Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 194 of 295
Found at i:66268612 original size:29 final size:29
Alignment explanation
Indices: 66268544--66268647 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
66268534 TCGATGGCTG
* *
66268544 AAACCATCCCTTTTCATTAATCGATGATCC-
1 AAACTATCCCTTTTCA-TAATCGAT-AGCCA
** * *
66268574 TCACCATCCCTTTTCATAATTGATAGCCA
1 AAACTATCCCTTTTCATAATCGATAGCCA
* *
66268603 AAACTATCCCTTTTCATAATCGATAGTCG
1 AAACTATCCCTTTTCATAATCGATAGCCA
*
66268632 AAGCTATCCCTTTTCA
1 AAACTATCCCTTTTCA
66268648 ATTCGATGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 3 0.05
29 45 0.73
30 14 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (29 bp):
AAACTATCCCTTTTCATAATCGATAGCCA
Found at i:66268671 original size:28 final size:29
Alignment explanation
Indices: 66268637--66268704 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
66268627 AGTCGAAGCT
*
66268637 ATCCCTTTTCAAT-TCGATGGTCGTCACC
1 ATCCCTTTTCAATGTCGATGGTCATCACC
* ** *
66268665 ATTCCTTTTCGTTGTTGATGGTCATCACC
1 ATCCCTTTTCAATGTCGATGGTCATCACC
66268694 ATCCCTTTTCA
1 ATCCCTTTTCA
66268705 TAATCAATAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCAATGTCGATGGTCATCACC
Found at i:66268683 original size:86 final size:87
Alignment explanation
Indices: 66268549--66268714 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 87
66268539 GGCTGAAACC
*
66268549 ATCCCTTTTCATTAATCGATGATCCTCACCATCCCTTTTCATAATTGATAGCCAAAACTATCCCT
1 ATCCCTTTTCA-TAATCGATGATCCTCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCCT
*
66268614 TTTCATAATCGATAGTCGAAGCT
65 TTTCATAATCAATAGTCGAAGCT
* * * * * ** * * **
66268637 ATCCCTTTTCA-ATTCGATGGTCGTCACCATTCCTTTTCGTTGTTGATGGTCATCACCATCCCTT
1 ATCCCTTTTCATAATCGATGATCCTCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCCTT
66268701 TTCATAATCAATAG
66 TTCATAATCAATAG
66268715 CTAAAACTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
86 54 0.83
88 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (87 bp):
ATCCCTTTTCATAATCGATGATCCTCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCCTT
TTCATAATCAATAGTCGAAGCT
Found at i:66268731 original size:115 final size:116
Alignment explanation
Indices: 66268521--66268734 Score: 288
Period size: 115 Copynumber: 1.9 Consensus size: 116
66268511 GTTGGTAATC
* *
66268521 ATCCTTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGATCCTCACCATCCCTT
1 ATCCCTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGATCATCACCATCCCTT
**
66268586 TTCATAATTGATAGCCAAAACTATCCCTTTTCATAATCGATAGTCGAAGCT
66 TTCATAATCAATAGCCAAAACTATCCCTTTTCATAATCGATAGTCGAAGCT
** * * * * *
66268637 ATCCCTTTTCAATTCGATGG-TCGTCACCATTCCTTTTCGTT-GTTGATGGTCATCACCATCCCT
1 ATCCCTTTTCAATTCGATGGCT-GAAACCATCCCTTTTCATTAATCGATGATCATCACCATCCCT
* *
66268700 TTTCATAATCAATAGCTAAAACTATCTCTTTTCAT
65 TTTCATAATCAATAGCCAAAACTATCCCTTTTCAT
66268735 TGGTCGATGA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
115 50 0.60
116 34 0.40
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (116 bp):
ATCCCTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGATCATCACCATCCCTT
TTCATAATCAATAGCCAAAACTATCCCTTTTCATAATCGATAGTCGAAGCT
Found at i:66275706 original size:27 final size:28
Alignment explanation
Indices: 66275676--66275737 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
66275666 AAAGGTAAAA
*
66275676 AAATAAATAAATCATAATTAAAGTAA-T
1 AAATAAATAAATCATAATTAAACTAAGT
66275703 AAATAAATAAATCATAATTAAACTAAGT
1 AAATAAATAAATCATAATTAAACTAAGT
66275731 AAA-AAAT
1 AAATAAAT
66275738 TAGTATCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (28 bp):
AAATAAATAAATCATAATTAAACTAAGT
Found at i:66279637 original size:42 final size:42
Alignment explanation
Indices: 66279591--66279746 Score: 206
Period size: 42 Copynumber: 3.7 Consensus size: 42
66279581 ACTAATATTA
* *
66279591 CGTGTAAGATCATATCTGAGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
*
66279633 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGGCTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
* * * * *
66279675 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGACT-T
*
66279718 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
66279747 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 67 0.67
43 33 0.33
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
Found at i:66283232 original size:9 final size:9
Alignment explanation
Indices: 66283218--66283252 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
66283208 GCAAAAAATC
66283218 AGTCAAAAA
1 AGTCAAAAA
66283227 AGTCAAAAA
1 AGTCAAAAA
*
66283236 AATCAAAAA
1 AGTCAAAAA
*
66283245 AGACAAAA
1 AGTCAAAA
66283253 TTCAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.71, C:0.11, G:0.09, T:0.09
Consensus pattern (9 bp):
AGTCAAAAA
Found at i:66289663 original size:10 final size:10
Alignment explanation
Indices: 66289647--66289704 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
66289637 CAACTCCGAC
66289647 CAGCTCAATT
1 CAGCTCAATT
* *
66289657 GAGCTCATTT
1 CAGCTCAATT
66289667 CAGCTCAA-T
1 CAGCTCAATT
66289676 CGAGCTCAATT
1 C-AGCTCAATT
*
66289687 TAGCTACAATT
1 CAGCT-CAATT
66289698 CAGCTCA
1 CAGCTCA
66289705 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:66289670 original size:20 final size:20
Alignment explanation
Indices: 66289647--66289707 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66289637 CAACTCCGAC
66289647 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
66289667 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
66289688 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
66289708 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:66294223 original size:13 final size:13
Alignment explanation
Indices: 66294205--66294229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66294195 ATATAATAGG
66294205 GTCACACGGCCGA
1 GTCACACGGCCGA
66294218 GTCACACGGCCG
1 GTCACACGGCCG
66294230 TGTGCTAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.32, T:0.08
Consensus pattern (13 bp):
GTCACACGGCCGA
Found at i:66295557 original size:42 final size:42
Alignment explanation
Indices: 66295506--66295663 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 42
66295496 ATTGGATCAA
*
66295506 ATATCGATGCCAATAGCCCA-ACT-TGGTCTTACACGATGTCTC
1 ATATCGATGCC-ATAGCCCAGA-TATGGTCTTACACGAAGTCTC
* * *
66295548 ATATTGATGCCATATCCCAGATATGGTCTTATACGAAGTCTC
1 ATATCGATGCCATAGCCCAGATATGGTCTTACACGAAGTCTC
* * ** * * **
66295590 ATTTTCGAAGCCAT-GTCCCAGACGTGGTCTTACACAAAATGAC
1 A-TATCGATGCCATAG-CCCAGATATGGTCTTACACGAAGTCTC
** *
66295633 ATGCCGATGCCATATCCCAGATATGGTCTTA
1 ATATCGATGCCATAGCCCAGATATGGTCTTA
66295664 TATGGAATCT
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
41 8 0.09
42 52 0.58
43 30 0.33
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
ATATCGATGCCATAGCCCAGATATGGTCTTACACGAAGTCTC
Found at i:66295618 original size:43 final size:42
Alignment explanation
Indices: 66295529--66295624 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 42
66295519 TAGCCCAACT
* * *
66295529 TGGTCTTACACGATGTCTCATATTGATGCCATATCCCAGATA
1 TGGTCTTACACGAAGTCTCATATTGAAGCCATATCCCAGACA
* * * *
66295571 TGGTCTTATACGAAGTCTCATTTTCGAAGCCATGTCCCAGACG
1 TGGTCTTACACGAAGTCTCATATT-GAAGCCATATCCCAGACA
66295614 TGGTCTTACAC
1 TGGTCTTACAC
66295625 AAAATGACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 21 0.47
43 24 0.53
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (42 bp):
TGGTCTTACACGAAGTCTCATATTGAAGCCATATCCCAGACA
Found at i:66297498 original size:40 final size:40
Alignment explanation
Indices: 66297393--66297649 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
66297383 CGGATGATAA
* *
66297393 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
66297433 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66297472 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
66297512 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66297552 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
66297592 CTGGGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
66297632 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66297650 TACTTGGTTT
Statistics
Matches: 192, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 49 0.26
40 143 0.74
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66297563 original size:80 final size:80
Alignment explanation
Indices: 66297393--66297649 Score: 378
Period size: 80 Copynumber: 3.2 Consensus size: 80
66297383 CGGATGATAA
* * *
66297393 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACTGGGCTAAGTCCCGAAGGCATTT
66297456 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
66297472 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
* *
66297537 TGCGAGTTATTGTAT
66 TGCGAGTTACTATAT
*
66297552 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
* *
66297617 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
66297632 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66297650 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
79 61 0.37
80 102 0.63
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:66297630 original size:120 final size:119
Alignment explanation
Indices: 66297389--66297649 Score: 348
Period size: 119 Copynumber: 2.2 Consensus size: 119
66297379 TATTCGGATG
* *
66297389 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* * * *
66297454 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTACT
* * **
66297508 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTGTATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
*
66297572 ATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCT
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTA-CT
* * *
66297628 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
66297650 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
118 2 0.02
119 61 0.49
120 61 0.49
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTACT
Found at i:66301463 original size:20 final size:20
Alignment explanation
Indices: 66301440--66301486 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66301430 GGGTTAAGAT
*
66301440 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66301460 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66301480 TGAGCTG
1 TGAGCTG
66301487 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66303210 original size:48 final size:48
Alignment explanation
Indices: 66303154--66303258 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
66303144 TTGTCTTTTC
*
66303154 TTTC-TTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
66303201 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
66303249 TTTCTTTTTC
1 TTTCTTTTTC
66303259 CATGACACTC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
47 4 0.08
48 35 0.69
49 8 0.16
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:66303351 original size:21 final size:21
Alignment explanation
Indices: 66303322--66303377 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
66303312 CAAGCTCTCT
*
66303322 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
66303343 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
66303364 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
66303378 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:66303370 original size:14 final size:14
Alignment explanation
Indices: 66303321--66303377 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
66303311 TCAAGCTCTC
66303321 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
66303334 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
66303348 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
66303362 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
66303376 TT
1 TT
66303378 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:66303405 original size:18 final size:18
Alignment explanation
Indices: 66303384--66303442 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
66303374 TTTTCTCTCA
*
66303384 CTTTTTTGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
66303402 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
66303420 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
66303438 GTTTT
1 CTTTT
66303443 CTTTCAATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:66303459 original size:6 final size:6
Alignment explanation
Indices: 66303339--66303446 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
66303329 TCTTTTTTCG
* * * **
66303339 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** * *
66303390 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
66303438 -GTTTT CTTT
1 CTTTTT CTTT
66303447 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 10
0.67 0.23 0.09
Matches are distributed among these distances:
5 5 0.07
6 54 0.75
7 10 0.14
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:66304538 original size:32 final size:30
Alignment explanation
Indices: 66304478--66304543 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
66304468 TTAAACTTGA
*
66304478 TTTTTTTTGCTCACCTTTTTTTTTCTTTTCTT
1 TTTTTTTTGCTCA-CTTTTTTTTACTTTT-TT
66304510 TTTTTTTTGCTCGA-TTTTTTTTCACTTTTTT
1 TTTTTTTTGCTC-ACTTTTTTTT-ACTTTTTT
66304541 TTT
1 TTT
66304544 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 13 0.42
32 17 0.55
33 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (30 bp):
TTTTTTTTGCTCACTTTTTTTTACTTTTTT
Found at i:66304539 original size:12 final size:12
Alignment explanation
Indices: 66304524--66304584 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 12
66304514 TTTTGCTCGA
*
66304524 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
66304536 TTTTTTTTGAATTT
1 TTTTTTTTCAA--T
66304550 TTTTTTTCAATCAAT
1 TTTTTTT---TCAAT
66304565 TTTTTTTTCGAAT
1 TTTTTTTTC-AAT
66304578 TTTTTTT
1 TTTTTTT
66304585 ATTTTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 11 0.28
13 10 0.25
14 8 0.20
15 8 0.20
17 3 0.08
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:66304578 original size:13 final size:13
Alignment explanation
Indices: 66304524--66304584 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
66304514 TTTTGCTCGA
*
66304524 TTTTTTTTC-ACT
1 TTTTTTTTCGAAT
66304536 TTTTTTTT-GAATT
1 TTTTTTTTCGAA-T
*
66304549 TTTTTTTTCAATCAAT
1 TTTTTTTTC---GAAT
66304565 TTTTTTTTCGAAT
1 TTTTTTTTCGAAT
66304578 TTTTTTT
1 TTTTTTT
66304585 ATTTTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 9 0.22
13 19 0.47
16 10 0.25
17 2 0.05
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:66306093 original size:20 final size:20
Alignment explanation
Indices: 66306070--66306116 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66306060 GGGTTAAGAT
*
66306070 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66306090 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66306110 TGAGCTG
1 TGAGCTG
66306117 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66319992 original size:30 final size:29
Alignment explanation
Indices: 66319942--66320013 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 29
66319932 CGAGTTTAAA
66319942 CTAAA-ATGAGCTAAGTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGTTTAGCTCGTGAG
66319970 CTAAAGT-TGAGCTAAGGTTTAGCTCGTGAG
1 CTAAA-TATGAGCTAA-GTTTAGCTCGTGAG
66320000 CTAAATATGAGCTA
1 CTAAATATGAGCTA
66320014 GGAGTGAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
28 5 0.12
29 9 0.22
30 26 0.65
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (29 bp):
CTAAATATGAGCTAAGTTTAGCTCGTGAG
Found at i:66320024 original size:30 final size:30
Alignment explanation
Indices: 66319960--66320025 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
66319950 AGCTAAGTTT
* *
66319960 AGCTCGTGAGCTAAAGTTGAGCTAAGGTTT
1 AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
66319990 AGCTCGTGAGCTAAA-TATGAGCT-AGGAGTG
1 AGCTCGTGAGCTAAAGT-TGAGCTAAGG-GTG
66320020 AGCTCG
1 AGCTCG
66320026 GTTTAGCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (30 bp):
AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
Found at i:66322199 original size:12 final size:12
Alignment explanation
Indices: 66322184--66322214 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66322174 TTCTTTTTGC
66322184 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66322196 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66322208 TTTTCAA
1 TTTTCAA
66322215 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:66322291 original size:6 final size:6
Alignment explanation
Indices: 66322275--66322324 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
66322265 TTTCTTTTTA
*
66322275 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
66322324 T
1 T
66322325 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:66322307 original size:37 final size:37
Alignment explanation
Indices: 66322264--66322334 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
66322254 CTTGCCTCTC
66322264 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
66322301 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
66322335 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:66322335 original size:16 final size:16
Alignment explanation
Indices: 66322260--66322320 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
66322250 GCCTCTTGCC
*
66322260 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
66322276 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
66322292 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
66322308 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
66322321 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:66323267 original size:12 final size:11
Alignment explanation
Indices: 66323251--66323292 Score: 59
Period size: 10 Copynumber: 3.8 Consensus size: 11
66323241 CGATTTTTCG
*
66323251 ATTTTTTTTAA
1 ATTTTTTTTTA
66323262 ATTTTTTTTT-
1 ATTTTTTTTTA
66323272 ATTTTTTTTTCA
1 ATTTTTTTTT-A
66323284 ATTTTTTTT
1 ATTTTTTTT
66323293 CGAATTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 10 0.36
11 9 0.32
12 9 0.32
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTTA
Found at i:66323293 original size:11 final size:11
Alignment explanation
Indices: 66323244--66323299 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
66323234 TATACTTCGA
*
66323244 TTTTTCGATTT
1 TTTTTCAATTT
*
66323255 TTTTTAAATTT
1 TTTTTCAATTT
* *
66323266 TTTTTTATTTT
1 TTTTTCAATTT
66323277 TTTTTCAATTT
1 TTTTTCAATTT
66323288 TTTTTCGAATTT
1 TTTTTC-AATTT
66323300 CCTCTTCTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
11 33 0.87
12 5 0.13
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTTCAATTT
Found at i:66325015 original size:30 final size:30
Alignment explanation
Indices: 66324981--66325077 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66324971 TAAACTAAAA
*
66324981 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
66325011 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66325041 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66325070 ATGAGCTA
1 -TGAGCTA
66325078 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:66329923 original size:15 final size:16
Alignment explanation
Indices: 66329897--66329926 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66329887 ATAAACCCTA
66329897 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
66329913 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
66329927 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:66330647 original size:13 final size:13
Alignment explanation
Indices: 66330629--66330663 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
66330619 TCTCAGGCAC
66330629 GGGCGTGTGCCCT
1 GGGCGTGTGCCCT
66330642 GGGCGTGTGCCCT
1 GGGCGTGTGCCCT
66330655 GGGCGTGTG
1 GGGCGTGTG
66330664 AAGTTTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.51, T:0.23
Consensus pattern (13 bp):
GGGCGTGTGCCCT
Found at i:66334777 original size:12 final size:12
Alignment explanation
Indices: 66334760--66334790 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
66334750 CCGTGTACTG
66334760 CCACACGGCCTA
1 CCACACGGCCTA
*
66334772 CCACACGGGCTA
1 CCACACGGCCTA
66334784 CCACACG
1 CCACACG
66334791 CCTGTGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.48, G:0.19, T:0.06
Consensus pattern (12 bp):
CCACACGGCCTA
Found at i:66336966 original size:21 final size:21
Alignment explanation
Indices: 66336937--66336991 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
66336927 TTCTGCTCTA
66336937 CTCTGCCTCCCTCGCTACTGC
1 CTCTGCCTCCCTCGCTACTGC
* * *
66336958 CTCTACCTCCTTCGCTGCTGC
1 CTCTGCCTCCCTCGCTACTGC
*
66336979 CGCTGCCTCCCTC
1 CTCTGCCTCCCTC
66336992 TCTGCTACCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.04, C:0.53, G:0.15, T:0.29
Consensus pattern (21 bp):
CTCTGCCTCCCTCGCTACTGC
Found at i:66336996 original size:21 final size:21
Alignment explanation
Indices: 66336939--66336997 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
66336929 CTGCTCTACT
* *
66336939 CTGCCTCCCTCGCTACTGCCT
1 CTGCCTCCCTCGCTGCTGCCG
* *
66336960 CTACCTCCTTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
66336981 CTGCCTCCCTCTCTGCT
1 CTGCCTCCCTCGCTGCT
66336998 ACCTCCGCTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.03, C:0.51, G:0.15, T:0.31
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:66337413 original size:13 final size:14
Alignment explanation
Indices: 66337387--66337415 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
66337377 ACTAACGACG
66337387 AATTAAACCATTAT
1 AATTAAACCATTAT
66337401 AATTAAA-CATTAT
1 AATTAAACCATTAT
66337414 AA
1 AA
66337416 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:66338569 original size:22 final size:23
Alignment explanation
Indices: 66338544--66338603 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
66338534 TGGACTGAAT
66338544 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
66338566 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
66338588 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
66338604 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:66338571 original size:4 final size:4
Alignment explanation
Indices: 66338553--66338586 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
66338543 TATAAAAATT
66338553 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
66338587 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:66339990 original size:23 final size:22
Alignment explanation
Indices: 66339939--66339990 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
66339929 CCTCGTCTTT
*
66339939 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
66339961 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
66339984 TTCTTTT
1 TTCTTTT
66339991 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:66343484 original size:30 final size:30
Alignment explanation
Indices: 66343444--66343516 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
66343434 CGAGTTTAAA
*
66343444 CTAAA-ATGAGCTAAGTTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGGTTTAGCTCGTGAG
66343473 CTAAAGT-TGAGCTAAGGTTTAGCTCGTGAG
1 CTAAA-TATGAGCTAAGGTTTAGCTCGTGAG
66343503 CTAAATATGAGCTA
1 CTAAATATGAGCTA
66343517 GGAGTGAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 6 0.15
30 34 0.85
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (30 bp):
CTAAATATGAGCTAAGGTTTAGCTCGTGAG
Found at i:66343527 original size:30 final size:30
Alignment explanation
Indices: 66343463--66343528 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
66343453 GCTAAGTTTT
* *
66343463 AGCTCGTGAGCTAAAGTTGAGCTAAGGTTT
1 AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
66343493 AGCTCGTGAGCTAAA-TATGAGCT-AGGAGTG
1 AGCTCGTGAGCTAAAGT-TGAGCTAAGG-GTG
66343523 AGCTCG
1 AGCTCG
66343529 GTTTAGCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (30 bp):
AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
Found at i:66345673 original size:12 final size:12
Alignment explanation
Indices: 66345658--66345688 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66345648 TTCTTTTTGC
66345658 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66345670 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66345682 TTTTCAA
1 TTTTCAA
66345689 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:66345765 original size:6 final size:6
Alignment explanation
Indices: 66345749--66345798 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
66345739 TTTCTTTTTA
*
66345749 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
66345798 T
1 T
66345799 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:66345781 original size:37 final size:37
Alignment explanation
Indices: 66345738--66345808 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
66345728 CTTGCCTCTC
66345738 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
66345775 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
66345809 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:66345809 original size:16 final size:16
Alignment explanation
Indices: 66345734--66345794 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
66345724 GCCTCTTGCC
*
66345734 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
66345750 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
66345766 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
66345782 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
66345795 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:66346741 original size:23 final size:23
Alignment explanation
Indices: 66346695--66346742 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
66346685 TTTTTTTAAC
*
66346695 TCGATTTTTTTGTCACTTTTTTT
1 TCGATTTTTTTGTCAATTTTTTT
*
66346718 TCGATTTTTTT-TGAATTTTCTTT
1 TCGATTTTTTTGTCAATTTT-TTT
66346741 TC
1 TC
66346743 TGAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.69
Consensus pattern (23 bp):
TCGATTTTTTTGTCAATTTTTTT
Found at i:66346844 original size:12 final size:12
Alignment explanation
Indices: 66346827--66346851 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66346817 CCAACTCAAA
66346827 ATTTTTTTTTTG
1 ATTTTTTTTTTG
66346839 ATTTTTTTTTTG
1 ATTTTTTTTTTG
66346851 A
1 A
66346852 CTTCCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (12 bp):
ATTTTTTTTTTG
Found at i:66348501 original size:30 final size:30
Alignment explanation
Indices: 66348461--66348533 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
66348451 CGAGTTTAAA
*
66348461 CTAAA-ATGAGCTAAGTTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGGTTTAGCTCGTGAG
66348490 CTAAAGT-TGAGCTAAGGTTTAGCTCGTGAG
1 CTAAA-TATGAGCTAAGGTTTAGCTCGTGAG
66348520 CTAAATATGAGCTA
1 CTAAATATGAGCTA
66348534 GGAGTGAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 6 0.15
30 34 0.85
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (30 bp):
CTAAATATGAGCTAAGGTTTAGCTCGTGAG
Found at i:66348544 original size:30 final size:30
Alignment explanation
Indices: 66348480--66348545 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
66348470 GCTAAGTTTT
* *
66348480 AGCTCGTGAGCTAAAGTTGAGCTAAGGTTT
1 AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
66348510 AGCTCGTGAGCTAAA-TATGAGCT-AGGAGTG
1 AGCTCGTGAGCTAAAGT-TGAGCTAAGG-GTG
66348540 AGCTCG
1 AGCTCG
66348546 GTTTAGCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (30 bp):
AGCTCGTGAGCTAAAGTTGAGCTAAGGGTG
Found at i:66349172 original size:22 final size:23
Alignment explanation
Indices: 66349147--66349206 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
66349137 TGGACTGAAT
66349147 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
66349169 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
66349191 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
66349207 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:66349174 original size:4 final size:4
Alignment explanation
Indices: 66349156--66349189 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
66349146 TATAAAAATT
66349156 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
66349190 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:66354255 original size:43 final size:44
Alignment explanation
Indices: 66354208--66354297 Score: 155
Period size: 43 Copynumber: 2.0 Consensus size: 44
66354198 TTATATAAGG
*
66354208 TATGTATTATGTAAGTTTTGTAAGTTATTATA-TGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
66354251 TATGTATTATGTAAGTTTTGTAAGATATTATATGTGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATA-GTGATATATATT
66354296 TA
1 TA
66354298 ACATTAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 31 0.70
45 13 0.30
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (44 bp):
TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
Found at i:66354273 original size:52 final size:54
Alignment explanation
Indices: 66354158--66354274 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 54
66354148 GTAAGTTAAC
*
66354158 TAAGTTTTGTATGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
* * * * * * *
66354212 T-A-TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTATGT-A-TTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
66354262 TAAGTTTTGTAAG
1 TAAGTTTTGTAAG
66354275 ATATTATATG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 5 0.10
51 2 0.04
52 43 0.83
53 1 0.02
54 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (54 bp):
TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
Found at i:66356173 original size:22 final size:22
Alignment explanation
Indices: 66356143--66356186 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
66356133 TTTAGTATTT
66356143 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
66356165 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
66356187 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:66360691 original size:180 final size:180
Alignment explanation
Indices: 66360389--66360733 Score: 591
Period size: 180 Copynumber: 1.9 Consensus size: 180
66360379 TTTTCTATAG
* *
66360389 ATGGGATTACAGGGTATTGACTGGAAGGCCAGTGGGAGGGGTGAATCTTAGGGATTTCAAATCGG
1 ATGGGATTACAGGGTATTGACTAGAAGGCCAGTGGGAGAGGTGAATCTTAGGGATTTCAAATCGG
66360454 GGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGATTTAG
66 GGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGATTTAG
* * *
66360519 GATGAGGAAAAAGGGGGGAATAGAACTGGGGAAAATGGGGAAAATGATAT
131 GATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAATGGGGAAAATGATAT
* * * *
66360569 ATGGGATTACGGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGGATCTTTGGGATTTCAAATCGG
1 ATGGGATTACAGGGTATTGACTAGAAGGCCAGTGGGAGAGGTGAATCTTAGGGATTTCAAATCGG
*
66360634 GGAAAATTCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGATTTAG
66 GGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGATTTAG
*
66360699 GATAAAGAAGAAGGGGGAAATAGAACTGGGGAAAA
131 GATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAA
66360734 ACAGGGAAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 154 1.00
ACGTcount: A:0.32, C:0.07, G:0.37, T:0.24
Consensus pattern (180 bp):
ATGGGATTACAGGGTATTGACTAGAAGGCCAGTGGGAGAGGTGAATCTTAGGGATTTCAAATCGG
GGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGATTTAG
GATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAATGGGGAAAATGATAT
Found at i:66361323 original size:16 final size:16
Alignment explanation
Indices: 66361304--66361334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66361294 AAACCTTGAA
*
66361304 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
66361320 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
66361335 GAAATTATTT
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:66361345 original size:17 final size:16
Alignment explanation
Indices: 66361303--66361346 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
66361293 GAAACCTTGA
*
66361303 AAATTTTTTAAAATTT
1 AAATTATTTAAAATTT
* *
66361319 TAATTCTTTAAAATTT
1 AAATTATTTAAAATTT
66361335 GAAATTATTTAA
1 -AAATTATTTAA
66361347 TATATAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
AAATTATTTAAAATTT
Found at i:66361447 original size:7 final size:7
Alignment explanation
Indices: 66361432--66361567 Score: 67
Period size: 7 Copynumber: 18.9 Consensus size: 7
66361422 ACACTAATTA
66361432 CCCTAAAC
1 CCCT-AAC
66361440 CCCTAAC
1 CCCTAAC
*
66361447 CCTTAAC
1 CCCTAAC
*
66361454 CCTTAAC
1 CCCTAAC
66361461 CCCTAAC
1 CCCTAAC
66361468 CCCTAAC
1 CCCTAAC
* **
66361475 CCATGTC
1 CCCTAAC
*
66361482 CCTTAA-
1 CCCTAAC
66361488 CCCTAAAAC
1 CCCT--AAC
66361497 CCCTAAC
1 CCCTAAC
* * *
66361504 ACATAAA
1 CCCTAAC
* *
66361511 TCCTAAG
1 CCCTAAC
*
66361518 CCTTAAAC
1 CCCT-AAC
66361526 CCCATAAC
1 CCC-TAAC
*
66361534 CCGTAAC
1 CCCTAAC
*
66361541 CCATAAC
1 CCCTAAC
* *
66361548 ACTTAAC
1 CCCTAAC
*
66361555 CCCTAAA
1 CCCTAAC
66361562 CCCTAA
1 CCCTAA
66361568 GCCATAAACA
Statistics
Matches: 97, Mismatches: 26, Indels: 11
0.72 0.19 0.08
Matches are distributed among these distances:
6 3 0.03
7 74 0.76
8 15 0.15
9 5 0.05
ACGTcount: A:0.35, C:0.43, G:0.02, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:66361454 original size:14 final size:14
Alignment explanation
Indices: 66361431--66361565 Score: 90
Period size: 14 Copynumber: 9.4 Consensus size: 14
66361421 CACACTAATT
*
66361431 ACCCTAAACCCCTA
1 ACCCTTAACCCCTA
*
66361445 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
66361459 ACCCCTAACCCCTA
1 ACCCTTAACCCCTA
* ** *
66361473 ACCCATGTCCCTTA
1 ACCCTTAACCCCTA
*
66361487 ACCCTAAAACCCCTA
1 ACCCT-TAACCCCTA
* * **
66361502 ACACATAAATCCTA
1 ACCCTTAACCCCTA
*
66361516 AGCCTTAAACCCCATA
1 ACCCTT-AACCCC-TA
* *
66361532 ACCCGTAACCCATA
1 ACCCTTAACCCCTA
*
66361546 ACACTTAACCCCTAA
1 ACCCTTAACCCCT-A
66361561 ACCCT
1 ACCCT
66361566 AAGCCATAAA
Statistics
Matches: 87, Mismatches: 30, Indels: 7
0.70 0.24 0.06
Matches are distributed among these distances:
14 59 0.68
15 22 0.25
16 6 0.07
ACGTcount: A:0.35, C:0.44, G:0.02, T:0.19
Consensus pattern (14 bp):
ACCCTTAACCCCTA
Found at i:66361461 original size:21 final size:21
Alignment explanation
Indices: 66361431--66361476 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
66361421 CACACTAATT
*
66361431 ACCCTAAACCCCTAACCCTTA
1 ACCCTAAACCCCTAACCCCTA
*
66361452 ACCCTTAACCCCTAACCCCTA
1 ACCCTAAACCCCTAACCCCTA
66361473 ACCC
1 ACCC
66361477 ATGTCCCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.17
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCCCTA
Found at i:66361583 original size:28 final size:29
Alignment explanation
Indices: 66361521--66361589 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
66361511 TCCTAAGCCT
66361521 TAAACCCC-ATAACCCGTAACCCATAACAC
1 TAAACCCCTA-AACCCGTAACCCATAACAC
* *
66361550 TTAACCCCTAAACCC-TAAGCCATAA-AC
1 TAAACCCCTAAACCCGTAACCCATAACAC
66361577 ATAAA-CCCTAAAC
1 -TAAACCCCTAAAC
66361590 TTCTACCCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 10 0.29
28 12 0.34
29 12 0.34
30 1 0.03
ACGTcount: A:0.43, C:0.38, G:0.03, T:0.16
Consensus pattern (29 bp):
TAAACCCCTAAACCCGTAACCCATAACAC
Found at i:66361967 original size:7 final size:7
Alignment explanation
Indices: 66361903--66361966 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
66361893 CCCATGGCCA
66361903 TTAAACC
1 TTAAACC
66361910 TTAAACC
1 TTAAACC
*
66361917 ATAAAACC
1 -TTAAACC
* *
66361925 CTAGACC
1 TTAAACC
* *
66361932 ATAGACC
1 TTAAACC
66361939 TTAAACC
1 TTAAACC
*
66361946 TTAAACA
1 TTAAACC
66361953 TTAAACC
1 TTAAACC
*
66361960 CTAAACC
1 TTAAACC
66361967 CCAAAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (7 bp):
TTAAACC
Found at i:66362184 original size:41 final size:40
Alignment explanation
Indices: 66362138--66362438 Score: 298
Period size: 41 Copynumber: 7.4 Consensus size: 40
66362128 GTTATATGAC
* * *
66362138 TTTTAGTGGCGTTTTGACCATAAA-CACCACTATTGCTCTTG
1 TTTTAGTGGCGTTTT-ACCA-AAAGCGCCACTAATGCTCTTT
* *
66362179 TTTTAGCGGCGTTTTACCAAAAACGCCACTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCT-TT
* * *
66362220 TTTTAGAGCCGTTTTACCAAAAGCACCACTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCT-TT
* * *
66362261 TTTTAGTAGAGTTTTACCAAAAGCGCCGCTAATGCTCTATTT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTC--TTT
* * *
66362303 TTTTAGTGGCATTTTACCAAAAGCGTCGCTAATGCTCTGTT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCT-TT
* * *
66362344 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGTTCTTT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTTT
* * ** * * * **
66362384 TTTTAGCGGTGTTTTAAAAAAAACACCACTATTGCTCAGT
1 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTTT
66362424 TTTTAGTGGCGTTTT
1 TTTTAGTGGCGTTTT
66362439 TGGTAAAACG
Statistics
Matches: 220, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.01
40 62 0.28
41 119 0.54
42 35 0.16
43 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (40 bp):
TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTTT
Found at i:66362348 original size:83 final size:83
Alignment explanation
Indices: 66362149--66362387 Score: 270
Period size: 83 Copynumber: 2.9 Consensus size: 83
66362139 TTTAGTGGCG
* * ** * * *
66362149 TTTTGACCATAAA-CACCACTATTGCTCT-TGTTTTAGCGGCGTTTTACCAAAAACGCCACTAAT
1 TTTT-ACCA-AAAGCACCACTAATGCTCTATTTTTTAGTAGAGTTTTACCAAAAGCGCCGCTAAT
*
66362212 GCTCTA-TTTTTTAGAGCCG
64 GCTCTATTTTTTTAGAGCCA
66362231 TTTTACCAAAAGCACCACTAATGCTCTATTTTTTAGTAGAGTTTTACCAAAAGCGCCGCTAATGC
1 TTTTACCAAAAGCACCACTAATGCTCTATTTTTTAGTAGAGTTTTACCAAAAGCGCCGCTAATGC
* *
66362296 TCTATTTTTTTAGTGGCA
66 TCTATTTTTTTAGAGCCA
** * * * * * *
66362314 TTTTACCAAAAGCGTCGCTAATGCTCTGTTTTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGT
1 TTTTACCAAAAGCACCACTAATGCTCTATTTTTTAGTAGAGTTTTACCAAAAGCGCCGCTAATGC
66362379 TCT-TTTTTT
66 TCTATTTTTT
66362388 AGCGGTGTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.02
81 18 0.13
82 45 0.33
83 70 0.51
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (83 bp):
TTTTACCAAAAGCACCACTAATGCTCTATTTTTTAGTAGAGTTTTACCAAAAGCGCCGCTAATGC
TCTATTTTTTTAGAGCCA
Found at i:66364586 original size:21 final size:21
Alignment explanation
Indices: 66364560--66364605 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
66364550 TGGCCACCAA
66364560 TACAACTCTCGTAGATCACGG
1 TACAACTCTCGTAGATCACGG
66364581 TACAACTCTCGTAGATCACGG
1 TACAACTCTCGTAGATCACGG
66364602 TACA
1 TACA
66364606 TCTTATTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (21 bp):
TACAACTCTCGTAGATCACGG
Found at i:66369661 original size:43 final size:44
Alignment explanation
Indices: 66369614--66369703 Score: 155
Period size: 43 Copynumber: 2.0 Consensus size: 44
66369604 TTATATAAGG
*
66369614 TATGTATTATGTAAGTTTTGTAAGTTATTATA-TGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
66369657 TATGTATTATGTAAGTTTTGTAAGATATTATATGTGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATA-GTGATATATATT
66369702 TA
1 TA
66369704 ACATTAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 31 0.70
45 13 0.30
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (44 bp):
TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
Found at i:66369679 original size:52 final size:54
Alignment explanation
Indices: 66369564--66369680 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 54
66369554 GTAAGTTAAC
*
66369564 TAAGTTTTGTATGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
* * * * * * *
66369618 T-A-TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTATGT-A-TTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
66369668 TAAGTTTTGTAAG
1 TAAGTTTTGTAAG
66369681 ATATTATATG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 5 0.10
51 2 0.04
52 43 0.83
53 1 0.02
54 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (54 bp):
TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
Found at i:66371577 original size:22 final size:22
Alignment explanation
Indices: 66371547--66371590 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66371537 TTTAGTATTT
*
66371547 GGGAATTGGTATGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
66371569 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
66371591 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:66374345 original size:11 final size:10
Alignment explanation
Indices: 66374320--66374380 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
66374310 ACCAATAAAA
66374320 TAAA-TGAGC
1 TAAATTGAGC
*
66374329 TGAATTGTAGC
1 TAAATTG-AGC
66374340 TAAATTGAGC
1 TAAATTGAGC
**
66374350 TCGATTGAGC
1 TAAATTGAGC
66374360 TGAAA-TGAGC
1 T-AAATTGAGC
*
66374370 TCAATTGAGC
1 TAAATTGAGC
66374380 T
1 T
66374381 GGTCGAGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:66374381 original size:20 final size:20
Alignment explanation
Indices: 66374321--66374381 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66374311 CCAATAAAAT
*
66374321 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
66374341 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
66374362 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
66374382 GTCGAGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:66377410 original size:16 final size:16
Alignment explanation
Indices: 66377376--66377414 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
66377366 TTTAACTTGA
66377376 TTTTTTTTGCTCACCTT
1 TTTTTTTTGCTCA-CTT
66377393 TTTTTTTTGCTCGA-TT
1 TTTTTTTTGCTC-ACTT
66377409 TTTTTT
1 TTTTTT
66377415 CACTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 12 0.57
18 1 0.05
ACGTcount: A:0.05, C:0.15, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTTTTTGCTCACTT
Found at i:66377422 original size:12 final size:12
Alignment explanation
Indices: 66377407--66377463 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
66377397 TTTTGCTCGA
*
66377407 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
66377419 TTTTTTTTGAAT
1 TTTTTTTTCAAT
*
66377431 TTTTTTCAATCAAT
1 TTTTTT--TTCAAT
66377445 TTTTTTTTCGAAT
1 TTTTTTTTC-AAT
66377458 TTTTTT
1 TTTTTT
66377464 ATTTTTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
12 18 0.49
13 9 0.24
14 10 0.27
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:66379122 original size:14 final size:13
Alignment explanation
Indices: 66379103--66379135 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
66379093 CCGTATGCAA
66379103 TTTTTTTTTCAAAT
1 TTTTTTTTTC-AAT
66379117 TTTTTTTTTCAAT
1 TTTTTTTTTCAAT
66379130 TTTTTT
1 TTTTTT
66379136 GAACTCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTCAAT
Found at i:66379486 original size:22 final size:22
Alignment explanation
Indices: 66379456--66379499 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
66379446 TTTAGTATTT
66379456 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
66379478 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
66379500 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:66381997 original size:181 final size:181
Alignment explanation
Indices: 66381693--66382054 Score: 625
Period size: 181 Copynumber: 2.0 Consensus size: 181
66381683 TCGATTTTCT
* *
66381693 ATAGATGGGATTACAGGGTATTGACTGGAAGGCCGGTGGGAGGGGTGAATCTTAGGGATTTCAAA
1 ATAGATGGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
*
66381758 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGAT
66 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
* * * *
66381823 TTAGGATGAGGAAAAAGGGGGGAATAGAACTGGGGAAAAACGGGGAAAATG
131 TTAGGATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAAACAGGGAAAATG
* *
66381874 ATAGATGGGATTACGGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTTGGGATTTCAAA
1 ATAGATGGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
*
66381939 TCGGGGAAAATTCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
66 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
*
66382004 TTAGGATAAAGAAGAAGGGGGAAATAGAACTGGGGAAAAACAGGGAAAATG
131 TTAGGATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAAACAGGGAAAATG
66382055 TTAAGTGTAT
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
181 170 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.23
Consensus pattern (181 bp):
ATAGATGGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
TTAGGATAAAGAAAAAGGGGGAAATAGAACTGGGGAAAAACAGGGAAAATG
Found at i:66382633 original size:16 final size:16
Alignment explanation
Indices: 66382614--66382644 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66382604 AAACCTTGAA
*
66382614 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
66382630 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
66382645 GAAATTATTT
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:66382655 original size:17 final size:16
Alignment explanation
Indices: 66382613--66382656 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
66382603 GAAACCTTGA
*
66382613 AAATTTTTTAAAATTT
1 AAATTATTTAAAATTT
* *
66382629 TAATTCTTTAAAATTT
1 AAATTATTTAAAATTT
66382645 GAAATTATTTAA
1 -AAATTATTTAA
66382657 TATATAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
AAATTATTTAAAATTT
Found at i:66382772 original size:7 final size:7
Alignment explanation
Indices: 66382757--66382842 Score: 75
Period size: 7 Copynumber: 12.0 Consensus size: 7
66382747 ACACTAATTA
66382757 CCCTAAAC
1 CCCT-AAC
66382765 CCCTAAC
1 CCCTAAC
*
66382772 CCTTAAC
1 CCCTAAC
*
66382779 CCTTAAC
1 CCCTAAC
*
66382786 CCTTAAC
1 CCCTAAC
*
66382793 CCTTAAC
1 CCCTAAC
66382800 CCCTAAC
1 CCCTAAC
66382807 CCCTAAC
1 CCCTAAC
* *
66382814 CCATATC
1 CCCTAAC
*
66382821 CCTTAA-
1 CCCTAAC
66382827 CCCTAAAAC
1 CCCT--AAC
66382836 CCCTAAC
1 CCCTAAC
66382843 ACATAAATCC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
6 3 0.04
7 55 0.81
8 6 0.09
9 4 0.06
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:66382779 original size:14 final size:14
Alignment explanation
Indices: 66382756--66382899 Score: 110
Period size: 14 Copynumber: 10.1 Consensus size: 14
66382746 CACACTAATT
*
66382756 ACCCTAAACCCCTA
1 ACCCTTAACCCCTA
*
66382770 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
66382784 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
66382798 ACCCCTAACCCCTA
1 ACCCTTAACCCCTA
* * *
66382812 ACCCATATCCCTTA
1 ACCCTTAACCCCTA
*
66382826 ACCCTAAAACCCCTA
1 ACCCT-TAACCCCTA
* * **
66382841 ACACATAAATCCTA
1 ACCCTTAACCCCTA
*
66382855 AGCCTTAAACCCCATA
1 ACCCTT-AACCCC-TA
*
66382871 A-CCTGTAACCCATA
1 ACCCT-TAACCCCTA
*
66382885 ACACTTAACCCCTA
1 ACCCTTAACCCCTA
66382899 A
1 A
66382900 ACCATAAGCC
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
14 74 0.73
15 23 0.23
16 4 0.04
ACGTcount: A:0.35, C:0.42, G:0.01, T:0.21
Consensus pattern (14 bp):
ACCCTTAACCCCTA
Found at i:66382786 original size:21 final size:21
Alignment explanation
Indices: 66382756--66382829 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
66382746 CACACTAATT
*
66382756 ACCCTAAACCCCTAACCCTTA
1 ACCCTTAACCCCTAACCCTTA
*
66382777 ACCCTTAACCCTTAACCCTTA
1 ACCCTTAACCCCTAACCCTTA
* *
66382798 ACCCCTAACCCCTAACCCATA
1 ACCCTTAACCCCTAACCCTTA
*
66382819 TCCCTTAACCC
1 ACCCTTAACCC
66382830 TAAAACCCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.22
Consensus pattern (21 bp):
ACCCTTAACCCCTAACCCTTA
Found at i:66383306 original size:7 final size:7
Alignment explanation
Indices: 66383242--66383305 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
66383232 CCCATGGCCA
66383242 TTAAACC
1 TTAAACC
66383249 TTAAACC
1 TTAAACC
*
66383256 ATAAAACC
1 -TTAAACC
* *
66383264 CTAGACC
1 TTAAACC
* *
66383271 ATAGACC
1 TTAAACC
66383278 TTAAACC
1 TTAAACC
*
66383285 TTAAACA
1 TTAAACC
66383292 TTAAACC
1 TTAAACC
*
66383299 CTAAACC
1 TTAAACC
66383306 CAAAAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (7 bp):
TTAAACC
Found at i:66383557 original size:41 final size:41
Alignment explanation
Indices: 66383471--66383772 Score: 315
Period size: 41 Copynumber: 7.4 Consensus size: 41
66383461 GTTATATGAC
*
66383471 TTTTAGTGGCGTTTTGACCATAAA-CACCACTATTGCTCT-TGT
1 TTTTAGTGGCGTTTT-ACCA-AAAGCACCACTAATGCTCTAT-T
* * *
66383513 TTTTAGCGGCGTTTTACCAAAAACGCCACTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
* *
66383554 TTTTAGAGCCGTTTTACCAAAAGCACCACTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
** * *
66383595 TTTTAGCAGAGTTTTACCAAAAGCACCGCTAATGCTCTATTT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTA-TT
* * * *
66383637 TTTTAGTGGCATTTTACCAAAAGCATCGCTAATGCTCTGTT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
* * * *
66383678 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGTTCTA-T
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
* * ** * * *
66383718 TTTTAGCGGTGTTTTAAAAAAAACACCACTATTGCTC-AGT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
66383758 TTTTAGTGGCGTTTT
1 TTTTAGTGGCGTTTT
66383773 TGGTAAAACG
Statistics
Matches: 221, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.00
40 46 0.21
41 124 0.56
42 50 0.23
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (41 bp):
TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTATT
Found at i:66383590 original size:82 final size:81
Alignment explanation
Indices: 66383471--66383772 Score: 329
Period size: 83 Copynumber: 3.7 Consensus size: 81
66383461 GTTATATGAC
*
66383471 TTTTAGTGGCGTTTTGACCATAAA-CACCACTATTGCTCTTGTTTTTAGCGGCGTTTTACCAAAA
1 TTTTAGTGGCGTTTT-ACCA-AAAGCACCACTAATGCTC-TGTTTTTAGCGGCGTTTTACCAAAA
* *
66383535 ACGCCACTAATGCTCTATT
63 GCGCCGCTAATGCTCTATT
* * * * *
66383554 TTTTAGAGCCGTTTTACCAAAAGCACCACTAATGCTCTATTTTTTAGCAGAGTTTTACCAAAAGC
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGC
*
66383619 ACCGCTAATGCTCTATTT
65 GCCGCTAATGCTCTA-TT
* * * * *
66383637 TTTTAGTGGCATTTTACCAAAAGCATCGCTAATGCTCTGTTTTTTAGTGGCGTTTTACTAAAAGC
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTG-TTTTTAGCGGCGTTTTACCAAAAGC
*
66383702 GCCGCTAATGTTCTA-T
65 GCCGCTAATGCTCTATT
* * ** * * * *
66383718 TTTTAGCGGTGTTTTAAAAAAAACACCACTATTGCTCAGTTTTTAGTGGCGTTTT
1 TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTGTTTTTAGCGGCGTTTT
66383773 TGGTAAAACG
Statistics
Matches: 184, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
80 16 0.09
81 34 0.18
82 52 0.28
83 82 0.45
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (81 bp):
TTTTAGTGGCGTTTTACCAAAAGCACCACTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
CCGCTAATGCTCTATT
Found at i:66398161 original size:34 final size:33
Alignment explanation
Indices: 66398097--66398162 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
66398087 TTAAAGATGT
* *
66398097 TGTTCTACATGCATGGAACGGCAATTAATGAGA
1 TGTTCCACATGCATGGAACGACAATTAATGAGA
*
66398130 TGTTCCACATGCAATGG-ACGACATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGACAATT-AATGAG
66398163 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGACAATTAATGAGA
Found at i:66400354 original size:93 final size:93
Alignment explanation
Indices: 66400226--66400397 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
66400216 ACCCATAAGT
* * *
66400226 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
66400291 TGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* * *
66400319 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
66400384 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
66400398 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:66400376 original size:46 final size:46
Alignment explanation
Indices: 66400218--66400393 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
66400208 TGTAAGCCAC
* * * *
66400218 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
66400264 CCATAAGTGAACTCAGACTCAACTCAATGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
66400310 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66400357 CCATAAGTGAACTCGGACTCAATTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66400394 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.64
47 29 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66401783 original size:46 final size:47
Alignment explanation
Indices: 66401691--66401793 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 47
66401681 GGATATTACA
* *
66401691 CCTTATCTTAACAAATGCCATGTTCCAAACATGGTCTTAAACGGTAT
1 CCTTGTCTTAACAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
* * *
66401738 CCTTGTCTTACCAAATGCCATGTT-CAAACATGCTCTTACATGGTAT
1 CCTTGTCTTAACAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
*
66401784 CATTGTCTTA
1 CCTTGTCTTA
66401794 GTTCCAATGT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
46 28 0.56
47 22 0.44
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (47 bp):
CCTTGTCTTAACAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
Found at i:66403451 original size:25 final size:25
Alignment explanation
Indices: 66403423--66403492 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
66403413 CTCTTTAAAT
*
66403423 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
66403448 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
66403473 AACTGAGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
66403493 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:66404338 original size:27 final size:27
Alignment explanation
Indices: 66404303--66404382 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
66404293 AGGCATATTC
* *
66404303 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACCCTACAGGGGCT-TTACA
*
66404330 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACA
**
66404357 GTCACTTTACCCTACAGAAGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
66404383 GGTCTTTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACA
Found at i:66404478 original size:27 final size:28
Alignment explanation
Indices: 66404448--66404581 Score: 111
Period size: 27 Copynumber: 4.9 Consensus size: 28
66404438 GTAAATCTAC
66404448 AAACT-AAGGGTATTT-TAGTAATTTTGT
1 AAACTCAAGGGTATTTCTA-TAATTTTGT
*
66404475 AAAC-CAATGGTATTTCTATAATTTT-T
1 AAACTCAAGGGTATTTCTATAATTTTGT
*
66404501 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAACTCAAGGGTATTTCTATAATTTTGT
* **
66404531 AAA-TCAGGGGTATTT-TAGTAATTTTAC
1 AAACTCAAGGGTATTTCTA-TAATTTTGT
* * *
66404558 AAATTGAA-GGTATTTCAATAATTT
1 AAACTCAAGGGTATTTCTATAATTT
66404582 CACAAACCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
26 3 0.03
27 54 0.61
28 11 0.12
29 20 0.22
30 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.43
Consensus pattern (28 bp):
AAACTCAAGGGTATTTCTATAATTTTGT
Found at i:66404624 original size:54 final size:54
Alignment explanation
Indices: 66404433--66404626 Score: 185
Period size: 54 Copynumber: 3.6 Consensus size: 54
66404423 TACAAGGGTG
* * * * *
66404433 TTTTGGTAAATCTACAAACTAAGGGTATTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTGTAAACCAGTGGTA
* * * * * *
66404487 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAATAATTTTGTAAACCAGTGGTA
* * ***
66404543 TTTTAGTAATTTTACAAATTGAA-GGTATTTCAATAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTATTTCAATAATTTTGTAAACCAGTGGTA
*
66404597 TTTTGGTAATTTTACAAACTAGGGGTATTT
1 TTTTGGTAATTTTACAAACTAAGGGTATTT
66404627 TGATAATTCT
Statistics
Matches: 111, Mismatches: 24, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 56 0.50
55 20 0.18
56 34 0.31
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTGTAAACCAGTGGTA
Found at i:66404627 original size:27 final size:27
Alignment explanation
Indices: 66404445--66404634 Score: 100
Period size: 27 Copynumber: 7.0 Consensus size: 27
66404435 TTGGTAAATC
* *
66404445 TACAAACTAAGGGTATTTTAGTAATTT
1 TACAAACTAGGGGTATTTTAATAATTT
** * **
66404472 TGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAACTAGGGGTATTT-TAATAA-TTT
* * *
66404500 TAGAAAGTCAAGGGTATTTCT-ATAATTT
1 TACAAACT-AGGGGTATTT-TAATAATTT
** *
66404528 TGTAAA-TCAGGGGTATTTTAGTAATTT
1 TACAAACT-AGGGGTATTTTAATAATTT
* * *
66404555 TACAAA-TTGAAGGTATTTCAATAATTT
1 TACAAACTAG-GGGTATTTTAATAATTT
* * * **
66404582 CACAAACCAGTGGTATTTTGGTAATTT
1 TACAAACTAGGGGTATTTTAATAATTT
*
66404609 TACAAACTAGGGGTATTTTGATAATT
1 TACAAACTAGGGGTATTTTAATAATT
66404635 CTACCCTACA
Statistics
Matches: 126, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.02
27 93 0.74
28 16 0.13
29 15 0.12
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
TACAAACTAGGGGTATTTTAATAATTT
Found at i:66404739 original size:54 final size:54
Alignment explanation
Indices: 66404666--66404838 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
66404656 GTAATTTCAC
*
66404666 AATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTGTA
* * *
66404720 AATTGGGGGTAAAATGGTAATTCTATAAATTAAGGGTAAAATGATAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTGTA
* * * * *
66404774 AATTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATA
1 AATTGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTGTA
*
66404828 AATCGAGGGTA
1 AATTGAGGGTA
66404839 CTTTGGTAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
AATTGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTGTA
Found at i:66404783 original size:81 final size:81
Alignment explanation
Indices: 66404666--66404830 Score: 240
Period size: 81 Copynumber: 2.0 Consensus size: 81
66404656 GTAATTTCAC
* * * ***
66404666 AATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATTGGGGGTA
1 AATTAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTA
*
66404731 AAATGGTAATTCTATA
66 AAACGGTAATTCTATA
* * *
66404747 AATTAAGGGTAAAATGATAATTCTGTAAATTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTA
1 AATTAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTA
66404812 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
66404828 AAT
1 AAT
66404831 CGAGGGTACT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (81 bp):
AATTAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTA
AAACGGTAATTCTATA
Found at i:66404846 original size:27 final size:27
Alignment explanation
Indices: 66404670--66404865 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
66404660 TTTCACAATT
*
66404670 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
66404697 GAGGGTAAAATGATAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
66404724 GGGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
* * * *
66404751 AAGGGTAAAATGATAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
66404778 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
66404805 AAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*** * * *
66404832 GAGGGTACTTTGGTAATTTTACAAGTC
1 GAGGGTAAAATGGTAATTCTATAAATC
66404859 GAGGGTA
1 GAGGGTA
66404866 TTTCAATAAT
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:66404849 original size:81 final size:81
Alignment explanation
Indices: 66404671--66404865 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
66404661 TTCACAATTG
* * *** *
66404671 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATTGGGGGTAAAATG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
*
66404736 GTAATTCTATAAATTA
66 GTAATTCTATAAATCA
* * *
66404752 AGGGTAAAATGATAATTCTGTAAATTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
*
66404817 GTAATTCTATAAATCG
66 GTAATTCTATAAATCA
*** * * *
66404833 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTA
66404866 TTTCAATAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
GTAATTCTATAAATCA
Found at i:66415335 original size:30 final size:30
Alignment explanation
Indices: 66415301--66415397 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
66415291 TAAACTAAAA
* *
66415301 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGT
* * * * * *
66415331 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGT
*
66415361 TGAGCTAAGGTTTAGCTCATGAGCTAAA-T
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGT
66415390 ATGAGCTA
1 -TGAGCTA
66415398 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCATGAGCTAAAGT
Found at i:66416673 original size:21 final size:21
Alignment explanation
Indices: 66416647--66416688 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
66416637 AAGAGATAGT
66416647 GCCGAATTGGTATGCTAGCCA
1 GCCGAATTGGTATGCTAGCCA
66416668 GCCGAATTGGTATGCTAGCCA
1 GCCGAATTGGTATGCTAGCCA
66416689 CTCAAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
GCCGAATTGGTATGCTAGCCA
Found at i:66430912 original size:23 final size:22
Alignment explanation
Indices: 66430861--66430912 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
66430851 CCTCGTCTTT
*
66430861 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
66430883 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
66430906 TTCTTTT
1 TTCTTTT
66430913 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:66436445 original size:11 final size:11
Alignment explanation
Indices: 66436429--66436456 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
66436419 TCGTATTTTT
66436429 TTTTTTTTGAC
1 TTTTTTTTGAC
66436440 TTTTTTTTGAC
1 TTTTTTTTGAC
66436451 TTTTTT
1 TTTTTT
66436457 ATATTCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:66441512 original size:27 final size:27
Alignment explanation
Indices: 66441476--66441738 Score: 266
Period size: 27 Copynumber: 9.8 Consensus size: 27
66441466 AGACCTCGAT
* **
66441476 TTGTAAAATTATCGAAATACCCTTGGA
1 TTGTAAAATTACCGAAATACCCTCAGA
* * *
66441503 TTGTAAAATTACCAAAAT-CCCCCCGA
1 TTGTAAAATTACCGAAATACCCTCAGA
66441529 TTTGTAAAATTACCGAAATACCCTCAGA
1 -TTGTAAAATTACCGAAATACCCTCAGA
* *
66441557 TTGTAAAATTACTGAAATACCC-CTAGT
1 TTGTAAAATTACCGAAATACCCTC-AGA
* *
66441584 TTGTAAAATTACTGAAATACCC-CAGT
1 TTGTAAAATTACCGAAATACCCTCAGA
*
66441610 TTGTAAAGTTACCGAAATACCCTCAGA
1 TTGTAAAATTACCGAAATACCCTCAGA
* *
66441637 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTACCGAAATACCCTCAGA
*** * *
66441664 TTGTAAAATTATTAAAATACCC-CGGT
1 TTGTAAAATTACCGAAATACCCTCAGA
* *
66441690 TTGTAAAATTACCGTAATACCCT-TGTA
1 TTGTAAAATTACCGAAATACCCTCAG-A
* *
66441717 GTGTAAAATTACTGAAATACCC
1 TTGTAAAATTACCGAAATACCC
66441739 CTGTAGGGTA
Statistics
Matches: 202, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 51 0.25
27 145 0.72
28 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTCAGA
Found at i:66441559 original size:54 final size:53
Alignment explanation
Indices: 66441472--66441739 Score: 281
Period size: 53 Copynumber: 5.0 Consensus size: 53
66441462 CTTAAGACCT
* ** *
66441472 CGATTTGTAAAATTATCGAAATACCCTTGGATTGTAAAATTACCAAAATCCCCC
1 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAAT-ACCC
**
66441526 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTGAAATACCC
1 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAATACCC
* * * * *
66441579 CTAGTTTGTAAAATTACTGAAATACCC-CAGTTTGTAAAGTTACCGAAATACCC
1 CGA-TTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAATACCC
* * **
66441632 TCAGA-TTGTAAAATTATCGAAATACCCTCAGTTTGTAAAATTATTAAAATACCC
1 -C-GATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAATACCC
* * * * **
66441686 CGGTTTGTAAAATTACCGTAATACCCT-TGTAGTGTAAAATTACTGAAATACCC
1 CGATTTGTAAAATTACCGAAATACCCTCAG-ATTGTAAAATTACCAAAATACCC
66441739 C
1 C
66441740 TGTAGGGTAA
Statistics
Matches: 182, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.01
53 90 0.49
54 89 0.49
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (53 bp):
CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAATACCC
Found at i:66441641 original size:80 final size:80
Alignment explanation
Indices: 66441476--66441740 Score: 340
Period size: 80 Copynumber: 3.3 Consensus size: 80
66441466 AGACCTCGAT
* * * * * *
66441476 TTGTAAAATTATCGAAATACCCTTGGATTGTAAAATTACCAAAATCCCCCCGATTTGTAAAATTA
1 TTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCAG-TTTGTAAAATTA
66441541 CCGAAATACCCTCAGA
65 CCGAAATACCCTCAGA
* *
66441557 TTGTAAAATTA-CTGAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCAGTTTGTAAAGTTA
1 TTGTAAAATTATC-GAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCAGTTTGTAAAATTA
66441621 CCGAAATACCCTCAGA
65 CCGAAATACCCTCAGA
* *
66441637 TTGTAAAATTATCGAAATA-CCCTCAGTTTGTAAAATTATTAAAATACCCCGGTTTGTAAAATTA
1 TTGTAAAATTATCGAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCCAGTTTGTAAAATTA
* *
66441701 CCGTAATACCCT-TGTA
65 CCGAAATACCCTCAG-A
*
66441717 GTGTAAAATTA-CTGAAATACCCCT
1 TTGTAAAATTATC-GAAATACCCCT
66441741 GTAGGGTAAA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
79 6 0.04
80 109 0.67
81 48 0.29
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (80 bp):
TTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCAGTTTGTAAAATTAC
CGAAATACCCTCAGA
Found at i:66443759 original size:11 final size:10
Alignment explanation
Indices: 66443734--66443794 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
66443724 ACCAATAAAA
66443734 TAAA-TGAGC
1 TAAATTGAGC
*
66443743 TGAATTGTAGC
1 TAAATTG-AGC
66443754 TAAATTGAGC
1 TAAATTGAGC
**
66443764 TCGATTGAGC
1 TAAATTGAGC
66443774 TGAAA-TGAGC
1 T-AAATTGAGC
*
66443784 TCAATTGAGC
1 TAAATTGAGC
66443794 T
1 T
66443795 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:66443795 original size:20 final size:20
Alignment explanation
Indices: 66443735--66443795 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66443725 CCAATAAAAT
*
66443735 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
66443755 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
66443776 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
66443796 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:66446387 original size:15 final size:14
Alignment explanation
Indices: 66446351--66446405 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
66446341 TCTATTGATC
66446351 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
66446365 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
66446379 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
66446394 GAAAGAAAAGAA
1 GAGA-AAAAGAA
66446406 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:66449791 original size:11 final size:10
Alignment explanation
Indices: 66449766--66449826 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
66449756 ACCAATAAAA
66449766 TAAA-TGAGC
1 TAAATTGAGC
*
66449775 TGAATTGTAGC
1 TAAATTG-AGC
66449786 TAAATTGAGC
1 TAAATTGAGC
**
66449796 TCGATTGAGC
1 TAAATTGAGC
66449806 TGAAA-TGAGC
1 T-AAATTGAGC
*
66449816 TCAATTGAGC
1 TAAATTGAGC
66449826 T
1 T
66449827 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:66449827 original size:20 final size:20
Alignment explanation
Indices: 66449767--66449827 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66449757 CCAATAAAAT
*
66449767 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
66449787 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
66449808 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
66449828 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:66451919 original size:18 final size:18
Alignment explanation
Indices: 66451898--66451932 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66451888 TTTTTCTTTT
66451898 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
66451916 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
66451933 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:66452863 original size:15 final size:15
Alignment explanation
Indices: 66452830--66452881 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
66452820 TTTAACTTGA
66452830 TTTTTTTTGCTCACCT
1 TTTTTTTTGCTCA-CT
66452846 TTTTTTTTGCTCGA-T
1 TTTTTTTTGCTC-ACT
66452861 TTTTTTTT--TCACT
1 TTTTTTTTGCTCACT
66452874 TTTTTTTT
1 TTTTTTTT
66452882 TGAATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.32
15 9 0.26
16 12 0.35
17 1 0.03
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (15 bp):
TTTTTTTTGCTCACT
Found at i:66452876 original size:13 final size:13
Alignment explanation
Indices: 66452845--66452921 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 13
66452835 TTTGCTCACC
*
66452845 TTTTTTTTTGCTCGA
1 TTTTTTTTT--TCAA
*
66452860 TTTTTTTTTTCAC
1 TTTTTTTTTTCAA
*
66452873 TTTTTTTTTTGAA
1 TTTTTTTTTTCAA
*
66452886 TTTTTTTTCAATCAA
1 TTTTTTTT--TTCAA
66452901 -TTTTTTTTTCGAA
1 TTTTTTTTTTC-AA
66452914 TTTTTTTT
1 TTTTTTTT
66452922 ATTTTTTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
12 2 0.04
13 23 0.45
14 14 0.27
15 12 0.24
ACGTcount: A:0.13, C:0.09, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:66452883 original size:29 final size:28
Alignment explanation
Indices: 66452808--66452881 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 28
66452798 CTCGCAAGAC
** *
66452808 TTTTCACTTTTTTTTAACTTGATTTTTT
1 TTTTCACTTTTTTTTTGCTCGATTTTTT
*
66452836 TTGCTCACCTTTTTTTTTGCTCGATTTTTT
1 TT-TTCA-CTTTTTTTTTGCTCGATTTTTT
66452866 TTTTCACTTTTTTTTT
1 TTTTCACTTTTTTTTT
66452882 TGAATTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 12 0.31
29 6 0.15
30 21 0.54
ACGTcount: A:0.09, C:0.15, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTTCACTTTTTTTTTGCTCGATTTTTT
Found at i:66452891 original size:28 final size:28
Alignment explanation
Indices: 66452860--66452926 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
66452850 TTTTGCTCGA
* *
66452860 TTTTTTTTTTCACTTTTTTTTTTGAATT
1 TTTTTTTTTTCAATTTTTTTTTCGAATT
***
66452888 TTTTTTCAATCAATTTTTTTTTCGAATT
1 TTTTTTTTTTCAATTTTTTTTTCGAATT
66452916 TTTTTTATTTT
1 TTTTTT-TTTT
66452927 TTTTGTTACT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTTTTTTTTCAATTTTTTTTTCGAATT
Found at i:66458257 original size:11 final size:10
Alignment explanation
Indices: 66458232--66458292 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
66458222 ACCAATAAAA
66458232 TAAA-TGAGC
1 TAAATTGAGC
*
66458241 TGAATTGTAGC
1 TAAATTG-AGC
66458252 TAAATTGAGC
1 TAAATTGAGC
**
66458262 TCGATTGAGC
1 TAAATTGAGC
66458272 TGAAA-TGAGC
1 T-AAATTGAGC
*
66458282 TCAATTGAGC
1 TAAATTGAGC
66458292 T
1 T
66458293 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:66458293 original size:20 final size:20
Alignment explanation
Indices: 66458233--66458293 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66458223 CCAATAAAAT
*
66458233 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
66458253 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
66458274 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
66458294 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:66460472 original size:148 final size:148
Alignment explanation
Indices: 66460204--66460502 Score: 395
Period size: 148 Copynumber: 2.0 Consensus size: 148
66460194 TATTTTAAGT
* *
66460204 AAACTCAGCTAACGATAAATACTTTTCCCAGCTACCTTTGAACTCAATTATGCAGCACCATAACA
1 AAACTCAGCTAACGATAAATACTTTTCCCAGCTACCTTTGAACTCAATTACGCAACACCATAACA
* * * * *
66460269 TATCTTCCATAATGTGTATTACTCATTCAGACTAGCCATTCATTTGCGAATGAAAGGCAGTATTA
66 TATCTTCAATAATCTGTATTACTCATTCAGAATAGCCATTAATTTGCGAATGAAAGGCAGCATTA
*
66460334 AAATTCAATCTGGAGCCC
131 AAATTCAATCTAGAGCCC
* * *
66460352 AAACTCAGCTAATGGA-AAATACTTTTCCCAGTTACCTTTGAACTCAATTACGTAACACCATAAC
1 AAACTCAGCTAA-CGATAAATACTTTTCCCAGCTACCTTTGAACTCAATTACGCAACACCATAAC
** * * * **
66460416 ATATCTTTCAAT-ATCTGTATTACTTGTTCAGAATGGCCATTAATTTGTGTATGAAAGGTGGCAT
65 ATATC-TTCAATAATCTGTATTACTCATTCAGAATAGCCATTAATTTGCGAATGAAAGGCAGCAT
*
66460480 TGAAATTCAATCTAGAGCCC
129 TAAAATTCAATCTAGAGCCC
66460500 AAA
1 AAA
66460503 GCCTCTTGCA
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
148 123 0.95
149 7 0.05
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (148 bp):
AAACTCAGCTAACGATAAATACTTTTCCCAGCTACCTTTGAACTCAATTACGCAACACCATAACA
TATCTTCAATAATCTGTATTACTCATTCAGAATAGCCATTAATTTGCGAATGAAAGGCAGCATTA
AAATTCAATCTAGAGCCC
Done.