Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 134 of 318
Found at i:41030878 original size:27 final size:27
Alignment explanation
Indices: 41030848--41030935 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
41030838 GCAAAATGGC
* *
41030848 AATTTTACCCCACAAGGGTATTTCGGA
1 AATTTTACCCTACAGGGGTATTTCGGA
*
41030875 AATTCTACCCTACAGGGGTATTTCGG-
1 AATTTTACCCTACAGGGGTATTTCGGA
*
41030901 TATTTCTACCCTACAGGGGTATTTC-GA
1 AATTT-TACCCTACAGGGGTATTTCGGA
*
41030928 TATTTTAC
1 AATTTTAC
41030936 AAATCGAGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.13
27 47 0.87
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
AATTTTACCCTACAGGGGTATTTCGGA
Found at i:41030975 original size:27 final size:27
Alignment explanation
Indices: 41030914--41030991 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
41030904 TTCTACCCTA
41030914 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTTACAAAT
* *
41030940 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTTACAAAT
* *
41030967 CAGGGGTATTTTGGTAATTTTACAA
1 CAGGGGTATTTCGATAATTTTACAA
41030992 GCCAGGTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 12 0.28
27 29 0.67
28 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTTACAAAT
Found at i:41033235 original size:79 final size:79
Alignment explanation
Indices: 41033056--41033274 Score: 336
Period size: 79 Copynumber: 2.8 Consensus size: 79
41033046 TATTCGGATG
* *
41033056 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAGTCCCGAAGGC
*
41033119 AGTTGTGCTATTGACT
64 AGTTGTGCTAGTGACT
**
41033135 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCAG
41033199 TTGTGCTAGTGACT
66 TTGTGCTAGTGACT
* *
41033213 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGG
41033275 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 54 0.42
79 74 0.57
80 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:41033264 original size:118 final size:118
Alignment explanation
Indices: 41033056--41033274 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 118
41033046 TATTCGGATG
*
41033056 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAG
1 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAG
* *
41033121 TTGTGCTATTGACTATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
66 TTGTGCGATTGACTATACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTGCT
* *
41033174 ATATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGC-ATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
41033238 TTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 GTTGTGCGA-TTGACTATA-CCGGGCTAAATCCCGAAGG
41033275 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
117 17 0.18
118 70 0.76
119 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (118 bp):
ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAG
TTGTGCGATTGACTATACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:41033274 original size:39 final size:41
Alignment explanation
Indices: 41033056--41033274 Score: 312
Period size: 39 Copynumber: 5.6 Consensus size: 41
41033046 TATTCGGATG
*
41033056 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
41033095 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
41033135 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
41033174 ATATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
* *
41033213 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
41033253 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
41033275 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 106 0.65
40 53 0.33
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
Found at i:41034507 original size:27 final size:27
Alignment explanation
Indices: 41034476--41034579 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
41034466 GGGGTGTTAC
41034476 ACCAGGGGTATTTTGGTAATTTTACAA
1 ACCAGGGGTATTTTGGTAATTTTACAA
* **
41034503 ACCAGGGGTATTTTGGTAATTTAACTG
1 ACCAGGGGTATTTTGGTAATTTTACAA
* **
41034530 ATC-GAGGGTATTTTGGTAATTTTGTAA
1 ACCAG-GGGTATTTTGGTAATTTTACAA
** *
41034557 ACCAATGGTATTTTAGTAATTTT
1 ACCAGGGGTATTTTGGTAATTTT
41034580 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
ACCAGGGGTATTTTGGTAATTTTACAA
Found at i:41034593 original size:27 final size:27
Alignment explanation
Indices: 41034530--41034593 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
41034520 AATTTAACTG
*
41034530 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAGGGTATTTTAGTAATTTTGTAA
* * *
41034557 ACCAATGGTATTTTAGTAATTTTGTAA
1 ATCGAGGGTATTTTAGTAATTTTGTAA
41034584 ATCGAGGGTA
1 ATCGAGGGTA
41034594 AAACGATAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (27 bp):
ATCGAGGGTATTTTAGTAATTTTGTAA
Found at i:41034603 original size:27 final size:27
Alignment explanation
Indices: 41034572--41034727 Score: 222
Period size: 27 Copynumber: 5.8 Consensus size: 27
41034562 TGGTATTTTA
* *
41034572 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
41034599 ATAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
41034626 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
41034653 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
41034680 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
41034707 ATACTTCTGTAAATCGAGGGT
1 GTAATTCTATAAATCGAGGGT
41034728 TCTTTGGTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:41034604 original size:54 final size:54
Alignment explanation
Indices: 41034546--41034719 Score: 195
Period size: 54 Copynumber: 3.2 Consensus size: 54
41034536 GGTATTTTGG
* * *** * *
41034546 TAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGA
* * *
41034600 TAATTCTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGA
* * * ** *
41034654 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAA
1 TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGA
*
41034708 TACTTCTGTAAA
1 TAATTCTGTAAA
41034720 TCGAGGGTTC
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (54 bp):
TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGA
Found at i:41037444 original size:70 final size:71
Alignment explanation
Indices: 41037359--41037521 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
41037349 CGATTTGTCT
41037359 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA-TTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41037423 CTTTCA
66 CTTTCA
41037429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41037494 CTTTCA
66 CTTTCA
41037500 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41037522 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 60 0.65
71 32 0.35
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41044981 original size:70 final size:71
Alignment explanation
Indices: 41044895--41045053 Score: 295
Period size: 70 Copynumber: 2.3 Consensus size: 71
41044885 CGATTTGTCT
41044895 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCAC-AATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGAATGCGACCTAGCTACATTTAT
41044959 CTTTCA
66 CTTTCA
*
41044965 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGAATGCGACCTAGCTACATTTAT
41045030 CTTTCA
66 CTTTCA
41045036 CGTAGC-CTCTTGTCTACA
1 CGTAGCTCTCTTGTCTACA
41045054 GGGATACATC
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
70 54 0.62
71 33 0.38
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGAATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41051227 original size:71 final size:71
Alignment explanation
Indices: 41051141--41051304 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41051131 CGATTTGTCT
41051141 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41051206 CTTTCA
66 CTTTCA
41051212 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41051277 CTTTCA
66 CTTTCA
41051283 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41051305 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41051342 original size:71 final size:70
Alignment explanation
Indices: 41051141--41051338 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41051131 CGATTTGTCT
* * * *
41051141 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41051206 CTTTCA
65 CTTTCA
* * * *
41051212 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41051277 CTTTCA
65 CTTTCA
* *
41051283 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41051339 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41058793 original size:71 final size:71
Alignment explanation
Indices: 41058707--41058870 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41058697 CGATTTGTCT
41058707 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41058772 CTTTCA
66 CTTTCA
41058778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41058843 CTTTCA
66 CTTTCA
41058849 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41058871 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41058908 original size:71 final size:70
Alignment explanation
Indices: 41058707--41058904 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41058697 CGATTTGTCT
* * * *
41058707 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41058772 CTTTCA
65 CTTTCA
* * * *
41058778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41058843 CTTTCA
65 CTTTCA
* *
41058849 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41058905 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41065097 original size:79 final size:80
Alignment explanation
Indices: 41064955--41065139 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
41064945 TCGAATGATG
*
41064955 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTC
41065020 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * ** *
41065034 TTCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATTCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCA
*
41065096 TTTGTGCGAGTTACTATA
63 TTCGTGCGAGTTACTATA
* *
41065114 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
41065140 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTC
GTGCGAGTTACTATA
Found at i:41065146 original size:40 final size:39
Alignment explanation
Indices: 41064956--41065139 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
41064946 CGAATGATGT
* * *
41064956 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
41064996 CCGGACTAAGAT-CCAAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
41065036 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41065074 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41065115 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41065140 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 32 0.27
40 79 0.66
41 9 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41065161 original size:79 final size:79
Alignment explanation
Indices: 41065011--41065162 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
41065001 CTAAGATCCA
* ***
41065011 AAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAAATT
1 AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATT
*
41065076 CGGGTTAAGTCCCG
66 CCGGTTAAGTCCCG
* * * *
41065090 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCTAT
1 AAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
41065153 A-TCCGGTTAA
63 ATTCCGGTTAA
41065163 ACTCAGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.64
80 20 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATT
CCGGTTAAGTCCCG
Found at i:41069695 original size:41 final size:40
Alignment explanation
Indices: 41069562--41069696 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 40
41069552 CATCCGTTTG
* *
41069562 TTTGTACTT-GAGTACCCCTAAATTACACATATGTGTCCTT
1 TTTGTACTTCGA-TACCCCTAAATTGCACATATGTGCCCTT
* * * * **
41069602 TTTGTACTCCGGTACCCCTGAATTGCACATACGTGCCCCCG
1 TTTGTACTTCGATACCCCTAAATTGCACATATGTG-CCCTT
**
41069643 CCTGTACTTCGATACCCCTAAATTGCACATATGTGCCCTT
1 TTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCTT
*
41069683 ATTTGTAATTCGAT
1 -TTTGTACTTCGAT
41069697 TGTAACAACC
Statistics
Matches: 73, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
40 31 0.42
41 42 0.58
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
TTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCTT
Found at i:41071499 original size:29 final size:28
Alignment explanation
Indices: 41071467--41071569 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
41071457 GTGACGAGAT
* *
41071467 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
41071496 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* **
41071525 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
41071554 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
41071570 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.07
29 56 0.92
30 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:41074104 original size:25 final size:25
Alignment explanation
Indices: 41074038--41074104 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
41074028 AATACTCTAG
* * *
41074038 AGCTTGTGAGAGCATACTAATTTAT
1 AGCTCGTGAGAGCATACCAAATTAT
* * * *
41074063 AGCACATGTGAGAATACCAAATTAT
1 AGCTCGTGAGAGCATACCAAATTAT
41074088 AGCTCGTGAGAGCATAC
1 AGCTCGTGAGAGCATAC
41074105 TAATTTACAG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCAAATTAT
Found at i:41074369 original size:42 final size:42
Alignment explanation
Indices: 41074310--41074394 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
41074300 TTGGATGATG
41074310 AAAGGTGAAGTGATAGTTGAATGTGCATGTCGTATATGTTTT
1 AAAGGTGAAGTGATAGTTGAATGTGCATGTCGTATATGTTTT
41074352 AAAGGTGAAGTGATAGTTGAATGTGCATGTCGTATATGTTTT
1 AAAGGTGAAGTGATAGTTGAATGTGCATGTCGTATATGTTTT
41074394 A
1 A
41074395 TAACTTGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (42 bp):
AAAGGTGAAGTGATAGTTGAATGTGCATGTCGTATATGTTTT
Found at i:41078262 original size:46 final size:46
Alignment explanation
Indices: 41078209--41078301 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
41078199 GAAAATTGAT
41078209 AGCTTATGCTTCCAAACAGTTAAAGCCAAATGAAAAGAACTATTCA
1 AGCTTATGCTTCCAAACAGTTAAAGCCAAATGAAAAGAACTATTCA
*
41078255 AGCTTATGCTTCCAAACAGTTAAAGCCAAATGAAACGAACTATTCA
1 AGCTTATGCTTCCAAACAGTTAAAGCCAAATGAAAAGAACTATTCA
41078301 A
1 A
41078302 CACAAGACCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (46 bp):
AGCTTATGCTTCCAAACAGTTAAAGCCAAATGAAAAGAACTATTCA
Found at i:41080480 original size:25 final size:25
Alignment explanation
Indices: 41080447--41080507 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
41080437 AATCAAAATG
41080447 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
41080472 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
41080497 AGAATCAGAAT
1 AGAATCAGAAT
41080508 TAGGTGACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:41080507 original size:6 final size:6
Alignment explanation
Indices: 41080426--41080491 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
41080416 AAGAAACATT
* * *
41080426 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
41080475 ATCAGA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAG
41080492 GTGACAGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:41080507 original size:44 final size:43
Alignment explanation
Indices: 41080452--41080592 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 43
41080442 AAATGAGAAT
41080452 CAGAATCAGAATCAGGTGACAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGACAGAATCAGAATCAGAATCAGGT-A
* * *
41080496 CAGAATCAGAATTAGGTGACA-AGATCAGAATTAGTATCAGGT-
1 CAGAATCAGAATCAGGTGACAGA-ATCAGAATCAGAATCAGGTA
* * *
41080538 ---AA-CAGAATTAGATGACAGAATCAAAATCA-ATATCAGGTAA
1 CAGAATCAGAATCAGGTGACAGAATCAGAATCAGA-ATCAGGT-A
41080578 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
41080593 AATGTGAATG
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
38 29 0.36
39 3 0.04
43 3 0.04
44 45 0.56
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (43 bp):
CAGAATCAGAATCAGGTGACAGAATCAGAATCAGAATCAGGTA
Found at i:41080524 original size:25 final size:24
Alignment explanation
Indices: 41080450--41080543 Score: 99
Period size: 25 Copynumber: 4.0 Consensus size: 24
41080440 CAAAATGAGA
41080450 ATCAGAATCAGAATCAGGTGACAG
1 ATCAGAATCAGAATCAGGTGACAG
41080474 AATCAGAATCAGAATCAGGT----G
1 -ATCAGAATCAGAATCAGGTGACAG
*
41080495 A-CAGAATCAGAATTAGGTGACAAG
1 ATCAGAATCAGAATCAGGTGAC-AG
* * *
41080519 ATCAGAATTAGTATCAGGTAACAG
1 ATCAGAATCAGAATCAGGTGACAG
41080543 A
1 A
41080544 ATTAGATGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
19 16 0.28
20 1 0.02
21 1 0.02
24 5 0.09
25 35 0.60
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGGTGACAG
Found at i:41080527 original size:19 final size:19
Alignment explanation
Indices: 41080477--41080560 Score: 86
Period size: 19 Copynumber: 4.4 Consensus size: 19
41080467 GTGACAGAAT
*
41080477 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATTAGGTGA
41080496 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
41080515 CA-AGATCAGAATTA-GT-A
1 CAGA-ATCAGAATTAGGTGA
*
41080532 TCAGGTAA-CAGAATTAGATGA
1 -CA-G-AATCAGAATTAGGTGA
41080553 CAGAATCA
1 CAGAATCA
41080561 AAATCAATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
17 1 0.02
18 7 0.13
19 41 0.75
20 4 0.07
21 2 0.04
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:41080544 original size:38 final size:38
Alignment explanation
Indices: 41080502--41080583 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
41080492 GTGACAGAAT
* * * *
41080502 CAGAATTAGGTGACA-AGATCAGAATTAGTATCAGGTAA
1 CAGAATTAGATGACAGA-ATCAAAATCAATATCAGGTAA
41080540 CAGAATTAGATGACAGAATCAAAATCAATATCAGGTAA
1 CAGAATTAGATGACAGAATCAAAATCAATATCAGGTAA
41080578 CAGAAT
1 CAGAAT
41080584 CAGAATCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 38 0.97
39 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (38 bp):
CAGAATTAGATGACAGAATCAAAATCAATATCAGGTAA
Found at i:41080591 original size:19 final size:19
Alignment explanation
Indices: 41080477--41080592 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 19
41080467 GTGACAGAAT
*
41080477 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
41080496 CAGAATCAGAATTAGGTGACAAGA
1 CAGAATCAGAATCAGGT----A-A
* *
41080520 TCAGAATTAGTATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
*
41080540 CAGAATTAG-ATGACA-G-AA
1 CAGAATCAGAAT--CAGGTAA
*
41080558 TCAAAATCA-ATATCAGGTAA
1 -CAGAATCAGA-ATCAGGTAA
41080578 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
41080593 AATGTGAATG
Statistics
Matches: 75, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
18 6 0.08
19 45 0.60
20 8 0.11
21 1 0.01
24 1 0.01
25 14 0.19
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:41080950 original size:22 final size:22
Alignment explanation
Indices: 41080922--41080986 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
41080912 GCAAATACGT
*
41080922 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
41080944 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
41080966 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
41080987 AATAATTGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:41081228 original size:16 final size:16
Alignment explanation
Indices: 41081207--41081237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41081197 ATCCCAACCC
*
41081207 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
41081223 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
41081238 CCCTTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:41081461 original size:53 final size:52
Alignment explanation
Indices: 41081383--41081485 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 52
41081373 AAAAATGGTA
41081383 ATTTTACCCCACAAGGTATCTCGGTAATTCTACCCTACA-GGGTATTTCAGT
1 ATTTTACCCCACAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
41081434 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 ATTT-TACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
41081486 ATAATTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 4 0.09
52 9 0.19
53 24 0.51
54 10 0.21
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (52 bp):
ATTTTACCCCACAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:41081466 original size:27 final size:27
Alignment explanation
Indices: 41081379--41081484 Score: 144
Period size: 26 Copynumber: 4.0 Consensus size: 27
41081369 GGGGAAAAAT
* * *
41081379 GGTAATTTTACCCCACAA-GGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
41081405 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
41081431 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
41081458 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
41081485 AATAATTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.01
26 35 0.50
27 34 0.49
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:41081490 original size:27 final size:26
Alignment explanation
Indices: 41081380--41081491 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
41081370 GGGAAAAATG
* * * * *
41081380 GTAATTTTACCCCACAAGGTATCTCG
1 GTAATTCTACCCTACAGGGTATTTCA
41081406 GTAATTCTACCCTACAGGGTATTTCA
1 GTAATTCTACCCTACAGGGTATTTCA
* *
41081432 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTAC-AGGGTATTTCA
41081459 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACA-GGGTATTTCA
*
41081486 ATAATT
1 GTAATT
41081492 TTGTAAATCG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 36 0.49
27 38 0.51
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGTATTTCA
Found at i:41092602 original size:7 final size:7
Alignment explanation
Indices: 41092590--41092614 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41092580 GTTGTCTTCT
41092590 TGTTTGA
1 TGTTTGA
41092597 TGTTTGA
1 TGTTTGA
41092604 TGTTTGA
1 TGTTTGA
41092611 TGTT
1 TGTT
41092615 CTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:41093541 original size:27 final size:28
Alignment explanation
Indices: 41093485--41093554 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
41093475 AAATTTGTAC
*
41093485 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
41093513 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
41093540 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41093555 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:41099342 original size:40 final size:41
Alignment explanation
Indices: 41099242--41099430 Score: 215
Period size: 41 Copynumber: 4.7 Consensus size: 41
41099232 AGGGGTGCCA
* *
41099242 AAGTACAAACAGGGTCACATATGTGCAATTCAGGGGTATTG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTATTG
* ** *
41099283 AAGTACAAA-A-GGGCACGTATGTGCAATCCAGATGTATCG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTATTG
* * *
41099322 AA-TACAAATAGGGGCACGTATGTGCAATTTAGGGGTATTA
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTATTG
* *
41099362 AAGTACAAACAGGGGCACTTATGTGCAATTCAGGGGTACCT-
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTA-TTG
** *
41099403 AAGTACAAACAATGGCACATATGTGCAA
1 AAGTACAAACAGGGGCACGTATGTGCAA
41099431 AATAGGGAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
38 6 0.05
39 26 0.21
40 26 0.21
41 66 0.53
42 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (41 bp):
AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTATTG
Found at i:41099366 original size:120 final size:123
Alignment explanation
Indices: 41099212--41099430 Score: 311
Period size: 120 Copynumber: 1.8 Consensus size: 123
41099202 AATGTAAAAA
* * *
41099212 GGGCAACGTATATGCTATTTAGGGGTGCCAAAGTACAAACAGGGTCACATATGTGCAATTCAGGG
1 GGGCAACGTATATGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGGG
* *
41099277 GTA-TTGAAGTAC-AA-AAGGGCACGTATGTGCAATCCAGATGTATCGAATACAAATAG
66 GTACCT-AAGTACAAACAAGGGCACATATGTGCAATCCAGATGTATCGAATACAAATAG
* ** *
41099333 GGGC-ACGTATGTGCAATTTAGGGGTATTAAAGTACAAACAGGGGCACTTATGTGCAATTCAGGG
1 GGGCAACGTATATGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGGG
*
41099397 GTACCTAAGTACAAACAATGGCACATATGTGCAA
66 GTACCTAAGTACAAACAAGGGCACATATGTGCAA
41099431 AATAGGGAGA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
120 62 0.73
121 7 0.08
122 16 0.19
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.23
Consensus pattern (123 bp):
GGGCAACGTATATGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGGG
GTACCTAAGTACAAACAAGGGCACATATGTGCAATCCAGATGTATCGAATACAAATAG
Found at i:41099397 original size:21 final size:21
Alignment explanation
Indices: 41099331--41099397 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
41099321 GAATACAAAT
* *
41099331 AGGGGCACGTATGTGCAATTT
1 AGGGGCACTTATGTGCAATTC
* * * *
41099352 AGGGGTA-TTAAAGTACAA-AC
1 AGGGGCACTT-ATGTGCAATTC
41099372 AGGGGCACTTATGTGCAATTC
1 AGGGGCACTTATGTGCAATTC
41099393 AGGGG
1 AGGGG
41099398 TACCTAAGTA
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (21 bp):
AGGGGCACTTATGTGCAATTC
Found at i:41106738 original size:40 final size:39
Alignment explanation
Indices: 41106693--41106901 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
41106683 CGGAATACAA
*
41106693 CCGGATATAACCACATGCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* * * *
41106733 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* * **
41106773 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* ** * *
41106813 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCATAAATGCCTTCGGGTCTTAGC
* * * * *
41106853 CTGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCATAAATGCCTTCGGGTCTTAGC
41106893 CCGGATATA
1 CCGGATATA
41106902 TTTAATTGCT
Statistics
Matches: 140, Mismatches: 28, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (39 bp):
CCGGATATAACCACTGCATAAATGCCTTCGGGTCTTAGC
Found at i:41106840 original size:80 final size:81
Alignment explanation
Indices: 41106693--41106898 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
41106683 CGGAATACAA
* * * *
41106693 CCGGATATAACCACATGCATGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
41106757 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * * *
41106773 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
41106836 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * * * * *
41106853 CTGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAGCCCGGAT
41106899 ATATTTAATT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 102 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:41110825 original size:29 final size:29
Alignment explanation
Indices: 41110792--41110865 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
41110782 GTGACGAGAT
41110792 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41110821 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41110850 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41110866 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41110881 original size:29 final size:29
Alignment explanation
Indices: 41110849--41110924 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
41110839 CTGGAAATAT
* *
41110849 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
41110878 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
41110907 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
41110925 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:41110892 original size:58 final size:58
Alignment explanation
Indices: 41110792--41110924 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
41110782 GTGACGAGAT
* * * * * *
41110792 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
41110850 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
41110908 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
41110925 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:41118697 original size:29 final size:29
Alignment explanation
Indices: 41118664--41118737 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
41118654 GTGACGAGAT
41118664 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41118693 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41118722 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41118738 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41118753 original size:29 final size:29
Alignment explanation
Indices: 41118721--41118796 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
41118711 CTGGAAATAT
* *
41118721 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
41118750 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
41118779 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
41118797 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:41118764 original size:58 final size:58
Alignment explanation
Indices: 41118664--41118796 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
41118654 GTGACGAGAT
* * * * * *
41118664 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
41118722 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
41118780 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
41118797 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:41125727 original size:28 final size:28
Alignment explanation
Indices: 41125695--41125793 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
41125685 GCAATAAGCC
*
41125695 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
41125723 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
41125751 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
41125780 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41125794 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:41132148 original size:24 final size:24
Alignment explanation
Indices: 41132118--41132335 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
41132108 GAATGTGACT
* *
41132118 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
41132142 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
41132166 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
41132190 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
41132213 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
41132237 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
41132261 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
41132285 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
41132309 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
41132333 ATA
1 ATA
41132336 TGGTCTTTGC
Statistics
Matches: 188, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 23 0.12
24 165 0.88
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:41136700 original size:12 final size:13
Alignment explanation
Indices: 41136672--41136704 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
41136662 TTATTTCTTT
41136672 TTCTCCATCTACC
1 TTCTCCATCTACC
*
41136685 TTCTCC-TCTTCC
1 TTCTCCATCTACC
41136697 TTCTCCAT
1 TTCTCCAT
41136705 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:41137518 original size:16 final size:15
Alignment explanation
Indices: 41137492--41137521 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41137482 GCTAGATCGG
41137492 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
41137507 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
41137522 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:41137802 original size:28 final size:28
Alignment explanation
Indices: 41137770--41137834 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
41137760 ATTTACTAGA
* *
41137770 ATACCCCTATGTATGTAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41137798 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41137826 ATACCCCTA
1 ATACCCCTA
41137835 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41138040 original size:29 final size:28
Alignment explanation
Indices: 41137950--41138040 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
41137940 CTGGTGGCTA
* * *
41137950 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* ** *
41137978 TGCTAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
41138005 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
41138034 TGTCACA
1 TGCCACA
41138041 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:41138048 original size:55 final size:56
Alignment explanation
Indices: 41137940--41138054 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
41137930 AGGAAGCGTC
* * *
41137940 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCTACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCTACATATATCTGTAT
* *
41137995 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTG-TCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCT-ACATATATCTGTAT
41138051 CTGG
1 CTGG
41138055 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 31 0.61
56 19 0.37
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCTACATATATCTGTAT
Found at i:41138517 original size:19 final size:19
Alignment explanation
Indices: 41138493--41138531 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
41138483 TTTTAATTAT
* *
41138493 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
41138512 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
41138531 T
1 T
41138532 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:41138967 original size:268 final size:267
Alignment explanation
Indices: 41138452--41138981 Score: 755
Period size: 268 Copynumber: 2.0 Consensus size: 267
41138442 TAATTTCATC
* ** *
41138452 TATGGTTTTGGGTTTTAAGTGTAATAAGGCCTTTTAATTATTTTTATGGTTTTGTTTTACTTTTA
1 TATGGTTTTGGGTTTTAAATGTAATAAGGCCGCTTAATTATTTTTATGGTTTGGTTTTACTTTTA
* * ** * *
41138517 TTATTTTATTTTACTATGATGAAAAAAAACTATGATGGCTAAGGAAAATGAGTTAGCTTTAGGAC
66 TTATTTAATTCTACTATGATGAAAAAAAACTATGATAACTAACGAAAATGAGTTAGCTCTAGGAC
* *
41138582 GTGTTTTCAAAAACATTAATGGATTTCAAAATAACACGATTACAAGTAAGACTTCCGCTAAGCAA
131 GCGTTTTCAAAAACATTAATGGATTTCAAAATAACACGAATACAAGTAAGACTTCCGCTAAGCAA
* * *
41138647 ATGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAGCCAGACAGTTTTCTCAAAATTATACG
196 ACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACAGTTTTCTCAAAATTATACG
41138712 AGTCGTT
261 AGTCGTT
*
41138719 TATGGTTTTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTATGGTTTGGTTTGT-TTCT
1 TATGGTTTTGGG-TTTTAAATGTAATAAGGCCGCTTAATTATTTTTATGGTTTGGTTT-TACT-T
* ** *
41138783 TTATTATTTAATTCTATTATGAT-AAAACTGAACTATGATAACTAACG-AGATG-GATTAGCTCT
63 TTATTATTTAATTCTACTATGATGAAAA-AAAACTATGATAACTAACGAAAATGAG-TTAGCTCT
41138845 AGGACGCGTTTTCAAAAACATTAA-GTGATTTCAAAATAACACGAATACAAGTAAGACTTCCGCT
126 AGGACGCGTTTTCAAAAACATTAATG-GATTTCAAAATAACACGAATACAAGTAAGACTTCCGCT
* * * *
41138909 AAGCAAACGTTTTCAACCTTAATCATTTTCTTAAGATGGACATAACTAAACGGTTTTCTCAAAAT
190 AAGCAAACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACAGTTTTCTCAAAAT
41138974 TATACGAG
255 TATACGAG
41138982 ATGTTAGAGT
Statistics
Matches: 233, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
267 14 0.06
268 183 0.79
269 36 0.15
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (267 bp):
TATGGTTTTGGGTTTTAAATGTAATAAGGCCGCTTAATTATTTTTATGGTTTGGTTTTACTTTTA
TTATTTAATTCTACTATGATGAAAAAAAACTATGATAACTAACGAAAATGAGTTAGCTCTAGGAC
GCGTTTTCAAAAACATTAATGGATTTCAAAATAACACGAATACAAGTAAGACTTCCGCTAAGCAA
ACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACAGTTTTCTCAAAATTATACG
AGTCGTT
Found at i:41141754 original size:37 final size:37
Alignment explanation
Indices: 41141704--41141789 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
41141694 TTATTACGAA
41141704 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
41141741 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
41141778 GTCTCACCCGGA
1 GTCTTACCCGGA
41141790 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:41141921 original size:48 final size:48
Alignment explanation
Indices: 41141838--41142105 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
41141828 ACAACATTCT
* * * * *
41141838 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
41141886 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
41141934 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
41141982 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
*
41142030 CATTAGCCATTCGGCTTTACCACGTATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
41142078 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
41142106 TACACTTTCA
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:41142149 original size:47 final size:47
Alignment explanation
Indices: 41142083--41142252 Score: 304
Period size: 47 Copynumber: 3.6 Consensus size: 47
41142073 TTTCACATTA
* * *
41142083 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
41142130 ACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
41142177 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
41142224 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
41142253 ACGAGCTGTT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:41142165 original size:144 final size:143
Alignment explanation
Indices: 41141833--41142152 Score: 349
Period size: 144 Copynumber: 2.2 Consensus size: 143
41141823 AGGTTACAAC
* * * * * * * * * * *
41141833 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATGAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * *
41141898 GGCTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
66 GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
41141963 ATATCACACATGT
131 ACATCACACATGT
* * * *
41141976 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATGAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* * *
41142041 CGGCTTTACCACGTATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* **
41142106 TACACTTTCACAT-T
130 CACA-TCACACATGT
*
41142120 CA-TCACATCGA-CCATTAGGCCTTATCACATATA
1 -ATTCACAT-GAGCCATTAGGCCTTACCACATATA
41142153 TACACTTTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
143 26 0.17
144 119 0.78
145 7 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
ATTCACATGAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATGT
Found at i:41149938 original size:28 final size:28
Alignment explanation
Indices: 41149906--41149970 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41149896 ATTTACTAGA
*
41149906 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41149934 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41149962 ATACCCCTA
1 ATACCCCTA
41149971 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41150134 original size:27 final size:28
Alignment explanation
Indices: 41150076--41150165 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
41150066 AGGAAGCGTC
*
41150076 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
41150104 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
41150131 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
41150160 CTGGTG
1 CTGGTG
41150166 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:41150176 original size:29 final size:28
Alignment explanation
Indices: 41150086--41150176 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
41150076 CTGGTGGCTA
* * *
41150086 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
41150114 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
41150141 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
41150170 TGTCACA
1 TGCCACA
41150177 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:41150184 original size:55 final size:56
Alignment explanation
Indices: 41150076--41150190 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
41150066 AGGAAGCGTC
* * *
41150076 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
41150131 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
41150187 CTGG
1 CTGG
41150191 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:41150653 original size:19 final size:19
Alignment explanation
Indices: 41150629--41150667 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
41150619 TTTTAATTAT
* *
41150629 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
41150648 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
41150667 T
1 T
41150668 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:41152212 original size:46 final size:46
Alignment explanation
Indices: 41152147--41152465 Score: 380
Period size: 46 Copynumber: 7.0 Consensus size: 46
41152137 TTATCTTTGA
* * * * * *
41152147 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
*
41152193 CATGTTGCCATGGTATCTTTCAACCATGGTCTT----A-TTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ** ***
41152234 CATGCTGCTATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
41152280 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
41152326 CAGGTTGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
41152372 CAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
41152418 CAGGTTGTCATAGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
41152464 CA
1 CA
41152466 GAGAGCACAC
Statistics
Matches: 240, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
40 3 0.01
41 33 0.14
42 1 0.00
45 1 0.00
46 202 0.84
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:41152275 original size:21 final size:21
Alignment explanation
Indices: 41152210--41152275 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
41152200 CCATGGTATC
41152210 TTTCAACCATGGTCTTATTCA
1 TTTCAACCATGGTCTTATTCA
** * *
41152231 TTTCATGC-TGCTATGGTA-TC-
1 TTTCAACCATGGTCT--TATTCA
41152251 TTTCAACCATGGTCTTATTCA
1 TTTCAACCATGGTCTTATTCA
41152272 TTTC
1 TTTC
41152276 CCGTCATGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 16 0.50
22 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (21 bp):
TTTCAACCATGGTCTTATTCA
Found at i:41157031 original size:43 final size:43
Alignment explanation
Indices: 41156918--41157064 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
41156908 ACCGAGATGT
* * * *
41156918 GATTACATGTAAGGCCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* *
41156961 GATTACATGTAAGACCAAGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * *
41157004 GATTTA-GTGTAAGACCCTGTCTGGGACAGTT-GCATCG-ATATGT
1 GA-TTACATGTAAGACCATGTCTGGGACA-TTGGCATCGTA-ATGC
* *
41157047 GATAACATGGAAGACCAT
1 GATTACATGTAAGACCAT
41157065 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 70 0.84
44 8 0.10
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:41160941 original size:30 final size:30
Alignment explanation
Indices: 41160907--41160967 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41160897 TCCTTAACTC
41160907 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41160937 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41160967 A
1 A
41160968 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41167317 original size:45 final size:45
Alignment explanation
Indices: 41167267--41167378 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
41167257 GATGTCCTAG
* * *
41167267 GGTCTTACATGTAACCACATATATCGATGCCAACGTCCCAGACGT
1 GGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGT
* * *
41167312 GGTCTTACACGAAAACACATATCTCGATGCCAATGTCCCAGATGT
1 GGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGT
41167357 GGTCTTACACGAAAACACATAT
1 GGTCTTACACGAAAACACATAT
41167379 TGGAATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (45 bp):
GGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGT
Found at i:41171160 original size:28 final size:27
Alignment explanation
Indices: 41171097--41171166 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
41171087 ATAGTGAGTC
41171097 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
41171124 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
41171152 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41171167 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:41176326 original size:2 final size:2
Alignment explanation
Indices: 41176283--41176317 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
41176273 ATATAATCGA
* *
41176283 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41176318 GACATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:41184798 original size:40 final size:39
Alignment explanation
Indices: 41184741--41184925 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
41184731 ATTAAATGAT
* * *
41184741 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
41184781 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
41184821 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
41184861 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
41184901 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
41184926 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:41184877 original size:80 final size:80
Alignment explanation
Indices: 41184740--41184946 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
41184730 AATTAAATGA
* * ** * *
41184740 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
41184805 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
41184818 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
41184883 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
41184900 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
41184947 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:41184931 original size:40 final size:39
Alignment explanation
Indices: 41184739--41184946 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
41184729 CAATTAAATG
* * ** *
41184739 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
41184779 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
41184819 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
41184859 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
41184899 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
41184939 ATATCCGG
1 ATATCCGG
41184947 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:41191875 original size:29 final size:29
Alignment explanation
Indices: 41191842--41191915 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
41191832 CCTTCGAGCT
41191842 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
41191871 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41191900 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41191916 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:41191876 original size:58 final size:58
Alignment explanation
Indices: 41191783--41191915 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
41191773 ATACTCGATT
* * * * *
41191783 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
41191841 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
41191899 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
41191916 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:41201456 original size:40 final size:40
Alignment explanation
Indices: 41201363--41201618 Score: 295
Period size: 40 Copynumber: 6.4 Consensus size: 40
41201353 GATGATAACT
* **
41201363 GGGCTAAGTCCCGAAGGCATTT-TGCGGTAGTGACTAGTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTTACTACATCC
* * *
41201404 GGGCTAAGTCCCGAAGGAATTTGTGCAAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * * *
41201444 GGCCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
*
41201484 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* *
41201524 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * *
41201564 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACATCC
* *
41201603 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
41201619 TACTTGGCTT
Statistics
Matches: 190, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 136 0.72
41 21 0.11
42 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
Found at i:41201575 original size:120 final size:121
Alignment explanation
Indices: 41201361--41201584 Score: 337
Period size: 120 Copynumber: 1.9 Consensus size: 121
41201351 TGGATGATAA
*
41201361 CTGGGCTAAGTCCCGAAGGCATTTTGCGGTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGAATTT
1 CTGGGCTAAGTCCCGAAGGCATTTTGCGGTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGAATTG
*
41201426 GTGCAAGTTATTACATCCGGCCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
66 GTGCAAGTTACTACATCCGGCCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
* *
41201482 CTGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAT
1 CTGGGCTAAGTCCCGAAGGCATTT-TGCGGTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGAAT
* * * *
41201544 TGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
64 TGGTGCAAGTTACTACATCCGGCCTAAGTCCCGAAGGCATT
41201585 GAGCGAGTAG
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
119 1 0.01
120 64 0.69
121 25 0.27
122 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (121 bp):
CTGGGCTAAGTCCCGAAGGCATTTTGCGGTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGAATTG
GTGCAAGTTACTACATCCGGCCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
Found at i:41203048 original size:22 final size:21
Alignment explanation
Indices: 41203007--41203050 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
41202997 GAATGTGCAT
41203007 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
41203029 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
41203051 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:41205468 original size:81 final size:81
Alignment explanation
Indices: 41205376--41205538 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
41205366 CCGGATGTCA
41205376 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
1 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
41205441 TAAGCCCGGATACAAT
66 TAAGCCCGGATACAAT
* * *
41205457 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACGATTCTAGCACGAAGCCTGCGGGTCTT
1 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
41205522 TAAGCCCGGATACAAT
66 TAAGCCCGGATACAAT
41205538 T
1 T
41205539 CCACATCAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (81 bp):
TTCCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
TAAGCCCGGATACAAT
Found at i:41205473 original size:41 final size:40
Alignment explanation
Indices: 41205348--41205541 Score: 302
Period size: 40 Copynumber: 4.8 Consensus size: 40
41205338 TATCTAGCAC
* * *
41205348 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
41205387 AGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
41205427 AGCCTGCGGGTCTTTAAGCCCGGATACAATTTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAA-TTCCAGCACGA
* *
41205468 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCTAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
41205508 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
41205542 CATCAAATAA
Statistics
Matches: 143, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.10
40 89 0.62
41 39 0.27
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:41208597 original size:40 final size:40
Alignment explanation
Indices: 41208470--41208599 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
41208460 ATGCTGGAAA
* *
41208470 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
41208510 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41208550 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41208590 TTATATCCGG
1 TTATATCCGG
41208600 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41216581 original size:40 final size:40
Alignment explanation
Indices: 41216454--41216583 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
41216444 ATGCTGGAAA
* *
41216454 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
41216494 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41216534 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41216574 TTATATCCGG
1 TTATATCCGG
41216584 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41220089 original size:27 final size:27
Alignment explanation
Indices: 41220059--41220135 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
41220049 AAATTAATAT
*
41220059 AATGACCGTTTTGCCCTTATGTGGTAA
1 AATGACCATTTTGCCCTTATGTGGTAA
*
41220086 AATG-CCTATTTTGCCCTTATATGGTAA
1 AATGACC-ATTTTGCCCTTATGTGGTAA
* *
41220113 GATGACTATTTTGCCCTTATGTG
1 AATGACCATTTTGCCCTTATGTG
41220136 ATGTATGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (27 bp):
AATGACCATTTTGCCCTTATGTGGTAA
Found at i:41220503 original size:18 final size:18
Alignment explanation
Indices: 41220467--41220529 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
41220457 TACTGTTTAA
* *
41220467 ACTGTTACTGCATTAATT
1 ACTGTTACTGCACTGATT
41220485 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
* ** *
41220503 AATGTTGTTACACTGA-T
1 ACTGTTACTGCACTGATT
41220520 ACTGTTACTG
1 ACTGTTACTG
41220530 TAATGGGCTA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 7 0.20
18 28 0.80
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:41225448 original size:93 final size:93
Alignment explanation
Indices: 41225287--41225459 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
41225277 GGCATCCGAA
*
41225287 CTCATTAAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCG
1 CTCATTAAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGAGTCCG
41225352 AGTTCACTTATGGATGCGGATGTCTGAG
66 AGTTCACTTATGGATGCGGATGTCTGAG
* * ** *
41225380 CTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTCGGAATTTGAACTCGTTGAGTTGAGTCTG
1 CTCATTAAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGAGTCCG
41225445 AGTTCACTTATGGAT
66 AGTTCACTTATGGAT
41225460 TTGAACTCTC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (93 bp):
CTCATTAAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGAGTCCG
AGTTCACTTATGGATGCGGATGTCTGAG
Found at i:41225481 original size:93 final size:92
Alignment explanation
Indices: 41225283--41225495 Score: 291
Period size: 93 Copynumber: 2.3 Consensus size: 92
41225273 TTTGGGCATC
* *
41225283 CGAACTCATTAAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAG
1 CGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGAG
* *
41225348 TCCGAGTTCACTTATGGATGCGGATGT
66 TCCGAGTTCACTTATGGATGCGAATCT
* * **
41225375 CTGAGCTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTCGGAATTTGAACTCGTTGAGTTGA
1 C-GAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGA
* **
41225440 GTCTGAGTTCACTTATGGATTTGAACTCT
65 GTCCGAGTTCACTTATGGATGCGAA-TCT
* *
41225469 CGAACTCGTTGAGTTGAGTCCAAGTTC
1 CGAACTCATTGAGTTGAGTCCGAGTTC
41225496 ACTTATGGAC
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 101 0.96
94 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (92 bp):
CGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGAATCCGAACTCGTTGAGTTGAG
TCCGAGTTCACTTATGGATGCGAATCT
Found at i:41232270 original size:21 final size:20
Alignment explanation
Indices: 41232245--41232286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
41232235 TAGATTATAC
* *
41232245 ATTTCATATGCTCATTATCAT
1 ATTTCATACGCT-ATGATCAT
41232266 ATTTCATACGCTATGATCAT
1 ATTTCATACGCTATGATCAT
41232286 A
1 A
41232287 CAGTTCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTTCATACGCTATGATCAT
Found at i:41235634 original size:33 final size:33
Alignment explanation
Indices: 41235592--41235672 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
41235582 GTGATCAACA
*
41235592 CAGTATCAGTACAGTC-AGGGCCGAAGCCCTATT
1 CAGTATCAGTACAGTCTA-GGCCAAAGCCCTATT
41235625 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
*
41235658 TAGTATCAGTACAGT
1 CAGTATCAGTACAGT
41235673 GTATAATGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 44 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
Found at i:41240224 original size:40 final size:39
Alignment explanation
Indices: 41240159--41240405 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 39
41240149 TCTTCGGAAT
* **
41240159 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * * *
41240198 TTAACTCGGGTATAGCAACTCGCACAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
41240237 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
*
41240277 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
41240317 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
41240357 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
41240397 TTAGCCCGG
1 TTAGCCCGG
41240406 GTATCATTCA
Statistics
Matches: 186, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.19
40 149 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:41243480 original size:80 final size:80
Alignment explanation
Indices: 41243396--41243544 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41243386 TATGGTAACC
* * * *
41243396 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41243460 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41243476 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41243541 CCGG
66 CCGG
41243545 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41243486 original size:40 final size:38
Alignment explanation
Indices: 41243437--41243544 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41243427 ATCACGATTT
*
41243437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41243477 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41243517 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41243545 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41251494 original size:38 final size:39
Alignment explanation
Indices: 41251369--41251617 Score: 307
Period size: 38 Copynumber: 6.5 Consensus size: 39
41251359 AAGCCAAGTA
* * *
41251369 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTC-CACAAATG
* *
41251407 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-CACAAATG
41251447 CCTTCGGGACTTAGCCCGGATATAGTAACT-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCCACAAATG
*
41251485 CCTTCGGGACTTAGCCCGGAT-TAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-CACAAATG
* *
41251524 CCTTCGGGACTTAGCCCGGAT-TAATAACTCGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCCACAAATG
* *
41251562 CCTTCGGGACTTAGCCC-GA-ATAGTCACTACAGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCCA-CAAATG
41251600 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
41251618 TTATCATCCA
Statistics
Matches: 191, Mismatches: 12, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
37 16 0.08
38 87 0.46
39 55 0.29
40 33 0.17
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCCACAAATG
Found at i:41251533 original size:77 final size:77
Alignment explanation
Indices: 41251369--41251617 Score: 319
Period size: 77 Copynumber: 3.2 Consensus size: 77
41251359 AAGCCAAGTA
* * * * *
41251369 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCAC-AAATGCCTTCGGGACTTAGCCCGGAT-TAG
*
41251432 TAACTCGCACCAATG
63 TAACTCGCACAAATG
*
41251447 CCTTCGGGACTTAGCCCGGATATAGTAACTCACAAATGCCTTCGGGACTTAGCCCGGATTAATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACAAATGCCTTCGGGACTTAGCCCGGATTAGTAA
41251512 CTCGCACAAATG
66 CTCGCACAAATG
* * *
41251524 CCTTCGGGACTTAGCCCGGAT-TAATAACTCGACAAATGCCTTCGGGACTTAGCCC-GAATAGTC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-ACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
*
41251587 ACT-ACAGCAAATG
65 ACTCGCA-CAAATG
41251600 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
41251618 TTATCATCCA
Statistics
Matches: 155, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
75 2 0.01
76 40 0.26
77 61 0.39
78 37 0.24
79 15 0.10
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACAAATGCCTTCGGGACTTAGCCCGGATTAGTAA
CTCGCACAAATG
Found at i:41252832 original size:40 final size:40
Alignment explanation
Indices: 41252779--41252963 Score: 327
Period size: 40 Copynumber: 4.6 Consensus size: 40
41252769 ACTACTTGCT
*
41252779 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
41252819 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
41252859 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41252899 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
41252939 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
41252964 TTATCATCCG
Statistics
Matches: 141, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:41260457 original size:92 final size:93
Alignment explanation
Indices: 41260345--41260515 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
41260335 GCCCATAAGT
* * *
41260345 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41260410 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
41260438 GAACT-GGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41260502 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41260516 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 69 0.93
93 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41260511 original size:46 final size:46
Alignment explanation
Indices: 41260337--41260511 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
41260327 TGTAACCCGC
* * * *
41260337 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
*
41260383 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTAG---CAT
* * *
41260433 -C-TCA-CGAACT-GGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
41260475 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41260512 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 2 0.02
45 8 0.07
46 83 0.75
47 7 0.06
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
Found at i:41260530 original size:46 final size:45
Alignment explanation
Indices: 41260388--41260530 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
41260378 TGCATCCATA
* *
41260388 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
41260436 A-CGAACT-GGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
41260480 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
41260526 AGTGA
1 AGTGA
41260531 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
42 4 0.05
44 1 0.01
45 5 0.07
46 56 0.74
47 5 0.07
48 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:41263554 original size:40 final size:40
Alignment explanation
Indices: 41263501--41263649 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
41263491 ACTACTTGCT
41263501 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
41263541 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
41263581 GAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
41263621 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
41263650 CATCCGAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:41267570 original size:28 final size:28
Alignment explanation
Indices: 41267538--41267602 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41267528 ATTTACTAGA
*
41267538 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41267566 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41267594 ATACCCCTA
1 ATACCCCTA
41267603 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41267766 original size:27 final size:28
Alignment explanation
Indices: 41267719--41267797 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
41267709 TGGTGGCTAT
* * *
41267719 GCCATAAATTATCTGTTCTGGTGGCCCA
1 GCCACAAAATATCTGTTCTGGTGGCACA
** *
41267747 GCCAC-GTATATCTGTTCTGGTGGCACT
1 GCCACAAAATATCTGTTCTGGTGGCACA
41267774 GCCACAAAATATCTGTATCTGGTG
1 GCCACAAAATATCTGT-TCTGGTG
41267798 ACTCTGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.54
28 12 0.29
29 7 0.17
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGGCACA
Found at i:41267808 original size:29 final size:28
Alignment explanation
Indices: 41267718--41267808 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
41267708 CTGGTGGCTA
* * * *
41267718 TGCCATAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* ** *
41267746 AGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
41267773 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
41267802 TGTCACA
1 TGCCACA
41267809 TTTTCTGTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
27 22 0.45
28 12 0.24
29 15 0.31
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:41268285 original size:19 final size:19
Alignment explanation
Indices: 41268261--41268299 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
41268251 TTTTAATTAT
* *
41268261 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
41268280 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
41268299 T
1 T
41268300 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:41272953 original size:60 final size:60
Alignment explanation
Indices: 41272853--41272988 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
41272843 AACTATGTTA
* *
41272853 ATATGGGCAAGGCCCAATATATCTAAACTTGTAATAGGGCTACCGCCCAAATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTAAACTTGTAATAGGGCTACCGCCCAAATTAATACTG
* * ** * *
41272913 ATATGGGCTAGGCCCAATATACTCTGATAC-TGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATA-TCT-AAACTTGTAATAGGGCTACCGCCCAAATTAATACTG
41272973 -TATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
41272989 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 8 0.12
60 46 0.71
61 8 0.12
62 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTAAACTTGTAATAGGGCTACCGCCCAAATTAATACTG
Found at i:41274506 original size:17 final size:17
Alignment explanation
Indices: 41274484--41274520 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
41274474 GGGCTCAATG
*
41274484 GCCAGGTCGTGTGAGAT
1 GCCAGGTCATGTGAGAT
*
41274501 GCCAGGTCATGTGGGAT
1 GCCAGGTCATGTGAGAT
41274518 GCC
1 GCC
41274521 CGTGTGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.41, T:0.22
Consensus pattern (17 bp):
GCCAGGTCATGTGAGAT
Found at i:41277133 original size:28 final size:28
Alignment explanation
Indices: 41277087--41277155 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
41277077 TTTAAAACCC
*
41277087 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41277114 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41277142 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
41277156 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:41278807 original size:20 final size:20
Alignment explanation
Indices: 41278784--41278821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41278774 CACATCCAAA
*
41278784 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
41278804 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
41278822 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:41285768 original size:30 final size:30
Alignment explanation
Indices: 41285713--41285843 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
41285703 ATAGTGAATC
*
41285713 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
41285742 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
41285772 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
41285800 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
41285830 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41285844 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:41285823 original size:58 final size:58
Alignment explanation
Indices: 41285712--41285843 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
41285702 TATAGTGAAT
* * * * *
41285712 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
41285771 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
41285829 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
41285844 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:41291115 original size:40 final size:38
Alignment explanation
Indices: 41291066--41291172 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 38
41291056 ATCACGATTT
*
41291066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41291106 GCACGAATGCCTTC-GGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41291145 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41291173 TTATAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.02
38 4 0.07
39 29 0.49
40 25 0.42
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41291156 original size:39 final size:39
Alignment explanation
Indices: 41291066--41291215 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
41291056 ATCACGATTT
*
41291066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
41291106 GCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
41291145 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
41291185 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
41291216 TCATTCAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 29 0.33
40 54 0.61
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:41299195 original size:80 final size:80
Alignment explanation
Indices: 41299111--41299259 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41299101 TATGGTAACC
* * * *
41299111 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41299175 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41299191 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41299256 CCGG
66 CCGG
41299260 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41299201 original size:40 final size:38
Alignment explanation
Indices: 41299152--41299259 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41299142 ATCACGATTT
*
41299152 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41299192 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41299232 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41299260 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41301174 original size:257 final size:256
Alignment explanation
Indices: 41300719--41301232 Score: 730
Period size: 257 Copynumber: 2.0 Consensus size: 256
41300709 AAAAGGGGGA
** * *
41300719 ATTTGACATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGTCATCACACATTTCCCTATCA
1 ATTTGACATGCAAAACCATTATTTTGCATGCATGATTCAATTAGTCATCACACATTTCCCTATCA
* * * *
41300784 TACTTTCAAAGTTCATTACTAGTCCTTTCTTGTGGAATTCACCCTTATAACACTAAATCAATCAT
66 TACTTTCAAAGTTCACTACTAGTCCTTTCTTGTGAAATTCACACTTATAACACTAAATCAAACAT
* * * *
41300849 CATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTTAATTATTTTTA
131 CATAAAATGTCACACACGAGCACACACATATTATAGGCATCAAAATAAATATTAAATTATTTTTA
* * * *
41300914 TGCCTCGGTTTTGTGGTCCCGAGACCACATTCCGACTAGGGTCAATTTT-GGGCTGTCACAT
196 TGCCTCAGTTTTGTGGTCCCGAAACCACATTCCGACTAAGGTC-ATTTTAAGGCTGTCACAT
* * *
41300975 ATTTGACATGCAAAACCATTGTTTTGCATGCATGATTCATTTAGTCATCACACATTTCCCTATCC
1 ATTTGACATGCAAAACCATTATTTTGCATGCATGATTCAATTAGTCATCACACATTTCCCTATCA
* * *
41301040 TACTTTCAAAGTTTACTACTAGGTCCTTT-TTAGTGAAATTCACATTTATAACTCTAAATCAAAA
66 TACTTTCAAAGTTCACTACTA-GTCCTTTCTT-GTGAAATTCACACTTATAACACTAAATC-AAA
** *
41301104 CATCA-AAAATGTCACACACGAATTA-ACACATATTATAGGCATCAAAATGAATATTAAATTATT
128 CATCATAAAATGTCACACACG-AGCACACACATATTATAGGCATCAAAATAAATATTAAATTATT
41301167 TTTATGCCTCAGTTTTGTGGTCCCGAAACCACATTCCGACTAAGGTCATTTTAAGGCTGTCACAT
192 TTTATGCCTCAGTTTTGTGGTCCCGAAACCACATTCCGACTAAGGTCATTTTAAGGCTGTCACAT
41301232 A
1 A
41301233 CTATTGAGCT
Statistics
Matches: 228, Mismatches: 25, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
256 84 0.37
257 135 0.59
258 9 0.04
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (256 bp):
ATTTGACATGCAAAACCATTATTTTGCATGCATGATTCAATTAGTCATCACACATTTCCCTATCA
TACTTTCAAAGTTCACTACTAGTCCTTTCTTGTGAAATTCACACTTATAACACTAAATCAAACAT
CATAAAATGTCACACACGAGCACACACATATTATAGGCATCAAAATAAATATTAAATTATTTTTA
TGCCTCAGTTTTGTGGTCCCGAAACCACATTCCGACTAAGGTCATTTTAAGGCTGTCACAT
Found at i:41310674 original size:40 final size:40
Alignment explanation
Indices: 41310526--41310650 Score: 223
Period size: 40 Copynumber: 3.1 Consensus size: 40
41310516 CTCGATATAT
41310526 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
41310566 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
41310606 TATATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
41310646 TATAT
1 TATAT
41310651 CTGGGCTTAA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:41313277 original size:24 final size:24
Alignment explanation
Indices: 41313205--41313364 Score: 171
Period size: 24 Copynumber: 6.7 Consensus size: 24
41313195 CCATGTTAGC
*
41313205 CCGCACACATAGTGCCTTAGC-AAT
1 CCGCACACATAGTGCCATA-CAAAT
* * * * * * *
41313229 TCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAAT
* *
41313253 CCGCACGCATAGTGCCATATAAAT
1 CCGCACACATAGTGCCATACAAAT
*
41313277 CCGCACA-ATAGTGCCATACAATT
1 CCGCACACATAGTGCCATACAAAT
*
41313300 CCGCACACATAGTGCCATACAAGT
1 CCGCACACATAGTGCCATACAAAT
* *
41313324 CTGCACACATAGTGCCATACAAGT
1 CCGCACACATAGTGCCATACAAAT
41313348 CCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
41313365 AAGTCATTTC
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
23 22 0.20
24 90 0.80
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.21
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:41315000 original size:35 final size:35
Alignment explanation
Indices: 41314961--41315031 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
41314951 TGTTAGGTTG
41314961 TTGACCAAATAGAGGTGTTCATTTTGTCAAAAATT
1 TTGACCAAATAGAGGTGTTCATTTTGTCAAAAATT
*
41314996 TTGACCGAATAGAGGTGTTCATTTTGTCAAAAATT
1 TTGACCAAATAGAGGTGTTCATTTTGTCAAAAATT
41315031 T
1 T
41315032 CGGTCATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (35 bp):
TTGACCAAATAGAGGTGTTCATTTTGTCAAAAATT
Found at i:41315841 original size:16 final size:16
Alignment explanation
Indices: 41315816--41315851 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41315806 GTGAACGGTG
* *
41315816 AAAGCTAAAAAGTCGA
1 AAAGCCAAAAAGTCAA
41315832 AAAGCCAAAAAGTCAA
1 AAAGCCAAAAAGTCAA
41315848 AAAG
1 AAAG
41315852 TGGACTGTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.14, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAGCCAAAAAGTCAA
Done.