment explanation
Indices: 143254804--143254885 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
143254794 ATACAGTCTA
*
143254804 GGCCTAAGCCCATATCAGTAACAGA-CTG
1 GGCCTAAGCCCATA-CAGTAACA-ATATG
143254832 GGCCTAAGCCCATTACAGTAACAATATG
1 GGCCTAAGCCCA-TACAGTAACAATATG
* * *
143254860 GGCATTAGCCCAATGCAGTAACAATA
1 GGCCTAAGCCC-ATACAGTAACAATA
143254886 CAGTACAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.02
28 43 0.91
29 3 0.06
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (27 bp):
GGCCTAAGCCCATACAGTAACAATATG
Found at i:143255261 original size:27 final size:27
Alignment explanation
Indices: 143255209--143255262 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
143255199 ATCATAGCAC
* *
143255209 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTAGAAGGGTA
*
143255236 AAAT-AGTCATTTTACCCTATAAGGGTA
1 AAATCAGTCA-TTTACCCTAGAAGGGTA
143255263 TTTTGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAAGGGTA
Found at i:143257902 original size:26 final size:27
Alignment explanation
Indices: 143257866--143257973 Score: 116
Period size: 27 Copynumber: 4.0 Consensus size: 27
143257856 AAGCGTCCCC
*
143257866 GTGGCTATGCCACAATTATCTGATC-G
1 GTGGCTCTGCCACAATTATCTGATCTG
143257892 GTGGCTCTGCCACATATT-TCT-ATTCTG
1 GTGGCTCTGCCACA-ATTATCTGA-TCTG
*
143257919 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
* * *
143257947 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
143257973 G
1 G
143257974 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.01
26 26 0.37
27 28 0.39
28 15 0.21
29 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:143265675 original size:39 final size:39
Alignment explanation
Indices: 143265621--143265734 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
143265611 CAGTGATGTT
*
143265621 TATCCAGACTTAGGGTCCACAGGCTATGTACTGGAATTA
1 TATCCAGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
**
143265660 TATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCAGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
* *
143265699 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAA
1 TATCCAGACTTAGGGTCCACAGGCTATGTGCTGGAA
143265735 ATATGTCCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
TATCCAGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
Found at i:143265758 original size:39 final size:39
Alignment explanation
Indices: 143265621--143265759 Score: 136
Period size: 39 Copynumber: 3.6 Consensus size: 39
143265611 CAGTGATGTT
* ** * *
143265621 TATCCAGACTTAGGGTCCACAGGCTATGTACTGGAATTA
1 TATCCGGACTTAAAGTCCACAGGCTATGTGCTGGAAATA
* ** ** *
143265660 TATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAAGTCCACAGGCTATGTGCTGGAAATA
*
143265699 TATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAATA
1 TATCCGGACTTAAAGTCCACAGGCTATGTGCTGGAAATA
* *
143265738 TGTCCGGGC-TAAAGTCCCACAG
1 TATCCGGACTTAAAGT-CCACAG
143265760 ACTTTGAGCC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.06
39 83 0.94
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAAGTCCACAGGCTATGTGCTGGAAATA
Found at i:143270302 original size:24 final size:25
Alignment explanation
Indices: 143270260--143270307 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
143270250 CTGCGATGAA
143270260 AGATTCAGCGGCAAGATCAGAAGCT
1 AGATTCAGCGGCAAGATCAGAAGCT
143270285 AGATTCAGC-GCAAGATCAGAAGC
1 AGATTCAGCGGCAAGATCAGAAGC
143270308 AGAGCACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.38, C:0.21, G:0.27, T:0.15
Consensus pattern (25 bp):
AGATTCAGCGGCAAGATCAGAAGCT
Found at i:143292814 original size:40 final size:39
Alignment explanation
Indices: 143292721--143292887 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 39
143292711 AAATTGAATG
* *
143292721 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCT-GGAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTAGG-ATT
* **
143292760 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-GATT
* *
143292800 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-GATT
* *
143292840 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-G-GATT
143292880 ATATCCGG
1 ATATCCGG
143292888 TTATATTCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
39 32 0.30
40 71 0.67
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGATT
Found at i:143298228 original size:40 final size:40
Alignment explanation
Indices: 143298169--143298375 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
143298159 CAATTGAATG
* * * *
143298169 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
143298209 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
143298248 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
143298288 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
143298328 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
143298368 ATATCCGG
1 ATATCCGG
143298376 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:143298348 original size:80 final size:77
Alignment explanation
Indices: 143298170--143298375 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
143298160 AATTGAATGA
* * ** * * *
143298170 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
143298235 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
143298247 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
143298312 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
143298329 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
143298376 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:143300836 original size:27 final size:28
Alignment explanation
Indices: 143300806--143300875 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
143300796 ATAGTGTGTC
*
143300806 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
143300833 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
143300861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
143300876 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:143303689 original size:27 final size:27
Alignment explanation
Indices: 143303642--143303693 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
143303632 CATTTGATAT
*
143303642 TGATTCTGTATTGGACTTAGGCCCACC
1 TGATTCTGTAATGGACTTAGGCCCACC
*
143303669 TGATTCTGTTAATGGGC-TAGGCCCA
1 TGATTCTG-TAATGGACTTAGGCCCA
143303694 ACTATTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (27 bp):
TGATTCTGTAATGGACTTAGGCCCACC
Found at i:143305639 original size:27 final size:27
Alignment explanation
Indices: 143305512--143305641 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
143305502 ACCCTTAATT
* * *
143305512 GGGTAAAATGATCAAAATAACCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
***
143305539 GGGTAAAATGACCGAAATACCTTTATA
1 GGGTAAAATGACCGAAATACCCCCATA
143305566 GGGTAAAATGACCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* *
143305593 AGGTAAAATGATCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
*
143305620 GGGTAAAATGACCTAAATACCC
1 GGGTAAAATGACCGAAATACCC
143305642 TAGAATAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCCATA
Found at i:143306242 original size:34 final size:35
Alignment explanation
Indices: 143306181--143306259 Score: 133
Period size: 34 Copynumber: 2.3 Consensus size: 35
143306171 TATTGAGGTA
143306181 GGCTTAGGCCCAGACTGTTTACTATTACTAAAATG
1 GGCTTAGGCCCAGACTGTTTACTATTACTAAAATG
* *
143306216 GGCTAAGGCCCAGACTG-TTACTATTACTAATATG
1 GGCTTAGGCCCAGACTGTTTACTATTACTAAAATG
143306250 GGCTTAGGCC
1 GGCTTAGGCC
143306260 TAGAATGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 25 0.61
35 16 0.39
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (35 bp):
GGCTTAGGCCCAGACTGTTTACTATTACTAAAATG
Found at i:143308601 original size:29 final size:29
Alignment explanation
Indices: 143308568--143308641 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
143308558 CCTTCGAGCT
143308568 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
143308597 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
143308626 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
143308642 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:143308602 original size:58 final size:58
Alignment explanation
Indices: 143308509--143308641 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
143308499 ATACTCGATT
* * * * *
143308509 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
143308567 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
143308625 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
143308642 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:143316862 original size:47 final size:47
Alignment explanation
Indices: 143316809--143316925 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
143316799 AGACATAGGA
*
143316809 CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCT-CGAGAT-ATGAGCCAGTGTAAGAC
* * *
143316856 CATGTCTGGGAGATGGCATCGACTTGAGATATGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCTCGAGATATGAGCCAGTGTAAGAC
143316903 CATGTCTGGGACATGGCATCGGC
1 CATGTCTGGGACATGGCATCGGC
143316926 ACCTTACCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.03
47 52 0.84
48 8 0.13
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (47 bp):
CATGTCTGGGACATGGCATCGGCTCGAGATATGAGCCAGTGTAAGAC
Found at i:143324946 original size:79 final size:79
Alignment explanation
Indices: 143324835--143325059 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 79
143324825 GCTACTCGTT
* * *
143324835 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
143324900 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * * *
143324915 CCAATGCCTTCGGGCTTAGCCC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCG
143324978 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * *
143324994 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCG
143325058 GA
64 GA
143325060 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 5 0.04
79 64 0.52
80 43 0.35
81 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:143325019 original size:119 final size:120
Alignment explanation
Indices: 143324835--143325057 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 120
143324825 GCTACTCGTT
143324835 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* * *
143324900 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
66 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
* * * **
143324954 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACC
*
143325016 CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
143325058 GACATCATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 6 0.07
119 69 0.77
120 15 0.17
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
Found at i:143325059 original size:40 final size:40
Alignment explanation
Indices: 143324816--143325059 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
143324806 CGGAATTTAA
** *
143324816 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
143324856 CCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
143324896 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
143324935 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
143324975 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
143325015 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
143325055 CCGGA
1 CCGGA
143325060 CATCATTCAA
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.02
39 30 0.17
40 129 0.73
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:143326666 original size:37 final size:37
Alignment explanation
Indices: 143326616--143326706 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
143326606 TTATTACGAA
143326616 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
143326653 GTCTTACCTGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
143326690 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
143326707 TTTCCAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:143326804 original size:48 final size:48
Alignment explanation
Indices: 143326746--143326897 Score: 268
Period size: 48 Copynumber: 3.2 Consensus size: 48
143326736 TGTTACAACA
*
143326746 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
143326794 TTCACATTAGCCATTCGGCTTTGCCACATATACGTATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
143326842 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
143326890 TTCACATT
1 TTCACATT
143326898 CATCACATCG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:143326946 original size:49 final size:49
Alignment explanation
Indices: 143326889--143327221 Score: 541
Period size: 49 Copynumber: 6.9 Consensus size: 49
143326879 CACACATATA
* *
143326889 TTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
143326938 ATTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
143326985 TTTCACA-T--TCACATTGGCCATTAGGCCTTATCACATGTATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
143327031 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
143327080 TTTCACGTTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
143327129 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
143327178 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
143327222 CATCTCATAC
Statistics
Matches: 268, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
44 25 0.09
46 17 0.06
47 16 0.06
49 210 0.78
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:143331093 original size:79 final size:78
Alignment explanation
Indices: 143330991--143331172 Score: 276
Period size: 79 Copynumber: 2.3 Consensus size: 78
143330981 CCAGCATGAT
* *
143330991 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
143331055 CATCACTAGCACGAA
64 CATCACTAGCACGAA
* *
143331070 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCGGATAT
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAC
*
143331135 ATCATTAGCACGAA
65 ATCACTAGCACGAA
*
143331149 TGCTCTTCGGAATTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
143331173 TAACCACAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 7 0.07
79 81 0.85
80 7 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACA
TCACTAGCACGAA
Found at i:143331174 original size:39 final size:40
Alignment explanation
Indices: 143330991--143331172 Score: 280
Period size: 39 Copynumber: 4.6 Consensus size: 40
143330981 CCAGCATGAT
* * *
143330991 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
143331031 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
143331070 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
143331110 TGCTCTTCGGAATTTAG-CCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
143331149 TGCTCTTCGGAATTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
143331173 TAACCACAAG
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 80 0.59
40 55 0.41
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:143331185 original size:79 final size:80
Alignment explanation
Indices: 143330991--143331197 Score: 244
Period size: 79 Copynumber: 2.6 Consensus size: 80
143330981 CCAGCATGAT
* * * * * *
143330991 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
143331055 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* * * *
143331070 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
* *
143331134 TATCATTAGCACGAA
66 CATCACTAGCACGAA
*
143331149 TGCTCTTCGGAATTTAG-CCGGATATAACCACAAGCAC-AATTGC-CTTCGG
1 TGCTCTTCGGAACTTAGTCCGGATA-AACCACAAGCACGAA-TGCTCTTCGG
143331198 GTCTTAACCC
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 15 0.13
79 93 0.81
80 7 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:143331215 original size:40 final size:40
Alignment explanation
Indices: 143331162--143331289 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
143331152 TCTTCGGAAT
*
143331162 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTC
* * * *
143331201 TTAACCCGGGTATAACAACTCA-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCAC-AAGCACAAATGCCTTCGGGTC
** * * *
143331241 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTC
143331281 TTAGCCCGG
1 TTAGCCCGG
143331290 GTATCATTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 4 0.05
40 68 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTC
Found at i:143338664 original size:40 final size:40
Alignment explanation
Indices: 143338605--143338812 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
143338595 CAATTGAATG
* * * *
143338605 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
143338645 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
143338685 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
143338725 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
143338765 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
143338805 ATATCCGG
1 ATATCCGG
143338813 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:143338743 original size:80 final size:80
Alignment explanation
Indices: 143338607--143338812 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
143338597 ATTGAATGAT
* * ** * * *
143338607 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
143338671 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
143338687 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
143338752 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
143338767 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
143338813 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:143347336 original size:80 final size:80
Alignment explanation
Indices: 143347252--143347400 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
143347242 TATGGTAACC
* * * *
143347252 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
143347316 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
143347332 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
143347397 CCGG
66 CCGG
143347401 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:143347342 original size:40 final size:38
Alignment explanation
Indices: 143347293--143347400 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
143347283 ATCACGATTT
*
143347293 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
143347333 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
143347373 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
143347401 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:143350328 original size:40 final size:40
Alignment explanation
Indices: 143350250--143350473 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
143350240 ACCCAAGTAT
* *
143350250 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
143350289 CTTCAGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
143350329 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
143350369 CTTTGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
143350412 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
143350452 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
143350474 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.07
40 115 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:143350434 original size:83 final size:80
Alignment explanation
Indices: 143350250--143350473 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
143350240 ACCCAAGTAT
* * * *
143350250 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
143350313 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
143350329 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
143350393 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
143350412 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
143350474 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 47 0.37
81 1 0.01
83 66 0.52
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:143358531 original size:15 final size:15
Alignment explanation
Indices: 143358513--143358548 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
143358503 TAAAAAACAA
143358513 ATATGTAAATGTTTT
1 ATATGTAAATGTTTT
143358528 ATATGTAAATGTTTT
1 ATATGTAAATGTTTT
143358543 ATATGT
1 ATATGT
143358549 GATGAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATATGTAAATGTTTT
Found at i:143360544 original size:18 final size:18
Alignment explanation
Indices: 143360506--143360545 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
143360496 GTGTTGAGAT
*
143360506 ATTTTGAAAACAAGTATC
1 ATTTTGAAAACAAGTACC
* *
143360524 ATTTTGAAAACACGTCCC
1 ATTTTGAAAACAAGTACC
143360542 ATTT
1 ATTT
143360546 GAATAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (18 bp):
ATTTTGAAAACAAGTACC
Found at i:143360932 original size:38 final size:35
Alignment explanation
Indices: 143360873--143360990 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
143360863 TCAATCATGC
*
143360873 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
143360912 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
143360943 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
143360974 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
143360991 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:143360934 original size:31 final size:31
Alignment explanation
Indices: 143360896--143360990 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
143360886 CCTTTTCATA
*
143360896 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
143360927 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
143360958 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
143360989 TT
1 TT
143360991 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:143361233 original size:24 final size:24
Alignment explanation
Indices: 143361182--143361324 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
143361172 GCTTTATCAT
*
143361182 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
143361207 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
143361231 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
143361254 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
143361278 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
143361302 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
143361325 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:143361261 original size:47 final size:48
Alignment explanation
Indices: 143361182--143361323 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
143361172 GCTTTATCAT
* *
143361182 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
143361231 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
143361278 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
143361324 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:143361282 original size:71 final size:72
Alignment explanation
Indices: 143361181--143361324 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
143361171 TGCTTTATCA
*
143361181 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
143361246 GCCCTTT
66 GCCCTTT
* * **
143361253 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
143361316 AGCCCTTT
65 AGCCCTTT
143361324 T
1 T
143361325 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:143361400 original size:20 final size:20
Alignment explanation
Indices: 143361375--143361434 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
143361365 TATGATTACC
143361375 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
143361395 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
143361415 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
143361435 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:143361504 original size:25 final size:25
Alignment explanation
Indices: 143361476--143361523 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
143361466 ATACATAAAC
* * *
143361476 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
143361501 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
143361524 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:143362440 original size:27 final size:27
Alignment explanation
Indices: 143362419--143362711 Score: 290
Period size: 27 Copynumber: 10.9 Consensus size: 27
143362409 AAGGGTATTT
*
143362419 TAGTAATTTTGTATATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362446 CAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362473 CAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362500 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362527 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362554 CAGTAATTCTGTAAATCGA-GGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
143362580 -CGATAATTATGTAAATCTG-GGGTAAAA
1 TAG-TAATTTTGTAAATC-GAGGGTAAAA
* * *
143362607 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTTTGTAAATCGA-GGGTAAAA
** * *
143362634 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
*
143362661 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTTTGTAAATC-GAGGGTAAAA
** * *
143362688 CGGTAATTCTATAAATCGAGGGTA
1 TAGTAATTTTGTAAATCGAGGGTA
143362712 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 207 0.89
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
TAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:143362620 original size:134 final size:134
Alignment explanation
Indices: 143362420--143362708 Score: 402
Period size: 134 Copynumber: 2.1 Consensus size: 134
143362410 AGGGTATTTT
* * * *
143362420 AGTAATTTTGTATATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGT
1 AGTAATTCTGTAAATCGA-GGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATGT
* *
143362485 AAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGG
65 AAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGG
143362549 TAAAAC
129 TAAAAC
** **
143362555 AGTAATTCTGTAAATCGAGGTAAAAC-GATAATTATGTAAATCTGGGGTAAAATGGTAATTATGT
1 AGTAATTCTGTAAATCGAGGTAAAACAG-TAATTATGTAAATCAAGGGTAAAACAGTAATTATGT
* * *
143362619 AAATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
65 AAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
143362684 AAAAC
130 AAAAC
* *
143362689 GGTAATTCTATAAATCGAGG
1 AGTAATTCTGTAAATCGAGG
143362709 GTACTTTGGT
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
133 1 0.01
134 119 0.87
135 17 0.12
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (134 bp):
AGTAATTCTGTAAATCGAGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATGTA
AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTA
AAAC
Found at i:143362738 original size:54 final size:54
Alignment explanation
Indices: 143362421--143362711 Score: 365
Period size: 54 Copynumber: 5.4 Consensus size: 54
143362411 GGGTATTTTA
* * * * * *
143362421 GTAATTTTGTATATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
143362475 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
*
143362529 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA-GGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
143362582 ATAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAATAGTAATTCTGTAAATCGA-GGGTAAAACG
*
143362636 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATC-GAGGGTAAAACG
*
143362690 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
143362712 CTTTGGTAAT
Statistics
Matches: 206, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.00
53 43 0.21
54 161 0.78
55 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:143362748 original size:27 final size:27
Alignment explanation
Indices: 143362718--143362782 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
143362708 GGTACTTTGG
143362718 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
143362745 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
143362772 TAATTTCACAA
1 TAATTTTACAA
143362783 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:143362791 original size:27 final size:27
Alignment explanation
Indices: 143362761--143362939 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
143362751 TACAGGTCGA
** * *
143362761 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
143362788 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
143362815 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
143362842 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
143362869 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
143362896 TGGTATTTTAGTAATTTTACAAAGC-A-
1 GGGTATTTTGGTAATTTTACAAA-CTAG
143362922 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
143362940 GTAAACCAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 16 0.12
27 120 0.88
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:143362846 original size:81 final size:81
Alignment explanation
Indices: 143362707--143362918 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 81
143362697 TATAAATCGA
* * * * ** *
143362707 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACTAGAGGGTATTTC
*
143362770 AGTAATTTCACAAATTAG
64 AGTAATTTCACAAACTAG
**
143362788 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACTAGAGGGTATTTCA
*
143362852 GTAATTTTACAAACTAG
65 GTAATTTCACAAACTAG
* * **
143362869 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAA
143362919 GCAGGGTATT
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 104 0.93
82 7 0.06
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACTAGAGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:143362953 original size:26 final size:26
Alignment explanation
Indices: 143362789--143362956 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
143362779 ACAAATTAGG
* *
143362789 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
143362816 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
143362843 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
143362870 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
143362896 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
143362923 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
143362949 AGTATTTT
1 GGTATTTT
143362957 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:143365599 original size:29 final size:29
Alignment explanation
Indices: 143365557--143365657 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
143365547 GACAAGATTG
* *
143365557 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
143365586 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
143365614 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
143365643 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
143365658 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:143373482 original size:30 final size:30
Alignment explanation
Indices: 143373446--143373546 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
143373436 GACAAGATTG
* * *
143373446 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
143373476 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
143373504 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
143373533 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
143373547 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:143373558 original size:29 final size:28
Alignment explanation
Indices: 143373475--143373550 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
143373465 AAAATTGTAC
* *
143373475 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
143373503 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
143373532 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
143373551 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:143376732 original size:38 final size:35
Alignment explanation
Indices: 143376686--143376773 Score: 121
Period size: 31 Copynumber: 2.5 Consensus size: 35
143376676 GGGCCGTATC
143376686 CCTTTTCATATTTCATATTTCATAATACTGGGCCGAAG
1 CCTTTTCATATTTCATATTT-AT--TACTGGGCCGAAG
143376724 CCTTTTCATATTTC--A--TATTACTGGGCCGAAG
1 CCTTTTCATATTTCATATTTATTACTGGGCCGAAG
143376755 CCTTTTCATATTTCATATT
1 CCTTTTCATATTTCATATT
143376774 ACTGGGCCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
31 27 0.59
33 3 0.07
34 1 0.02
36 1 0.02
38 14 0.30
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (35 bp):
CCTTTTCATATTTCATATTTATTACTGGGCCGAAG
Found at i:143376734 original size:31 final size:31
Alignment explanation
Indices: 143376696--143376790 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
143376686 CCTTTTCATA
*
143376696 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
143376727 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
143376758 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
143376789 TT
1 TT
143376791 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:143377033 original size:24 final size:24
Alignment explanation
Indices: 143376982--143377148 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
143376972 GCTTTATCAT
* *
143376982 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
143377007 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
143377031 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
143377054 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
143377078 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
143377102 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
143377126 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
143377149 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:143377082 original size:71 final size:71
Alignment explanation
Indices: 143376981--143377148 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
143376971 TGCTTTATCA
*
143376981 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
143377045 AGCCCTTT
64 AGCCCTTT
* * **
143377053 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
143377118 CCCTTT
66 CCCTTT
143377124 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
143377149 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:143377224 original size:20 final size:20
Alignment explanation
Indices: 143377199--143377258 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
143377189 TATGATTACC
143377199 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
143377219 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
143377239 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
143377259 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:143377333 original size:25 final size:25
Alignment explanation
Indices: 143377301--143377348 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
143377291 ATACATAAAC
* * *
143377301 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
143377326 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
143377349 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:143378603 original size:27 final size:27
Alignment explanation
Indices: 143378247--143378592 Score: 408
Period size: 27 Copynumber: 12.8 Consensus size: 27
143378237 GGGTATTTTA
* * *
143378247 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
143378274 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
143378301 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
143378328 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
143378355 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
143378382 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
143378409 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * **
143378436 GTAATTATGTAAATTAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
**
143378463 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
143378490 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
143378517 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
143378544 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
143378571 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
143378593 CTTTGGTAAT
Statistics
Matches: 286, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.00
27 283 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:143378614 original size:27 final size:27
Alignment explanation
Indices: 143378516--143378820 Score: 242
Period size: 27 Copynumber: 11.3 Consensus size: 27
143378506 AGGGTAAAAC
* * ****
143378516 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
143378543 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
143378570 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
143378597 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
143378624 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
143378651 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
143378678 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
143378705 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
143378732 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
143378759 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
143378786 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
143378812 GGTAATTTT
1 GGTAATTTT
143378821 GTAAACCAAA
Statistics
Matches: 241, Mismatches: 34, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
26 18 0.07
27 221 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:143378834 original size:26 final size:26
Alignment explanation
Indices: 143378670--143378837 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
143378660 ACAAATTAGG
* *
143378670 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
143378697 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
143378724 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
143378751 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
143378777 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
143378804 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
143378830 AGTATTTT
1 GGTATTTT
143378838 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:143382792 original size:28 final size:26
Alignment explanation
Indices: 143382737--143382848 Score: 136
Period size: 28 Copynumber: 4.2 Consensus size: 26
143382727 AGCATGGCTG
* *
143382737 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
143382763 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
143382791 CCAGAACAGATATATG-GGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
143382817 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
143382845 CCAG
1 CCAG
143382849 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
25 1 0.01
26 26 0.34
27 19 0.25
28 30 0.39
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:143382819 original size:54 final size:54
Alignment explanation
Indices: 143382737--143382848 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
143382727 AGCATGGCTG
*
143382737 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
143382791 CCAGAACAGATATATG-GGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
143382845 CCAG
1 CCAG
143382849 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 7 0.13
54 42 0.81
55 3 0.06
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:143385219 original size:24 final size:24
Alignment explanation
Indices: 143385172--143385289 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
143385162 GCTTTATCAT
*
143385172 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
143385197 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
143385221 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
143385244 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
143385267 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
143385290 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 47 0.53
24 27 0.31
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:143385366 original size:20 final size:20
Alignment explanation
Indices: 143385343--143385385 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
143385333 GAACATCTCG
143385343 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
143385363 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
143385383 TGT
1 TGT
143385386 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:143385901 original size:8 final size:8
Alignment explanation
Indices: 143385888--143385931 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
143385878 AAATGCCAGG
143385888 ATTTCGGC
1 ATTTCGGC
143385896 ATTTCGGC
1 ATTTCGGC
*
143385904 TTTTCGGC
1 ATTTCGGC
143385912 ATTTCGGC
1 ATTTCGGC
*
143385920 TTTTCGGC
1 ATTTCGGC
143385928 ATTT
1 ATTT
143385932 TATCGCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (8 bp):
ATTTCGGC
Found at i:143385910 original size:16 final size:16
Alignment explanation
Indices: 143385889--143385931 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
143385879 AATGCCAGGA
143385889 TTTCGGCATTTCGGCT
1 TTTCGGCATTTCGGCT
143385905 TTTCGGCATTTCGGCT
1 TTTCGGCATTTCGGCT
143385921 TTTCGGCATTT
1 TTTCGGCATTT
143385932 TATCGCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.07, C:0.23, G:0.23, T:0.47
Consensus pattern (16 bp):
TTTCGGCATTTCGGCT
Found at i:143387302 original size:24 final size:24
Alignment explanation
Indices: 143387270--143387343 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
143387260 ACACAGTTCA
143387270 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
143387294 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
143387318 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
143387342 CC
1 CC
143387344 AGATAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:143389078 original size:66 final size:68
Alignment explanation
Indices: 143389000--143389186 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
143388990 TAGTACCACT
*
143389000 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
143389062 CACG
65 CACG
143389066 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
143389131 ATCACG
63 ATCACG
143389137 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
143389187 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:143389111 original size:71 final size:71
Alignment explanation
Indices: 143389023--143389186 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
143389013 CGATTTGTCT
143389023 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143389088 CTTTCA
66 CTTTCA
143389094 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143389159 CTTTCA
66 CTTTCA
143389165 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
143389187 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:143389224 original size:71 final size:70
Alignment explanation
Indices: 143389023--143389220 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
143389013 CGATTTGTCT
* * * *
143389023 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
143389088 CTTTCA
65 CTTTCA
* * * *
143389094 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
143389159 CTTTCA
65 CTTTCA
* *
143389165 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
143389221 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:143396747 original size:41 final size:41
Alignment explanation
Indices: 143396702--143396819 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
143396692 TGAAAGATAA
143396702 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
143396743 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
143396773 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
143396814 ATGTAG
1 ATGTAG
143396820 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:143396758 original size:71 final size:71
Alignment explanation
Indices: 143396670--143396833 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
143396660 GAGATGTATC
143396670 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
143396735 AGGACA
66 AGGACA
143396741 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
143396806 AGGACA
66 AGGACA
143396812 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
143396834 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:143403829 original size:41 final size:41
Alignment explanation
Indices: 143403784--143403901 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
143403774 TGAAAGATAA
143403784 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
143403825 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
143403855 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
143403896 ATGTAG
1 ATGTAG
143403902 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:143403840 original size:71 final size:71
Alignment explanation
Indices: 143403752--143403915 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
143403742 GAGATGTATC
143403752 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
143403817 AGGACA
66 AGGACA
143403823 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
143403888 AGGACA
66 AGGACA
143403894 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
143403916 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:143405287 original size:24 final size:24
Alignment explanation
Indices: 143405228--143405332 Score: 176
Period size: 24 Copynumber: 4.4 Consensus size: 24
143405218 GGTGTTACAT
143405228 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
143405252 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
143405276 AGTCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
143405300 AACCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
143405324 AGCCCTTTT
1 AGCCCTTTT
143405333 GTACTTCCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 18 0.24
24 58 0.76
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:143405407 original size:20 final size:20
Alignment explanation
Indices: 143405382--143405428 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
143405372 TTATGAATAC
143405382 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
143405401 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
143405422 ATCATGT
1 ATCATGT
143405429 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:143408910 original size:40 final size:40
Alignment explanation
Indices: 143408683--143408902 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
143408673 TGATAACCGA
* ** * *
143408683 GCTAAGTCCCGAAGGCATCTGCACTAGTGACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
*
143408723 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
*
143408763 GCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
143408803 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
143408843 GCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCGG
*
143408883 GCTATGTCCCGAAGGCATTT
1 GCTAAGTCCCGAAGGCATTT
143408903 AAGCGAGTAG
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 164 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:143417024 original size:40 final size:40
Alignment explanation
Indices: 143416916--143417148 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
143416906 TTTGAATGAT
* ** * *
143416916 AACCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
143416956 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
143416995 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
143417035 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * ***
143417075 ATCCGGGCTAAGTCCCGAAGGGAATTGTGCGAGTTACCCT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
143417115 GACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
143417149 AGTTATATCC
Statistics
Matches: 171, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.19
40 138 0.81
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:143424716 original size:52 final size:52
Alignment explanation
Indices: 143424638--143424741 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
143424628 CAAGGTTAAG
143424638 GAAAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCC
1 GAAAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCC
143424690 GAAAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCC
1 GAAAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCC
143424742 AAAACAATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (52 bp):
GAAAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCC
Found at i:143425108 original size:24 final size:24
Alignment explanation
Indices: 143425044--143425161 Score: 177
Period size: 24 Copynumber: 4.9 Consensus size: 24
143425034 GCTTTATCAT
*
143425044 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
143425069 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
143425092 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
143425116 ATAACTAGGGCATAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
143425140 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
143425162 GTACTTCATC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 18 0.21
24 60 0.70
25 8 0.09
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:143425270 original size:20 final size:20
Alignment explanation
Indices: 143425207--143425273 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
143425197 TTATGAATAC
143425207 ATCATGTGCATATCATACAG
1 ATCATGTGCATATCATACAG
* * *
143425227 ATAATTTGCATATCATACAT
1 ATCATGTGCATATCATACAG
143425247 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAG
143425267 ATCATGT
1 ATCATGT
143425274 ATATCAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAG
Found at i:143425352 original size:25 final size:24
Alignment explanation
Indices: 143425310--143425357 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
143425300 ATAATGAAAC
* * *
143425310 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTC-TTTTTA
143425335 CCTAGGGGCAAAACGGTCTTTTT
1 CCTAGGGGCAAAACGGTCTTTTT
143425358 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCTTTTTA
Found at i:143437910 original size:41 final size:40
Alignment explanation
Indices: 143437853--143438001 Score: 199
Period size: 41 Copynumber: 3.7 Consensus size: 40
143437843 TCGGGTTTAA
143437853 ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
143437893 GATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 -ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
143437934 AACCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
143437974 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 -ATCCGAGCTTGGTCTCGAAGGGCTTTT
143438002 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.28
Consensus pattern (40 bp):
ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:143445159 original size:41 final size:41
Alignment explanation
Indices: 143445102--143445251 Score: 205
Period size: 41 Copynumber: 3.7 Consensus size: 41
143445092 TCGGGGTTTA
143445102 AATCCAAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCAAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
143445143 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCAAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * *
143445184 AA-CCGAA-CCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCC-AAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
143445224 AATCCAAGCTTGGTCTCGAAGGGCTTTT
1 AATCCAAGCTTGGTCTCGAAGGGCTTTT
143445252 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCAAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:143450194 original size:39 final size:39
Alignment explanation
Indices: 143450151--143450313 Score: 154
Period size: 39 Copynumber: 4.2 Consensus size: 39
143450141 CGGAATATAA
143450151 CCGGATATAATCACGT-GCACAAATG-CTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
143450190 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAG-
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
* * *
143450228 CCGGATATAACCACTAGCACAATTG-CTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
143450267 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
143450306 CCGGATAT
1 CCGGATAT
143450314 CATTCAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
37 7 0.07
38 24 0.23
39 58 0.56
40 14 0.14
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:143450297 original size:77 final size:78
Alignment explanation
Indices: 143450151--143450313 Score: 199
Period size: 77 Copynumber: 2.1 Consensus size: 78
143450141 CGGAATATAA
* *
143450151 CCGGATATAATCACGTGCACAAATGCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGC
1 CCGGATATAACCACGTGCACAAATGCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGC
143450216 CTTCGGGCTTAG-
66 CTTCGGGCTTAGC
* * ** *
143450228 CCGGATATAACCAC-TAGCACAATTGCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCACGT-GCACAAATGCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-
*
143450290 TGTCTTCGGGCTTAGC
63 TGCCTTCGGGCTTAGC
143450306 CCGGATAT
1 CCGGATAT
143450314 CATTCAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
76 4 0.05
77 62 0.84
78 8 0.11
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (78 bp):
CCGGATATAACCACGTGCACAAATGCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGC
CTTCGGGCTTAGC
Found at i:143451146 original size:17 final size:19
Alignment explanation
Indices: 143451123--143451168 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
143451113 AAGAAGCATG
143451123 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
143451141 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
143451159 AATCATGCTC
1 AATCATGCTC
143451169 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
Done.