Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 85 of 250
Found at i:27072056 original size:43 final size:43
Alignment explanation
Indices: 27072009--27072129 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
27071999 CCTGAATTGA
* *
27072009 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-ATATCT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATAT-T
* * * **
27072052 GATTT-CATGTAAGACCCTATCTGGGATAGAGGCATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATATT
* * *
27072094 GAGTTACATGTAAGACCACGTCTGGGACGTCGGCAT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCAT
27072130 TGTACTTATT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:27081144 original size:46 final size:46
Alignment explanation
Indices: 27080995--27081168 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
27080985 TGTAACCCGC
* * *
27080995 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27081041 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
27081086 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27081132 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27081169 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 34 0.31
46 65 0.60
47 1 0.01
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27081187 original size:46 final size:46
Alignment explanation
Indices: 27081003--27081187 Score: 152
Period size: 46 Copynumber: 4.0 Consensus size: 46
27080993 GCCCATAAGC
* ** * *
27081003 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-TAGT
* *
27081048 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
27081094 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
27081140 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
27081186 GA
1 GA
27081188 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
44 10 0.09
45 29 0.26
46 64 0.57
47 1 0.01
48 4 0.04
49 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:27083577 original size:30 final size:30
Alignment explanation
Indices: 27083533--27083621 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
27083523 CAAAGATAAC
27083533 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
27083562 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
27083592 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27083622 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27083581 original size:15 final size:15
Alignment explanation
Indices: 27083533--27083612 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
27083523 CAAAGATAAC
*
27083533 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27083547 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27083562 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
27083577 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
27083592 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27083607 AAGAAA
1 AAGAAA
27083613 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27083621 original size:15 final size:15
Alignment explanation
Indices: 27083544--27083621 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
27083534 AGAAAACCGA
27083544 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
27083559 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
27083573 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
27083588 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27083604 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27083619 ATA
1 ATA
27083622 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27086716 original size:46 final size:45
Alignment explanation
Indices: 27086531--27086716 Score: 141
Period size: 46 Copynumber: 4.0 Consensus size: 45
27086521 GCCCATAAGC
* ** * *
27086531 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TAGT
* *
27086576 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
27086623 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
27086669 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
27086715 GA
1 GA
27086717 CATGTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
44 10 0.09
45 29 0.26
46 33 0.29
47 32 0.28
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:27088107 original size:27 final size:28
Alignment explanation
Indices: 27088069--27088176 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 28
27088059 GGCTGCTAGA
* *
27088069 ACAGATA-TTGTGACAGAGTCACCAGAT
1 ACAGATATTTGTGGCAGAGCCACCAGAT
* * *
27088096 ACAGATA-TTGTGGTAGAGCCACCGGAA
1 ACAGATATTTGTGGCAGAGCCACCAGAT
27088123 ACAGATATTTGTGGCAGAGCCACCAGAT
1 ACAGATATTTGTGGCAGAGCCACCAGAT
* *
27088151 -CGGATATTTGTGGCAGAGCCGCCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
27088177 ACGCTTCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
27 53 0.76
28 17 0.24
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (28 bp):
ACAGATATTTGTGGCAGAGCCACCAGAT
Found at i:27095295 original size:35 final size:35
Alignment explanation
Indices: 27095256--27095325 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
27095246 CACCACTAGC
* *
27095256 AATCTATCTGACTCATCTAATTCAACCCGAAGAAT
1 AATCTATATGACTCATCTAATTCAACCCAAAGAAT
*
27095291 AATCTATATGACTCATCTGATTCAACCCAAAGAAT
1 AATCTATATGACTCATCTAATTCAACCCAAAGAAT
27095326 TTCACCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (35 bp):
AATCTATATGACTCATCTAATTCAACCCAAAGAAT
Found at i:27097770 original size:27 final size:27
Alignment explanation
Indices: 27097739--27097800 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
27097729 CCCAAATTAA
27097739 TAAAATGACTATGTACCCCTTATGAGG
1 TAAAATGACTATGTACCCCTTATGAGG
* * ** *
27097766 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATGTACCCCTTATGAGG
27097793 TAAAATGA
1 TAAAATGA
27097801 TTGTTTTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (27 bp):
TAAAATGACTATGTACCCCTTATGAGG
Found at i:27097805 original size:27 final size:27
Alignment explanation
Indices: 27097755--27097834 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
27097745 GACTATGTAC
*
27097755 CCCTTATGAGGTAAAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
*
27097782 CCCTTATGTGGTAAAATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * * *
27097809 CCTTTTTATGGTAAGATGACTGTTTT
1 CCCTTATGTGGTAAAATGACTGTTTT
27097835 ACTGCTATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTTTTG
Found at i:27101597 original size:28 final size:27
Alignment explanation
Indices: 27101566--27101628 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
27101556 CCCAGATTAA
*
27101566 TAAAATGACTGTGTAGCCCATTATGAGG
1 TAAAATGACTGTGTAGCAC-TTATGAGG
* * *
27101594 TAAAATGACTGTTTTGCACTTATGTGG
1 TAAAATGACTGTGTAGCACTTATGAGG
27101621 TAAAATGA
1 TAAAATGA
27101629 TTAATTTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
TAAAATGACTGTGTAGCACTTATGAGG
Found at i:27101624 original size:27 final size:27
Alignment explanation
Indices: 27101566--27101673 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 27
27101556 CCCAGATTAA
* * *
27101566 TAAAATGACTGTGTAGCCCATTATGAGG
1 TAAAATGACTGTTTTGCCC-TTATGTGG
*
27101594 TAAAATGACTGTTTTGCACTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* ** * *
27101621 TAAAATGATTAATTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
27101648 TAAGATGACTGTTTTACCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
27101674 ATGTATGTTT
Statistics
Matches: 62, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
27 46 0.74
28 16 0.26
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:27102648 original size:25 final size:25
Alignment explanation
Indices: 27102620--27102670 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27102610 ATTTCGCACT
*
27102620 TTGTGAAAAACACTTTAATGTGGCA
1 TTGTGAAAAACACTTTAATGTCGCA
*
27102645 TTGTGAACAACACTTTAATGTCGCA
1 TTGTGAAAAACACTTTAATGTCGCA
27102670 T
1 T
27102671 CACCAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (25 bp):
TTGTGAAAAACACTTTAATGTCGCA
Found at i:27105953 original size:40 final size:39
Alignment explanation
Indices: 27105879--27106060 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 39
27105869 AACCCAAGTA
* *
27105879 CCTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTCAA-TAGCACAAATG
* *
27105918 CCTTCGGGTCTTAGCTCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGC-CGGATATAGTCAATAGCACAAATG
**
27105958 CCTTCGGGACTTAGCCTGGATATAGTCTCTAGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTCAATAGCACAAATG
* *
27105998 CCTTCGGGACTTAGCCCAGATATTGTCAATAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTCAATAGCACAAATG
27106038 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
27106061 CATTCAAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.11
40 107 0.85
41 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTCAATAGCACAAATG
Found at i:27114097 original size:40 final size:40
Alignment explanation
Indices: 27114023--27114164 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
27114013 AACCCAAGTA
* * *
27114023 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
** * *
27114062 CCTTTGGTTCTTAGCCTGGATATAGTCAATAGCACAAAAG
1 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
27114102 CCTTCGGGACTTAGCCCGGATATTGTCAATAGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
27114142 CCTTTGGGACTTAGCCCGGATAT
1 CCTTTGGGACTTAGCCCGGATAT
27114165 CATTCGAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 10 0.11
40 74 0.85
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:27118570 original size:42 final size:43
Alignment explanation
Indices: 27118482--27118572 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 43
27118472 ATTACATGGG
*
27118482 ATCTCATATCGATGCCAATAGTCCAACTATGGTTTTACACGAA
1 ATCTCATATCGATGCCAATAGTCCAACTATGGTCTTACACGAA
* * *
27118525 ATCTTATATCGATGCC-ATA-TCCTAGA-TATGGTCTTGCACGTA
1 ATCTCATATCGATGCCAATAGTCC-A-ACTATGGTCTTACACGAA
27118567 ATCTCA
1 ATCTCA
27118573 ACTAACCTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.07
42 22 0.54
43 16 0.39
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (43 bp):
ATCTCATATCGATGCCAATAGTCCAACTATGGTCTTACACGAA
Found at i:27122244 original size:40 final size:40
Alignment explanation
Indices: 27122189--27122410 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
27122179 TATTCGAATG
27122189 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
27122229 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* **
27122269 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGAGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
27122309 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
27122349 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
27122389 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27122411 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 151 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:27127957 original size:40 final size:40
Alignment explanation
Indices: 27127897--27128118 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
27127887 TATTCGAATG
* *
27127897 ATATTCGGGCTTAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
27127937 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* **
27127977 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
27128017 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
27128057 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
27128097 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27128119 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.08
40 146 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:27132910 original size:13 final size:13
Alignment explanation
Indices: 27132892--27132916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27132882 ATATTCTGCC
27132892 TAACATATATAAT
1 TAACATATATAAT
27132905 TAACATATATAA
1 TAACATATATAA
27132917 AAAAAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
TAACATATATAAT
Found at i:27134529 original size:31 final size:31
Alignment explanation
Indices: 27134486--27134601 Score: 144
Period size: 31 Copynumber: 3.8 Consensus size: 31
27134476 TCAATCTCAG
* * *
27134486 CATAT-ACTGGGCCGAAGCCTTTACATTATC
1 CATATCACTAGGCCGAAGCCTTTTCATTATT
* *
27134516 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTAGGCCGAAGCCTTTTCATTATT
* *
27134547 CATATCATTAGGCCAAAGCCTTTTCATTATT
1 CATATCACTAGGCCGAAGCCTTTTCATTATT
* *
27134578 CATATCACTAGGCGGAAGCTTTTT
1 CATATCACTAGGCCGAAGCCTTTT
27134602 ACTGTAACAA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 4 0.05
31 70 0.95
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATTATT
Found at i:27134836 original size:25 final size:26
Alignment explanation
Indices: 27134808--27134916 Score: 138
Period size: 26 Copynumber: 4.3 Consensus size: 26
27134798 CTGGAGGCCT
27134808 AGCCTCTTTT-GAT-AACTGGGGCAAA
1 AGCC-CTTTTCGATAAACTGGGGCAAA
*
27134833 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTCGATAAACTGGGGCAAA
*
27134859 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTTCGATAAACTGGGGCAAA
* *
27134884 AGCCCTTTTCGGT-AACTGGGGC-AT
1 AGCCCTTTTCGATAAACTGGGGCAAA
27134908 AGCCCTTTT
1 AGCCCTTTT
27134917 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
24 24 0.30
25 22 0.28
26 33 0.42
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCGATAAACTGGGGCAAA
Found at i:27134857 original size:26 final size:24
Alignment explanation
Indices: 27134794--27134916 Score: 131
Period size: 26 Copynumber: 4.9 Consensus size: 24
27134784 GCTTTATCAT
**
27134794 ATAACTGGAGGCCTAGCCTCTTTT-G
1 ATAACTGG-GGCAAAGCC-CTTTTCG
*
27134819 ATAACTGGGGCAAAAGCCCTTTTTG
1 ATAACTGGGGC-AAAGCCCTTTTCG
27134844 ATAAACTGGGGCAAAAGCCCTTTTCG
1 AT-AACTGGGGC-AAAGCCCTTTTCG
*
27134870 GTAAACTGGGGCAAAGCCCTTTTCG
1 AT-AACTGGGGCAAAGCCCTTTTCG
* *
27134895 GTAACTGGGGCATAGCCCTTTT
1 ATAACTGGGGCAAAGCCCTTTT
27134917 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
24 27 0.30
25 30 0.33
26 33 0.37
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTTCG
Found at i:27135077 original size:25 final size:25
Alignment explanation
Indices: 27135049--27135096 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27135039 ATAATTAAAC
* *
27135049 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
27135074 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
27135097 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:27137292 original size:42 final size:41
Alignment explanation
Indices: 27137171--27137309 Score: 120
Period size: 41 Copynumber: 3.3 Consensus size: 41
27137161 ATCCCATACG
* * * *
27137171 TGGTCTTACATAC-AATCACATATCGATGTCACTATCCCAGACA
1 TGGTCTTAC--ACGAATCAAATATCGATGCCAATGTCCCAG-CA
* * *
27137214 GGGTCTTACACGAATCAAATA-CAATTCCAATGTCCCAGCA
1 TGGTCTTACACGAATCAAATATCGATGCCAATGTCCCAGCA
* * * *
27137254 TGGTCTTACAGGTAATCATATATCGATGCCAATGTCCCAAACG
1 TGGTCTTACACG-AATCAAATATCGATGCCAATGTCCC-AGCA
27137297 TGGTCTTACACGA
1 TGGTCTTACACGA
27137310 GAACAGATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
40 12 0.16
41 22 0.29
42 22 0.29
43 21 0.27
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
TGGTCTTACACGAATCAAATATCGATGCCAATGTCCCAGCA
Found at i:27137320 original size:43 final size:43
Alignment explanation
Indices: 27137162--27137322 Score: 118
Period size: 43 Copynumber: 3.8 Consensus size: 43
27137152 AATGTCAACA
* * * * * * *
27137162 TCCCATACGTGGTCTTACATACAATCACATATCGATGTCACTA
1 TCCCAAACGTGGTCTTACAGAGAATCAAATATCGATGCCAATG
* * * *
27137205 TCCCAGACAG-GGTCTTACA-CGAATCAAATA-CAATTCCAATG
1 TCCCAAAC-GTGGTCTTACAGAGAATCAAATATCGATGCCAATG
* * *
27137246 TCCC-AGCATGGTCTTACAG-GTAATCATATATCGATGCCAATG
1 TCCCAAACGTGGTCTTACAGAG-AATCAAATATCGATGCCAATG
*
27137288 TCCCAAACGTGGTCTTACACGAGAA-CAGATATCGA
1 TCCCAAACGTGGTCTTACA-GAGAATCAAATATCGA
27137323 AAATCCTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
40 11 0.12
41 18 0.20
42 21 0.23
43 37 0.40
44 4 0.04
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
TCCCAAACGTGGTCTTACAGAGAATCAAATATCGATGCCAATG
Found at i:27137858 original size:15 final size:15
Alignment explanation
Indices: 27137835--27137864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27137825 TCAAAAATTC
27137835 TAATACAAAACATAT
1 TAATACAAAACATAT
*
27137850 TAATCCAAAACATAT
1 TAATACAAAACATAT
27137865 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:27141440 original size:46 final size:45
Alignment explanation
Indices: 27141372--27141540 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
27141362 TATGTGTGCT
*
27141372 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAAGCC
1 AGTGTAAGACATGTCTGCGACATGCATCAGCCACAG-ATGAAAGCC
* * *
27141418 AGTGTAAGACATGTCTGCGACATGCATCGGTCTCGAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTGCGACATGCATCAGCCAC-AGATGA---AAGCC
* * * * * *
27141466 AGTGTAAGACATGTTTGCGACATGCATC-GGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGCGACATGCATCAGCCA--CAGATGAAAGCC
*
27141512 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGCGACATGCATCA
27141541 TCCTCGCAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 61 0.60
47 4 0.04
48 35 0.34
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGCGACATGCATCAGCCACAGATGAAAGCC
Found at i:27141564 original size:94 final size:94
Alignment explanation
Indices: 27141369--27141575 Score: 233
Period size: 94 Copynumber: 2.2 Consensus size: 94
27141359 TGATATGTGT
* *
27141369 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGCGACATGCATCAGCCACAGCACGAAAGCCAGTGTAAGACATGTCT
* **
27141434 GCGACATGCATCGGTCTCGAGATATTTAA
66 GCGACATGCATCGATCTCGAGATATACAA
* * * * * *
27141463 GCCAGTGTAAGACATGTTTGCGACATGCATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGCGACATGCATCAGCCA--CAGCACGAAAGCCAGTGTAAGACATGT
*
27141526 CTGGGACATGCATC-ATCCTCGCA-ATATACAA
64 CTGCGACATGCATCGAT-CTCG-AGATATACAA
*
27141557 GCTAGTGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCT
27141576 AAGACATGGC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
93 4 0.04
94 87 0.93
95 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGCGACATGCATCAGCCACAGCACGAAAGCCAGTGTAAGACATGTCT
GCGACATGCATCGATCTCGAGATATACAA
Found at i:27141575 original size:48 final size:47
Alignment explanation
Indices: 27141369--27141575 Score: 151
Period size: 46 Copynumber: 4.4 Consensus size: 47
27141359 TGATATGTGT
* * *
27141369 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CACAGCAT-GA-AA
1 GCTAGTGTAAGACATGTCTGCGACATGCATCATCTCGCA--ATAGACAA
* * ***
27141415 GCCAGTGTAAGACATGTCTGCGACATGCATCGGTCTCG-AGATATTTAA
1 GCTAGTGTAAGACATGTCTGCGACATGCATC-ATCTCGCA-ATAGACAA
* * * *
27141463 GCCAGTGTAAGACATGTTTGCGACATG---CATC-GGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGCGACATGCATCATCTCGCAAT-AGAC-A-A
* *
27141509 GCTAGTGTAAGACATGTCTGGGACATGCATCATCCTCGCAATATACAA
1 GCTAGTGTAAGACATGTCTGCGACATGCATCAT-CTCGCAATAGACAA
*
27141557 GCTAGTGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCT
27141576 AAGACATGGC
Statistics
Matches: 126, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.02
44 4 0.03
45 2 0.02
46 56 0.44
47 2 0.02
48 48 0.38
49 4 0.03
50 4 0.03
51 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGCGACATGCATCATCTCGCAATAGACAA
Found at i:27141702 original size:49 final size:49
Alignment explanation
Indices: 27141603--27141727 Score: 137
Period size: 49 Copynumber: 2.5 Consensus size: 49
27141593 TGTTGTCTGT
*
27141603 CAATGTAAGACTTGTCTGGGACATGGCATCGACACCAATAGATGAGAGC
1 CAATGTAAGACTTGTCTGGGACATGGCATCGACACCAATAGATGAAAGC
* * ** *
27141652 CAATATAAGACTTGTCTAGGACATGGCATC-AGC-CTCGCTATATGAAAGC
1 CAATGTAAGACTTGTCTGGGACATGGCATCGA-CAC-CAATAGATGAAAGC
* *
27141701 CAGTGTAAGACCATGTCTGGGACATGG
1 CAATGTAAGA-CTTGTCTGGGACATGG
27141728 TGTCGGCATC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.03
49 47 0.75
50 14 0.22
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (49 bp):
CAATGTAAGACTTGTCTGGGACATGGCATCGACACCAATAGATGAAAGC
Found at i:27148965 original size:12 final size:12
Alignment explanation
Indices: 27148948--27148972 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27148938 ACAACACATA
27148948 TTCAGAAAAATC
1 TTCAGAAAAATC
27148960 TTCAGAAAAATC
1 TTCAGAAAAATC
27148972 T
1 T
27148973 GATATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:27150740 original size:71 final size:73
Alignment explanation
Indices: 27150624--27150768 Score: 267
Period size: 71 Copynumber: 2.0 Consensus size: 73
27150614 TTGTAAGTGG
27150624 AAATGGAAGCATGTCACTATGGATTTTCTTTCAAGGTTGCCATTGACTTTG-AAAAAAAAA-TAA
1 AAATGGAAGCATGTCACTATGGATTTTCTTTCAAGGTTGCCATTGACTTTGAAAAAAAAAATTAA
27150687 TTTGGATT
66 TTTGGATT
*
27150695 AAATGGAAGCATGTCACTATGGATTTTCTTTCAAGGTTTCCATTGACTTTGAAAAAAAAAATTAA
1 AAATGGAAGCATGTCACTATGGATTTTCTTTCAAGGTTGCCATTGACTTTGAAAAAAAAAATTAA
27150760 TTTGGATT
66 TTTGGATT
27150768 A
1 A
27150769 TCGTAGATAG
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 50 0.70
72 9 0.13
73 12 0.17
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (73 bp):
AAATGGAAGCATGTCACTATGGATTTTCTTTCAAGGTTGCCATTGACTTTGAAAAAAAAAATTAA
TTTGGATT
Found at i:27154265 original size:58 final size:57
Alignment explanation
Indices: 27154201--27154352 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 57
27154191 CTATTGACCT
* * *
27154201 TGTTACAAAAAGGATTTAGCCCGGA-TGGGTAATCCTGATATAATCCC-TCTCGATCATA
1 TGTTACAAAAAGGATTTAGCCTGGACT-GGTAATCCTGAT-TAAGCCCTTCT-GAGCATA
** * * * * *
27154259 TGTTACAATTAGGGTTTAACCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATA
1 TGTTACAAAAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTGAGCATA
* *
27154316 CGTTACATAAAGGATTTAGCCTGGACTGGTAATCCTG
1 TGTTACAAAAAGGATTTAGCCTGGACTGGTAATCCTG
27154353 TAATACAACC
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
57 40 0.53
58 34 0.45
59 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (57 bp):
TGTTACAAAAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTGAGCATA
Found at i:27167150 original size:4 final size:4
Alignment explanation
Indices: 27167141--27167197 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
27167131 TTACTACTAA
27167141 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
27167189 TATG TATG T
1 TATG TATG T
27167198 TTTTTTTAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:27168398 original size:13 final size:13
Alignment explanation
Indices: 27168380--27168404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27168370 ATAAAAGTCA
27168380 AAAAAATAAAAAT
1 AAAAAATAAAAAT
27168393 AAAAAATAAAAA
1 AAAAAATAAAAA
27168405 GTCTTTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:27175492 original size:19 final size:18
Alignment explanation
Indices: 27175426--27175493 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
27175416 CTTATTAGTA
*
27175426 TTATTTCTTA-TT-ATTC
1 TTATTTTTTATTTCATTC
*
27175442 TTATTTATTTATTT-ATTTA
1 TTATTT-TTTATTTCA-TTC
*
27175461 TTATTTTACTATTTCATTC
1 TTATTTT-TTATTTCATTC
27175480 TTATTGTTTTATTT
1 TTATT-TTTTATTT
27175494 TGTTTTAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.15
17 3 0.07
18 4 0.10
19 25 0.61
20 3 0.07
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (18 bp):
TTATTTTTTATTTCATTC
Found at i:27187542 original size:39 final size:39
Alignment explanation
Indices: 27187497--27187621 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 39
27187487 CTCGCACAAG
* *
27187497 GCCTTCGGTCTTAACCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGTCTTAACCCAGATATAGTCACTAGCACAAAT
* ** * *
27187536 GCCTTCGGGACTTAGTCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGTCTTAACCCAGATATAGTCACTAGCACAAAT
** * * * *
27187576 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGG-TCTTAACCCAGATATAGTCAC-TAGCACAAAT
27187617 GCCTT
1 GCCTT
27187622 TGGGAGTTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.11
40 51 0.70
41 14 0.19
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGTCTTAACCCAGATATAGTCACTAGCACAAAT
Found at i:27187569 original size:40 final size:40
Alignment explanation
Indices: 27187515--27187640 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
27187505 TCTTAACCCA
* * *
27187515 GATATGGTCACTAGCATAAATGCCTTCGGGACTTAGTCCG
1 GATATAGTCGCTAGCACAAATGCCTTCGGGACTTAGTCCG
27187555 GATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGTCCG
1 GATATAGTCGCTAGCACAAATGCCTTCGGGA-CTTAGTCCG
* * * * *
27187595 GATGTAGTCGCTTAGCACAAAAGCCTTTGGGAGTTAGCCCG
1 GATATAGTCGC-TAGCACAAATGCCTTCGGGACTTAGTCCG
27187636 GATAT
1 GATAT
27187641 CATTCGAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 43 0.58
41 25 0.34
42 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
GATATAGTCGCTAGCACAAATGCCTTCGGGACTTAGTCCG
Found at i:27196729 original size:46 final size:46
Alignment explanation
Indices: 27196679--27196851 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
27196669 TGGTTGAGCA
27196679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27196725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27196770 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27196818 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27196852 GGGGCAGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27196835 original size:93 final size:93
Alignment explanation
Indices: 27196676--27196846 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27196666 GGATGGTTGA
*
27196676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
27196741 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27196769 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
27196833 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
27196847 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27207485 original size:50 final size:50
Alignment explanation
Indices: 27207366--27207661 Score: 258
Period size: 50 Copynumber: 5.9 Consensus size: 50
27207356 ATTGTGAGAA
* * *** * *
27207366 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
** * * *
27207418 CATGTGTGTAGTACTAAGTGCAGTCTACGACGTGTACCAAATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
27207468 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGC-GACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGA-TAGTT-AGGT
* * * *
27207519 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
27207569 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATCA-TT-TGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTAGGT
* *
27207618 CACATGTTTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
27207662 CTTCAGTTAC
Statistics
Matches: 197, Mismatches: 40, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.20
50 81 0.41
51 40 0.20
52 35 0.18
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:27207552 original size:26 final size:26
Alignment explanation
Indices: 27207471--27207554 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
27207461 GTTAGGTCGC
27207471 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * * **
27207497 ATGCGTACGCGAC-AACTTCAATC-AC-
1 ATGTGTA-G-TACTAAGTGCAGGCTACT
*
27207522 GTGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
27207548 ATGTGTA
1 ATGTGTA
27207555 TCAGATGGTT
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
23 2 0.05
24 7 0.18
25 7 0.18
26 14 0.36
27 7 0.18
28 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:27207690 original size:150 final size:152
Alignment explanation
Indices: 27207373--27207693 Score: 373
Period size: 150 Copynumber: 2.1 Consensus size: 152
27207363 GAACACATGT
* * *
27207373 GTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCATGTGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACTATGTGTATAAAATGG-TTTAGGTCACGTGTGTAGTACTAAGTG
* *
27207438 CAGTCTACGACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
65 CAGTCTACGACGTGTACCAAATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGT
** *
27207503 ACGCGACAACTTCAATCACGTGT
130 ACGCGACAACTTCAATCACAAGG
* * * *
27207526 GTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAGTGC
1 GTAGTAATATGTGCAGGCTACTATGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTAAGTGC
* ** * *
27207590 AAG-CTACTACGTGTACCGGATCA-TT-TGTCACATGTTTAGTACTAAGTGCAGGCTACTACGCG
66 -AGTCTACGACGTGTACCAAAT-AGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCG
* * * *
27207652 TAC-CAGATAGCTTCAGTTACAAGG
129 TACGC-GACAACTTCAATCACAAGG
*
27207676 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
27207694 AACCGTGTAT
Statistics
Matches: 143, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
149 1 0.01
150 63 0.44
151 43 0.30
152 3 0.02
153 33 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (152 bp):
GTAGTAATATGTGCAGGCTACTATGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTAAGTGC
AGTCTACGACGTGTACCAAATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA
CGCGACAACTTCAATCACAAGG
Found at i:27209730 original size:68 final size:68
Alignment explanation
Indices: 27209639--27209801 Score: 179
Period size: 68 Copynumber: 2.4 Consensus size: 68
27209629 TTCACCTAGC
* * * ** *
27209639 GCCATAGCCGAGCTATGGTCTTACACAGTCTG-AA-CCTATGTTTAACATCCTGGTGGACTCTAT
1 GCCATAGCTGAGCTATGGTCTTACAC-CT-TGTAACCCCATGTTTAACATCCTAATAGACTCTAT
27209702 TGGTT
64 TGGTT
**
27209707 GCCATAGCTGAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCCTAATAGACTCTATTG
1 GCCATAGCTGAGCTATGGTCTTACACCTTGTAACCCCATGTTTAACATCCTAATAGACTCTATTG
27209772 GTT
66 GTT
*
27209775 TCCATAG-TCGAGCTATATGGTCTTACA
1 GCCATAGCT-GAGC--TATGGTCTTACA
27209802 TATTAAACCT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
66 2 0.02
67 4 0.05
68 63 0.78
70 12 0.15
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (68 bp):
GCCATAGCTGAGCTATGGTCTTACACCTTGTAACCCCATGTTTAACATCCTAATAGACTCTATTG
GTT
Found at i:27211654 original size:21 final size:22
Alignment explanation
Indices: 27211613--27211655 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27211603 TAGTCAATGC
27211613 GGAATTAAAATTAACTTTTTAA
1 GGAATTAAAATTAACTTTTTAA
27211635 GGAATTAAAATTAA-TTTTTAA
1 GGAATTAAAATTAACTTTTTAA
27211656 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
GGAATTAAAATTAACTTTTTAA
Found at i:27212076 original size:119 final size:116
Alignment explanation
Indices: 27211868--27212089 Score: 274
Period size: 118 Copynumber: 1.9 Consensus size: 116
27211858 TGGGGATGTT
* * *
27211868 ATCAATACTTAAGTATGTATATTTTTATTTTATTAATTTATTTATAAATTTTAAAAAAAAAATCT
1 ATCAAAACTTAAGTATGTATATTTTTAATTTATTAATTTATTCATAAA-TTTAAAAAAAAAATCT
*
27211933 ACTGAGAATGTTTATCAAAAACCTTTTAGATTGATAAAAAATTTCTATTGAGA
65 ACTGAGAATGTTTATCAAAAACCTTTTAGACTGA-AAAAAATTTCTATTGAGA
* *
27211986 ATCAAAACTTAAGTATGTATTTTATTTTATTAATTTATTAATTTATTCGTAAA-TT-AAAAAATA
1 ATCAAAACTTAAGTATGTA---TA-TTT-TTAATTTATTAATTTATTCATAAATTTAAAAAAAAA
27212049 ATCCTA-TGATG-ATGTTTAT-AAAAACCTTTTAGACTGAAAAA
61 AT-CTACTGA-GAATGTTTATCAAAAACCTTTTAGACTGAAAAA
27212090 GTAAAATAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
118 22 0.24
119 17 0.19
120 20 0.22
121 8 0.09
122 3 0.03
123 21 0.23
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (116 bp):
ATCAAAACTTAAGTATGTATATTTTTAATTTATTAATTTATTCATAAATTTAAAAAAAAAATCTA
CTGAGAATGTTTATCAAAAACCTTTTAGACTGAAAAAAATTTCTATTGAGA
Found at i:27215287 original size:15 final size:15
Alignment explanation
Indices: 27215267--27215304 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
27215257 TTTCGTGTTT
27215267 CTTGCATCTATTGAG
1 CTTGCATCTATTGAG
27215282 CTTGCATCTATTGAG
1 CTTGCATCTATTGAG
27215297 CTTGCATC
1 CTTGCATC
27215305 CTCAAACCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (15 bp):
CTTGCATCTATTGAG
Found at i:27218340 original size:21 final size:20
Alignment explanation
Indices: 27218282--27218361 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
27218272 GGTCTAAAAT
27218282 TATTATTTTAGAAATTTTTTTA
1 TATT-TTTTAG-AATTTTTTTA
* *
27218304 -ATTCTTTA-ATTTTTTTCTA
1 TATTTTTTAGAATTTTTT-TA
27218323 TATTTTTTAGAATTTTTTTTA
1 TATTTTTTAGAA-TTTTTTTA
* **
27218344 AAAATTTTAGAATTTTTT
1 TATTTTTTAGAATTTTTT
27218362 AAAAAATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.15
19 2 0.04
20 17 0.36
21 15 0.32
22 6 0.13
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTTTTAGAATTTTTTTA
Found at i:27218361 original size:20 final size:21
Alignment explanation
Indices: 27218327--27218368 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
27218317 TTTCTATATT
*
27218327 TTTTAGAATTTTTTTTAAAAA
1 TTTTAGAATTTTTTTAAAAAA
27218348 TTTTAGAA-TTTTTTAAAAAA
1 TTTTAGAATTTTTTTAAAAAA
27218368 T
1 T
27218369 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTAGAATTTTTTTAAAAAA
Found at i:27218367 original size:21 final size:21
Alignment explanation
Indices: 27218327--27218367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27218317 TTTCTATATT
**
27218327 TTTTAGAATTTTTTTTAAAAA
1 TTTTAGAATTTTTTAAAAAAA
27218348 TTTTAGAATTTTTTAAAAAA
1 TTTTAGAATTTTTTAAAAAA
27218368 TATAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTAGAATTTTTTAAAAAAA
Found at i:27218375 original size:18 final size:19
Alignment explanation
Indices: 27218337--27218378 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
27218327 TTTTAGAATT
* *
27218337 TTTTTTAAAAATTTTAGAA
1 TTTTTTAAAAAATATAGAA
27218356 TTTTTTAAAAAATATA-AA
1 TTTTTTAAAAAATATAGAA
27218374 TTTTT
1 TTTTT
27218379 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTTTAAAAAATATAGAA
Found at i:27218378 original size:19 final size:20
Alignment explanation
Indices: 27218330--27218378 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
27218320 CTATATTTTT
* *
27218330 TAGAATTTTTTTTAAAAATTT
1 TAGAA-TTTTTTTAAAAAATA
27218351 TAGAA-TTTTTTAAAAAATA
1 TAGAATTTTTTTAAAAAATA
27218370 TA-AATTTTT
1 TAGAATTTTT
27218379 GAAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
21 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
TAGAATTTTTTTAAAAAATA
Found at i:27218390 original size:19 final size:19
Alignment explanation
Indices: 27218368--27218445 Score: 65
Period size: 20 Copynumber: 4.1 Consensus size: 19
27218358 TTTTAAAAAA
27218368 TATAAAT-TTTTGAAATTTT
1 TATAAATATTTTG-AATTTT
27218387 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
27218405 TAAAAATTAATTTT-AATTTT
1 TATAAA-T-ATTTTGAATTTT
*
27218425 TGA-AAATTATTTTGCATTTT
1 T-ATAAA-TATTTTGAATTTT
27218445 T
1 T
27218446 TATTGAGGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.16
19 17 0.33
20 25 0.49
21 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:27218445 original size:20 final size:19
Alignment explanation
Indices: 27218382--27218445 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
27218372 AATTTTTGAA
*
27218382 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
* *
27218400 AATTTTAAAAATTAATTTTA
1 ATTTTTAAAAATT-ATTTTG
*
27218420 ATTTTTGAAAATTATTTTG
1 ATTTTTAAAAATTATTTTG
27218439 CATTTTT
1 -ATTTTT
27218446 TATTGAGGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 22 0.59
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:27220058 original size:19 final size:17
Alignment explanation
Indices: 27220028--27220066 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
27220018 ATATTTACTA
*
27220028 AAATATTATAAATTTAT
1 AAATATTATAAAATTAT
27220045 AAATCATTATTAAAATTAT
1 AAAT-ATTA-TAAAATTAT
27220064 AAA
1 AAA
27220067 AAATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTATAAAATTAT
Found at i:27220073 original size:18 final size:19
Alignment explanation
Indices: 27220027--27220076 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
27220017 AATATTTACT
27220027 AAAATATTATAAATTTATAA
1 AAAATATTA-AAATTTATAA
* *
27220047 ATCATTATTAAAA-TTATAA
1 A-AAATATTAAAATTTATAA
27220066 AAAATATTAAA
1 AAAATATTAAA
27220077 TAAGATTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
20 4 0.16
21 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATTAAAATTTATAA
Found at i:27220800 original size:17 final size:17
Alignment explanation
Indices: 27220778--27220812 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27220768 TAGAATGTTT
27220778 TTAGAGCCGATAAGAAA
1 TTAGAGCCGATAAGAAA
*
27220795 TTAGAGCCGGTAAGAAA
1 TTAGAGCCGATAAGAAA
27220812 T
1 T
27220813 AAACTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (17 bp):
TTAGAGCCGATAAGAAA
Found at i:27222937 original size:46 final size:46
Alignment explanation
Indices: 27222862--27223075 Score: 236
Period size: 46 Copynumber: 4.6 Consensus size: 46
27222852 TATGTGTGCT
* *
27222862 AGTGTATGACATGTATGGGACATGCATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
* * *
27222908 AGCGTAACACATGTCTGGGACATGCATCAGCCACATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
* * * * *
27222954 AGTGTAAGACATCTCTGGGACATGCATCGGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AG-CA-TGAGAGCC
* * * *
27223002 AGTGTAAGACATGTCTGAGACATGCATCAG-CATTGAG-ACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCATGAGAGCC
27223048 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
27223076 GGCCTCGTGA
Statistics
Matches: 140, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 101 0.72
47 2 0.01
48 34 0.24
49 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
Found at i:27223012 original size:48 final size:46
Alignment explanation
Indices: 27222862--27223105 Score: 185
Period size: 46 Copynumber: 5.2 Consensus size: 46
27222852 TATGTGTGCT
* * * * *
27222862 AGTGTATGACATGTATGGGACATGCATCAGCCAC-AGCATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-AT-ATAAGCC
* * * *
27222908 AGCGTAACACATGTCTGGGACATGCATCAG-C-C-ACATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-AT-A-AGCC
*
27222954 AGTGTAAGACATCTCTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TAAGCC
* * * * * * *
27223002 AGTGTAAGACATGTCTGAGACATGCATCAGCATTGAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATAAGCC
* *
27223048 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT--AAGCC
27223096 AGTGTAAGAC
1 AGTGTAAGAC
27223106 CTGTTTGAGA
Statistics
Matches: 159, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 2 0.01
46 92 0.58
47 1 0.01
48 53 0.33
49 5 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
Found at i:27223028 original size:94 final size:93
Alignment explanation
Indices: 27222904--27223115 Score: 264
Period size: 94 Copynumber: 2.3 Consensus size: 93
27222894 ACAGCATGAG
* * * *
27222904 AGCCAGCGTAACACATGTCTGGGACATGCATCAGCCACAT-CATGAGAGCCAGTGTAAGACATCT
1 AGCCAGTGTAAGACATGTCTGAGACATGCATCAG-CA-ATACACGAGAGCCAGTGTAAGACATCT
**
27222968 CTGGGACATGCATCGGCCTCGAGATATTTA
64 CTGGGACATGCATCGGCCTCGAGATATACA
* * * *
27222998 AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTC
1 AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCAAT-ACACGAGAGCCAGTGTAAGACATCTC
*
27223063 TGGGACATGCATCGGCCTCGTGATATACA
65 TGGGACATGCATCGGCCTCGAGATATACA
* * *
27223092 AGCTAGTGTAAGACCTGTTTGAGA
1 AGCCAGTGTAAGACATGTCTGAGA
27223116 GATGGTGTCA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 99 0.97
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGAGACATGCATCAGCAATACACGAGAGCCAGTGTAAGACATCTCT
GGGACATGCATCGGCCTCGAGATATACA
Found at i:27231380 original size:40 final size:40
Alignment explanation
Indices: 27231323--27231540 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
27231313 CGGATGATAA
* *
27231323 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
27231363 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
27231403 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* * *
27231443 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
27231483 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
27231523 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27231541 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 17 0.10
40 144 0.88
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:27231456 original size:80 final size:80
Alignment explanation
Indices: 27231319--27231540 Score: 342
Period size: 80 Copynumber: 2.8 Consensus size: 80
27231309 TATCCGGATG
* *
27231319 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCTAG-TGACTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATA-TCCGGGCTAAGTCCCGAAGG
27231382 CATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACT
* *
27231399 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAGGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
27231464 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
27231479 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
27231541 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
79 14 0.11
80 114 0.87
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:27235936 original size:30 final size:30
Alignment explanation
Indices: 27235902--27235963 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
27235892 ATCATTAACT
*
27235902 TAAACTTTGGAAAAATTATAATTTTTCCCC
1 TAAACTTTGGAAAAATTATAATTTTGCCCC
* * * *
27235932 TAAACTTTTGCATATTTATAATTTTGCCCC
1 TAAACTTTGGAAAAATTATAATTTTGCCCC
27235962 TA
1 TA
27235964 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (30 bp):
TAAACTTTGGAAAAATTATAATTTTGCCCC
Found at i:27241621 original size:48 final size:47
Alignment explanation
Indices: 27241461--27241629 Score: 162
Period size: 48 Copynumber: 3.6 Consensus size: 47
27241451 TGATATGTGT
* * * * *
27241461 GCTAGTGCAAGACATGTATGGGACATGCATCAGCCACAGC-AT-GAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-GCGATATAAA
* * * * * * *
27241507 GCTAGTGTAAGACACGTCCGGGACATACATCGGCCTTGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATA-TAAA
*
27241555 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATA-AA
* *
27241603 GCTAGTGTAAGACCTGTCTTGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
27241630 GTGGCAGCTT
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
45 1 0.01
46 31 0.32
47 1 0.01
48 63 0.66
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATAAA
Found at i:27252748 original size:17 final size:19
Alignment explanation
Indices: 27252706--27252749 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27252696 ATGAAATTTT
*
27252706 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
27252725 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
27252743 AA-TATTA
1 AATTATTA
27252750 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:27261048 original size:49 final size:49
Alignment explanation
Indices: 27260976--27261096 Score: 181
Period size: 49 Copynumber: 2.4 Consensus size: 49
27260966 GGATGTTAAA
*
27260976 GTAAGACCTGTCTGGGACATGGCATCGAAAC-CGATAGATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATC-AAACTCGATAGATGAAAGCCAGT
* * *
27261025 GTAAGACCTGTCTGGGACATGGCATCAACCTCGCTATATGAAAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATCAAACTCGATAGATGAAAGCCAGT
27261074 GTAAGACCATGTCTGGGACATGG
1 GTAAGACC-TGTCTGGGACATGG
27261097 TGTCGGCATC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
48 3 0.05
49 49 0.74
50 14 0.21
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGGCATCAAACTCGATAGATGAAAGCCAGT
Found at i:27266149 original size:55 final size:53
Alignment explanation
Indices: 27266008--27266197 Score: 146
Period size: 55 Copynumber: 3.5 Consensus size: 53
27265998 TACCATTGCC
* * * *
27266008 ATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCAATATTGCC
1 ATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCAACTCAATAATGCA
* * * * * * **
27266061 ATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATCATAGTTTATCAATGCA
1 ATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCA-ACTCAAT-AATGCA
* * * * * ** *
27266116 ATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCC
1 ATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-CAACTCAATAATGCA
* * *
27266170 ATGCCTTGGCATGGTCTTACTTGGTATC
1 ATGTCTTGACATGGTCTTACATGGTATC
27266198 ATTAAACCCT
Statistics
Matches: 103, Mismatches: 31, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
53 33 0.32
54 32 0.31
55 37 0.36
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
ATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCAACTCAATAATGCA
Found at i:27266572 original size:30 final size:30
Alignment explanation
Indices: 27266538--27266595 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27266528 CTTTAACTAT
27266538 AACTTTGGCAAAATTACAATTTTTCCCCTA
1 AACTTTGGCAAAATTACAATTTTTCCCCTA
* * *
27266568 AACTTTTGCAAATTTACACTTTTTCCCC
1 AACTTTGGCAAAATTACAATTTTTCCCC
27266596 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTTCCCCTA
Found at i:27275615 original size:42 final size:42
Alignment explanation
Indices: 27275503--27275622 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
27275493 TACCTTACCA
* * * *
27275503 ATGCCATATCCCAGATATAGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* *
27275545 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
27275588 ATGCCATATCCTAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
27275623 TGGTAACCGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:27287859 original size:28 final size:27
Alignment explanation
Indices: 27287792--27287861 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
27287782 AGAATATGAT
* *
27287792 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
27287819 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
27287847 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
27287862 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:27287877 original size:55 final size:53
Alignment explanation
Indices: 27287737--27287888 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
27287727 TAAATTGTAC
* *
27287737 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
27287790 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
27287845 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
27287889 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:27287893 original size:27 final size:27
Alignment explanation
Indices: 27287738--27287893 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
27287728 AAATTGTACA
* *
27287738 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
27287765 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
27287792 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
27287819 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
27287847 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
27287874 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
27287894 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:27295911 original size:28 final size:27
Alignment explanation
Indices: 27295844--27295913 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
27295834 AGAATATGAT
* *
27295844 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
27295871 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
27295899 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
27295914 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:27295929 original size:55 final size:53
Alignment explanation
Indices: 27295789--27295940 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
27295779 TAAATTGTAC
* *
27295789 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
27295842 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
27295897 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
27295941 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:27295945 original size:27 final size:27
Alignment explanation
Indices: 27295790--27295945 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
27295780 AAATTGTACA
* *
27295790 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
27295817 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
27295844 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
27295871 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
27295899 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
27295926 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
27295946 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:27310996 original size:12 final size:12
Alignment explanation
Indices: 27310979--27311012 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27310969 CAACCCGCCC
27310979 ATATTAATTTTT
1 ATATTAATTTTT
*
27310991 ATATTATTTTTT
1 ATATTAATTTTT
27311003 ATA-TAATTTT
1 ATATTAATTTT
27311013 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:27311055 original size:17 final size:18
Alignment explanation
Indices: 27311014--27311053 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
27311004 TATAATTTTA
*
27311014 AAAAATATATAAACTATC
1 AAAAATATAAAAACTATC
27311032 AAAAATACTAAAAAC-ATC
1 AAAAATA-TAAAAACTATC
27311050 AAAA
1 AAAA
27311054 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATATAAAAACTATC
Found at i:27311621 original size:26 final size:26
Alignment explanation
Indices: 27311570--27311621 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
27311560 AATGGTAATT
* *
27311570 AAATGTTAAATTTATATGCTGTTATG
1 AAATGTTAAATTTATATGATGCTATG
*
27311596 AAATGTTAGAATTTGTAT-ATGCTATG
1 AAATGTTA-AATTTATATGATGCTATG
27311622 GCCGAACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (26 bp):
AAATGTTAAATTTATATGATGCTATG
Found at i:27313280 original size:15 final size:17
Alignment explanation
Indices: 27313260--27313293 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27313250 GATCCGAAAT
27313260 TTGTGCG-AG-TATTAA
1 TTGTGCGAAGTTATTAA
27313275 TTGTGCGAAGTTATTAA
1 TTGTGCGAAGTTATTAA
27313292 TT
1 TT
27313294 CCGGGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (17 bp):
TTGTGCGAAGTTATTAA
Found at i:27313336 original size:40 final size:39
Alignment explanation
Indices: 27313275--27313396 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 39
27313265 CGAGTATTAA
*
27313275 TTGTGCGAAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCT
1 TTGTGCG-AG-TATTAATTCCGGGTTAAGTCCCGAAGGCAT
*
27313316 TTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAG-TATTAATTCCGGGTTAAGTCCCGAAGGCAT
* * *
27313356 TCGTGCGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAGTATT-AATTCCGGGTTAAGTCCCGAAGGCAT
27313396 T
1 T
27313397 GAATGAGTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.03
40 64 0.88
41 7 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (39 bp):
TTGTGCGAGTATTAATTCCGGGTTAAGTCCCGAAGGCAT
Found at i:27313417 original size:39 final size:38
Alignment explanation
Indices: 27313294--27313443 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
27313284 GTTATTAATT
* ** * *
27313294 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
27313334 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
27313373 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
27313413 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
27313444 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:27321749 original size:40 final size:40
Alignment explanation
Indices: 27321665--27321804 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
27321655 TTGAATGCTG
* *
27321665 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
27321704 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** *
27321745 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
**
27321785 TCCGGGTTAAGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
27321805 TGCGATTAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 71 0.85
41 12 0.14
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27325084 original size:46 final size:46
Alignment explanation
Indices: 27325034--27325206 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
27325024 TGGTTGAGCA
27325034 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27325080 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27325125 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27325173 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27325207 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27325190 original size:93 final size:93
Alignment explanation
Indices: 27325031--27325201 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27325021 GGATGGTTGA
* *
27325031 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27325096 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27325124 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27325189 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27325202 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27328186 original size:15 final size:15
Alignment explanation
Indices: 27328148--27328191 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
27328138 TATAGTATCG
* *
27328148 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
27328163 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
27328178 TATCTTGGATTTCT
1 TATCTTGGATTTCT
27328192 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:27330641 original size:46 final size:46
Alignment explanation
Indices: 27330591--27330763 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
27330581 TGGTTGAGCA
27330591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27330637 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27330682 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27330730 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27330764 GGGGCGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27330747 original size:93 final size:93
Alignment explanation
Indices: 27330588--27330758 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27330578 GGATGGTTGA
* *
27330588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27330653 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27330681 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27330746 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27330759 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27333913 original size:21 final size:21
Alignment explanation
Indices: 27333872--27333913 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27333862 GAATTTTTTA
* *
27333872 AATGTTTTCATAAATTTTAAT
1 AATGTTTTCACAAATTATAAT
27333893 AATGTTTT-ACAAATTCATAAT
1 AATGTTTTCACAAATT-ATAAT
27333914 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
AATGTTTTCACAAATTATAAT
Found at i:27339838 original size:18 final size:21
Alignment explanation
Indices: 27339792--27339832 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
27339782 ATTTTCAACC
27339792 TAAATTAAATTGAAATTCAAAAT
1 TAAA-TAAATTGAAATT-AAAAT
27339815 TAAATAAATTG-AATTAAA
1 TAAATAAATTGAAATTAAA
27339833 TAAATATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 4 0.22
22 7 0.39
23 4 0.22
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
TAAATAAATTGAAATTAAAAT
Found at i:27341961 original size:46 final size:46
Alignment explanation
Indices: 27341844--27342065 Score: 209
Period size: 47 Copynumber: 4.7 Consensus size: 46
27341834 ATTATGAGAA
* * *
27341844 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAAACG-AGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAGACGTA-AG
* * *
27341892 CTAGTGCAAGACATGTCTAGGACAT-GCATCGGGCTCGAGACGTAAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATC-GGCTCGAGACGTAAG
* *
27341938 CCAGTGTAAGACATGTCTGGGACAT-GCGTCGGCTACGAGATGGT-AG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGA-CGTAAG
* * * * *
27341984 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGACGTAAG
* *
27342031 CCATTGTAAGAACATGTATGGGACATGGCATCGGC
1 CCAGTGTAAG-ACATGTCTGGGACATGGCATCGGC
27342066 ACCTTACACA
Statistics
Matches: 146, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.03
46 57 0.39
47 68 0.47
48 17 0.12
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGACGTAAG
Found at i:27343218 original size:20 final size:21
Alignment explanation
Indices: 27343180--27343218 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27343170 CTGAGTCGGT
*
27343180 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
27343201 CACACGGGCATG-TGCCCT
1 CACACGGGCATGTTGCCCT
27343219 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:27349384 original size:46 final size:46
Alignment explanation
Indices: 27349331--27349549 Score: 169
Period size: 46 Copynumber: 4.7 Consensus size: 46
27349321 GTTGTTGGCT
* *
27349331 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GACGAGAGCC
* * ** * **
27349377 AGTGTAAGACCATTTCTGGGACATGGCAT-TGATATTGAGACGAGAGAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGACGAGAGCC
* * *
27349425 AGTGTAAGACTTGTCCGGGACATGCATC-GACCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCACGAGACG-AGAGCC
* * * *
27349471 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-GTAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAG-AGCC
*
27349517 AGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
27349550 ACCTTACCCA
Statistics
Matches: 135, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
46 67 0.50
47 41 0.30
48 26 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAGAGCC
Found at i:27354794 original size:20 final size:21
Alignment explanation
Indices: 27354769--27354808 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27354759 GGGTTGATTA
*
27354769 CTCGA-TAAATTTCGATTTCC
1 CTCGATTAAATTCCGATTTCC
*
27354789 CTCGATTGAATTCCGATTTC
1 CTCGATTAAATTCCGATTTC
27354809 TTTCTTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCGATTAAATTCCGATTTCC
Found at i:27374873 original size:47 final size:50
Alignment explanation
Indices: 27374790--27374925 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 50
27374780 TGTAACCCGC
* *
27374790 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
* *
27374840 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
* *
27374883 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
27374926 AATATCCTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
43 7 0.10
44 2 0.03
45 2 0.03
46 28 0.39
47 28 0.39
48 2 0.03
49 2 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
Found at i:27412404 original size:9 final size:9
Alignment explanation
Indices: 27412392--27412435 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
27412382 GTTAATACTT
27412392 TAATTCGGG
1 TAATTCGGG
*
27412401 TAATTCGAG
1 TAATTCGGG
* *
27412410 TAATTCAGT
1 TAATTCGGG
*
27412419 TAATTCAGG
1 TAATTCGGG
27412428 TAATTCGG
1 TAATTCGG
27412436 TTTATTTGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:27412404 original size:17 final size:17
Alignment explanation
Indices: 27412368--27412404 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27412358 GTAGTGATTC
*
27412368 AATACTTTAATTCAGTT
1 AATACTTTAATTCAGGT
*
27412385 AATACTTTAATTCGGGT
1 AATACTTTAATTCAGGT
27412402 AAT
1 AAT
27412405 TCGAGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
AATACTTTAATTCAGGT
Found at i:27415599 original size:47 final size:47
Alignment explanation
Indices: 27415570--27415830 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
27415560 ATATATGAGC
* *
27415570 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
27415617 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
27415664 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * * *
27415711 TAAGACCGAATGACCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
27415758 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
27415805 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCAAATGTGATGAA
27415831 CGTGGAAGTG
Statistics
Matches: 203, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 203 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:27415637 original size:24 final size:24
Alignment explanation
Indices: 27415610--27415684 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
27415600 AACATGCATT
27415610 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * **
27415634 TGTGATG--AATG-TGAACAT-GCATT
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
27415657 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
27415681 TGTG
1 TGTG
27415685 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:27415637 original size:94 final size:94
Alignment explanation
Indices: 27415539--27415850 Score: 464
Period size: 94 Copynumber: 3.3 Consensus size: 94
27415529 TTAGGATTTT
* ** *
27415539 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
27415604 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * *
27415633 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
27415698 TGCATTTGTGTGATAAGACCGAATGACCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
27415727 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
27415792 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
27415821 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
27415851 TGAAAGCCAA
Statistics
Matches: 196, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
94 193 0.98
95 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:27415780 original size:22 final size:22
Alignment explanation
Indices: 27415752--27415827 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
27415742 ACATGTATAT
27415752 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
27415774 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
27415796 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
27415821 ATGTGAT
1 ATGTGAT
27415828 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:27415864 original size:47 final size:48
Alignment explanation
Indices: 27415539--27415873 Score: 329
Period size: 47 Copynumber: 7.1 Consensus size: 48
27415529 TTAGGATTTT
* ** * * *
27415539 ATGTGATGGATGTGAATGTGTATATATGAGCT-A-AGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTG-TGATAAGCCGAATGGCCA
* * *
27415586 ATGTGATGAATGTGAACATGCAT-T-TGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGTGATAA-GCCGAATGGCCA
* * *
27415633 ATGTGATGAATGTGAACATGCAT-T-TGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGTGATAA-GCCGAATGGCCA
* *
27415680 ATGTGATGAATGTGAACATGCAT-T-TGTGTGATAAGACCGAATGACCA
1 ATGTGATGAATGTGAACATGTATATATGTGTGATAAG-CCGAATGGCCA
27415727 ATGTGATGAATGTGAACATGTATATA--TGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGTGATAA-GCCGAATGGCCA
*
27415774 ATGTGATGAATGTGAACATG--CATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGTGATAA-GCCGAATGGCCA
* * * **
27415821 ATGTGATGAACGTGGAA-GTGTATATATGTGTGA-AAGCCAAATGGTTA
1 ATGTGATGAATGT-GAACATGTATATATGTGTGATAAGCCGAATGGCCA
27415868 ATGTGA
1 ATGTGA
27415874 AATGTGTATG
Statistics
Matches: 257, Mismatches: 19, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
44 1 0.00
45 6 0.02
46 3 0.01
47 230 0.89
48 7 0.03
49 10 0.04
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (48 bp):
ATGTGATGAATGTGAACATGTATATATGTGTGATAAGCCGAATGGCCA
Found at i:27415904 original size:46 final size:46
Alignment explanation
Indices: 27415844--27415934 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
27415834 GGAAGTGTAT
* *
27415844 ATATGTGTGAAAGCCAAATGGTTAATGTGA-AATGTGTATGAGATGG
1 ATATGTGTGAAAGCCAAATGGCTAATGTGAGAA-ATGTATGAGATGG
27415890 ATATGT-TGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGTG-AAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
27415935 TGTATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 2 0.05
46 37 0.90
47 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (46 bp):
ATATGTGTGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGG
Found at i:27418146 original size:41 final size:41
Alignment explanation
Indices: 27418079--27418158 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
27418069 GCTATATATG
* *
27418079 GCACTTAGTGTGCGAGATCGAGATAGCTT-AGGCTATGTAAA
1 GCACTTAGTGTGCGAGATCAAAATAGCTTCA-GCTATGTAAA
*
27418120 GCACTTAGTGTGCGAGATTAAAATAGCTTCAGCTATGTA
1 GCACTTAGTGTGCGAGATCAAAATAGCTTCAGCTATGTA
27418159 TTGGCACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATCAAAATAGCTTCAGCTATGTAAA
Found at i:27426074 original size:39 final size:40
Alignment explanation
Indices: 27425953--27426137 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
27425943 GCTACTCGTT
* *
27425953 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
27425993 CAAATGCCTTCGGGACTTA-ACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACC-GGATTTAGTAACTCGCA
* *
27426033 CAAATGCCTTCGGG-CTTAGACCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * * *
27426072 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
27426113 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
27426138 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 79 0.63
41 13 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:27426121 original size:79 final size:80
Alignment explanation
Indices: 27425953--27426137 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
27425943 GCTACTCGTT
* * *
27425953 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTG
1 CAAATGCCTTCGGGACTTAGACCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCTG
* *
27426017 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* *
27426033 CAAATGCCTTCGGG-CTTAGACCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC-
1 CAAATGCCTTCGGGACTTAGACCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCT
* *
27426095 GGATATGGTCACTTAGCA
64 GGATATAGTAAC-TAGCA
*
27426113 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
27426138 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGACCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
ATATAGTAACTAGCA
Found at i:27433327 original size:27 final size:27
Alignment explanation
Indices: 27433308--27433411 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
27433298 ATTACTAAAG
27433308 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
27433335 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
27433362 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
27433389 TACCCTCGATTTATAGAATTACC
1 TACCCTCGATTTATAGAATTACC
27433412 TACAGAATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:27433341 original size:54 final size:54
Alignment explanation
Indices: 27433294--27433638 Score: 339
Period size: 54 Copynumber: 6.2 Consensus size: 54
27433284 CCTCAAATTG
***
27433294 TAAAATTACTAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
* * *
27433348 TAAAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTA
1 TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG----AT----TTA
* *
27433410 CCTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
1 --TA-A-AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
* * *
27433468 TAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
* * * * *
27433522 TAGAATTACCATTTTACCCTCGACTTATAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
* * * * * * *** *
27433576 CAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTA
1 TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
*
27433630 CAAAATTAC
1 TAAAATTAC
27433639 CAAAATACCC
Statistics
Matches: 251, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
54 193 0.77
56 2 0.01
58 5 0.02
62 5 0.02
64 2 0.01
65 1 0.00
66 43 0.17
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (54 bp):
TAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
Found at i:27433404 original size:81 final size:81
Alignment explanation
Indices: 27433308--27433640 Score: 387
Period size: 81 Copynumber: 4.0 Consensus size: 81
27433298 ATTACTAAAG
* ** *
27433308 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
27433373 TATAAAATTACCATTT
66 TATAAAATTACCATTT
* *
27433389 TACCCTCGATTTATAGAATTACCTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATT
1 TACCCTC--------G-ATT---TACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATT
* *
27433454 TTACCCTCGATTTATAGAATTACTATTT
54 TTACCCTCGATTTATAAAATTACCATTT
* * *
27433482 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
*
27433547 TATAAAATTACCGTTT
66 TATAAAATTACCATTT
* * *** *
27433563 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
*
27433628 TACAAAATTACCA
66 TATAAAATTACCA
27433641 AAATACCCTC
Statistics
Matches: 215, Mismatches: 25, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
81 138 0.64
84 3 0.01
85 1 0.00
89 1 0.00
90 3 0.01
93 69 0.32
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
TATAAAATTACCATTT
Found at i:27433445 original size:27 final size:27
Alignment explanation
Indices: 27433415--27433611 Score: 304
Period size: 27 Copynumber: 7.3 Consensus size: 27
27433405 AATTACCTAC
*
27433415 AGAATTACCATTTTACCCTCAATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
27433442 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
* *
27433469 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
*
27433496 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
*
27433523 AGAATTACCATTTTACCCTCGACTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
* * *
27433550 AAAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
*
27433577 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
*
27433604 AAAATTAC
1 AGAATTAC
27433612 TAAAATACCC
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAT
Found at i:27433620 original size:27 final size:27
Alignment explanation
Indices: 27433428--27433865 Score: 303
Period size: 27 Copynumber: 16.2 Consensus size: 27
27433418 ATTACCATTT
* * ***
27433428 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
27433455 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ****
27433482 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
27433509 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ****
27433536 TACCCTCGACTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
27433563 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* *
27433590 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
27433617 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
27433644 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * *
27433671 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
*
27433698 TACCCT-TAGTTTATAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
27433725 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
27433752 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
27433779 TACCC-CTAGTTTGTAAAAGTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * *
27433806 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
27433833 TACCC-CTGATTTGTGAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
27433860 TACCCT
1 TACCCT
27433866 TGTAGGGTAG
Statistics
Matches: 343, Mismatches: 56, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
26 3 0.01
27 339 0.99
28 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:27433887 original size:27 final size:27
Alignment explanation
Indices: 27433857--27433909 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
27433847 GAAATTACTA
*
27433857 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
*
27433884 AAATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAAATACC
27433910 ATTTTGCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCG
Found at i:27433894 original size:54 final size:54
Alignment explanation
Indices: 27433590--27433867 Score: 362
Period size: 54 Copynumber: 5.1 Consensus size: 54
27433580 ATTACCATTT
* * * * **
27433590 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
* * * * * *
27433644 TACCC-TCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
* * *
27433698 TACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
*
27433752 TACCCTTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAAGTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAA
* *
27433806 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
27433860 TACCCTTG
1 TACCCTTG
27433868 TAGGGTAGAA
Statistics
Matches: 197, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.01
54 190 0.96
55 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
Found at i:27433907 original size:81 final size:80
Alignment explanation
Indices: 27433604--27433910 Score: 261
Period size: 81 Copynumber: 3.8 Consensus size: 80
27433594 CTCGATTTAC
* * **
27433604 AAAATTACTAAAATACCCTTG-A-TTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTAC
1 AAAATTACTAAAATACCCTTGTAGTGT--AAAAGTACCAAAATACCCCT-G-TGGGTAAAATTAC
27433666 CAAAATACCCCTGGTTTGT
62 CAAAATACCCCTGGTTTGT
* * * **
27433685 AAAATTACTAAAATACCCTTAGT-TTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
1 AAAATTACTAAAATACCCTT-GTAGTGTAAAAGTACCAAAATACCCCT-GTGGGTAAAATTACCA
* **
27433749 AAATACCCTTGGTTTAC
64 AAATACCCCTGGTTTGT
* * * *
27433766 AAAATTACCAAAATACCCCTAGT-TTGTAAAAGTACCAAAATA-CCCT-TGGTTTACAAAATTAC
1 AAAATTACTAAAATA-CCCTTGTAGTGTAAAAGTACCAAAATACCCCTGTGG-GT--AAAATTAC
*
27433828 CAAAATACCCCTGATTTGT
62 CAAAATACCCCTGGTTTGT
* * * *
27433847 GAAATTACTAAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCA
1 AAAATTACTAAAATACCCTTGTAGTGTA-AAAGTACCAAAATACCCCTGT-GGGTAAAATTACCA
27433911 TTTTGCCCCT
Statistics
Matches: 187, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 10 0.05
81 152 0.81
82 17 0.09
83 4 0.02
84 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGTAGTGTAAAAGTACCAAAATACCCCTGTGGGTAAAATTACCAAA
ATACCCCTGGTTTGT
Found at i:27434150 original size:25 final size:25
Alignment explanation
Indices: 27434114--27434183 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
27434104 AGGAAGTGCT
* **
27434114 AAAAGGGTTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCA
27434139 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
27434164 AAAAGGGCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
27434184 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:27434196 original size:24 final size:24
Alignment explanation
Indices: 27434113--27434196 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
27434103 GAGGAAGTGC
27434113 TAAAAGGG-TTTTGCCCCAGTTTACT
1 TAAAAGGGCTTTT-CCCCAGTTTA-T
* * *
27434138 GAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTTCCCCAGTTTA-T
*
27434163 AAAAAGGGCTTTTCCCCAG-TTAT
1 TAAAAGGGCTTTTCCCCAGTTTAT
27434186 TAAAAGAGGCT
1 TAAAAG-GGCT
27434197 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 35 0.70
26 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTTTCCCCAGTTTAT
Found at i:27434207 original size:50 final size:50
Alignment explanation
Indices: 27434114--27434208 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
27434104 AGGAAGTGCT
**
27434114 AAAAGGGTTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGTTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTACCA
*
27434164 AAAAGGGCTTTT-CCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGG-TTTTGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
27434209 ATATGATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
48 6 0.15
49 10 0.26
50 19 0.49
51 4 0.10
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (50 bp):
AAAAGGGTTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:27436085 original size:43 final size:43
Alignment explanation
Indices: 27435938--27436086 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
27435928 ATATCGTACA
** *
27435938 ATGCCAACGTCCCAGATGTGGTCTTACAT-GAAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
* * *
27435981 ATGCC-ACTGTCTCAGACAGGGTCTTACACG-AATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAAATCACATA-T-CG
* * * *
27436024 ATGTCGATGTCCCAGACATGGTCTTACTCGAAATAACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
27436067 ATGCCAACGTCCCAGACATG
1 ATGCCAACGTCCCAGACATG
27436087 ATTTTACACA
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
42 10 0.12
43 65 0.77
44 8 0.10
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
Found at i:27439435 original size:16 final size:16
Alignment explanation
Indices: 27439414--27439707 Score: 79
Period size: 16 Copynumber: 19.3 Consensus size: 16
27439404 AATCAACCCC
27439414 TATATATTTATTATTA
1 TATATATTTATTATTA
*
27439430 TATATATTTTTTA-TA
1 TATATATTTATTATTA
* *
27439445 T-TGTTATTTGTT-TTA
1 TAT-ATATTTATTATTA
*
27439460 T-T-T-TTAACCTTATT-
1 TATATATTTA--TTATTA
*
27439474 TTTATA-TTATATATTA
1 TATATATTTAT-TATTA
*
27439490 TATA-ATTATTTTATTA
1 TATATATT-TATTATTA
27439506 TATATTATTTA-TATTA
1 TATA-TATTTATTATTA
*
27439522 T-TATTATTTTTTA-TA
1 TATA-TATTTATTATTA
*
27439537 TAT-TATTT-TTCA-CA
1 TATATATTTATT-ATTA
*
27439551 AAT-TA-TTATTATT-
1 TATATATTTATTATTA
*
27439564 T-TACA-TTATTATT-
1 TATATATTTATTATTA
27439577 TATATA-TTATTATTA
1 TATATATTTATTATTA
27439592 TATTATATTT-TTATTA
1 TA-TATATTTATTATTA
*
27439608 TAT-TATATA-TATATA
1 TATATATTTATTAT-TA
* * *
27439623 TATATATATACTCTTA
1 TATATATTTATTATTA
* *
27439639 TAT-TATATATTATAA
1 TATATATTTATTATTA
*
27439654 T-TATTTTATATTATTA
1 TATATATT-TATTATTA
* *
27439670 TGTCATTTTTA-TATTA
1 TAT-ATATTTATTATTA
*
27439686 TTATACATTT-TTATCTA
1 -TATATATTTATTAT-TA
27439703 TATAT
1 TATAT
27439708 TATTATCATT
Statistics
Matches: 215, Mismatches: 28, Indels: 70
0.69 0.09 0.22
Matches are distributed among these distances:
12 3 0.01
13 16 0.07
14 37 0.17
15 53 0.25
16 84 0.39
17 14 0.07
18 8 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (16 bp):
TATATATTTATTATTA
Found at i:27439514 original size:3 final size:3
Alignment explanation
Indices: 27439469--27439718 Score: 98
Period size: 3 Copynumber: 82.0 Consensus size: 3
27439459 ATTTTTAACC
* *
27439469 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
27439513 TT- TATA TTA TTA TTA TT- TT- TTA TATA TTA TTT TTCA CAAA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
* *
27439559 TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TTT
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
27439602 TTA TTA -TA TTA TATA TATA TATA TATA TATA CTC TTA -TA TTA TATA
1 TTA TTA TTA TTA T-TA T-TA T-TA T-TA T-TA TTA TTA TTA TTA T-TA
* * *
27439648 TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA -TA TTA TTA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA T-TA
* *
27439693 TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA T-TA T-TA TTA TTA TTA TTA
27439719 AAGGTTTTAA
Statistics
Matches: 190, Mismatches: 29, Indels: 56
0.69 0.11 0.20
Matches are distributed among these distances:
2 28 0.15
3 112 0.59
4 48 0.25
5 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Done.