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 146 of 318
Found at i:44681327 original size:40 final size:40
Alignment explanation
Indices: 44681219--44681428 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44681209 CGGGATTTAA
* * * * *
44681219 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44681259 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44681299 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44681339 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44681379 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44681419 CCGGATATAT
1 CCGGATATAT
44681429 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44684548 original size:15 final size:16
Alignment explanation
Indices: 44684521--44684550 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44684511 TGACATGAAG
44684521 TGTGAGTAAAGTACGT
1 TGTGAGTAAAGTACGT
44684537 TGTGAG-AAAGTACG
1 TGTGAGTAAAGTACG
44684551 ATGCTATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (16 bp):
TGTGAGTAAAGTACGT
Found at i:44686657 original size:28 final size:28
Alignment explanation
Indices: 44686625--44686681 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
44686615 ACAAAAGTTA
44686625 AATGCTATAGATTTAAAATACTAAAAGG
1 AATGCTATAGATTTAAAATACTAAAAGG
*
44686653 AATGCTATAGATTTAAAATACTCAAAGG
1 AATGCTATAGATTTAAAATACTAAAAGG
44686681 A
1 A
44686682 CTAAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (28 bp):
AATGCTATAGATTTAAAATACTAAAAGG
Found at i:44687409 original size:16 final size:16
Alignment explanation
Indices: 44687388--44687424 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
44687378 GGTCCCAAAC
*
44687388 AATTCTTTTATGATTG
1 AATTCTTTTATGATGG
44687404 AATTCTTTTATGATGG
1 AATTCTTTTATGATGG
44687420 AATTC
1 AATTC
44687425 ATGAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (16 bp):
AATTCTTTTATGATGG
Found at i:44695419 original size:20 final size:20
Alignment explanation
Indices: 44695394--44695444 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
44695384 TACCCACGGG
*
44695394 CAGGCCACACGGTCAAGT-T
1 CAGGCCACACGGGCAAGTCT
*
44695413 CCAGGCCACACGGGCATGTCT
1 -CAGGCCACACGGGCAAGTCT
44695434 CAGGCCACACG
1 CAGGCCACACG
44695445 AGCGTGTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.37, G:0.27, T:0.12
Consensus pattern (20 bp):
CAGGCCACACGGGCAAGTCT
Found at i:44698564 original size:31 final size:32
Alignment explanation
Indices: 44698526--44698586 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
44698516 TGATAAAATA
*
44698526 ATGATTTTA-CCTCATAGGGTAAAATGACTAT
1 ATGATTTTACCCTCATAGAGTAAAATGACTAT
44698557 ATGATTTTACCCTCATAGAGTAAAATGACT
1 ATGATTTTACCCTCATAGAGTAAAATGACT
44698587 GTAATACCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (32 bp):
ATGATTTTACCCTCATAGAGTAAAATGACTAT
Found at i:44698594 original size:27 final size:25
Alignment explanation
Indices: 44698564--44698668 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 25
44698554 TATATGATTT
44698564 TACCCTCATAGAGTAAAATGACTGTAA
1 TACCC-CATAG-GTAAAATGACTGTAA
*
44698591 TACCCCCATATGGTAAAATGATTGTAA
1 TA-CCCCATA-GGTAAAATGACTGTAA
* *
44698618 TACCCCTGTAGGGTAAAATGACTATAA
1 TACCCC-ATA-GGTAAAATGACTGTAA
* *
44698645 TACCCCTGTAAGGTAAAACGACTG
1 TACCCC-AT-AGGTAAAATGACTG
44698669 ATTTGCTCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 4 0.06
27 58 0.87
28 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (25 bp):
TACCCCATAGGTAAAATGACTGTAA
Found at i:44704303 original size:46 final size:45
Alignment explanation
Indices: 44704205--44704305 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
44704195 AGCCCTTTTT
*
44704205 AGTAACAGAACAATGTGGGCCTTAGCCTAATACAGCAACAGAATC
1 AGTAACAGAACAATGTGGGCCTGAGCCTAATACAGCAACAGAATC
** * ** *
44704250 AAAAACAGAGTAC-ATGTGGGCCTGAGCCTATTACAGTGACAGTATC
1 AGTAACAGA--ACAATGTGGGCCTGAGCCTAATACAGCAACAGAATC
44704296 AGTAACAGAA
1 AGTAACAGAA
44704306 ATGCAACAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
44 1 0.02
45 7 0.16
46 35 0.78
47 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.19
Consensus pattern (45 bp):
AGTAACAGAACAATGTGGGCCTGAGCCTAATACAGCAACAGAATC
Found at i:44704513 original size:31 final size:31
Alignment explanation
Indices: 44704475--44704535 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
44704465 ACCAGCTTAC
* * *
44704475 AGCCATCAGTAGCGGTAATTTGATCGGCACA
1 AGCCATCAGTAACGGTAATATGACCGGCACA
*
44704506 AGCCATCAGTAACTGTAATATGACCGGCAC
1 AGCCATCAGTAACGGTAATATGACCGGCAC
44704536 GCAGCCATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (31 bp):
AGCCATCAGTAACGGTAATATGACCGGCACA
Found at i:44705069 original size:54 final size:54
Alignment explanation
Indices: 44705011--44705329 Score: 176
Period size: 53 Copynumber: 5.9 Consensus size: 54
44705001 TTCCTTATAG
* *
44705011 GGGTATTTTAGTAATTTTACACTAGAAGGATATTTTGGTAATTTTACACTAC-AA
1 GGGTATTTTAGTAATTTTACACTACAAGGATATTTTGGTAATTTTACA-AACGAA
* * * *** *
44705065 GGGTA-TTTCGTTAATTTTACCCTACAAGGGTATTTCAATTAATTTTACAAACGAG
1 GGGTATTTTAG-TAATTTTACACTACAAGGATATTT-TGGTAATTTTACAAACGAA
** * ** *
44705120 GGGTATTTCGGTAATTTTACA-AATC-AGGAGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTAGTAATTTTACACTA-CAAGGA-TATTTTGGTAATTTTACAAACGAA
* * * * * *
44705174 GGGTA-TTTGGTAATTTTACA-AATCAGGGGA-ATTTCGATAATTTTACAAACTG-G
1 GGGTATTTTAGTAATTTTACACTA-CA-AGGATATTTTGGTAATTTTACAAAC-GAA
* * * * *
44705227 GGGTATTTTGGTAATTTTACA-AACGAGGGTATTTTAGTAATTTTACAAATCG--
1 GGGTATTTTAGTAATTTTACACTACAAGGATATTTTGGTAATTTTACAAA-CGAA
** * * * *
44705279 GGGTATTTCGGTAATTTTACA-AACCAGGAGTATTTTTGTAATTTTCCAAAC
1 GGGTATTTTAGTAATTTTACACTACAAGGA-TATTTTGGTAATTTTACAAAC
44705330 CGGGGTCTTA
Statistics
Matches: 216, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
52 29 0.13
53 81 0.38
54 69 0.32
55 34 0.16
56 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACACTACAAGGATATTTTGGTAATTTTACAAACGAA
Found at i:44705222 original size:80 final size:79
Alignment explanation
Indices: 44705011--44705329 Score: 317
Period size: 80 Copynumber: 4.0 Consensus size: 79
44705001 TTCCTTATAG
* * * *
44705011 GGGTATTTTAGTAATTTTAC-ACT-AGAAGGATATTTTGGTAATTTTACACTACAAGG-GTATTT
1 GGGTATTTTAGTAATTTTACAAATCAG--GGGTATTTCGGTAATTTTACA-AAC-AGGAGTATTT
* * ** *
44705073 CGTTAATTTTACCCTACAA
62 TGGTAATTTTA-CAAACGA
* *
44705092 GGGTATTTCAATTAATTTTACAAA-CGAGGGGTATTTCGGTAATTTTACAAATCAGGAGTATTTT
1 GGGTATTT-TAGTAATTTTACAAATC-AGGGGTATTTCGGTAATTTTACAAA-CAGGAGTATTTT
**
44705156 GGTAATTTTACAAATTA
63 GGTAATTTTACAAACGA
* * * * *
44705173 GGGGTA-TTTGGTAATTTTACAAATCAGGGGAATTTCGATAATTTTACAAACTGGGGGTATTTTG
1 -GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAAC-AGGAGTATTTTG
44705237 GTAATTTTACAAACGA
64 GTAATTTTACAAACGA
*
44705253 GGGTATTTTAGTAATTTTACAAATC-GGGGTATTTCGGTAATTTTACAAACCAGGAGTATTTTTG
1 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAA-CAGGAGTATTTTGG
*
44705317 TAATTTTCCAAAC
65 TAATTTTACAAAC
44705330 CGGGGTCTTA
Statistics
Matches: 199, Mismatches: 28, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
79 50 0.25
80 78 0.39
81 18 0.09
82 50 0.25
83 1 0.01
84 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (79 bp):
GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAACAGGAGTATTTTGGT
AATTTTACAAACGA
Found at i:44705312 original size:53 final size:52
Alignment explanation
Indices: 44705065--44705335 Score: 276
Period size: 53 Copynumber: 5.1 Consensus size: 52
44705055 TACACTACAA
* ** * * *
44705065 GGGTATTTCGTTAATTTTACCCTACAAGGGTATTTCAATTAATTTTACAAA-CGAG
1 GGGTATTTCGGTAATTTTA-CAAACCAGGGTATTT-TAGTAATTTTACAAATC--G
* * *
44705120 GGGTATTTCGGTAATTTTACAAATCAGGAGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTCGGTAATTTTACAAACCAGG-GTATTTTAGTAATTTTACAAA-TCG
* * * * *
44705174 GGGTATTT-GGTAATTTTACAAATCAGGGGAATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAG-TAATTTTACAAA-TCG
* *
44705227 GGGTATTTTGGTAATTTTACAAACGAGGGTATTTTAGTAATTTTACAAATCG
1 GGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAGTAATTTTACAAATCG
* * *
44705279 GGGTATTTCGGTAATTTTACAAACCAGGAGTATTTTTGTAATTTTCCAAACCG
1 GGGTATTTCGGTAATTTTACAAACCAGG-GTATTTTAGTAATTTTACAAATCG
44705332 GGGT
1 GGGT
44705336 CTTAACGACC
Statistics
Matches: 185, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
52 34 0.18
53 78 0.42
54 49 0.26
55 24 0.13
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (52 bp):
GGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAGTAATTTTACAAATCG
Found at i:44705319 original size:27 final size:27
Alignment explanation
Indices: 44705009--44705335 Score: 265
Period size: 27 Copynumber: 12.2 Consensus size: 27
44704999 TTTTCCTTAT
* *
44705009 AGGGGTATTTTAGTAATTTTAC--ACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
44705034 AGAAGGATATTTTGGTAATTTTACACTA-C
1 AG--GGGTATTTTGGTAATTTTACA-AACC
* * * **
44705063 AAGGGTATTTCGTTAATTTTACCCTA-C
1 AGGGGTATTTTGGTAATTTTA-CAAACC
* *** *
44705090 AAGGGTATTTCAATTAATTTTACAAACG
1 AGGGGTATTT-TGGTAATTTTACAAACC
* *
44705118 AGGGGTATTTCGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
44705145 AGGAGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
44705172 AGGGGTA-TTTGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * *
44705198 AGGGGAATTTCGATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
44705225 GGGGGTATTTTGGTAATTTTACAAACG
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
44705252 A-GGGTATTTTAGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
44705278 -GGGGTATTTCGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
44705304 AGGAGTATTTTTGTAATTTTCCAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
44705331 -GGGGT
1 AGGGGT
44705336 CTTAACGACC
Statistics
Matches: 245, Mismatches: 46, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 72 0.29
27 150 0.61
28 19 0.08
29 1 0.00
30 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:44709601 original size:6 final size:6
Alignment explanation
Indices: 44709592--44709635 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
44709582 TATTAGAACT
*
44709592 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC A
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC A
44709636 AAATAAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 28 0.85
7 3 0.09
8 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (6 bp):
AGAATC
Found at i:44709628 original size:31 final size:31
Alignment explanation
Indices: 44709592--44709670 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
44709582 TATTAGAACT
* *
44709592 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATAAGAATCAGGTAAC
* *
44709623 AGAATCAGAATCAAAATAAGTATCAGGTAAC
1 AGAATCAGAATCAGAATAAGAATCAGGTAAC
* *
44709654 AGAATCAAAATTAGAAT
1 AGAATCAGAATCAGAAT
44709671 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATAAGAATCAGGTAAC
Found at i:44709935 original size:27 final size:26
Alignment explanation
Indices: 44709887--44709938 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44709877 GCGAGGCTGC
*
44709887 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
44709913 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
44709939 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:44710206 original size:27 final size:27
Alignment explanation
Indices: 44710176--44710516 Score: 416
Period size: 27 Copynumber: 12.6 Consensus size: 27
44710166 ACACCCTAGA
** * *
44710176 GGTAAAATGGTAATGTTATAAATCAAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
44710203 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* *
44710230 GGTAAAACAGTAATTTTGTAAATTGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* *
44710257 GGTAAAACAGTAATTTTGTAAATTGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * * *
44710284 GGTAAAATAGTAATTCTGTTAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
** *
44710311 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
*
44710338 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
*
44710365 GGTAAAACAGTAATTTTATAAATCAAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
44710392 GGTAAAACAATAATTCTATAAATCGAT
1 GGTAAAACAGTAATTTTATAAATCGAG
*
44710419 GGTAAAAC-GTTAATTTTGTAAATCGAG
1 GGTAAAACAG-TAATTTTATAAATCGAG
*
44710446 GGTAAAAC-GATAATTTTATAAATTGAG
1 GGTAAAACAG-TAATTTTATAAATCGAG
*
44710473 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
44710500 GGTAAAACAGTAATTTT
1 GGTAAAACAGTAATTTT
44710517 TGTAATACAG
Statistics
Matches: 277, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
27 276 1.00
28 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (27 bp):
GGTAAAACAGTAATTTTATAAATCGAG
Found at i:44710565 original size:54 final size:52
Alignment explanation
Indices: 44710482--44710682 Score: 181
Period size: 54 Copynumber: 3.8 Consensus size: 52
44710472 GGGTAAAACA
* * ***
44710482 GTAATTCTATAAATCGAGGGTAAAACAGTAATTTTTGTAATACAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAA-TTTTGTAA-ACAGGGTACTTTG
* ** *
44710536 ATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTA-TTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAAC--AGGGTACTTT-G
* ** * *
44710590 GTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAA-CAGGGTACTTTG
* * *
44710643 GTAATTTTACAACT-GGGGGTATTTCAGTAATTTGGTAAAC
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAAC
44710683 TAAAGTATTC
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
51 1 0.01
52 21 0.18
53 29 0.25
54 65 0.56
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (52 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAACAGGGTACTTTG
Found at i:44710581 original size:27 final size:27
Alignment explanation
Indices: 44710551--44710675 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
44710541 TTTACATGTC
* *
44710551 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTACAAACT
44710578 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
* * * *
44710604 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
44710632 G-GGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
* *
44710657 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
44710676 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
25 7 0.08
26 27 0.33
27 49 0.59
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:44710661 original size:26 final size:26
Alignment explanation
Indices: 44710537--44710675 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 26
44710527 GGTACTTTGA
** *
44710537 TAATTTTACATGTCGAGGGTATTTCAG
1 TAATTTTACAACT-GAGGGTATTTCGG
*
44710564 TAATTTTGCAAACTGAGGGTATTTCGG
1 TAATTTTAC-AACTGAGGGTATTTCGG
* * *
44710591 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAACT-GAGGGTATTTCGG
* *
44710618 TAATTTTATAAACCG-GGGTACTTT-GG
1 TAATTTTA-CAACTGAGGGTA-TTTCGG
* *
44710644 TAATTTTACAACTGGGGGTATTTCAG
1 TAATTTTACAACTGAGGGTATTTCGG
44710670 TAATTT
1 TAATTT
44710676 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.08
26 29 0.32
27 51 0.56
28 4 0.04
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (26 bp):
TAATTTTACAACTGAGGGTATTTCGG
Found at i:44712515 original size:13 final size:14
Alignment explanation
Indices: 44712473--44712517 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
44712463 TAATAATGAT
44712473 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
44712488 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
44712501 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
44712514 TAAA
1 TAAA
44712518 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:44712897 original size:41 final size:41
Alignment explanation
Indices: 44712852--44712934 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
44712842 TATTAGGGAT
44712852 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTGTAAA
1 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTGTAAA
*
44712893 TGAATTGAGAAGATGTTTTAATTAGTGTTTTATGCTGTAAA
1 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTGTAAA
44712934 T
1 T
44712935 TTAAGAGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (41 bp):
TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTGTAAA
Found at i:44714358 original size:20 final size:20
Alignment explanation
Indices: 44714333--44714383 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
44714323 GGCCTGGCCC
44714333 CACGGGCATGTCCCAAGCCA
1 CACGGGCATGTCCCAAGCCA
*
44714353 CACGGGCATGTCCCAGGCCA
1 CACGGGCATGTCCCAAGCCA
44714373 CACGGGCATGT
1 CACGGGCATGT
44714384 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (20 bp):
CACGGGCATGTCCCAAGCCA
Found at i:44722357 original size:24 final size:24
Alignment explanation
Indices: 44722327--44722470 Score: 243
Period size: 24 Copynumber: 6.0 Consensus size: 24
44722317 GAATGTGACT
* *
44722327 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
44722351 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44722375 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44722399 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44722423 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44722447 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44722471 TGTGACAGCC
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 116 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:44724321 original size:24 final size:24
Alignment explanation
Indices: 44724077--44724313 Score: 411
Period size: 24 Copynumber: 9.9 Consensus size: 24
44724067 GCAAAGACCA
44724077 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
44724101 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
44724125 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
* *
44724149 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
44724173 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
44724197 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
44724221 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
44724245 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
44724269 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
44724293 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
44724314 TGCTATAGTC
Statistics
Matches: 206, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 206 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:44725701 original size:24 final size:24
Alignment explanation
Indices: 44725669--44725821 Score: 288
Period size: 24 Copynumber: 6.4 Consensus size: 24
44725659 GGGGTGTTAC
*
44725669 AGTGCCATAGTAAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
*
44725693 AGTGCCATAGTAAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
44725717 AGTGCCATAGTGAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
44725741 AGTGCCATAGTGAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
44725765 AGTGCCATAGTGAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
44725789 AGTGCCATAGTGAATCGCACACAT
1 AGTGCCATAGTGAATCGCACACAT
44725813 AGTGCCATA
1 AGTGCCATA
44725822 TGGTCTTTGC
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 128 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (24 bp):
AGTGCCATAGTGAATCGCACACAT
Found at i:44728068 original size:20 final size:20
Alignment explanation
Indices: 44728043--44728083 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44728033 GCCCTATGAC
44728043 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
* *
44728063 CATGTCCCAGGCCACATGGG
1 CATGTCCCAAGCCACACGGG
44728083 C
1 C
44728084 GTGTGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.39, G:0.27, T:0.12
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:44729465 original size:26 final size:26
Alignment explanation
Indices: 44729429--44729479 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
44729419 TGATCGGGTC
* *
44729429 GGGTGTTACAAGTTAAGTTGTATCAA
1 GGGTGTTACAAGTTAAATGGTATCAA
44729455 GGGTGTTACAAGTTAAATGGTATCA
1 GGGTGTTACAAGTTAAATGGTATCA
44729480 GGGAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33
Consensus pattern (26 bp):
GGGTGTTACAAGTTAAATGGTATCAA
Found at i:44732870 original size:44 final size:44
Alignment explanation
Indices: 44732801--44732932 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 44
44732791 TAATACATGT
44732801 CTGGGACATGCATCGGCCTCA--AGATGTAAGCTAGTGTAAGATGG
1 CTGGGACATGCATCGG-CT-ATGAGATGTAAGCTAGTGTAAGATGG
* * *
44732845 CTGGGACATGCGTCGGCTATGAGATGTTAG-TCAGTGTAAGTCCATGT
1 CTGGGACATGCATCGGCTATGAGATGTAAGCT-AGTGTAAG---ATGG
* * *
44732892 CTAGGACATGGCTTCGGCT-TGAGATGTAAGCCAGTGTAAGA
1 CTGGGACAT-GCATCGGCTATGAGATGTAAGCTAGTGTAAGA
44732933 CCATGTCTGG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
42 1 0.01
43 3 0.04
44 32 0.44
47 29 0.40
48 8 0.11
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (44 bp):
CTGGGACATGCATCGGCTATGAGATGTAAGCTAGTGTAAGATGG
Found at i:44732915 original size:47 final size:48
Alignment explanation
Indices: 44732739--44732956 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 48
44732729 TGTAAGAGCT
* * * * * *
44732739 AGTGTAAGACCATGTCTGGGACACGACATCGGC-ATTGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-TGAGATGTA-AGCC
* * *
44732787 AGTGTAATA-CATGTCTGGGACAT-GCATCGGCCTCA--AGATGTAAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CT-ATGAGATGTAAGCC
* * * * *
44732833 AGTGTAAG---ATGGCTGGGACAT-GCGTCGGCTATGAGATGTTAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
* *
44732877 AGTGTAAGTCCATGTCTAGGACATGGCTTCGGCT-TGAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
* *
44732924 AGTGTAAGACCATGTCTGGGACACGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
44732957 ACCTTACCCC
Statistics
Matches: 140, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 34 0.24
46 20 0.14
47 66 0.47
48 16 0.11
49 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
Found at i:44741213 original size:18 final size:17
Alignment explanation
Indices: 44741185--44741219 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44741175 TTTAATTAAT
44741185 TAAAATAATAAAATAAA
1 TAAAATAATAAAATAAA
*
44741202 TAAAACTAATAAGATAAA
1 TAAAA-TAATAAAATAAA
44741220 AGTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAATAAAATAAA
Found at i:44743532 original size:18 final size:19
Alignment explanation
Indices: 44743505--44743551 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
44743495 TGTGACCCTA
*
44743505 TTTTCAAAATTTTTC-AAT
1 TTTTCTAAATTTTTCTAAT
*
44743523 TTTTCTAAATTTTTCTGAT
1 TTTTCTAAATTTTTCTAAT
44743542 TTCTTCTAAA
1 TT-TTCTAAA
44743552 ATGATCCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
20 7 0.28
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTCTAAATTTTTCTAAT
Found at i:44752634 original size:40 final size:40
Alignment explanation
Indices: 44752551--44752758 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
44752541 CGGGATTTAA
* * * * * *
44752551 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
44752591 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
44752631 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
44752671 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
44752711 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
44752751 CCGGATAT
1 CCGGATAT
44752759 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44752671 original size:80 final size:80
Alignment explanation
Indices: 44752577--44752758 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
44752567 GCTCGATTGT
* * *** * * * **
44752577 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
44752642 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
44752657 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
44752722 TACTAGCATAATTGC
66 AACTAGCACAAATGC
44752737 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44752759 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:44757171 original size:29 final size:28
Alignment explanation
Indices: 44757139--44757241 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
44757129 GTGACGAGAT
* *
44757139 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
44757168 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* **
44757197 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
44757226 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
44757242 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:44762043 original size:29 final size:28
Alignment explanation
Indices: 44762011--44762113 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
44762001 GTGACGAGAT
* *
44762011 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
44762040 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* **
44762069 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
44762098 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
44762114 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:44768700 original size:40 final size:40
Alignment explanation
Indices: 44768617--44768824 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 40
44768607 CGGGATTTAA
* * * * * * *
44768617 CCGGATATAGCGACTCGCTCGATTGTCTTCAGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
44768657 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
44768697 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
44768737 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
44768777 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
44768817 CCGGATAT
1 CCGGATAT
44768825 CATTCCAATG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 136 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44768755 original size:80 final size:80
Alignment explanation
Indices: 44768671--44768824 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
44768661 TTATAGTGAT
* * ** * *
44768671 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
44768736 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
44768751 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
44768816 CCCGGATAT
66 CCCGGATAT
44768825 CATTCCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:44777742 original size:20 final size:20
Alignment explanation
Indices: 44777719--44777756 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44777709 CACATCCAAA
*
44777719 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
44777739 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
44777757 GCGAATAAAT
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:44781047 original size:40 final size:40
Alignment explanation
Indices: 44780963--44781147 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
44780953 TCGAATGATG
* *
44780963 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
44781002 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44781043 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44781082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44781121 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44781148 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44781099 original size:79 final size:81
Alignment explanation
Indices: 44780963--44781145 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
44780953 TCGAATGATG
* *
44780963 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
44781027 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
44781042 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
44781104 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
44781122 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44781146 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:44781169 original size:79 final size:78
Alignment explanation
Indices: 44780964--44781180 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
44780954 CGAATGATGT
* *
44780964 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
44781027 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
44781044 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
44781107 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
44781123 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
44781181 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:44789075 original size:40 final size:40
Alignment explanation
Indices: 44788991--44789175 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
44788981 TCGAATGATG
* *
44788991 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
44789030 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44789071 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44789110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44789149 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44789176 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44789127 original size:79 final size:81
Alignment explanation
Indices: 44788991--44789173 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
44788981 TCGAATGATG
* *
44788991 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
44789055 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
44789070 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
44789132 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
44789150 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44789174 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:44789197 original size:79 final size:78
Alignment explanation
Indices: 44788992--44789208 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
44788982 CGAATGATGT
* *
44788992 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
44789055 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
44789072 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
44789135 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
44789151 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
44789209 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:44795551 original size:42 final size:42
Alignment explanation
Indices: 44795494--44795598 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
44795484 AAGGTTATTA
* * *
44795494 AGACTACGTGGAAGACCATATTTGGGATATGACATC-AGTATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGACATCGA-TATG
*
44795536 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGACATCGATATG
*
44795578 AGATTTCGTGTAAGACCATAT
1 AGACTTCGTGTAAGACCATAT
44795599 GTAACACCCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGGGATATGACATCGATATG
Found at i:44795870 original size:18 final size:19
Alignment explanation
Indices: 44795847--44795892 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
44795837 AAGAGTCACT
44795847 CGCCCGTGTGG-TCACACA
1 CGCCCGTGTGGCTCACACA
*
44795865 CGCCCGTGTGGCTCAGACA
1 CGCCCGTGTGGCTCACACA
44795884 CGCCCGTGT
1 CGCCCGTGT
44795893 CCTCAGCCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.13, C:0.39, G:0.30, T:0.17
Consensus pattern (19 bp):
CGCCCGTGTGGCTCACACA
Found at i:44807976 original size:40 final size:39
Alignment explanation
Indices: 44807915--44808205 Score: 399
Period size: 40 Copynumber: 7.3 Consensus size: 39
44807905 ATTCGGATTG
*
44807915 ATAACTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACT
*
44807954 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
*
44807994 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACT
* * *
44808034 ATAACTGGGCTAAGTCCCGAAAGCATTTTTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
*
44808074 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACT
*
44808114 ATAACCGGGCTAAGTCCCGAAGGCAATTGTCCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACT
*
44808154 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTA-CT
*
44808194 ATATCC-GGCTAA
1 ATAACCGGGCTAA
44808206 ACCCCAAAGG
Statistics
Matches: 228, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
39 22 0.10
40 202 0.89
41 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACT
Found at i:44808196 original size:120 final size:120
Alignment explanation
Indices: 44807915--44808201 Score: 461
Period size: 120 Copynumber: 2.4 Consensus size: 120
44807905 ATTCGGATTG
* *
44807915 ATAACTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCCGAAGGCA
* *
44807979 TTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
66 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTACT
* * *
44808034 ATAACTGGGCTAAGTCCCGAAAGCATTTTTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCCGAAGGCA
*
44808099 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTCCGAGTTACT
66 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTACT
* *
44808154 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
44808202 CTAAACCCCA
Statistics
Matches: 153, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
119 16 0.10
120 137 0.90
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (120 bp):
ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCCGAAGGCA
ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTACT
Found at i:44809746 original size:20 final size:20
Alignment explanation
Indices: 44809718--44809795 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
44809708 TGTGTTACAT
44809718 ATATCATGAACTCAGACCAC
1 ATATCATGAACTCAGACCAC
* ** *
44809738 ATCTCATGAGTTCAGATCAC
1 ATATCATGAACTCAGACCAC
*
44809758 GTATTTCATGAACTCAGACCAC
1 --ATATCATGAACTCAGACCAC
44809780 ATATCAT-AATCTCAGA
1 ATATCATGAA-CTCAGA
44809796 TGACGTAGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 28 0.61
22 16 0.35
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (20 bp):
ATATCATGAACTCAGACCAC
Found at i:44809795 original size:42 final size:42
Alignment explanation
Indices: 44809721--44809802 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
44809711 GTTACATATA
* *
44809721 TCATGAACTCAGACCACATCTCATGAGTTCAGATCACGTATT
1 TCATGAACTCAGACCACATATCATGAATTCAGATCACGTATT
*
44809763 TCATGAACTCAGACCACATATCAT-AATCTCAGATGACGTA
1 TCATGAACTCAGACCACATATCATGAAT-TCAGATCACGTA
44809803 GTTCCTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
TCATGAACTCAGACCACATATCATGAATTCAGATCACGTATT
Found at i:44817431 original size:28 final size:28
Alignment explanation
Indices: 44817370--44817467 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
44817360 TCACAAATTG
** * *
44817370 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
44817399 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
44817427 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
44817455 GCACTAAGTGTGC
1 GCACTAAGTGTGC
44817468 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:44830248 original size:25 final size:24
Alignment explanation
Indices: 44830207--44830269 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
44830197 GATTATGTAG
44830207 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
44830232 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
44830257 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
44830270 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:44831465 original size:29 final size:29
Alignment explanation
Indices: 44831432--44831496 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
44831422 GTGACGAGAT
*
44831432 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
44831461 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
44831490 CGGCACT
1 TGGCACT
44831497 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:44846909 original size:46 final size:45
Alignment explanation
Indices: 44846857--44847026 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 45
44846847 TGTAACCCGC
*
44846857 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * * *
44846903 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GGCTTCGCAT
* *** * * *
44846949 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
44846996 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
44847027 TTCAGATGCC
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 63 0.65
47 31 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:44857566 original size:16 final size:15
Alignment explanation
Indices: 44857492--44857566 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 15
44857482 AATATTTTAT
44857492 TAATATGAA-AATAA
1 TAATATGAATAATAA
* *
44857506 TAATGTGAATAATGA
1 TAATATGAATAATAA
* *
44857521 TATACATGAAAAAATATA
1 TA-ATATG-AATAATA-A
44857539 TAATA-G-ATAATAA
1 TAATATGAATAATAA
44857552 TAATATGAAATAATA
1 TAATATG-AATAATA
44857567 TACTGTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.13
14 14 0.30
15 6 0.13
16 10 0.22
17 7 0.15
18 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (15 bp):
TAATATGAATAATAA
Found at i:44861659 original size:33 final size:31
Alignment explanation
Indices: 44861585--44861666 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 31
44861575 AATACGAAAG
*
44861585 AAAAAAACTAGAAAA-ATAGAAAAATTAAAATT
1 AAAAAAA-TA-AAAATATATAAAAATTAAAATT
* *
44861617 AAAATAATAAAAGTATATAAAAATTTAAAATAT
1 AAAAAAATAAAAATATATAAAAA-TTAAAAT-T
44861650 AAAAAAATAAAAATATA
1 AAAAAAATAAAAATATA
44861667 AGTATAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 3 0.07
31 10 0.24
32 13 0.31
33 16 0.38
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (31 bp):
AAAAAAATAAAAATATATAAAAATTAAAATT
Found at i:44861666 original size:31 final size:29
Alignment explanation
Indices: 44861596--44861667 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 29
44861586 AAAAAACTAG
* *
44861596 AAAAATAGAAAAATTAAAATTAAAATAAT
1 AAAAATATAAAAATTAAAATTAAAAAAAT
44861625 AAAAGTATATAAAAATTTAAAATATAAAAAAAT
1 AAAA--ATATAAAAA-TTAAAAT-TAAAAAAAT
44861658 AAAAATATAA
1 AAAAATATAA
44861668 GTATAAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 4 0.11
31 14 0.38
32 7 0.19
33 12 0.32
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAAATATAAAAATTAAAATTAAAAAAAT
Found at i:44862113 original size:30 final size:30
Alignment explanation
Indices: 44862077--44862158 Score: 148
Period size: 30 Copynumber: 2.7 Consensus size: 30
44862067 ATGTGAGATC
44862077 CCACACACCCGTGTGGCCAGGCCGTGTGCT
1 CCACACACCCGTGTGGCCAGGCCGTGTGCT
44862107 CCACACACCCGTGTGG-CACGGCCGTGTGCT
1 CCACACACCCGTGTGGCCA-GGCCGTGTGCT
44862137 CCACACACCCGTGTGGCCAGGC
1 CCACACACCCGTGTGGCCAGGC
44862159 TATGTGGGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.04
30 46 0.92
31 2 0.04
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGGCCGTGTGCT
Found at i:44862120 original size:17 final size:17
Alignment explanation
Indices: 44862098--44862151 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
44862088 TGTGGCCAGG
44862098 CCGTGTGCTCCACACAC
1 CCGTGTGCTCCACACAC
* **
44862115 CCGTGTG----GCACGG
1 CCGTGTGCTCCACACAC
44862128 CCGTGTGCTCCACACAC
1 CCGTGTGCTCCACACAC
44862145 CCGTGTG
1 CCGTGTG
44862152 GCCAGGCTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
13 10 0.37
17 17 0.63
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.19
Consensus pattern (17 bp):
CCGTGTGCTCCACACAC
Found at i:44866360 original size:49 final size:49
Alignment explanation
Indices: 44866290--44866451 Score: 283
Period size: 49 Copynumber: 3.3 Consensus size: 49
44866280 GCCCTTCGGA
*
44866290 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44866337 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44866386 CTTATCACATATATACACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44866435 CTTATCACATATATATA
1 CTTATCACATATATATA
44866452 TCTCATACAA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 10 0.09
48 1 0.01
49 98 0.90
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44869198 original size:55 final size:54
Alignment explanation
Indices: 44868996--44869250 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 54
44868986 ACACGGGTAC
* * * * * *
44868996 CTTACCATTGTCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
44869045 CTTACCATTTCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
44869098 CTCACCAATGTCATGCCTTGGCATAGTCTTACATGGGA-CCTTTGCCTTATAGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAA
* * * * *
44869152 GCTTATCAATGCCATGTCTTGACATGGTCTTAAATGATATCCTTGCCTTAGA-AA
1 -CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
44869206 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
44869251 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 35, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
49 36 0.22
52 3 0.02
53 40 0.25
54 12 0.07
55 68 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:44873475 original size:27 final size:28
Alignment explanation
Indices: 44873419--44873488 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
44873409 AAATTTGTAC
44873419 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
44873447 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
44873474 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44873489 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:44873499 original size:27 final size:27
Alignment explanation
Indices: 44873419--44873500 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
44873409 AAATTTGTAC
* *
44873419 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
44873447 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
44873474 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
44873501 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:44875523 original size:30 final size:28
Alignment explanation
Indices: 44875471--44875650 Score: 187
Period size: 30 Copynumber: 6.4 Consensus size: 28
44875461 AACCAAAATG
44875471 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCA-AAT-AGTAACAGAATC
44875501 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAA-A-TAGTAACAGAATC
*
44875531 AGAATCAGAAT----TAGGTGACAGAATC
1 AGAATCAGAATCAAATA-GTAACAGAATC
44875556 AGAATCAGAATC--A-A-TAACAGAATC
1 AGAATCAGAATCAAATAGTAACAGAATC
*
44875580 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCA--AATAGTAACAGAATC
*
44875610 AGAATCAGAATCAGAATACGTGACAGAATC
1 AGAATCAGAATCA-AATA-GTAACAGAATC
*
44875640 AGAACCAGAAT
1 AGAATCAGAAT
44875651 GTGAATGCAA
Statistics
Matches: 131, Mismatches: 7, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
24 23 0.18
25 21 0.16
26 1 0.01
29 5 0.04
30 80 0.61
31 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (28 bp):
AGAATCAGAATCAAATAGTAACAGAATC
Found at i:44875564 original size:79 final size:79
Alignment explanation
Indices: 44875471--44875620 Score: 282
Period size: 79 Copynumber: 1.9 Consensus size: 79
44875461 AACCAAAATG
*
44875471 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
44875536 CAGAATTAGGTGAC
66 CAGAATTAGGTGAC
*
44875550 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
44875615 CAGAAT
66 CAGAAT
44875621 CAGAATACGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATTAGGTGAC
Found at i:44875641 original size:24 final size:24
Alignment explanation
Indices: 44875471--44875626 Score: 172
Period size: 24 Copynumber: 6.2 Consensus size: 24
44875461 AACCAAAATG
44875471 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
44875495 AGAATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATC------AGTAAC
* *
44875525 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCA-GTAAC
*
44875550 AGAATCAGAATCAGAATCAATAAC
1 AGAATCAGAATCAGAATCAGTAAC
**
44875574 AGAATCAGAATCAGAATCAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
44875598 AGTAA-CAGAATCAGAATCAG-AATC
1 AG-AATCAGAATCAGAATCAGTAA-C
44875622 AGAAT
1 AGAAT
44875627 ACGTGACAGA
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
23 3 0.03
24 62 0.55
25 24 0.21
30 23 0.21
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:44875643 original size:6 final size:6
Alignment explanation
Indices: 44875471--44875626 Score: 153
Period size: 6 Copynumber: 25.8 Consensus size: 6
44875461 AACCAAAATG
*
44875471 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
44875519 AGTAA-C AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
44875568 A-ATAAC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
44875616 AGAATC AGAAT
1 AGAATC AGAAT
44875627 ACGTGACAGA
Statistics
Matches: 125, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
5 9 0.07
6 107 0.86
7 7 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:44875805 original size:27 final size:26
Alignment explanation
Indices: 44875768--44875833 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
44875758 AGCATGGCTG
*
44875768 CCAGAACAGATATCGTGAAAGAGTCA
1 CCAGAACAGATATCGTGAAAGAGCCA
* **
44875794 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGAAAGAGCCA
44875821 CCAGAATCAGATA
1 CCAGAA-CAGATA
44875834 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGAAAGAGCCA
Found at i:44875838 original size:27 final size:27
Alignment explanation
Indices: 44875787--44875841 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
44875777 ATATCGTGAA
* *
44875787 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
44875814 AGAGCCACCAGA-ATCAGATAATGTGGC
1 AGAGCCACCAGATA-CAGATAATGTGGC
44875841 A
1 A
44875842 AACCCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:44875848 original size:27 final size:27
Alignment explanation
Indices: 44875792--44875849 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
44875782 GTGAAAGAGT
* * *
44875792 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
44875819 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
44875846 CACC
1 CACC
44875850 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:44876054 original size:22 final size:22
Alignment explanation
Indices: 44876006--44876064 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
44875996 GTAAATACGT
*
44876006 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
44876028 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
44876050 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
44876065 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:44876191 original size:27 final size:26
Alignment explanation
Indices: 44876152--44876234 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
44876142 TCGATCGGTC
* *
44876152 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
44876178 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
44876205 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
44876232 AAC
1 AAC
44876235 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:44876282 original size:16 final size:16
Alignment explanation
Indices: 44876261--44876291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44876251 ATCCCAACCC
*
44876261 ATGCAGCATGTCATGT
1 ATGCAGAATGTCATGT
44876277 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
44876292 CCCATATTTG
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:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:44876554 original size:54 final size:54
Alignment explanation
Indices: 44876433--44876620 Score: 252
Period size: 54 Copynumber: 3.5 Consensus size: 54
44876423 GGGGCAAAAT
* * * **
44876433 GGTAATTTTACCCCACAAAGGTACCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
44876487 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * *
44876541 GGTAATTCTACCCTATAAGGGTATTT-TAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC
* *
44876595 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
44876621 TAGTAATTTC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
53 1 0.01
54 117 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:44876621 original size:54 final size:54
Alignment explanation
Indices: 44876462--44876628 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
44876452 GGTACCTCGA
* *
44876462 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTA-TTTCG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAG
* *
44876515 ATAATTCTACCCTACGGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAG
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAG
* * *
44876570 TAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAG
44876624 TAATT
1 TAATT
44876629 TCACAATCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 99 0.96
55 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAG
Found at i:44876628 original size:27 final size:27
Alignment explanation
Indices: 44876462--44876620 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
44876452 GGTACCTCGA
44876462 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
44876489 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
*
44876516 TAATTCTACCCTACGGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
44876543 TAATTCTACCCTATAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
44876570 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
44876597 AAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
44876621 TAGTAATTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:44876663 original size:27 final size:27
Alignment explanation
Indices: 44876633--44877260 Score: 723
Period size: 27 Copynumber: 23.3 Consensus size: 27
44876623 GTAATTTCAC
* * *
44876633 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
44876660 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44876687 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
44876714 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44876741 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44876768 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44876795 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
44876822 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
44876849 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
44876876 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
44876903 AATCGAGAGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
44876930 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
44876957 AATCGAGGGTAAAATAGTAAATCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
44876984 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
44877011 AATTGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44877038 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
44877065 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44877092 AA-CAGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
44877119 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44877146 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
44877173 AATTAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44877200 AATCGAGGGTAAAACAGTAATTCT-TCA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
44877227 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44877254 AATCGAG
1 AATCGAG
44877261 AGTACTTTGG
Statistics
Matches: 519, Mismatches: 68, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.02
27 503 0.97
28 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:44879288 original size:30 final size:30
Alignment explanation
Indices: 44879273--44879458 Score: 244
Period size: 30 Copynumber: 6.4 Consensus size: 30
44879263 AACCAAAATG
*
44879273 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
44879303 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
44879333 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
44879358 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
44879388 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
44879418 AGAATCAGAATCAGAA-TACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
44879448 AGAACCAGAAT
1 AGAATCAGAAT
44879459 GTGAATACAA
Statistics
Matches: 139, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 4 0.03
30 108 0.78
31 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:44879451 original size:6 final size:6
Alignment explanation
Indices: 44879273--44879434 Score: 174
Period size: 6 Copynumber: 26.8 Consensus size: 6
44879263 AACCAAAATG
*
44879273 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
44879321 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
44879370 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
44879418 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
44879435 ACGTGACAGA
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:44879613 original size:27 final size:26
Alignment explanation
Indices: 44879576--44879641 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
44879566 AGCATGGCTG
*
44879576 CCAGAACAGATATCGTGAAAGAGTCA
1 CCAGAACAGATATCGTGAAAGAGCCA
* **
44879602 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGAAAGAGCCA
44879629 CCAGAATCAGATA
1 CCAGAA-CAGATA
44879642 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGAAAGAGCCA
Found at i:44879646 original size:27 final size:27
Alignment explanation
Indices: 44879595--44879649 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
44879585 ATATCGTGAA
* *
44879595 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
44879622 AGAGCCACCAGA-ATCAGATAATGTGGC
1 AGAGCCACCAGATA-CAGATAATGTGGC
44879649 A
1 A
44879650 AACCCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:44879656 original size:27 final size:27
Alignment explanation
Indices: 44879600--44879657 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
44879590 GTGAAAGAGT
* * *
44879600 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
44879627 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
44879654 CACC
1 CACC
44879658 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:44879862 original size:22 final size:22
Alignment explanation
Indices: 44879814--44879872 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
44879804 GTAAATACGT
*
44879814 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
44879836 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
44879858 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
44879873 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:44880004 original size:27 final size:26
Alignment explanation
Indices: 44879960--44880043 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
44879950 TCGATCGGTC
* * *
44879960 AACAAATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
44879986 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
44880013 AACAGATATTTATGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
44880040 AACA
1 AACA
44880044 AAATCCCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:44880077 original size:16 final size:16
Alignment explanation
Indices: 44880056--44880086 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44880046 ATCCCAACCC
*
44880056 ATGCAGCATGTCATGT
1 ATGCAGAATGTCATGT
44880072 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
44880087 CCCATATTTG
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:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:44880340 original size:26 final size:27
Alignment explanation
Indices: 44880253--44880421 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
44880243 CAAAGGTACC
44880253 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
44880280 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
44880307 TCGATAATTCTACCCTAC-GGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
44880333 TCGGTAATTCTACCCTATAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
44880360 T-AGTAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
44880386 TTGGAAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
44880413 TCAGTAATT
1 TCGGTAATT
44880422 TCACAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 47 0.38
27 77 0.62
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:44880344 original size:53 final size:52
Alignment explanation
Indices: 44880228--44880421 Score: 235
Period size: 53 Copynumber: 3.6 Consensus size: 52
44880218 GGGGCAAAAT
* * * **
44880228 GGTAATTTTACCCCACAAAGGTACCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTAC-GGGGTATTTC
*
44880282 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACGGGGTATTTC
* * * *
44880335 GGTAATTCTACCCTATAAGGGTATTTAGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTA-CGGGGTATTTC
* *
44880388 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATT
44880422 TCACAATCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
52 13 0.11
53 68 0.56
54 41 0.34
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (52 bp):
GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTACGGGGTATTTC
Found at i:44881068 original size:27 final size:27
Alignment explanation
Indices: 44880426--44881051 Score: 780
Period size: 27 Copynumber: 23.2 Consensus size: 27
44880416 GTAATTTCAC
*
44880426 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
44880453 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
44880480 AA-CTGAGGGT-AAACTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
44880507 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880534 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880561 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880588 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
44880615 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880642 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
44880669 AATCGAGGGTAAAATGGTAATTTTGCA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
44880696 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
44880723 AATCAAGGGTAAAATAGTAAATCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44880750 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
44880777 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880804 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
44880831 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880858 AA-CTGAGGGTAAAACGGTAATTCTTTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
44880885 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
44880912 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
44880939 AATCAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
44880966 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44880993 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44881020 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
44881047 AATCG
1 AATCG
44881052 GGAGTACTTT
Statistics
Matches: 519, Mismatches: 66, Indels: 28
0.85 0.11 0.05
Matches are distributed among these distances:
26 10 0.02
27 499 0.96
28 10 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:44891027 original size:39 final size:39
Alignment explanation
Indices: 44890936--44891028 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
44890926 TAAAGACCCA
* *
44890936 CAGGCTATATGCTAGAATTATACCCGGACTTAAGGTCCG
1 CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
* *
44890975 CAGGCTATGTGCTGGAATTATAACTGGACTTAAGGTCCG
1 CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
*
44891014 CAGGCTACATGCTGG
1 CAGGCTATATGCTGG
44891029 GAATATGTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
Found at i:44895383 original size:28 final size:28
Alignment explanation
Indices: 44895314--44895414 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44895304 GACAAGATTG
* * * *
44895314 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44895344 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44895372 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44895401 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44895415 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44903333 original size:28 final size:28
Alignment explanation
Indices: 44903264--44903364 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44903254 GACAAGATTG
* * * *
44903264 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44903294 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44903322 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44903351 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44903365 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44907892 original size:18 final size:18
Alignment explanation
Indices: 44907869--44907914 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
44907859 ATATTTTTCG
* *
44907869 AAAACCTTGTTTTCATTA
1 AAAACCTTGTTTACAATA
*
44907887 AAAACCCTTCTTTACAATA
1 AAAA-CCTTGTTTACAATA
44907906 AAAACCTTG
1 AAAACCTTG
44907915 AGTAAAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAACCTTGTTTACAATA
Found at i:44910705 original size:37 final size:37
Alignment explanation
Indices: 44910652--44910742 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
44910642 TATAAAAGAA
44910652 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44910689 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44910726 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44910743 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44910893 original size:49 final size:49
Alignment explanation
Indices: 44910838--44911149 Score: 536
Period size: 49 Copynumber: 6.4 Consensus size: 49
44910828 TTTTACATTA
*
44910838 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
44910887 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
44910936 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
44910985 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
44911034 GCCATTA-GCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
44911082 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
44911131 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
44911150 CATATATGTA
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 46 0.18
49 207 0.82
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:44911124 original size:27 final size:27
Alignment explanation
Indices: 44911044--44911124 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
44911034 GCCATTAGCC
*
44911044 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
** *** *
44911071 TCATCAC--AT-CGGCCA-TTAGGC-C
1 TCATCACATATACATCCACTTTCACAT
44911093 TCATCACATATACATCCACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
44911120 TCATC
1 TCATC
44911125 GCATTGGCCA
Statistics
Matches: 36, Mismatches: 13, Indels: 10
0.61 0.22 0.17
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 5 0.14
25 6 0.17
26 3 0.08
27 12 0.33
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (27 bp):
TCATCACATATACATCCACTTTCACAT
Found at i:44913915 original size:40 final size:41
Alignment explanation
Indices: 44913871--44913969 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 41
44913861 TCGATTGTCC
* * * **
44913871 TCGGGACATAGCCTGG-TTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
44913911 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
44913952 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
44913970 ACCATTTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.02
40 18 0.37
41 30 0.61
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:44914489 original size:29 final size:29
Alignment explanation
Indices: 44914453--44914790 Score: 586
Period size: 29 Copynumber: 11.7 Consensus size: 29
44914443 TGTTGAAAAA
* *
44914453 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914482 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914511 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
44914540 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914569 CTCGCACACATGGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
* *
44914598 CTCGCACACATGGTGCATCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914627 CTCGCACACATGGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914656 CTCACACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
44914685 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
44914714 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
44914743 CTGGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
44914772 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
44914791 AATCATTCGC
Statistics
Matches: 299, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 299 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:44915029 original size:40 final size:40
Alignment explanation
Indices: 44914985--44915072 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
44914975 GCCTGAATAC
* * * **
44914985 ACATCACTAGTATGATTGCTCTTCGGGGCCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
* * *
44915025 ACATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
44915065 ACATCACT
1 ACATCACT
44915073 CTCAATTCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
Found at i:44916937 original size:37 final size:37
Alignment explanation
Indices: 44916884--44916974 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
44916874 TATAAAAGAA
44916884 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44916921 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44916958 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44916975 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44917125 original size:49 final size:49
Alignment explanation
Indices: 44917070--44917381 Score: 536
Period size: 49 Copynumber: 6.4 Consensus size: 49
44917060 TTTTACATTA
*
44917070 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
44917119 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
44917168 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
44917217 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
44917266 GCCATTA-GCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
44917314 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
44917363 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
44917382 CATATATGTA
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 46 0.18
49 207 0.82
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:44917356 original size:27 final size:27
Alignment explanation
Indices: 44917276--44917356 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
44917266 GCCATTAGCC
*
44917276 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
** *** *
44917303 TCATCAC--AT-CGGCCA-TTAGGC-C
1 TCATCACATATACATCCACTTTCACAT
44917325 TCATCACATATACATCCACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
44917352 TCATC
1 TCATC
44917357 GCATTGGCCA
Statistics
Matches: 36, Mismatches: 13, Indels: 10
0.61 0.22 0.17
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 5 0.14
25 6 0.17
26 3 0.08
27 12 0.33
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (27 bp):
TCATCACATATACATCCACTTTCACAT
Found at i:44923337 original size:28 final size:28
Alignment explanation
Indices: 44923267--44923367 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 28
44923257 CCCCTTTAGG
* * *
44923267 CCCAATCTCATTCATATGGCCCATTAGGC
1 CCCAATCACATTCATATGACCCA-TCGGC
** * *
44923296 CTAAATCACTTTCATATGAACCATCGGC
1 CCCAATCACATTCATATGACCCATCGGC
* *
44923324 CCCAATCACATTCATATGACCCTTCAGC
1 CCCAATCACATTCATATGACCCATCGGC
44923352 CCCAATCACATTCATA
1 CCCAATCACATTCATA
44923368 GTCATGCAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 42 0.71
29 17 0.29
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.27
Consensus pattern (28 bp):
CCCAATCACATTCATATGACCCATCGGC
Found at i:44925028 original size:29 final size:29
Alignment explanation
Indices: 44924995--44925054 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
44924985 ATAACCAAAC
*
44924995 CTACA-AAATCTTTATATCCATAAACCCAT
1 CTACATAAA-CTTCATATCCATAAACCCAT
44925024 CTACATAAACTTCATATCCATAAACCCAT
1 CTACATAAACTTCATATCCATAAACCCAT
44925053 CT
1 CT
44925055 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACATAAACTTCATATCCATAAACCCAT
Found at i:44925047 original size:15 final size:14
Alignment explanation
Indices: 44925008--44925052 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
44924998 CAAAATCTTT
44925008 ATATCCATAAACCC
1 ATATCCATAAACCC
* * *
44925022 ATCTACATAAACTTC
1 ATATCCATAAAC-CC
44925037 ATATCCATAAACCC
1 ATATCCATAAACCC
44925051 AT
1 AT
44925053 CTTTGAATCC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATCCATAAACCC
Found at i:44927593 original size:21 final size:22
Alignment explanation
Indices: 44927555--44927595 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44927545 AGGAGACGAC
* *
44927555 AATTTGTGTAATTTTTCAAAAT
1 AATTTATGTAATTATTCAAAAT
44927577 AATTTATG-AATTATTCAAA
1 AATTTATGTAATTATTCAAA
44927596 CAAAGTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
AATTTATGTAATTATTCAAAAT
Found at i:44928178 original size:16 final size:17
Alignment explanation
Indices: 44928139--44928194 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
44928129 AGCTTAATAT
44928139 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
44928157 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
44928173 TATTTAAAATTAATAAAA
1 TATTTATTATTAAT-AAA
44928191 TATT
1 TATT
44928195 ATAATTTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 12 0.40
17 8 0.27
18 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:44935294 original size:40 final size:40
Alignment explanation
Indices: 44935166--44935317 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
44935156 ATCACGATTT
* * * *
44935166 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
44935206 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
44935246 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAAT-TTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACT-A
* * *
44935286 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
44935318 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 92 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:44937897 original size:40 final size:40
Alignment explanation
Indices: 44937831--44937981 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44937821 AAATTGAATG
* *
44937831 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
44937870 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
44937910 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
44937950 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44937982 ACGTGTTATA
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:44937965 original size:80 final size:79
Alignment explanation
Indices: 44937833--44937981 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
44937823 ATTGAATGAT
*
44937833 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
44937898 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
44937912 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
44937975 TTTGTGC
63 ATTGTGC
44937982 ACGTGTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:44945993 original size:40 final size:40
Alignment explanation
Indices: 44945866--44945995 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
44945856 ATGCTGGAAA
* * *
44945866 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * * ***
44945906 CTACATCCGGGCTAAGACCCGAAGGCATTCGTTCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
44945946 TTCTATCCGGGCTAAGACCCGAAGGCGTTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44945986 TTATATCCGG
1 TTATATCCGG
44945996 TTATATTCCG
Statistics
Matches: 69, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
39 1 0.01
40 68 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44951750 original size:2 final size:2
Alignment explanation
Indices: 44951743--44951771 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44951733 TTAAAATTAA
44951743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44951772 GAACATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44959214 original size:46 final size:46
Alignment explanation
Indices: 44959164--44959289 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
44959154 TGGTTGAGCA
* *
44959164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
44959210 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
44959256 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44959290 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:44963732 original size:30 final size:30
Alignment explanation
Indices: 44963698--44963758 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44963688 TCCTTAACTC
44963698 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44963728 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44963758 A
1 A
44963759 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:44970239 original size:46 final size:45
Alignment explanation
Indices: 44970183--44970352 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
44970173 TGGTTGAGCA
*
44970183 TCCGAACTCGTTGAGTAGAGTCCGAGTTCACATATGGATGCGAATC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-C
** * * *
44970229 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAAC
*
44970276 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAAC
* * *
44970321 GCCTAAGCTCATTGAGTTGAGTCCGAGTTCAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAC
44970353 TTAGGGGCGG
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 55 0.54
47 33 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAAC
Found at i:44970339 original size:93 final size:93
Alignment explanation
Indices: 44970180--44970350 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
44970170 GGATGGTTGA
* *
44970180 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACATATGGATGCGAATCTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACATATGGATGCGAATCGCCGAACTCATTGAGT
44970245 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
44970273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CGCCTAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACATATGGATGCGAATCGCCGAA-CTCATTGAG
44970337 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
44970351 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACATATGGATGCGAATCGCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44975679 original size:18 final size:18
Alignment explanation
Indices: 44975656--44975690 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44975646 TACAATTGTC
44975656 TTAGGGGAAATAGGATTG
1 TTAGGGGAAATAGGATTG
44975674 TTAGGGGAAATAGGATT
1 TTAGGGGAAATAGGATT
44975691 AAATATCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (18 bp):
TTAGGGGAAATAGGATTG
Found at i:44977069 original size:40 final size:40
Alignment explanation
Indices: 44977025--44977146 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 40
44977015 GATATATTAA
* *
44977025 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATAT
* * *
44977065 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGATAATAT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATAT
* *
44977105 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTACTAT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATAT
44977145 AT
1 AT
44977147 CCGGGCTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATAT
Found at i:44977168 original size:40 final size:38
Alignment explanation
Indices: 44977025--44977180 Score: 116
Period size: 40 Copynumber: 3.9 Consensus size: 38
44977015 GATATATTAA
* * * * *
44977025 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCACAGGCTTAGAGCTAGT-A-CT
* * * * *
44977065 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCT-GATAATAT
1 ATATCCGGGTTAAATCCCACAGGCTTAGAGCTAG-T-A-CT
* *
44977105 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTACT
1 ATATCCGGGTTAAATCCCACAGGCTTAGAGCTAGTACT
* *
44977143 ATATCCGGGCTTAAAGTTCCACAGGCTTTGAGCTAGTA
1 ATATCCGGG-TTAAA-TCCCACAGGCTTAGAGCTAGTA
44977181 ATTGGATTCG
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
38 10 0.10
39 7 0.07
40 84 0.82
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCACAGGCTTAGAGCTAGTACT
Found at i:44977168 original size:80 final size:80
Alignment explanation
Indices: 44977025--44977172 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 80
44977015 GATATATTAA
* * * *
44977025 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTTAAATCTCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATCTATATCCGGGTTAAATCTCACAGGCT
44977090 TTGTGCTGATAATAT
66 TTGTGCTGATAATAT
44977105 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGT-A-CTATATCCGGGCTTAAAGT-TCCACAG
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATCTATATCCGGG-TTAAA-TCT-CACAG
44977167 GCTTTG
63 GCTTTG
44977173 AGCTAGTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 10 0.16
79 7 0.11
80 44 0.72
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (80 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATCTATATCCGGGTTAAATCTCACAGGCT
TTGTGCTGATAATAT
Done.