Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 170 of 433
Found at i:53001053 original size:24 final size:24
Alignment explanation
Indices: 53001021--53001068 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
53001011 TAAACGGAGT
53001021 AAGCTATATAGCTTAGTAAGCTCA
1 AAGCTATATAGCTTAGTAAGCTCA
53001045 AAGCTATATAGCTTAGTAAGCTCA
1 AAGCTATATAGCTTAGTAAGCTCA
53001069 TATGCAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
AAGCTATATAGCTTAGTAAGCTCA
Found at i:53002455 original size:47 final size:47
Alignment explanation
Indices: 53002384--53002511 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 47
53002374 GTTATTGTGG
53002384 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGA-GACGA-GT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATT-ACGA-GATGT
* *
53002431 GCTAGTCTAAGACATGTCTAGGACAT-GCATCGG--TTACGAGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTACGAGATGT
53002475 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
53002512 CCTGACCCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
43 4 0.06
44 15 0.21
45 13 0.19
46 14 0.20
47 24 0.34
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTACGAGATGT
Found at i:53003512 original size:28 final size:28
Alignment explanation
Indices: 53003472--53003535 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
53003462 CACACGAGCT
* *
53003472 AGGACACGGGCGTGTCATGTCCATGTGA
1 AGGACACGAGCGTGTCATGGCCATGTGA
*
53003500 AGGACACGAGCGTGTCATGGCCGTGTGA
1 AGGACACGAGCGTGTCATGGCCATGTGA
53003528 AGGACACG
1 AGGACACG
53003536 GGCATGTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.38, T:0.17
Consensus pattern (28 bp):
AGGACACGAGCGTGTCATGGCCATGTGA
Found at i:53006879 original size:20 final size:20
Alignment explanation
Indices: 53006851--53006891 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53006841 ATATATCCTG
* *
53006851 ATTTTATTTTATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
53006871 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
53006891 A
1 A
53006892 ATTGGTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:53010160 original size:49 final size:49
Alignment explanation
Indices: 53010104--53010275 Score: 272
Period size: 49 Copynumber: 3.5 Consensus size: 49
53010094 TACATATATG
* *
53010104 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
* *
53010153 TGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
* * *
53010202 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
*
53010251 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
53010276 AAAATATATG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 113 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATGTATA
Found at i:53010428 original size:37 final size:37
Alignment explanation
Indices: 53010371--53010454 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
53010361 GGAATATGTT
*
53010371 CCGGGTGAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
53010407 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
53010444 CCGGGTAAGAC
1 CCGGGTAAGAC
53010455 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 9 0.20
37 36 0.80
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:53017140 original size:16 final size:16
Alignment explanation
Indices: 53017119--53017151 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53017109 AGAACTTAAA
53017119 AACGGGGCTAGAACAG
1 AACGGGGCTAGAACAG
53017135 AACGGGGCTAGAACAG
1 AACGGGGCTAGAACAG
53017151 A
1 A
53017152 CTTACTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.36, T:0.06
Consensus pattern (16 bp):
AACGGGGCTAGAACAG
Found at i:53019603 original size:20 final size:17
Alignment explanation
Indices: 53019566--53019608 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
53019556 CTATAGCAAC
53019566 TCACAATTTAAATTATT
1 TCACAATTTAAATTATT
53019583 TCACACATTTACAACTTATT
1 TCACA-ATTTA-AA-TTATT
*
53019603 TTACAA
1 TCACAA
53019609 CTTTTCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 3 0.14
20 9 0.41
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (17 bp):
TCACAATTTAAATTATT
Found at i:53025308 original size:18 final size:18
Alignment explanation
Indices: 53025285--53025324 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
53025275 CACTATAATC
53025285 CTTTTCTCTAATTTTATT
1 CTTTTCTCTAATTTTATT
*
53025303 CTTTTCTTTAATTTTATT
1 CTTTTCTCTAATTTTATT
53025321 CTTT
1 CTTT
53025325 CATCCATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (18 bp):
CTTTTCTCTAATTTTATT
Found at i:53033535 original size:22 final size:22
Alignment explanation
Indices: 53033510--53033554 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
53033500 TTTAATAAAA
53033510 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
53033532 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
53033554 A
1 A
53033555 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:53038131 original size:22 final size:22
Alignment explanation
Indices: 53038105--53038149 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
53038095 TTTTAATAAA
53038105 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
53038127 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
53038149 A
1 A
53038150 CAATGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:53049927 original size:21 final size:21
Alignment explanation
Indices: 53049897--53049939 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
53049887 ATAAATAATA
53049897 TAATAATTTT-ATCTTTTAACT
1 TAATAATTTTGA-CTTTTAACT
*
53049918 TAATAGTTTTGACTTTTAACT
1 TAATAATTTTGACTTTTAACT
53049939 T
1 T
53049940 TAAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (21 bp):
TAATAATTTTGACTTTTAACT
Found at i:53051242 original size:11 final size:11
Alignment explanation
Indices: 53051222--53051251 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
53051212 CAACCATTCC
53051222 ACAT-TTTAAA
1 ACATATTTAAA
53051232 ACATATTTAAA
1 ACATATTTAAA
53051243 ACATATTTA
1 ACATATTTA
53051252 TCAAGCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (11 bp):
ACATATTTAAA
Found at i:53054755 original size:46 final size:46
Alignment explanation
Indices: 53054698--53054839 Score: 194
Period size: 46 Copynumber: 3.1 Consensus size: 46
53054688 CAATATATAT
* * * *
53054698 ATATACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
* * *
53054744 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
* * *
53054790 ATATCTATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCAC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
53054836 ATAT
1 ATAT
53054840 ATACATGTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:53054874 original size:47 final size:47
Alignment explanation
Indices: 53054813--53055101 Score: 398
Period size: 47 Copynumber: 6.1 Consensus size: 47
53054803 ACACATTTCT
* *
53054813 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
53054860 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
53054907 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
53054954 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
53055001 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTGACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
53055052 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
53055099 CAT
1 CAT
53055102 GAAATCCTAA
Statistics
Matches: 221, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 178 0.81
49 5 0.02
51 38 0.17
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:53054993 original size:141 final size:143
Alignment explanation
Indices: 53054813--53055101 Score: 402
Period size: 145 Copynumber: 2.0 Consensus size: 143
53054803 ACACATTTCT
* *
53054813 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * **
53054878 AT-CTC-ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
66 ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACA
53054941 TTCACATTCATCA
131 TTCACATTCATCA
* * *
53054954 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
53055019 ATCACACATATATATACAGGTTGACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACA
66 AT-ACACA-ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
53055084 CATTCACATTCATCA
129 CATTCACATTCATCA
53055099 CAT
1 CAT
53055102 GAAATCCTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
141 62 0.48
143 2 0.02
145 64 0.50
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (143 bp):
CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACA
TTCACATTCATCA
Found at i:53058726 original size:37 final size:39
Alignment explanation
Indices: 53058679--53058766 Score: 103
Period size: 37 Copynumber: 2.3 Consensus size: 39
53058669 AAAAAATGAT
*
53058679 ATTATTTTAATAGT-TTAATATTAAATTAA-ATT-AAAT-
1 ATTATCTTAATAGTATT-ATATTAAATTAATATTAAAATG
* *
53058715 ACTTATCTTAATAGTATTTTATTAATTTAATATTAAAATG
1 A-TTATCTTAATAGTATTATATTAAATTAATATTAAAATG
53058755 ATTATCTTAATA
1 ATTATCTTAATA
53058767 TTAAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 22 0.50
38 5 0.11
39 15 0.34
40 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (39 bp):
ATTATCTTAATAGTATTATATTAAATTAATATTAAAATG
Found at i:53062683 original size:16 final size:16
Alignment explanation
Indices: 53062662--53062752 Score: 69
Period size: 16 Copynumber: 5.8 Consensus size: 16
53062652 AATAGGGCCC
53062662 GAGCCCGAGAAAATTT
1 GAGCCCGAGAAAATTT
53062678 GAGCCCGA-AAAAGTTT
1 GAGCCCGAGAAAA-TTT
* *** **
53062694 AAGTTTGAGAAAGCTT
1 GAGCCCGAGAAAATTT
* *
53062710 GAGCTCGA-AAAATTC
1 GAGCCCGAGAAAATTT
*
53062725 GAGCCTGAGAAAATTT
1 GAGCCCGAGAAAATTT
*
53062741 GAACCCGAGAAA
1 GAGCCCGAGAAA
53062753 GTCCTAGTTC
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
15 14 0.25
16 38 0.69
17 3 0.05
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (16 bp):
GAGCCCGAGAAAATTT
Found at i:53064906 original size:27 final size:27
Alignment explanation
Indices: 53064864--53064940 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
53064854 AATTTAAGAT
* *
53064864 CAAGCCATGGTGATCAACAACCTTTGC
1 CAAGCCATGGTGATCAACAACCTGTAC
* * *
53064891 CGATCCATGGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
53064918 CAAGCCATGGTGATCAACAACCT
1 CAAGCCATGGTGATCAACAACCT
53064941 ATGTCAAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:53064952 original size:27 final size:27
Alignment explanation
Indices: 53064864--53064952 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
53064854 AATTTAAGAT
*
53064864 CAAGCCATGGTGATCAACAACCTTTGC
1 CAAGCCATGGTGATCAACAACCTATGC
* * * * *
53064891 CGATCCATGGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTATGC
*
53064918 CAAGCCATGGTGATCAACAACCTATGT
1 CAAGCCATGGTGATCAACAACCTATGC
*
53064945 CAAACCAT
1 CAAGCCAT
53064953 ATTACCAACT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTATGC
Found at i:53065073 original size:171 final size:171
Alignment explanation
Indices: 53064781--53065122 Score: 612
Period size: 171 Copynumber: 2.0 Consensus size: 171
53064771 TGTGGCTTAT
*
53064781 TATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGGA
1 TATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGGA
*
53064846 AGAGACCTAATTTAAGATCAAGCCATGGTGATCAACAACCTTTGCCGATCCATGGTGATCAACAA
66 AGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACAA
53064911 TCTGTACCAAGCCATGGTGATCAACAACCTATGTCAAACCA
131 TCTGTACCAAGCCATGGTGATCAACAACCTATGTCAAACCA
*
53064952 TATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACTACCTAGGAGGA
1 TATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGGA
** * *
53065017 AGAGACCTCGTTTAAGATCAAGCCATGGTCATCAACAACTTTTGCCGATTCATGGTGATCAACAA
66 AGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACAA
*
53065082 TCTGTACTAAGCCATGGTGATCAACAACCTATGTCAAACCA
131 TCTGTACCAAGCCATGGTGATCAACAACCTATGTCAAACCA
53065123 CAGTGATCAA
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 163 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (171 bp):
TATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGGA
AGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACAA
TCTGTACCAAGCCATGGTGATCAACAACCTATGTCAAACCA
Found at i:53065097 original size:27 final size:26
Alignment explanation
Indices: 53065067--53065162 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 26
53065057 TTTGCCGATT
53065067 CATGGTGATCAACAATCTGTACTAAGC
1 CATGGTGATCAACAATCTGTAC-AAGC
* *
53065094 CATGGTGATCAACAACCTATGT-CAAAC
1 CATGGTGATCAACAA--TCTGTACAAGC
**
53065121 CACAGTGATCAACAATCTGTACCAAGC
1 CATGGTGATCAACAATCTGTA-CAAGC
53065148 CATGGTGATCAACAA
1 CATGGTGATCAACAA
53065163 CCTGGACCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.07
27 48 0.84
28 1 0.02
29 4 0.07
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (26 bp):
CATGGTGATCAACAATCTGTACAAGC
Found at i:53080704 original size:43 final size:41
Alignment explanation
Indices: 53080649--53080804 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 41
53080639 ATATTGTACA
*
53080649 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AATCACAT-TCG
* * * *
53080692 ATGCC-ACTGTCCTATATAG-GGTCTTACACGAATCACAATTACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGAATCAC-ATT-CG
* * * * *
53080735 ATGCCGATGTCCCAGACATGGTCTTAC-TCAAAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAT--GAATCACAT-TCG
*
53080778 ATGCCAACATCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
53080805 GCGAGAACAC
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 9 0.10
43 72 0.81
44 8 0.09
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAATCACATTCG
Found at i:53086633 original size:10 final size:9
Alignment explanation
Indices: 53086617--53086647 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
53086607 CTTTGTGAAA
53086617 AAATAAAAT
1 AAATAAAAT
53086626 ATAATAAAAT
1 A-AATAAAAT
53086636 AAATAAAAT
1 AAATAAAAT
53086645 AAA
1 AAA
53086648 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATAAAAT
Found at i:53092315 original size:40 final size:40
Alignment explanation
Indices: 53092260--53092483 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
53092250 TATTCGGATG
*
53092260 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
53092300 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
53092340 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * * *
53092383 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *** *
53092423 ATATCTGGGCTAAGAATCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
53092463 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
53092484 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 12 0.08
40 109 0.70
43 34 0.22
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53092417 original size:83 final size:83
Alignment explanation
Indices: 53092260--53092458 Score: 305
Period size: 83 Copynumber: 2.4 Consensus size: 83
53092250 TATTCGGATG
*
53092260 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTCCTATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
*
53092322 GCATTTGTGCTAGTGACT
66 GCATTTATGCTAGTGACT
* *
53092340 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
53092405 GCATTTATGCTAGTGACT
66 GCATTTATGCTAGTGACT
* ***
53092423 ATATCTGGGCTAAGAATCGAAGGCATTTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53092459 TGCTATATCC
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
80 31 0.29
82 1 0.01
83 75 0.70
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
GCATTTATGCTAGTGACT
Found at i:53094429 original size:9 final size:9
Alignment explanation
Indices: 53094414--53094452 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
53094404 ATTTGTGAAA
53094414 AAAT-AAAT
1 AAATAAAAT
53094422 ATAATAAAAT
1 A-AATAAAAT
53094432 AAATAAAAT
1 AAATAAAAT
53094441 AAATAAAAT
1 AAATAAAAT
53094450 AAA
1 AAA
53094453 GAACACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 1 0.03
9 23 0.79
10 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATAAAAT
Found at i:53094432 original size:5 final size:5
Alignment explanation
Indices: 53094413--53094452 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
53094403 AATTTGTGAA
*
53094413 AAAAT -AAAT ATAAT AAAAT -AAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
53094453 GAACACACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
4 12 0.40
5 18 0.60
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:53094452 original size:14 final size:14
Alignment explanation
Indices: 53094413--53094452 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
53094403 AATTTGTGAA
*
53094413 AAAATAAATATAAT
1 AAAATAAATAAAAT
53094427 AAAATAAATAAAAT
1 AAAATAAATAAAAT
53094441 -AAATAAAATAAA
1 AAAAT-AAATAAA
53094453 GAACACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:53096146 original size:15 final size:16
Alignment explanation
Indices: 53096120--53096149 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53096110 AATAAAAGAA
53096120 AGAAAGGAAACAAAAG
1 AGAAAGGAAACAAAAG
53096136 AGAAA-GAAACAAAA
1 AGAAAGGAAACAAAA
53096150 TAGCAAACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAGGAAACAAAAG
Found at i:53097339 original size:6 final size:6
Alignment explanation
Indices: 53097319--53097362 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
53097309 GTACTTTGTG
*
53097319 TACTG- TACTGC TACTGT TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
53097363 CCTTATTGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:53097519 original size:17 final size:17
Alignment explanation
Indices: 53097499--53097570 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
53097489 AATTGACCGC
53097499 TACTGAATAATCGACT-T
1 TACTGAATAAT-GACTGT
53097516 TACTGAATCAATGACTGT
1 TACTGAAT-AATGACTGT
* *
53097534 TACTGAATAACTGATTAT
1 TACTGAATAA-TGACTGT
*
53097552 TACTG-ATGACTGACTGT
1 TACTGAAT-AATGACTGT
53097569 TA
1 TA
53097571 TTGAGCAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 23 0.50
18 23 0.50
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (17 bp):
TACTGAATAATGACTGT
Found at i:53097554 original size:18 final size:18
Alignment explanation
Indices: 53097499--53097557 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
53097489 AATTGACCGC
53097499 TACTGAAT-AATCGACT-T
1 TACTGAATCAAT-GACTAT
*
53097516 TACTGAATCAATGACTGT
1 TACTGAATCAATGACTAT
*
53097534 TACTGAAT-AACTGATTAT
1 TACTGAATCAA-TGACTAT
53097552 TACTGA
1 TACTGA
53097558 TGACTGACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (18 bp):
TACTGAATCAATGACTAT
Found at i:53101062 original size:27 final size:27
Alignment explanation
Indices: 53101024--53101078 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
53101014 AGATGGCTCA
53101024 ATTTTAGTTGAGATAAAAGTTAAACAG
1 ATTTTAGTTGAGATAAAAGTTAAACAG
53101051 ATTTTAGTTGAGATAAAAGTTAAACAG
1 ATTTTAGTTGAGATAAAAGTTAAACAG
53101078 A
1 A
53101079 CTTCTCTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (27 bp):
ATTTTAGTTGAGATAAAAGTTAAACAG
Found at i:53102938 original size:15 final size:16
Alignment explanation
Indices: 53102912--53102941 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53102902 AATAAAAGAA
53102912 AGAAAGGAAACAAAAG
1 AGAAAGGAAACAAAAG
53102928 AGAAA-GAAACAAAA
1 AGAAAGGAAACAAAA
53102942 TAGCAAACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAGGAAACAAAAG
Found at i:53104105 original size:51 final size:52
Alignment explanation
Indices: 53104026--53104143 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 52
53104016 AAGTGTCGCC
** *
53104026 TTATTGTTACTGTTCCGAATTTGCTCCGAAGAGGTACTC-CGTACCTTACTG
1 TTATTGTTACTGTTCCGAATTCACTCCGAAGAGGTACTCGCGTACCGTACTG
* * * * *
53104077 TTATTGTTACTGTTTCGGATTCATTCCGATGAGGTACTCTGTGTACCGTACTG
1 TTATTGTTACTGTTCCGAATTCACTCCGAAGAGGTACTC-GCGTACCGTACTG
* *
53104130 CTACTGTTACTGTT
1 TTATTGTTACTGTT
53104144 ACTGTTACTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 33 0.60
53 22 0.40
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (52 bp):
TTATTGTTACTGTTCCGAATTCACTCCGAAGAGGTACTCGCGTACCGTACTG
Found at i:53104140 original size:6 final size:6
Alignment explanation
Indices: 53104125--53104177 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
53104115 CTGTGTACCG
* * *
53104125 TACTGC TACTGT TACTGT TACTGT TACTGT TACTGT TAATGT TATTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT
53104173 TACTG
1 TACTG
53104178 ACGCGGTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:53104345 original size:18 final size:17
Alignment explanation
Indices: 53104306--53104382 Score: 77
Period size: 17 Copynumber: 4.4 Consensus size: 17
53104296 AATTGTCCGC
53104306 TACTGAATAATCGACT-T
1 TACTGAATAAT-GACTAT
*
53104323 TACTGAATCAATGACTGT
1 TACTGAAT-AATGACTAT
*
53104341 TACTGAATAATTGATTAT
1 TACTGAATAA-TGACTAT
*
53104359 TACTG-ATGACTGACTAT
1 TACTGAAT-AATGACTAT
53104376 TACTGAA
1 TACTGAA
53104383 CAATAAAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 27 0.53
18 24 0.47
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (17 bp):
TACTGAATAATGACTAT
Found at i:53104373 original size:35 final size:35
Alignment explanation
Indices: 53104306--53104382 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
53104296 AATTGTCCGC
*
53104306 TACTGAATAATCGACTTTACTGAATCAATGACTGT
1 TACTGAATAATCGACTTTACTGAATCAATGACTAT
* * * *
53104341 TACTGAATAATTGATTATTACTG-ATGACTGACTAT
1 TACTGAATAATCGACT-TTACTGAATCAATGACTAT
53104376 TACTGAA
1 TACTGAA
53104383 CAATAAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (35 bp):
TACTGAATAATCGACTTTACTGAATCAATGACTAT
Found at i:53107069 original size:31 final size:31
Alignment explanation
Indices: 53106991--53107075 Score: 129
Period size: 30 Copynumber: 2.8 Consensus size: 31
53106981 TCAATCTCAG
53106991 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
53107021 CGTATCACT-AGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
53107051 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
53107076 TGTAACAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.66
31 16 0.34
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:53107338 original size:26 final size:25
Alignment explanation
Indices: 53107293--53107363 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
53107283 CTCTTTTAAT
* *
53107293 AACTGGGGCAAAGACCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
53107318 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
53107344 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
53107364 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:53107429 original size:18 final size:19
Alignment explanation
Indices: 53107406--53107446 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
53107396 GCATAAATGA
53107406 ATAC-ATCATGTGCAAATC
1 ATACAATCATGTGCAAATC
*
53107424 ATACATATCATGTGCATATC
1 ATACA-ATCATGTGCAAATC
53107444 ATA
1 ATA
53107447 TCAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
20 16 0.80
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (19 bp):
ATACAATCATGTGCAAATC
Found at i:53114108 original size:51 final size:43
Alignment explanation
Indices: 53114104--53114217 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
53114094 CGCATCCACC
* * *
53114104 ATGAACTCGAACCTTTCAATGAGCTCGGATGCTTACATCCATA
1 ATGAACTCGGACCTCTCAACGAGCTCGGATGCTTACATCCATA
* * *
53114147 ATGAACTCGGACCTCTCAACGAGCTCGGATGC-CACATATC-TC
1 ATGAACTCGGACCTCTCAACGAGCTCGGATGCTTACAT-CCATA
* * *
53114189 ATGAACCCGGACCACTCAACGAGTTCGGA
1 ATGAACTCGGACCTCTCAACGAGCTCGGA
53114218 CCTCTTAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGAACTCGGACCTCTCAACGAGCTCGGATGCTTACATCCATA
Found at i:53114201 original size:42 final size:43
Alignment explanation
Indices: 53114096--53114217 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
53114086 ACAAGAATCG
* * * * *
53114096 CATCCACCATGAACTCGAACCTTTCAATGAGCTCGGATGCTTA
1 CATCCATCATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
*
53114139 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGC-CA
1 CATCCATCATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
* * * *
53114181 CATATC-TCATGAACCCGGACCACTCAACGAGTTCGGA
1 CAT-CCATCATGAACTCGGACCTCTCAACGAGCTCGGA
53114218 CCTCTTAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
CATCCATCATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
Found at i:53121150 original size:11 final size:11
Alignment explanation
Indices: 53121117--53121150 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
53121107 ATAGAAGGCT
53121117 TAAAAAATAAA
1 TAAAAAATAAA
53121128 TAAAAGAA-AAA
1 TAAAA-AATAAA
53121139 TAAAAAATAAA
1 TAAAAAATAAA
53121150 T
1 T
53121151 GGACTTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:53122545 original size:24 final size:24
Alignment explanation
Indices: 53122518--53122563 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
53122508 AAAGAAACAT
*
53122518 ACTAACAAGAAAAATCAAATAAAA
1 ACTAACAACAAAAATCAAATAAAA
* * *
53122542 ACTAGCAACAAGACTCAAATAA
1 ACTAACAACAAAAATCAAATAA
53122564 TATAATTCAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.13
Consensus pattern (24 bp):
ACTAACAACAAAAATCAAATAAAA
Found at i:53131791 original size:51 final size:51
Alignment explanation
Indices: 53131678--53131783 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
53131668 ATACCACATA
* * *
53131678 ACATGTAA-CACATCCATAATGAACTCGTACCTCTCAACGAGCTCAGATGTT
1 ACATG-AATCACATCCACAATGAACTCGGACCTCTCAACGAGCTCAGATGCT
* *
53131729 ACATGAATCACATCCACCATGAACTTGGACCTCTCAACGAGCTCAGATGCT
1 ACATGAATCACATCCACAATGAACTCGGACCTCTCAACGAGCTCAGATGCT
53131780 ACAT
1 ACAT
53131784 ATCTCACAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 2 0.04
51 47 0.96
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (51 bp):
ACATGAATCACATCCACAATGAACTCGGACCTCTCAACGAGCTCAGATGCT
Found at i:53138635 original size:13 final size:13
Alignment explanation
Indices: 53138607--53138650 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
53138597 TTGTCATGAG
*
53138607 AAATTAATTTAGTT
1 AAATTAA-TTAATT
* *
53138621 AATTTGATTAATT
1 AAATTAATTAATT
53138634 AAATTAATTAATT
1 AAATTAATTAATT
53138647 AAAT
1 AAAT
53138651 AAAACTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:53139001 original size:20 final size:19
Alignment explanation
Indices: 53138971--53139008 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
53138961 AATTAGTGAG
53138971 AATTAATTTTCTAAGAATA
1 AATTAATTTTCTAAGAATA
*
53138990 AATTATATTTTCTAGGAAT
1 AATTA-ATTTTCTAAGAAT
53139009 TACAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (19 bp):
AATTAATTTTCTAAGAATA
Found at i:53139808 original size:21 final size:18
Alignment explanation
Indices: 53139757--53139801 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
53139747 GCTGAAGACG
53139757 GTGGCATCAACGAAGATA
1 GTGGCATCAACGAAGATA
53139775 GTGGCATCAACGAAGATA
1 GTGGCATCAACGAAGATA
53139793 GTGGCATCA
1 GTGGCATCA
53139802 TCAACGACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (18 bp):
GTGGCATCAACGAAGATA
Found at i:53145744 original size:912 final size:912
Alignment explanation
Indices: 53143910--53145572 Score: 2561
Period size: 912 Copynumber: 1.8 Consensus size: 912
53143900 GTTCCACAAC
* * * *
53143910 TCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATATTCATCTACAAATTTTTTCT
1 TCGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACTCATATATTCATCAAAAAATTTTTTCT
**
53143975 AGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATGTTACAGGGATCGA
66 AGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATAATACAGGGATCGA
* *
53144040 CTACACTGACCTTCGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATGCCG
131 CTACACTGACCTTCACGCATTACGAATTGGATATCTCCCTGTACAGGGCTTCAATACTGATGCCG
*
53144105 TTTGTTTCTATAGAAACTAGACTCAAAGAGGGATCTATACATATATGGAATGACTCCTAATTATC
196 TTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATC
* **
53144170 TCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGT
261 TCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTAC
*
53144235 TTCACGAAAACCTAAATATCTCTTAACATACAACTCATATGACCGTTTCGTTTCTTCCATATGAA
326 TTCACGAAAACCTAAATATCTCTTAACATACAACTCATATGACCATTTCGTTTCTTCCATATGAA
*
53144300 AGTAGATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTA
391 AGTAGATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATACCATTCCTACTATTTTTA
* *
53144365 GTGATTTTTCACATCCACATCGCTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATT
456 GTGATTTTTCACATCCACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCAATT
53144430 TCATAGTTTCCATGATTCAATTAGCCCTTTATGCATACATAGCACAAAGTATAATCATGACTAAC
521 TCATAGTTTCCATGATTCAATTAGCCCTTTATGCATACATAGCACAAAGTATAATCATGACTAAC
* * * * *
53144495 CATTCCAATGGCTAATCGTTTCCAAACATTTCCATACCTCTTAGTGATCAACATACAAAACGATT
586 CATTCCAATGGCTAATCGTTTCAAAACAATTCCATACCTCATAATGACCAACATACAAAACGATT
53144560 ATAGTACTATGCTAAAAACGTATATAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAATCC
651 ATAGTACTATGCTAAAAACGTATATAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAATCC
** * ** *
53144625 ATGGGTACATGACCAACAACAAAAAGGGTAGTCCTATACATTGTAACACCCCGTACCCGAGTCCG
716 AAAGGTACATGACCAACAACAAAAAGGGTAGTCCTATACATTGTAACACCCCGAACCAAAATCCG
** * * * **
53144690 TTACCGGAGTCGAACACGAGGTGCACACAGACTTAACTTAATTGTTTTCATAGTCCATAAAAAAA
781 TTACCAAAATCGAACACGAAGTGCACACAGACTTAACTTAATTGATCCCATAGTCCATAAAAAAA
* * * * ** ** ** * * * ** * * *
53144755 AAATTTTCCAGACTAGCTGGTTACTGCGTCACTGTCGCCTCGAAAATCATATCTTGAGTTTTAAT
846 AAATTATCAAAACTAGCAGGCCAAAGCAACACGGTAGCATCGAAAATCATATAGTAAGTCTCAAT
**
53144820 GC
911 AA
53144822 TCGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACTCATA-ATTCCATCAAAAAATTTTTTT
1 TCGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACTCATATATT-CATCAAAAAA-TTTTTT
* * *
53144886 CTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCGC-TAATCCAGGGTT
64 CTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCC-CATAATACAGGGAT
53144950 CGACTACACTGACCTTCACGCATTACGAATTGGATATCTCCCTGTACAGGGCTTCAATACTGATG
128 CGACTACACTGACCTTCACGCATTACGAATTGGATATCTCCCTGTACAGGGCTTCAATACTGATG
* *
53145015 CCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCATGACT-CTAATT
193 CCGTTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGAATGACTCCTAATT
* *
53145079 CTCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTTCTGGCCC
258 ATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCC
* * *
53145144 TACTTCACGAGAACTTTAATATCTCTTAACATACAACTCATATGACCATTTCGTTTCTTCCATAT
323 TACTTCACGAAAACCTAAATATCTCTTAACATACAACTCATATGACCATTTCGTTTCTTCCATAT
*
53145209 GAAAGTAGATTCATCAAGGTTCATTTACATAATTTATTCACTATTTAATACCATT-CTACTATTT
388 GAAAGTAGATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATACCATTCCTACTATTT
*
53145273 TTAGTGATTTTTCACATCCACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGGC-TTACCA
453 TTAGTGATTTTTCACATCCACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCA
* * * * *
53145337 ATTTCAT-GATTTCCATGATTCAATTGGCCCTTTTTGCATACATAGCACAAAGTGTGATCATGAT
518 ATTTCATAG-TTTCCATGATTCAATTAGCCCTTTATGCATACATAGCACAAAGTATAATCATGAC
53145401 TAACCATTCCAATGGCTAATCGTTTCAAAACAATTCCATACCTCATAATGACCAACATAC-AAAC
582 TAACCATTCCAATGGCTAATCGTTTCAAAACAATTCCATACCTCATAATGACCAACATACAAAAC
*
53145465 GATTATAGTACTATGCTAAAAACGTATATAAGCCATTTTCGCATGGCTATCCAAGTTTACACAAA
647 GATTATAGTACTATGCTAAAAACGTATATAAGCCATTTTCGCATGGCTATCCAAATTTACACAAA
* *
53145530 A-CGAAAGGTACATGACCTACAAC-AAAAGGGTAGTCCTATACAT
712 ATCCAAAGGTACATGACCAACAACAAAAAGGGTAGTCCTATACAT
53145573 GCCATTTCAA
Statistics
Matches: 704, Mismatches: 43, Indels: 13
0.93 0.06 0.02
Matches are distributed among these distances:
907 20 0.03
908 18 0.03
909 70 0.10
910 117 0.17
911 68 0.10
912 229 0.33
913 181 0.26
914 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (912 bp):
TCGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACTCATATATTCATCAAAAAATTTTTTCT
AGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATAATACAGGGATCGA
CTACACTGACCTTCACGCATTACGAATTGGATATCTCCCTGTACAGGGCTTCAATACTGATGCCG
TTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATC
TCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTAC
TTCACGAAAACCTAAATATCTCTTAACATACAACTCATATGACCATTTCGTTTCTTCCATATGAA
AGTAGATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATACCATTCCTACTATTTTTA
GTGATTTTTCACATCCACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCAATT
TCATAGTTTCCATGATTCAATTAGCCCTTTATGCATACATAGCACAAAGTATAATCATGACTAAC
CATTCCAATGGCTAATCGTTTCAAAACAATTCCATACCTCATAATGACCAACATACAAAACGATT
ATAGTACTATGCTAAAAACGTATATAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAATCC
AAAGGTACATGACCAACAACAAAAAGGGTAGTCCTATACATTGTAACACCCCGAACCAAAATCCG
TTACCAAAATCGAACACGAAGTGCACACAGACTTAACTTAATTGATCCCATAGTCCATAAAAAAA
AAATTATCAAAACTAGCAGGCCAAAGCAACACGGTAGCATCGAAAATCATATAGTAAGTCTCAAT
AA
Found at i:53146136 original size:39 final size:40
Alignment explanation
Indices: 53146031--53146196 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
53146021 CGGGATTTAA
* * * *
53146031 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* ** * * *
53146071 CGGATTTGGTAACTTGCACAATTGCCTTC-GGTCTTAGCC
1 CGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
53146110 CGGATATAA-CAACTCGTACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
53146150 CGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
53146190 CGGATAT
1 CGGATAT
53146197 CATTCAAATG
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 29 0.28
40 72 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:53148511 original size:39 final size:40
Alignment explanation
Indices: 53148468--53148691 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
53148458 GCTACTCGTT
* * *
53148468 CAAATACCTTCGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATT-TAGTAACTCGCA
* * *
53148507 CAAATGCCTTGGGA-CTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
53148546 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
**
53148586 CAAATGCCTTCGGATCTTAGTTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
53148626 CAAATGCCTTCGGATCTTAGTCCGAATTTAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
53148667 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
53148692 CATCATTCGA
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 43 0.26
40 110 0.67
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:53150668 original size:46 final size:46
Alignment explanation
Indices: 53150505--53150673 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
53150495 AACCCGCCCC
* * * * *
53150505 TAAGTGAACTCGAACTCAACTCAAGGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
53150551 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--G-ACA-TTCGCATCCA
* * *
53150599 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53150644 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
53150674 TGAATGCTCA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 53 0.53
47 26 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53150696 original size:46 final size:46
Alignment explanation
Indices: 53150553--53150696 Score: 109
Period size: 46 Copynumber: 3.1 Consensus size: 46
53150543 CGCATCCATA
* *
53150553 AGTGAACTCGGACTCAACTCAACGAG-TTCAGATGCCCAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTTGACATGCCCA---ACCATCT
* * * * * * *
53150600 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTT-TGACATGCCCAACCATCT
*
53150646 AGTGAACTCGGACTCAACTCAACGAGTTTGA-ATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTTGACATGCCCAACCAT-CT
53150692 AGTGA
1 AGTGA
53150697 CATGTCACTT
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
44 9 0.12
45 3 0.04
46 29 0.39
47 25 0.34
48 2 0.03
49 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTTGACATGCCCAACCATCT
Found at i:53151992 original size:26 final size:26
Alignment explanation
Indices: 53151963--53152021 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
53151953 ATATTACACT
*
53151963 TTGCT-CCATTATTGTTACTCGTAGCA
1 TTGCTGCCA-TATTATTACTCGTAGCA
* * *
53151989 TTGCTGCGATATTATTACTGGTAGCT
1 TTGCTGCCATATTATTACTCGTAGCA
53152015 TTGCTGC
1 TTGCTGC
53152022 GATTTTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
TTGCTGCCATATTATTACTCGTAGCA
Found at i:53152022 original size:26 final size:26
Alignment explanation
Indices: 53151972--53152024 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
53151962 TTTGCTCCAT
*
53151972 TATTGTTACTCGTAGCATTGCTGCGA
1 TATTATTACTCGTAGCATTGCTGCGA
* *
53151998 TATTATTACTGGTAGCTTTGCTGCGA
1 TATTATTACTCGTAGCATTGCTGCGA
53152024 T
1 T
53152025 TTTGGTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (26 bp):
TATTATTACTCGTAGCATTGCTGCGA
Found at i:53154113 original size:40 final size:40
Alignment explanation
Indices: 53154058--53154267 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53154048 AACATTGGAA
53154058 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53154098 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53154138 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53154178 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53154217 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53154258 CTATATCCGG
1 ATATATCCGG
53154268 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53162173 original size:40 final size:40
Alignment explanation
Indices: 53162118--53162367 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
53162108 AACATTGGAA
53162118 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53162158 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53162198 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53162238 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53162278 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53162317 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53162358 CTATATCCGG
1 ATATATCCGG
53162368 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53165812 original size:68 final size:66
Alignment explanation
Indices: 53165740--53165911 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
53165730 CATCATGTGT
* * * *
53165740 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
53165803 TGTAG
62 TGTAG
** * *
53165808 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
53165873 AG
65 AG
* * * *
53165875 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
53165912 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:53165845 original size:64 final size:64
Alignment explanation
Indices: 53165764--53165947 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
53165754 AGACATTATG
* * *
53165764 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
53165828 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53165893 AA
63 AA
* * *
53165895 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
53165948 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53172654 original size:6 final size:6
Alignment explanation
Indices: 53172638--53172668 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
53172628 CAAAAATAAA
53172638 TAAAA- TAAAAT TAAAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
53172669 TTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:53172682 original size:18 final size:16
Alignment explanation
Indices: 53172635--53172684 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
53172625 ATTCAAAAAT
53172635 AAATAAAATAAAATTA
1 AAATAAAATAAAATTA
53172651 AAATTAAAATTAAAATTA
1 AAA-TAAAA-TAAAATTA
*
53172669 TTAATAATAATAAAAT
1 -AAATAA-AATAAAAT
53172685 AAATAGACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 3 0.10
17 5 0.17
18 17 0.59
19 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAAAATAAAATTA
Found at i:53174440 original size:19 final size:19
Alignment explanation
Indices: 53174412--53174456 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
53174402 AAATAAAGTA
53174412 AAAT-AAAATAAAAAAGAAT
1 AAATGAAAATAAAAAA-AAT
*
53174431 AAA-GAAAATAAAGAAAAT
1 AAATGAAAATAAAAAAAAT
53174449 AAATGAAA
1 AAATGAAA
53174457 GAGGAACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATGAAAATAAAAAAAAT
Found at i:53174442 original size:9 final size:9
Alignment explanation
Indices: 53174401--53174456 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
53174391 GAATTAAACT
53174401 AAAATAAAG
1 AAAATAAAG
53174410 TAAAATAAA-
1 -AAAATAAAG
53174419 ATAAA-AAAG
1 A-AAATAAAG
53174428 --AATAAAG
1 AAAATAAAG
53174435 AAAATAAAG
1 AAAATAAAG
53174444 AAAATAAATG
1 AAAATAAA-G
53174454 AAA
1 AAA
53174457 GAGGAACCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 4 0.10
9 18 0.45
10 12 0.30
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (9 bp):
AAAATAAAG
Found at i:53175059 original size:20 final size:20
Alignment explanation
Indices: 53175017--53175059 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
53175007 CACACGCCTA
*
53175017 TGTAACCTACCACACACTAG
1 TGTAACCTACCACACACCAG
*
53175037 TGTAACCTACCACACACCCG
1 TGTAACCTACCACACACCAG
53175057 TGT
1 TGT
53175060 GGATCGGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.37, G:0.12, T:0.21
Consensus pattern (20 bp):
TGTAACCTACCACACACCAG
Found at i:53189119 original size:39 final size:39
Alignment explanation
Indices: 53189065--53189238 Score: 201
Period size: 40 Copynumber: 4.4 Consensus size: 39
53189055 AAACCAAGTA
* * * *
53189065 CCTTCGGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
53189104 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* *
53189144 GCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGA-TATAGTAACTCGCACAAATG
* *
53189184 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATA-TAGTAACTCGCACAAATG
53189223 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
53189239 CGGTTATCAT
Statistics
Matches: 117, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 47 0.40
40 69 0.59
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:53189142 original size:40 final size:40
Alignment explanation
Indices: 53189098--53189245 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
53189088 GCTACTTGCT
53189098 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
53189138 CAAATGGCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
53189178 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
53189217 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
53189246 CATCCGAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.34
40 62 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:53189198 original size:79 final size:80
Alignment explanation
Indices: 53189098--53189245 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
53189088 GCTACTTGCT
* * *
53189098 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGGCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
53189162 ATTATAGTAACTCGCA
65 ATTATAGTAACTCGCA
* *
53189178 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
53189242 TTAT
66 TTAT
53189246 CATCCGAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 47 0.76
80 15 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
TTATAGTAACTCGCA
Found at i:53195355 original size:37 final size:37
Alignment explanation
Indices: 53195305--53195395 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
53195295 TTATTACGAA
53195305 GTCTTACCCGGACATAATCTCCACACGTAGTCATCAG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCAG
*
53195342 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCAG
*
53195379 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
53195396 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCAG
Found at i:53195515 original size:48 final size:48
Alignment explanation
Indices: 53195435--53195633 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
53195425 TGTTACAACA
*
53195435 TTCACATTAGCCATT-GGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
53195482 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
53195530 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
53195578 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
53195626 TTCACATT
1 TTCACATT
53195634 CATCACATCG
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
47 15 0.10
48 129 0.90
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:53195672 original size:96 final size:96
Alignment explanation
Indices: 53195476--53195766 Score: 285
Period size: 96 Copynumber: 3.0 Consensus size: 96
53195466 CACATCACAC
*
53195476 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATT-AG
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCAT
* * * * * * *
53195540 CCCTTCGG-CTTTA-CCACATATACACATCACAC
66 CACATCGGCCATTAGGC-CTTAT-CACAT-ATAT
*
53195572 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCAT
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCAT
53195637 CACATCGGCCATTAGGCCTTATCACATATAT
66 CACATCGGCCATTAGGCCTTATCACATATAT
* * * * * * *
53195668 ATATACCTTCACATTCATCACA-TCGGCCATTAGGC-CTTATCACATAT-ATAC---TCTTTCAC
1 ATATA-TTTCACATT-AGC-CATTCGG-CTTTA-CCACATAT-ACATATCACACATATATTTCAC
*
53195727 ATTCATCACATTGGCCATTAGGCCTTATCACATATAT
60 ATTCATCACATCGGCCATTAGGCCTTATCACATATAT
53195764 ATA
1 ATA
53195767 CACCTTCACA
Statistics
Matches: 169, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
96 114 0.67
97 20 0.12
98 14 0.08
99 14 0.08
100 7 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (96 bp):
ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATAT
Found at i:53195679 original size:49 final size:49
Alignment explanation
Indices: 53195626--53195810 Score: 320
Period size: 49 Copynumber: 3.8 Consensus size: 49
53195616 ACACATATGT
53195626 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
* *
53195675 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-CT-CT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
* *
53195722 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
53195771 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
53195811 TAGGCCTTAT
Statistics
Matches: 127, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 43 0.34
48 1 0.01
49 83 0.65
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
Found at i:53195772 original size:96 final size:96
Alignment explanation
Indices: 53195625--53195810 Score: 354
Period size: 96 Copynumber: 1.9 Consensus size: 96
53195615 CACACATATG
*
53195625 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
53195690 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
53195721 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
53195786 TCGGCCATTAGGCCTTATCACATAT
66 TCGGCCATTAGGCCTTATCACATAT
53195811 TAGGCCTTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:53195814 original size:17 final size:17
Alignment explanation
Indices: 53195792--53195826 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53195782 CACATCGGCC
53195792 ATTAGGCCTTATCACAT
1 ATTAGGCCTTATCACAT
53195809 ATTAGGCCTTATCACAT
1 ATTAGGCCTTATCACAT
53195826 A
1 A
53195827 AATACTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTAGGCCTTATCACAT
Found at i:53195852 original size:64 final size:66
Alignment explanation
Indices: 53195743--53195874 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 66
53195733 CACATTGGCC
53195743 ATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
53195808 T
66 T
* *
53195809 ATTAGGCCTTATCACATA-A-ATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
53195872 T
66 T
53195873 AT
1 AT
53195875 ATACTCTTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 45 0.70
65 1 0.02
66 18 0.28
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (66 bp):
ATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
T
Found at i:53201527 original size:40 final size:40
Alignment explanation
Indices: 53201483--53201630 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
53201473 GCTACTTGCT
53201483 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
53201523 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* * * *
53201563 CAAATGCCTTCAGG-CTTAGCCCGGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
*
53201602 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGATTAT
53201631 CATCCGAATA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
39 32 0.33
40 64 0.67
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:53201581 original size:79 final size:80
Alignment explanation
Indices: 53201483--53201630 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
53201473 GCTACTTGCT
* * *
53201483 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
53201547 ATTATAGTAACTCACA
65 ATTATAGTAACTCACA
* *
53201563 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
53201627 TTAT
66 TTAT
53201631 CATCCGAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 46 0.74
80 16 0.26
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
TTATAGTAACTCACA
Found at i:53207801 original size:93 final size:93
Alignment explanation
Indices: 53207689--53207860 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53207679 CGCCCATAAG
* *
53207689 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53207754 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
53207782 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53207847 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
53207861 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53207857 original size:46 final size:46
Alignment explanation
Indices: 53207682--53207857 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53207672 TGTAACCCGC
* * *
53207682 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
53207728 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53207778 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53207821 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53207858 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53212060 original size:6 final size:6
Alignment explanation
Indices: 53212042--53212163 Score: 90
Period size: 6 Copynumber: 19.8 Consensus size: 6
53212032 AAGAAACATT
* *
53212042 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
53212091 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
53212142 A-CAGA ATCAAA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAG
53212164 TATTAGGTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
5 6 0.06
6 74 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53212089 original size:31 final size:31
Alignment explanation
Indices: 53212051--53212192 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
53212041 TATCAGAACT
* * * *
53212051 AGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53212082 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53212113 AGAATCAAAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53212144 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53212175 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
53212193 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 91 0.89
32 11 0.11
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:53212131 original size:62 final size:62
Alignment explanation
Indices: 53212026--53212184 Score: 196
Period size: 62 Copynumber: 2.6 Consensus size: 62
53212016 TAACCCATTA
* * * * * * *
53212026 CAGAATAAGAAACATTATCA-G-AACTAGAATCAGAATTAGAATCAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAATCAAAATCAAAATCAGAATCAGGTAACAGAAT
*
53212087 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAGAATCAGGTAACAGAAT
* * *
53212149 CAAAATCAGAATCAGTATTAGGTAACAGAATAAAAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAA
53212185 ATCAGAATGT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 17 0.20
62 65 0.76
63 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAGAATCAGGTAACAGAAT
Found at i:53212392 original size:26 final size:27
Alignment explanation
Indices: 53212329--53212395 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
53212319 GCTCAGTTAT
* *
53212329 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGGCACCAGATA
53212356 CAGATATTGTGGCAGAGGCACCAGA-A
1 CAGATATTGTGGCAGAGGCACCAGATA
*
53212382 CAGATAATGTGGCA
1 CAGATATTGTGGCA
53212396 AAGCCACTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 14 0.38
27 23 0.62
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGGCACCAGATA
Found at i:53212589 original size:22 final size:23
Alignment explanation
Indices: 53212561--53212625 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
53212551 GCAAATACGT
*
53212561 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
53212583 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
53212605 TTGACACAAAGCCATAA-GCAG
1 TTGGCACAAAGCCATAATGCAG
53212626 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:53213110 original size:27 final size:27
Alignment explanation
Indices: 53213070--53213380 Score: 435
Period size: 27 Copynumber: 11.6 Consensus size: 27
53213060 TACCCCACAA
* * *
53213070 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
** *
53213097 GGTATTTTAATAATTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
53213124 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
53213151 GGTATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
53213178 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
53213205 GGTATTTCGGTAATTCTACCTTACATG
1 GGTATTTCGATAATTCTACCCTACAGG
*
53213232 GGTATTTCGATAATTCTACCCTACAGA
1 GGTATTTCGATAATTCTACCCTACAGG
* *
53213259 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
53213286 GGTATTTTGGTAGTTCTACCCTACA-G
1 GGTATTTCGATAATTCTACCCTACAGG
* *
53213312 GGTATTGCGATAATTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
53213339 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
53213366 GGTATTTCGATAATT
1 GGTATTTCGATAATT
53213381 TTGTAAATTG
Statistics
Matches: 251, Mismatches: 32, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.09
27 229 0.91
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:53213395 original size:27 final size:27
Alignment explanation
Indices: 53213365--53213722 Score: 97
Period size: 27 Copynumber: 13.3 Consensus size: 27
53213355 TACCCTACAG
* *
53213365 GGGTATTTCGATAATTTTGTAAATTGA
1 GGGTATTTCGATAATTTTATAAATCGA
*** * * *
53213392 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTATTTCGATAATTTTATAAATCGA
* *
53213419 GGGTACTTT-GGTAATTTTACAAATCGA
1 GGGTA-TTTCGATAATTTTATAAATCGA
* ** ** *
53213446 GGGTATTTCCATAATTTTGCAGGTCAA
1 GGGTATTTCGATAATTTTATAAATCGA
* *
53213473 GGGTATTTC-AGTAATTTCACAAATC-A
1 GGGTATTTCGA-TAATTTTATAAATCGA
* * * *
53213499 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCGATAATTTTATAAATCGA
* * * * *
53213526 AGGTATTTTC-AGAATTTTACAAACCAA
1 GGGTA-TTTCGATAATTTTATAAATCGA
* * * *
53213553 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTCGATAATTTTATAAATCGA
* * *
53213579 GTGGTATTTTGGTAATTTTATAAA-CAAA
1 G-GGTATTTCGATAATTTTATAAATC-GA
* * * *
53213607 TGGTATTT-TAGTAATTTTACAAA-CCA
1 GGGTATTTCGA-TAATTTTATAAATCGA
* * * * *
53213633 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGATAATTTTATAAATCGA
* * * *
53213661 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCGATAATTTTATAAATCGA
* * * * *
53213687 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTCGATAATTTTATAAATCGA
53213715 GGGTATTT
1 GGGTATTT
53213723 TAGTAATTTT
Statistics
Matches: 258, Mismatches: 56, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
26 30 0.12
27 223 0.86
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTATAAATCGA
Found at i:53213723 original size:27 final size:27
Alignment explanation
Indices: 53213401--53213755 Score: 365
Period size: 27 Copynumber: 13.2 Consensus size: 27
53213391 AGGGTAAAAC
* * * *
53213401 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
53213428 GGTAATTTTACAAATCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *** *
53213455 CATAATTTTGCAGGTCAAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
* * * *
53213482 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
53213509 GGTAATTTTACAAACTAA-GGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
53213535 CAG-AATTTTACAAACCAAGGGTATTTT
1 -GGTAATTTTACAAACCAAGGGTATTTT
*
53213562 GGTAATTTTACAAA-CTAGTGGTATTTT
1 GGTAATTTTACAAACCAAG-GGTATTTT
* * *
53213589 GGTAATTTTATAAACAAATGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
53213616 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
**
53213643 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
53213670 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
53213697 GGTGATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
53213724 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
53213751 AGTAA
1 GGTAA
53213756 GTTGGTAAAC
Statistics
Matches: 272, Mismatches: 51, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 26 0.10
27 245 0.90
28 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:53213801 original size:34 final size:34
Alignment explanation
Indices: 53213758--53213826 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
53213748 TTTAGTAAGT
53213758 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
1 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
* *
53213792 TGGTAAACTAAAGTATTCTAAATAGGGATAACAA
1 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
53213826 T
1 T
53213827 ACGAATGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (34 bp):
TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
Found at i:53215757 original size:6 final size:6
Alignment explanation
Indices: 53215739--53215829 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
53215729 AAGAAACATT
* * * *
53215739 ATCAGA A-CTAGA ATCAGA ATCAAA AACAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
53215788 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAG
53215830 TATTAGGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 54 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATCAGA
Found at i:53215786 original size:31 final size:31
Alignment explanation
Indices: 53215748--53215845 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 31
53215738 TATCAGAACT
*
53215748 AGAATCAGAATCAAAAACAAAATCAGGTGAC
1 AGAATCAGAATCAAAAACAAAATCAGGTAAC
* * **
53215779 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAAAACAAAATCAGGTAAC
* * * ** *
53215810 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAAAAACAAAATCAGGTAAC
53215841 AGAAT
1 AGAAT
53215846 AAAAAATCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAAAAACAAAATCAGGTAAC
Found at i:53216037 original size:27 final size:26
Alignment explanation
Indices: 53215995--53216059 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
53215985 GCTCAGTTAT
* *
53215995 CAGATATTGTGACAGAGTC-TCCAGATA
1 CAGATATTGTGGCAGAG-CGACCAGA-A
53216022 CAGATATTGTGGCAGAGCGACCAGAA
1 CAGATATTGTGGCAGAGCGACCAGAA
*
53216048 CAGATAATGTGG
1 CAGATATTGTGG
53216060 AAAAGCCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCGACCAGAA
Found at i:53216264 original size:22 final size:22
Alignment explanation
Indices: 53216239--53216290 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
53216229 GGCACACAGA
* * *
53216239 CATAATCAGGTTGGCATAGAGC
1 CATAATCAGGTTGACACAAAGC
*
53216261 CAT-ATGTAGGTTGACACAAAGC
1 CATAAT-CAGGTTGACACAAAGC
53216283 CATAATCA
1 CATAATCA
53216291 ACAGGCTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.09
22 19 0.83
23 2 0.09
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (22 bp):
CATAATCAGGTTGACACAAAGC
Found at i:53217066 original size:27 final size:27
Alignment explanation
Indices: 53216718--53217073 Score: 430
Period size: 27 Copynumber: 13.3 Consensus size: 27
53216708 GGGGAAAAAT
* * * *
53216718 GGTAATTTTACCCCACAA-GGCATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53216744 GGTAATTCCACCCTACAAGGGCATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53216771 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * **
53216798 GATAATTTTACCCCACAGGGGTATGGC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53216825 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53216852 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53216879 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53216906 GGTAATTCTACCCTAC-AGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
53216933 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53216960 GGTAATTCTACCCTATAGGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53216986 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53217013 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53217040 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53217067 GATAATT
1 GGTAATT
53217074 TTGTAAATTG
Statistics
Matches: 293, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
26 40 0.14
27 252 0.86
28 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53217087 original size:27 final size:27
Alignment explanation
Indices: 53217057--53217156 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
53217047 CTACCCTACA
*
53217057 AGGGTATTTCGATAATTTTGTAAATTG
1 AGGGTATTTCGATAATTTTGTAAATCG
*** * * *
53217084 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTGTAAATCG
* **
53217111 AGGGTACTTT-GGTAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTGTAAATCG
*
53217138 AGGGTATTTCCATAATTTT
1 AGGGTATTTCGATAATTTT
53217157 ACAGGTCGTG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTGTAAATCG
Found at i:53217116 original size:134 final size:134
Alignment explanation
Indices: 53216746--53217127 Score: 358
Period size: 134 Copynumber: 2.8 Consensus size: 134
53216736 GGCATCTCGG
* * ** *
53216746 TAATTCCACCCTACAAGGGCATTTTAGTAATTCTACCCTACA-AGGGTATTTCGATAATTTTACC
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGA-GGTATTTCGATAATTCTACC
** * *** * ** * *
53216810 CCACAGGGGTATGGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA
65 AAATAGGGGTAAAACGGTAATTCTACCAAATAAGGGTATTT-GGTAATTCTACCCTACAGGGGTA
* *
53216875 TTTCGG
129 TTGCGA
* * * *
53216881 TAATTCTACCCTACATGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGATAATTCTACCA
* **** ** *
53216946 TATAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTGGTAATTCTACCCTACAGGGGTATT
66 AATAGGGGTAAAACGGTAATTCTACCAAATAAGGGTATTTGGTAATTCTACCCTACAGGGGTATT
53217011 GCGA
131 GCGA
***
53217015 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-AGGGTATTTCGATAATT-TTGT
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGA-GGTATTTCGATAATTCTACC
* **
53217078 AAATTGAGGGTAAAACGGTAATTCT-GTAAATCAAGGGTACTTTGGTAATT
65 AAATAG-GGGTAAAACGGTAATTCTACCAAAT-AAGGGTA-TTTGGTAATT
53217128 TTACAAATCG
Statistics
Matches: 207, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
133 7 0.03
134 101 0.49
135 98 0.47
136 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (134 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGATAATTCTACCA
AATAGGGGTAAAACGGTAATTCTACCAAATAAGGGTATTTGGTAATTCTACCCTACAGGGGTATT
GCGA
Found at i:53217124 original size:161 final size:160
Alignment explanation
Indices: 53216827--53217127 Score: 374
Period size: 161 Copynumber: 1.9 Consensus size: 160
53216817 GGTATGGCGA
* * *
53216827 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
* * * **** ** * *
53216892 TACATGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTTGGTAATTCTACCCTATAGGGGTAT
66 TACAAGGGTATTTCGATAATTCTA-CCTAAAGAGGTAAAACGGTAATTCTACCAAATAAGGGTAC
53216957 TTTGGTAATTCTACCCTATAGGGGTATTTGG
130 TTTGGTAATTCTACCCTATAGGGGTATTTGG
53216988 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
** **
53217053 TACAAGGGTATTTCGATAATT-T-TGTAAATTGAGGGTAAAACGGTAATTCT-GTAAATCAAGGG
66 TACAAGGGTATTTCGATAATTCTACCTAAA--GA-GGTAAAACGGTAATTCTACCAAAT-AAGGG
53217115 TACTTTGGTAATT
127 TACTTTGGTAATT
53217128 TTACAAATCG
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
158 3 0.03
160 5 0.04
161 110 0.93
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (160 bp):
TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
TACAAGGGTATTTCGATAATTCTACCTAAAGAGGTAAAACGGTAATTCTACCAAATAAGGGTACT
TTGGTAATTCTACCCTATAGGGGTATTTGG
Found at i:53217157 original size:27 final size:27
Alignment explanation
Indices: 53217105--53217443 Score: 151
Period size: 27 Copynumber: 12.6 Consensus size: 27
53217095 GTAATTCTGT
* * **
53217105 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTCATAATTTTAC
*
53217132 AAATCGAGGGTATTTCCATAATTTTAC
1 AAATCGAGGGTATTTTCATAATTTTAC
** * *
53217159 AGGTCGTGGGTA--TTCAGTAATTTCAC
1 AAATCGAGGGTATTTTCA-TAATTTTAC
**
53217185 AAATC-AGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTTCATAATTTTAC
*
53217212 AAA-CTAAGGGTATTTTCATAATTTTAC
1 AAATC-GAGGGTATTTTCATAATTTTAC
* **
53217239 AAA-CCAGCGGTATTTTGGTAATTTTAC
1 AAATCGAG-GGTATTTTCATAATTTTAC
* ** *
53217266 AAA-CTAGTGGTATTTTGGTAATTTTAT
1 AAATCGAG-GGTATTTTCATAATTTTAC
* * *
53217293 AAA-CAAATGGTATTTT-AGCAATTTTAC
1 AAATC-GAGGGTATTTTCA-TAATTTTAC
* * ** * **
53217320 AAACCAAGGGTATTTTGGTAAATTTGT
1 AAATCGAGGGTATTTTCATAATTTTAC
* * **
53217347 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTCATAATTTTAC
* ** * *
53217374 AAA-CCAGGGGTATTTTGGTGATTTTAT
1 AAATCGA-GGGTATTTTCATAATTTTAC
* *
53217401 AAACCAAGGGTATTTT-AGTAATTTTAC
1 AAATCGAGGGTATTTTCA-TAATTTTAC
53217428 AAATC-AGGGGTATTTT
1 AAATCGA-GGGTATTTT
53217444 AGTAAGTTGG
Statistics
Matches: 251, Mismatches: 46, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.01
26 22 0.09
27 219 0.87
28 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAATCGAGGGTATTTTCATAATTTTAC
Found at i:53217207 original size:53 final size:53
Alignment explanation
Indices: 53217122--53217448 Score: 225
Period size: 54 Copynumber: 6.1 Consensus size: 53
53217112 GGGTACTTTG
*** **
53217122 GTAATTTTACAAATC-GAGGGTATTTCCATAATTTTACAGGTCGT-GGGTA-TTCA
1 GTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACA-AAC-TAGGGTATTTCA
*
53217175 GTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AGGGTA-TTTCA
* * **
53217230 -TAATTTTACAAACCAGCGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGTATTTCA
* ** * * * **
53217283 GTAATTTTATAAA-CAAATGGTATTTTAGCAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTCA
* ** * * * **
53217337 GTAAATTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTCA
* * * * * *
53217391 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-TCAGGGGTATTTTA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-A-GGGTATTTCA
53217445 GTAA
1 GTAA
53217449 GTTGGTAAAC
Statistics
Matches: 232, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 45 0.19
54 177 0.76
55 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGTATTTCA
Found at i:53217305 original size:81 final size:80
Alignment explanation
Indices: 53217105--53217448 Score: 336
Period size: 81 Copynumber: 4.3 Consensus size: 80
53217095 GTAATTCTGT
* * * * *** **
53217105 AAATCAAGGGTACTTTGGTAATTTTACAAATC-GAGGGTATTTCCATAATTTTACAGGTCGTGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAA-CAAAGGGTATTT-TATAATTTTACAAACCAAGGG
** *
53217169 TA-TTCAGTAATTTCAC
64 TATTTTGGTAATTTTAC
*
53217185 AAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTCATAATTTTACAAACC-AGCGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTT-ATAATTTTACAAACCAAG-GG
53217249 TATTTTGGTAATTTTAC
64 TATTTTGGTAATTTTAC
* * * *
53217266 AAA-CTAGTGGTATTTTGGTAATTTTATAAACAAATGGTATTTTAGCAATTTTACAAACCAAGGG
1 AAATC-AGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTA-TAATTTTACAAACCAAGGG
* **
53217330 TATTTTGGTAAATTTGT
64 TATTTTGGTAATTTTAC
* * * * * * *
53217347 AAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTT-ATAATTTTACAAACCAAGGGT
*
53217412 ATTTTAGTAATTTTAC
65 ATTTTGGTAATTTTAC
*
53217428 AAATCAGGGGTATTTTAGTAA
1 AAATCAGGGGTATTTTGGTAA
53217449 GTTGGTAAAC
Statistics
Matches: 219, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.01
80 55 0.25
81 159 0.73
82 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (80 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTATAATTTTACAAACCAAGGGTA
TTTTGGTAATTTTAC
Found at i:53217444 original size:27 final size:27
Alignment explanation
Indices: 53217175--53217448 Score: 314
Period size: 27 Copynumber: 10.1 Consensus size: 27
53217165 TGGGTATTCA
* *
53217175 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * *
53217202 GTAATTTTACAAACTAAGGGTATTTTC
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53217229 ATAATTTTACAAACCAGCGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53217256 GTAATTTTACAAACTAGTGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * ** *
53217283 GTAATTTTATAAACAAATGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53217310 GCAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* ** *
53217337 GTAAATTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
53217364 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
53217391 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53217418 GTAATTTTACAAATCAGGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
53217445 GTAA
1 GTAA
53217449 GTTGGTAAAC
Statistics
Matches: 209, Mismatches: 38, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:53217497 original size:34 final size:34
Alignment explanation
Indices: 53217451--53217519 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
53217441 TTTAGTAAGT
53217451 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
1 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
* * *
53217485 TGGTAAAGTAAAGTATTCTAAATAGGGATAACAA
1 TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
53217519 T
1 T
53217520 ACGAATGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (34 bp):
TGGTAAACTAAAGTATTCTAAACAAGGATAACAA
Found at i:53219449 original size:6 final size:6
Alignment explanation
Indices: 53219431--53219552 Score: 90
Period size: 6 Copynumber: 19.8 Consensus size: 6
53219421 AAGAAACATT
* *
53219431 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
53219480 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
53219531 A-CAGA ATCAAA ATCAAA ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAG
53219553 TATTAGGTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
5 6 0.06
6 74 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53219478 original size:31 final size:31
Alignment explanation
Indices: 53219440--53219581 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
53219430 TATCAGAACT
* * * *
53219440 AGAATCAGAATCAGAATTAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53219471 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
53219502 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
53219533 AGAATCAAAATCAAAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53219564 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
53219582 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 92 0.90
32 10 0.10
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:53219506 original size:19 final size:19
Alignment explanation
Indices: 53219482--53219539 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
53219472 GAATCAGAAT
53219482 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
53219501 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
53219513 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
53219532 CAGAATCA
1 CAGAATCA
53219540 AAATCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:53219514 original size:62 final size:62
Alignment explanation
Indices: 53219415--53219581 Score: 203
Period size: 62 Copynumber: 2.7 Consensus size: 62
53219405 TAACCCATTA
* * * * * *
53219415 CAGAATAAGAAACATTATCA-G-AACTAGAATCAGAATCAGAATTAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
*
53219476 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
* * * *
53219538 CAAAATCAAAATCAGTATTAGGTAACAGAATAAAAAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT-CAAAATCAGAAT
53219582 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 17 0.18
62 61 0.66
63 14 0.15
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
Found at i:53219761 original size:27 final size:27
Alignment explanation
Indices: 53219720--53219785 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
53219710 TCAATTATCT
** *
53219720 GATATTGTGATAGAGTCACCAGATACA
1 GATATTGTGGCAGAGGCACCAGATACA
53219747 GATATTGTGGCAGAGGCACCAGATACA
1 GATATTGTGGCAGAGGCACCAGATACA
*
53219774 GATAATGTGGCA
1 GATATTGTGGCA
53219786 AAGCCACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (27 bp):
GATATTGTGGCAGAGGCACCAGATACA
Found at i:53220509 original size:27 final size:27
Alignment explanation
Indices: 53220466--53220823 Score: 486
Period size: 27 Copynumber: 13.3 Consensus size: 27
53220456 ACAAGGCATC
53220466 TCGGTAATTC-ACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
** *
53220492 TTAGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
53220519 TCGATAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
53220546 GCGATAATTCTACTCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
53220573 TCGGTAATTCTACCCTATATGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
53220600 TCGGTAATTCTACCCTACATGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
53220627 TCGGAAATTCTACCCTACAGAGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
53220654 TCGGTAATTCTACCCTACAGAGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
53220681 TCGGTAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
53220708 TCGGTAATTCTACCATATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
53220735 TTGGTAATTCTACCCTACA-GGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
53220761 GCGATAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
53220788 TCGGTAATTCTACCCGACAGGGATATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
53220815 TCGATAATT
1 TCGGTAATT
53220824 TTGTAAATTG
Statistics
Matches: 296, Mismatches: 34, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
26 31 0.10
27 265 0.90
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:53220885 original size:27 final size:26
Alignment explanation
Indices: 53220863--53221175 Score: 275
Period size: 27 Copynumber: 11.7 Consensus size: 26
53220853 GTAAATCAAT
* *
53220863 GGTACTTTGGTAATTTTACAAATCGAG
1 GGTATTTTGGTAATTTTACAAA-CAAG
*** * ** *
53220890 GGTATTTCCATAATTTTGCAGGTCGAG
1 GGTATTTTGGTAATTTTACA-AACAAG
** * *
53220917 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAA-CAAG
53220944 GGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAAC-AAG
** *
53220971 GGTATTTTCATAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACAAG
*
53220997 GGTATTTTGGTAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACAAG
* * *
53221023 TGGTAATTTGGTAATTTTATAAACAAAT
1 -GGTATTTTGGTAATTTTACAAAC-AAG
*
53221051 GGTATTTTAGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAA-CAAG
**
53221078 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTACAAAC-AAG
* * *
53221105 GGTATTTTAGTAATTTTACAACCCAGG
1 GGTATTTTGGTAATTTTACAA-ACAAG
* *
53221132 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAA-CAAG
*
53221159 GGTATTTTAGTAATTTT
1 GGTATTTTGGTAATTTT
53221176 GTGACAGCCC
Statistics
Matches: 230, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 28 0.12
27 199 0.87
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACAAG
Found at i:53220918 original size:81 final size:81
Alignment explanation
Indices: 53220806--53221000 Score: 180
Period size: 81 Copynumber: 2.4 Consensus size: 81
53220796 TCTACCCGAC
* * * * ** *
53220806 AGGGATATTTCGATAATTTTGTAAATTGAGGGTAAAACGGTAA-TTCTGTAAATCAATGGTACTT
1 AGGG-TATTTCCATAATTTTGCAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAAGGGTACTT
*
53220870 TGGTAATTTTACAAA-TCG
64 TGGTAATTTTACAAACT-A
** *** * *
53220888 AGGGTATTTCCATAATTTTGCAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTCCATAATTTTGCAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTG
53220953 GTAATTTTACAAACTA
66 GTAATTTTACAAACTA
* * *
53220969 AGGGTATTTTCATAATTTTACAAA-CTAGGGTA
1 AGGGTATTTCCATAATTTTGCAAATCGAGGGTA
53221001 TTTTGGTAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
80 7 0.08
81 76 0.84
82 8 0.09
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
AGGGTATTTCCATAATTTTGCAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTG
GTAATTTTACAAACTA
Found at i:53222925 original size:40 final size:40
Alignment explanation
Indices: 53222870--53223119 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
53222860 AACATTGGAA
53222870 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53222910 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53222950 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53222990 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53223030 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53223069 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53223110 CTATATCCGG
1 ATATATCCGG
53223120 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53231029 original size:40 final size:40
Alignment explanation
Indices: 53230974--53231223 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
53230964 AACATTGGAA
53230974 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53231014 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53231054 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53231094 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53231134 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53231173 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53231214 CTATATCCGG
1 ATATATCCGG
53231224 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53232989 original size:21 final size:21
Alignment explanation
Indices: 53232963--53233009 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
53232953 AAGGCGAATA
53232963 CGATGGCAGCTAATTCGAGAT
1 CGATGGCAGCTAATTCGAGAT
53232984 CGATGGCAGCTAATTCGAGAT
1 CGATGGCAGCTAATTCGAGAT
53233005 C-ATGG
1 CGATGG
53233010 GTCGGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (21 bp):
CGATGGCAGCTAATTCGAGAT
Found at i:53237459 original size:40 final size:40
Alignment explanation
Indices: 53237395--53237580 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
53237385 GCTACTCGTT
*
53237395 CAAATGCCTTCTGG-ACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGAACTTAGCCCGGATT-TAGTAACTCGCA
*
53237435 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTAACTCGCA
* *
53237475 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTAACTCGCA
* * * *
53237515 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTCAGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTAACTC-GCA
*
53237556 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGAACTTAGCCCGGA
53237581 CATCATTCGA
Statistics
Matches: 131, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 120 0.92
41 9 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGAACTTAGCCCGGATTTAGTAACTCGCA
Found at i:53237499 original size:80 final size:81
Alignment explanation
Indices: 53237362--53237580 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 81
53237352 GAATCACGTA
** ** * *
53237362 CCTTCGGAGTTTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCTGGACATAGCCCGG-TTA
1 CCTTCGGAACTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
53237423 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* *
53237441 CCTTCGGAACTTAACCCGGATTTAGTAACTC-GCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGAACTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
53237505 GTAACTCGCACAAATG
66 GTAACTCGCACAAATG
* ** *
53237521 CCTTCGGATCTTAGTCCGGATATAGTCACTCAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
53237581 CATCATTCGA
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 13 0.11
80 100 0.82
81 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:53238228 original size:38 final size:38
Alignment explanation
Indices: 53238175--53238266 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
53238165 ATAGGCTACC
53238175 TATGGCCGAACATACACATCAACTCATATACTCATTCA
1 TATGGCCGAACATACACATCAACTCATATACTCATTCA
*
53238213 TGTGGCCGAACATACACATCAACTCATATACTCATTCA
1 TATGGCCGAACATACACATCAACTCATATACTCATTCA
53238251 TATGGCCGAACATACA
1 TATGGCCGAACATACA
53238267 TGTCTATGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (38 bp):
TATGGCCGAACATACACATCAACTCATATACTCATTCA
Found at i:53244210 original size:24 final size:24
Alignment explanation
Indices: 53244178--53244240 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
53244168 AATCTCAAAT
53244178 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
53244202 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
53244226 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
53244241 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:53247556 original size:47 final size:47
Alignment explanation
Indices: 53247502--53247937 Score: 683
Period size: 47 Copynumber: 9.3 Consensus size: 47
53247492 ACAAGATATG
**
53247502 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTAAA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
53247549 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53247596 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
53247643 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
53247690 TATATGTGATACGGCCGAATGGCCAACGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
53247737 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53247784 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
53247831 TATATGTGATAGGGCCGAGCGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53247878 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53247925 TAAATGTGATAAG
1 TATATGTGATAAG
53247938 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 357 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:53247604 original size:25 final size:25
Alignment explanation
Indices: 53247576--53247652 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
53247566 AGTGGCCAAC
53247576 GTGATGAATGTGAAAGTGTATATAT
1 GTGATGAATGTGAAAGTGTATATAT
* * ***
53247601 GTGAT-AAGGCCG-AA-TGGCCA-AT
1 GTGATGAATG-TGAAAGTGTATATAT
*
53247623 GTGATGAATGTGAAAGTATATATAT
1 GTGATGAATGTGAAAGTGTATATAT
53247648 GTGAT
1 GTGAT
53247653 AGGGCCGAGT
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 7 0.19
25 13 0.36
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (25 bp):
GTGATGAATGTGAAAGTGTATATAT
Found at i:53247646 original size:94 final size:94
Alignment explanation
Indices: 53247502--53247935 Score: 796
Period size: 94 Copynumber: 4.6 Consensus size: 94
53247492 ACAAGATATG
*
53247502 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTAAATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
53247567 GTGGCCAACGTGATGAATGTGAAAGTGTA
66 GTGGCCAACGTGATGAATGTGAAAGTGTA
53247596 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
53247661 GTGGCCAACGTGATGAATGTGAAAGTGTA
66 GTGGCCAACGTGATGAATGTGAAAGTGTA
* *
53247690 TATATGTGATACGGCCGAATGGCCAACGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
53247755 GTGGCCAACGTGATGAATGTGAAAGTGTA
66 GTGGCCAACGTGATGAATGTGAAAGTGTA
53247784 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
* *
53247849 GCGGCCAATGTGATGAATGTGAAAGTGTA
66 GTGGCCAACGTGATGAATGTGAAAGTGTA
* * *
53247878 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATA
53247936 AGTCCCGAAG
Statistics
Matches: 330, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 330 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (94 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
GTGGCCAACGTGATGAATGTGAAAGTGTA
Done.