Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 135 of 145
Found at i:44372811 original size:28 final size:28
Alignment explanation
Indices: 44372776--44372832 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
44372766 GAACTACCCT
*
44372776 ATATACAAGATAATAAAATGATATACCA
1 ATATACAAGATAACAAAATGATATACCA
44372804 ATATACAAGATAACAAAATGATATACCA
1 ATATACAAGATAACAAAATGATATACCA
44372832 A
1 A
44372833 AAGTATAATA
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:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (28 bp):
ATATACAAGATAACAAAATGATATACCA
Found at i:44375795 original size:16 final size:16
Alignment explanation
Indices: 44375774--44375807 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44375764 GTTTTTATGT
* *
44375774 TATAAATTATATAATA
1 TATAAATAACATAATA
44375790 TATAAATAACATAATA
1 TATAAATAACATAATA
44375806 TA
1 TA
44375808 ATGTATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATAACATAATA
Found at i:44380164 original size:18 final size:18
Alignment explanation
Indices: 44380137--44380199 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
44380127 GTGCACTAGT
* *
44380137 CACACATGCACTTTGTGC
1 CACACGTGCACTTAGTGC
*
44380155 AACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
*
44380173 CACA-TTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
44380190 CACACGTGCA
1 CACACGTGCA
44380200 ACTCATACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 16 0.42
18 22 0.58
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (18 bp):
CACACGTGCACTTAGTGC
Found at i:44380183 original size:17 final size:16
Alignment explanation
Indices: 44380139--44380193 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
44380129 GCACTAGTCA
*
44380139 CACATGCACTTTGTGC
1 CACATGCACTTAGTGC
*
44380155 AACACGTGCACTTAGTGC
1 --CACATGCACTTAGTGC
44380173 CACATTGCACTTAGTGC
1 CACA-TGCACTTAGTGC
44380190 CACA
1 CACA
44380194 CGTGCAACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 3 0.09
17 16 0.48
18 14 0.42
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (16 bp):
CACATGCACTTAGTGC
Found at i:44380184 original size:35 final size:33
Alignment explanation
Indices: 44380127--44380199 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 33
44380117 CTTTGGAGAA
*
44380127 GTGCACTAGTCACACATGCACTTTGTGCAACAC
1 GTGCACTAGTCACACATGCACTTAGTGCAACAC
*
44380160 GTGCACTTAGTGC-CACATTGCACTTAGTGCCACAC
1 GTGCAC-TAGT-CACACA-TGCACTTAGTGCAACAC
44380195 GTGCA
1 GTGCA
44380200 ACTCATACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 6 0.17
34 8 0.23
35 21 0.60
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (33 bp):
GTGCACTAGTCACACATGCACTTAGTGCAACAC
Found at i:44380288 original size:18 final size:18
Alignment explanation
Indices: 44380232--44380293 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
44380222 GAAGTGCAGT
*
44380232 CACACGTGCAGTTAGTGC
1 CACACGTGCACTTAGTGC
44380250 CACATC-T-CACTT-GTGC
1 CACA-CGTGCACTTAGTGC
*
44380266 AACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
44380284 CACACGTGCA
1 CACACGTGCA
44380294 ACTCATCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 1 0.03
16 8 0.22
17 9 0.24
18 18 0.49
19 1 0.03
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (18 bp):
CACACGTGCACTTAGTGC
Found at i:44380288 original size:52 final size:52
Alignment explanation
Indices: 44380232--44380397 Score: 132
Period size: 52 Copynumber: 3.2 Consensus size: 52
44380222 GAAGTGCAGT
44380232 CACACGTGCAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGC
1 CACACGTGCAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGC
* * * ** * * *
44380284 CACACGTGCAACTCA-T-CTCACCTCAT-ACTTGT--AATCTTTGGTGAAGTGCAGT--
1 CACACGTGC-AGTTAGTGC-CACATC-TCACTTGTGCAA-C--ACGTGCACT-TAGTGC
44380336 CACACG-GTCAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGC
1 CACACGTG-CAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGC
44380388 CACACGTGCA
1 CACACGTGCA
44380398 ACTCATCTCA
Statistics
Matches: 82, Mismatches: 16, Indels: 32
0.63 0.12 0.25
Matches are distributed among these distances:
50 5 0.06
51 12 0.15
52 48 0.59
53 12 0.15
54 5 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (52 bp):
CACACGTGCAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGC
Found at i:44380392 original size:18 final size:18
Alignment explanation
Indices: 44380347--44380397 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
44380337 ACACGGTCAG
44380347 TTAGTGCCACATC-T-CAC
1 TTAGTGCCACA-CGTGCAC
*
44380364 TT-GTGCAACACGTGCAC
1 TTAGTGCCACACGTGCAC
44380381 TTAGTGCCACACGTGCA
1 TTAGTGCCACACGTGCA
44380398 ACTCATCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 1 0.03
16 8 0.28
17 7 0.24
18 13 0.45
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (18 bp):
TTAGTGCCACACGTGCAC
Found at i:44380418 original size:52 final size:52
Alignment explanation
Indices: 44380258--44380419 Score: 124
Period size: 52 Copynumber: 3.1 Consensus size: 52
44380248 GCCACATCTC
44380258 ACTTGTGCAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCAT
1 ACTTGTGCAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCAT
** * * * * * *
44380310 ACTTGT--AATCTTTGGTGAAGTGCAGT--CACACG-GTC-AGTTAGTGC-CACATC-T
1 ACTTGTGCAA-C--ACGTGCACT-TAGTGCCACACGTG-CAACTCA-T-CTCACCTCAT
44380361 CACTTGTGCAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCAT
1 -ACTTGTGCAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCAT
44380414 ACTTGT
1 ACTTGT
44380420 AATCTTTGGT
Statistics
Matches: 78, Mismatches: 16, Indels: 32
0.62 0.13 0.25
Matches are distributed among these distances:
50 5 0.06
51 12 0.15
52 44 0.56
53 12 0.15
54 5 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (52 bp):
ACTTGTGCAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCAT
Found at i:44380444 original size:52 final size:52
Alignment explanation
Indices: 44380284--44380449 Score: 132
Period size: 52 Copynumber: 3.2 Consensus size: 52
44380274 CACTTAGTGC
44380284 CACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGT
1 CACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGT
* * * ** * * *
44380336 CACACG-GTC-AGTTAGTGC-CACATC-TCACTTGTGCAA-C--ACGTGCACT-TAGT
1 CACACGTG-CAACTCA-T-CTCACCTCAT-ACTTGT--AATCTTTGGTGAAGTGCAGT
44380386 GCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGT
1 --CACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGT
44380440 CACACGTGCA
1 CACACGTGCA
44380450 GTTAGTGCCA
Statistics
Matches: 82, Mismatches: 16, Indels: 32
0.63 0.12 0.25
Matches are distributed among these distances:
50 5 0.06
51 12 0.15
52 48 0.59
53 12 0.15
54 5 0.06
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (52 bp):
CACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGT
Found at i:44380455 original size:70 final size:70
Alignment explanation
Indices: 44380371--44380600 Score: 251
Period size: 70 Copynumber: 3.3 Consensus size: 70
44380361 CACTTGTGCA
44380371 ACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTG
1 ACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTG
44380436 CAGTC
66 CAGTC
* * ** **
44380441 ACACGTGCAGTTAGTGCCACACGTGC-ACTTAGTGC-CATATC-TCACTTGTGCAA-C--ACGTG
1 ACACGTGCACTTAGTGCCACACGTGCAACTCA-T-CTCACCTCAT-ACTTGT--AATCTTTGGTG
** *
44380500 CACTTAG-TGTC
61 -AAGT-GCAGTC
*
44380511 ACA-TTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTG
1 ACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTG
44380575 CAGTC
66 CAGTC
44380580 ACACGTGCACTTAGTGCCACA
1 ACACGTGCACTTAGTGCCACA
44380601 TTTCACTTGT
Statistics
Matches: 125, Mismatches: 20, Indels: 30
0.71 0.11 0.17
Matches are distributed among these distances:
67 2 0.02
68 3 0.02
69 47 0.38
70 68 0.54
71 3 0.02
72 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (70 bp):
ACACGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTG
CAGTC
Found at i:44380463 original size:18 final size:18
Alignment explanation
Indices: 44380440--44380536 Score: 112
Period size: 18 Copynumber: 5.6 Consensus size: 18
44380430 GAAGTGCAGT
*
44380440 CACACGTGCAGTTAGTGC
1 CACACGTGCACTTAGTGC
44380458 CACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
*
44380476 CATATC-T-CACTT-GTGC
1 CACA-CGTGCACTTAGTGC
* *
44380492 AACACGTGCACTTAGTGT
1 CACACGTGCACTTAGTGC
*
44380510 CACA-TTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
44380527 CACACGTGCA
1 CACACGTGCA
44380537 ACTCATCTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
15 1 0.02
16 7 0.11
17 25 0.38
18 31 0.48
19 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (18 bp):
CACACGTGCACTTAGTGC
Found at i:44380501 original size:104 final size:104
Alignment explanation
Indices: 44380201--44380461 Score: 506
Period size: 104 Copynumber: 2.5 Consensus size: 104
44380191 ACACGTGCAA
44380201 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGTTAGTGCCACATCTCACTTGTGC
1 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGTTAGTGCCACATCTCACTTGTGC
44380266 AACACGTGCACTTAGTGCCACACGTGCAACTCATCTCAC
66 AACACGTGCACTTAGTGCCACACGTGCAACTCATCTCAC
44380305 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACG-GTCAGTTAGTGCCACATCTCACTTGTG
1 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTG-CAGTTAGTGCCACATCTCACTTGTG
44380369 CAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCAC
65 CAACACGTGCACTTAGTGCCACACGTGCAACTCATCTCAC
44380409 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGTTAGTGCCACA
1 CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGTTAGTGCCACA
44380462 CGTGCACTTA
Statistics
Matches: 155, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
103 1 0.01
104 153 0.99
105 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (104 bp):
CTCATACTTGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGTTAGTGCCACATCTCACTTGTGC
AACACGTGCACTTAGTGCCACACGTGCAACTCATCTCAC
Found at i:44380502 original size:34 final size:35
Alignment explanation
Indices: 44380446--44380536 Score: 123
Period size: 34 Copynumber: 2.6 Consensus size: 35
44380436 CAGTCACACG
* *
44380446 TGCAGTTAGTGCCACACGTGCACTTAGTGCCATAT
1 TGCACTTAGTGCCACACGTGCACTTAGTGCCACAT
* *
44380481 CT-CACTT-GTGCAACACGTGCACTTAGTGTCACAT
1 -TGCACTTAGTGCCACACGTGCACTTAGTGCCACAT
44380515 TGCACTTAGTGCCACACGTGCA
1 TGCACTTAGTGCCACACGTGCA
44380537 ACTCATCTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.60
35 17 0.35
36 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (35 bp):
TGCACTTAGTGCCACACGTGCACTTAGTGCCACAT
Found at i:44380612 original size:121 final size:121
Alignment explanation
Indices: 44380272--44380721 Score: 558
Period size: 121 Copynumber: 3.7 Consensus size: 121
44380262 GTGCAACACG
44380272 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
1 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
* *
44380337 ACACG-GTCAGTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGCCACACG
66 ACACGTG-CACTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGCCACA-T
* * * * ** ** * * **** *
44380394 TGCAACTCA-T-CTCAC-C-T-CATACT--TGTAATCTTTGGTGAAGTGCAGTCACACGTGCAGT
1 TGC-ACTTAGTGC-CACACGTGCA-ACTCATCTCA-C-CTCAT-ACTTGTAATCTTTGGTGAAGT
* * *
44380452 -TAGTGCCACACGTGCACTTAGTGCCATATCTCACTTGTGCAACACGTGCACTTAGTGTCACAT
60 GCAGT--CACACGTGCACTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGCCACAT
44380515 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
1 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
*
44380580 ACACGTGCACTTAGTGCCACATTTCACTTGTGCAACACGTGCACTTAGTGCCACAT
66 ACACGTGCACTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGCCACAT
44380636 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
1 TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
44380701 ACACGTGCACTTAGTGCCACA
66 ACACGTGCACTTAGTGCCACA
44380722 AGTGCACTTA
Statistics
Matches: 272, Mismatches: 39, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
118 3 0.01
119 3 0.01
120 13 0.05
121 161 0.59
122 72 0.26
123 14 0.05
124 3 0.01
125 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (121 bp):
TGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTGTAATCTTTGGTGAAGTGCAGTC
ACACGTGCACTTAGTGCCACATCTCACTTGTGCAACACGTGCACTTAGTGCCACAT
Found at i:44380618 original size:34 final size:35
Alignment explanation
Indices: 44380580--44380657 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 35
44380570 AAGTGCAGTC
*
44380580 ACACGTGCACTTAGTGCCACATTTCACTT-GTGCA
1 ACACGTGCACTTAGTGCCACATTGCACTTAGTGCA
*
44380614 ACACGTGCACTTAGTGCCACATTGCACTTAGTGCC
1 ACACGTGCACTTAGTGCCACATTGCACTTAGTGCA
44380649 ACACGTGCA
1 ACACGTGCA
44380658 ACTCATCTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 28 0.68
35 13 0.32
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (35 bp):
ACACGTGCACTTAGTGCCACATTGCACTTAGTGCA
Found at i:44380624 original size:17 final size:18
Alignment explanation
Indices: 44380579--44380657 Score: 101
Period size: 17 Copynumber: 4.6 Consensus size: 18
44380569 GAAGTGCAGT
44380579 CACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
* *
44380597 CACA-TTTCACTT-GTGC
1 CACACGTGCACTTAGTGC
*
44380613 AACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
*
44380631 CACA-TTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
44380648 CACACGTGCA
1 CACACGTGCA
44380658 ACTCATCTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
16 7 0.14
17 28 0.56
18 15 0.30
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (18 bp):
CACACGTGCACTTAGTGC
Found at i:44380744 original size:18 final size:18
Alignment explanation
Indices: 44380700--44380745 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
44380690 GAAGTGCAGT
44380700 CACACGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
*
44380718 CACAAGTGCACTTAGTGC
1 CACACGTGCACTTAGTGC
*
44380736 CTCACGTGCA
1 CACACGTGCA
44380746 ACTCATCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (18 bp):
CACACGTGCACTTAGTGC
Found at i:44380762 original size:88 final size:87
Alignment explanation
Indices: 44380614--44380787 Score: 312
Period size: 88 Copynumber: 2.0 Consensus size: 87
44380604 CACTTGTGCA
*
44380614 ACACGTGCACTTAGTGCCACATTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTG
1 ACACGTGCACTTAGTGCCACAGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTG
*
44380679 TAATCTTTGGTGAAGTGCAGTC
66 TAATCTTCGGTGAAGTGCAGTC
*
44380701 ACACGTGCACTTAGTGCCACAAGTGCACTTAGTGCCTCACGTGCAACTCATCTCACCTCATACTT
1 ACACGTGCACTTAGTGCCAC-AGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTT
44380766 GTAATCTTCGGTGAAGTGCAGT
65 GTAATCTTCGGTGAAGTGCAGT
44380788 TTGGGGAGGG
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
87 20 0.24
88 63 0.76
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (87 bp):
ACACGTGCACTTAGTGCCACAGTGCACTTAGTGCCACACGTGCAACTCATCTCACCTCATACTTG
TAATCTTCGGTGAAGTGCAGTC
Found at i:44381845 original size:6 final size:6
Alignment explanation
Indices: 44381836--44381873 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
44381826 TCTCTTTAAC
*
44381836 GTTGGT GTTGGT GTTGGT GTTGGT GATGGT GTTGGT GT
1 GTTGGT GTTGGT GTTGGT GTTGGT GTTGGT GTTGGT GT
44381874 GATGTGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (6 bp):
GTTGGT
Found at i:44396102 original size:18 final size:18
Alignment explanation
Indices: 44396079--44396128 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
44396069 ATAAATACCA
44396079 AAAAAATATTTTAAAAAT
1 AAAAAATATTTTAAAAAT
44396097 AAAAAATATTTT-AAAAT
1 AAAAAATATTTTAAAAAT
44396114 AAAAATATATATTTA
1 AAAAA-ATAT-TTTA
44396129 TTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.34
18 16 0.55
19 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATATTTTAAAAAT
Found at i:44399002 original size:3 final size:3
Alignment explanation
Indices: 44398994--44399021 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44398984 TCTGCAGTTT
44398994 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
44399022 GACATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:44399071 original size:4 final size:4
Alignment explanation
Indices: 44399062--44399105 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
44399052 CAAAAATCTT
44399062 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
44399106 AATGAATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:44408700 original size:21 final size:21
Alignment explanation
Indices: 44408654--44408716 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
44408644 CCTGATCAGT
* *
44408654 AAACGACACATAA-GTGTCTG
1 AAACGACACACAAGGTGCCTG
*
44408674 AAACGACACACGAGGTGCCTG
1 AAACGACACACAAGGTGCCTG
* *
44408695 ATACGACACATAAGGTGCCTG
1 AAACGACACACAAGGTGCCTG
44408716 A
1 A
44408717 GATACAATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (21 bp):
AAACGACACACAAGGTGCCTG
Found at i:44408763 original size:23 final size:22
Alignment explanation
Indices: 44408688--44408762 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
44408678 GACACACGAG
* *
44408688 GTGCCTGA-TACGACACATAAG
1 GTGCCTGAGTACAACACATAAA
*
44408709 GTGCCTGAGATACAATACATAAA
1 GTGCCTGAG-TACAACACATAAA
**
44408732 GTGTTTGATGTACAACACATAAA
1 GTGCCTGA-GTACAACACATAAA
44408755 GTGCCTGA
1 GTGCCTGA
44408763 TCGGCCAAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 8 0.19
23 34 0.79
24 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
GTGCCTGAGTACAACACATAAA
Found at i:44409125 original size:16 final size:17
Alignment explanation
Indices: 44409104--44409135 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44409094 TAAGAATAAT
44409104 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
44409120 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
44409136 GCTTGCCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:44409857 original size:6 final size:6
Alignment explanation
Indices: 44409846--44409891 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
44409836 ATGTATTAGT
* * *
44409846 TAATAA TAATAA TTATTA TAATTA TAATTA TAATTA TAATTA TAAT
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAAT
44409892 AATATTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:44409872 original size:18 final size:18
Alignment explanation
Indices: 44409846--44409907 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
44409836 ATGTATTAGT
*
44409846 TAATAATAATAATTATTA
1 TAATTATAATAATTATTA
* *
44409864 TAATTATAATTATAATTA
1 TAATTATAATAATTATTA
44409882 TAATTATAATAA-TATT-
1 TAATTATAATAATTATTA
44409898 TAATTCATAA
1 TAATT-ATAA
44409908 ATATCTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
16 5 0.13
17 7 0.18
18 26 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTATAATAATTATTA
Found at i:44410207 original size:18 final size:19
Alignment explanation
Indices: 44410163--44410200 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
44410153 CTATTTGATT
44410163 TAATTTATAATATAATATCA
1 TAATTT-TAATATAATATCA
44410183 TAATTTTAAT-TAATATCA
1 TAATTTTAATATAATATCA
44410201 AGATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTTTAATATAATATCA
Found at i:44410208 original size:19 final size:20
Alignment explanation
Indices: 44410163--44410209 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
44410153 CTATTTGATT
*
44410163 TAATTTATAATATAATATCA
1 TAATTTTTAATATAATATCA
44410183 TAA-TTTTAAT-TAATATCA
1 TAATTTTTAATATAATATCA
44410201 -AGATTTTTA
1 TA-ATTTTTA
44410210 TGAAGTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 9 0.38
19 11 0.46
20 3 0.12
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTTTTAATATAATATCA
Found at i:44411579 original size:30 final size:29
Alignment explanation
Indices: 44411545--44411610 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
44411535 TTAAATAAAA
*
44411545 AACTTTCAATTAGTTCAATGATCATTTTCT
1 AACTTTCAA-AAGTTCAATGATCATTTTCT
* *
44411575 AACTTTTTAAAAGTTCAATGATCATTTTGT
1 AAC-TTTCAAAAGTTCAATGATCATTTTCT
44411605 AACTTT
1 AACTTT
44411611 TTAAAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 24 0.75
31 5 0.16
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47
Consensus pattern (29 bp):
AACTTTCAAAAGTTCAATGATCATTTTCT
Found at i:44411611 original size:30 final size:30
Alignment explanation
Indices: 44411556--44411615 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
44411546 ACTTTCAATT
44411556 AGTTCAATGATCATTTTCTAACTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
*
44411586 AGTTCAATGATCATTTTGTAACTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
44411616 GTTAAGTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (30 bp):
AGTTCAATGATCATTTTCTAACTTTTTAAA
Found at i:44421772 original size:26 final size:26
Alignment explanation
Indices: 44421703--44421766 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 26
44421693 AGTTATCTCA
44421703 ATTATTAAAATTTTAATTTTTTAAAGT
1 ATTA-TAAAATTTTAATTTTTTAAAGT
44421730 ATTATAAAATTTTAATTTTTTAAAGT
1 ATTATAAAATTTTAATTTTTTAAAGT
44421756 ATTATAAAATT
1 ATTATAAAATT
44421767 AGAATTGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
ATTATAAAATTTTAATTTTTTAAAGT
Found at i:44423237 original size:31 final size:30
Alignment explanation
Indices: 44423182--44423240 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
44423172 AAAATATGTC
44423182 GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
1 GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
* * *
44423212 GTTTTTATTGGTAGTGGTTATGCGGTTAA
1 GTTTTTA-GGGTAGTAGTTACGCGGTTAA
44423241 TGGTCCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.42
Consensus pattern (30 bp):
GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
Found at i:44423827 original size:36 final size:37
Alignment explanation
Indices: 44423757--44423829 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
44423747 AGTGGGCGGC
*
44423757 ATGTGTATAATATATATAGTTTTTATATTAATTATAA
1 ATGTGTATAATATATATAGTTTTTATAATAATTATAA
44423794 ATGT-TATAATATATATA-TTATATTATAAT-ATTATAA
1 ATGTGTATAATATATATAGTT-T-TTATAATAATTATAA
44423830 TTAAACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 2 0.06
36 21 0.64
37 10 0.30
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (37 bp):
ATGTGTATAATATATATAGTTTTTATAATAATTATAA
Found at i:44423832 original size:14 final size:14
Alignment explanation
Indices: 44423785--44423832 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
44423775 GTTTTTATAT
*
44423785 TAATTATAAATGTTA
1 TAATTAT-AATATTA
44423800 TAA-TATATATATTA
1 TAATTATA-ATATTA
44423814 T-ATTATAATATTA
1 TAATTATAATATTA
44423827 TAATTA
1 TAATTA
44423833 AACAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 9 0.31
14 17 0.59
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TAATTATAATATTA
Found at i:44425895 original size:52 final size:51
Alignment explanation
Indices: 44425819--44425974 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
44425809 ATGAAGAAAT
*
44425819 AAAAA-AATATTTTTATTCAATTTGGGTGCATTCAAATAATATGGCGGCACTA
1 AAAAATAAT-TTTTTATTCAATTTGGGTGC-TTCAAATAATATGGCGGCACCA
* * *
44425871 AAAAATAATTTTTTATTCAATTTGGGTGCCTCTAAATAATGTGGTGGCACCA
1 AAAAATAATTTTTTATTCAATTTGGGTGCTTC-AAATAATATGGCGGCACCA
** * * *
44425923 AAAAATAATTTTTTATTTTATTTTGGTGCCTTTAAATAAAATGGCGGCACCA
1 AAAAATAATTTTTTATTCAATTTGGGTG-CTTCAAATAATATGGCGGCACCA
44425975 TAAATATTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.92
53 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (51 bp):
AAAAATAATTTTTTATTCAATTTGGGTGCTTCAAATAATATGGCGGCACCA
Found at i:44428598 original size:16 final size:16
Alignment explanation
Indices: 44428579--44428630 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
44428569 AAATTTCAAC
44428579 AAATAAAAAATATATA
1 AAATAAAAAATATATA
**
44428595 AAATTATTAAATAT-TA
1 AAA-TAAAAAATATATA
44428611 AAATAAAAAAATAATATA
1 AAAT-AAAAAAT-ATATA
44428629 AA
1 AA
44428631 CAGACCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.46
17 10 0.36
18 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAAAATATATA
Found at i:44441615 original size:14 final size:13
Alignment explanation
Indices: 44441581--44441613 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
44441571 AATTATCTAG
44441581 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
44441594 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
44441607 ATTTTTT
1 ATTTTTT
44441614 TACTCCTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:44442169 original size:22 final size:22
Alignment explanation
Indices: 44442142--44442183 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
44442132 AATTAATTAA
44442142 AAAAATGAATTGAATATCATCT
1 AAAAATGAATTGAATATCATCT
44442164 AAAAATGAATTGAATATCAT
1 AAAAATGAATTGAATATCAT
44442184 GTATGGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAATGAATTGAATATCATCT
Found at i:44450681 original size:51 final size:51
Alignment explanation
Indices: 44450600--44450715 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
44450590 AACGCCGGAG
* ** *
44450600 TGATAAGTGACAAATGGAAAGTGATAAGTGATTGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGCGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
*
44450651 TGATCAGTGACAAGCGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGCGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
44450702 TGATCAGTGACAAG
1 TGATCAGTGACAAG
44450716 TGATAAGTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (51 bp):
TGATCAGTGACAAGCGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
Found at i:44456620 original size:10 final size:10
Alignment explanation
Indices: 44456607--44456754 Score: 55
Period size: 10 Copynumber: 15.3 Consensus size: 10
44456597 TTTTGATGCA
44456607 TTTTATAAAT
1 TTTTATAAAT
*
44456617 TTTTAT-GAT
1 TTTTATAAAT
*
44456626 TTTTATAAAA
1 TTTTATAAAT
**
44456636 TTTTACCAAT
1 TTTTATAAAT
*
44456646 TTTTATATAT
1 TTTTATAAAT
44456656 TTTT-TACAAT
1 TTTTATA-AAT
* *
44456666 ATATAT-AA-
1 TTTTATAAAT
*
44456674 TTTTCT-AAT
1 TTTTATAAAT
*
44456683 TTTTAGT-GAT
1 TTTTA-TAAAT
44456693 TTTTA-AATAT
1 TTTTATAA-AT
*
44456703 TTTAAATATAAT
1 TTT-TATA-AAT
* *
44456715 TTAT-TAAAG
1 TTTTATAAAT
*
44456724 TTTAAT-AAT
1 TTTTATAAAT
44456733 TTTTAT-AAT
1 TTTTATAAAT
*
44456742 TTTTATAACT
1 TTTTATAAAT
44456752 TTT
1 TTT
44456755 ATTGATTTTT
Statistics
Matches: 99, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
8 5 0.05
9 36 0.36
10 50 0.51
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:44456629 original size:19 final size:20
Alignment explanation
Indices: 44456607--44456659 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
44456597 TTTTGATGCA
**
44456607 TTTTATAAATTTTTA-TGAT
1 TTTTATAAATTTTTACCAAT
*
44456626 TTTTATAAAATTTTACCAAT
1 TTTTATAAATTTTTACCAAT
*
44456646 TTTTATATATTTTT
1 TTTTATAAATTTTT
44456660 TACAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAAATTTTTACCAAT
Found at i:44456742 original size:9 final size:9
Alignment explanation
Indices: 44456607--44456775 Score: 81
Period size: 9 Copynumber: 17.4 Consensus size: 9
44456597 TTTTGATGCA
44456607 TTTTATAAAT
1 TTTTAT-AAT
*
44456617 TTTTATGAT
1 TTTTATAAT
*
44456626 TTTTATAAAA
1 TTTTAT-AAT
*
44456636 TTTTACCAAT
1 TTTTA-TAAT
44456646 TTTTATATATT
1 TTTTATA-A-T
*
44456657 TTTTACAAT
1 TTTTATAAT
* *
44456666 ATATATAA-
1 TTTTATAAT
*
44456674 TTTTCTAAT
1 TTTTATAAT
*
44456683 TTTTAGTGAT
1 TTTTA-TAAT
*
44456693 TTTTAAATAT
1 TTTTATA-AT
44456703 TTTAAATATAAT
1 TTT---TATAAT
*
44456715 TTATTA-AAG
1 TT-TTATAAT
*
44456724 TTTAATAAT
1 TTTTATAAT
44456733 TTTTATAAT
1 TTTTATAAT
*
44456742 TTTTATAAC
1 TTTTATAAT
*
44456751 TTTTATTGATT
1 TTTTA-T-AAT
44456762 TTTTATAACT
1 TTTTATAA-T
44456772 TTTT
1 TTTT
44456776 GCCATATGTC
Statistics
Matches: 118, Mismatches: 26, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
8 7 0.06
9 47 0.40
10 43 0.36
11 13 0.11
12 4 0.03
13 4 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:44469135 original size:15 final size:16
Alignment explanation
Indices: 44469098--44469136 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
44469088 AAGGTAAAGT
*
44469098 AAAATAAAAATATACA
1 AAAATAAAAATATAAA
*
44469114 AATATAAAAA-ATAAA
1 AAAATAAAAATATAAA
44469129 AAAATAAA
1 AAAATAAA
44469137 TAAAAAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATATAAA
Found at i:44472665 original size:31 final size:31
Alignment explanation
Indices: 44472630--44472706 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
44472620 AAAAGAATTT
* * ***
44472630 AATAGTCCAATGACTTCAATAAAAACTTTTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
* *
44472661 AATAGTTCTATGACTTAAATGAAAACCACTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
44472692 AATAGTTCAATGACT
1 AATAGTTCAATGACT
44472707 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (31 bp):
AATAGTTCAATGACTTAAATAAAAACCACTG
Found at i:44473492 original size:19 final size:19
Alignment explanation
Indices: 44473468--44473507 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44473458 AATGCCCAAA
*
44473468 AATCTTACGTTATAATTTT
1 AATCTTACATTATAATTTT
* *
44473487 AATCTTATATTATTATTTT
1 AATCTTACATTATAATTTT
44473506 AA
1 AA
44473508 AATTAACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
AATCTTACATTATAATTTT
Found at i:44473805 original size:23 final size:22
Alignment explanation
Indices: 44473776--44473840 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
44473766 ATAAACTATT
44473776 AATATTCCTCCACTAATACATA
1 AATATTCCTCCACTAATACATA
* *
44473798 ATATATTCCCCCCCTAATACATA
1 A-ATATTCCTCCACTAATACATA
44473821 AACTATTCCTCCACTAATAC
1 AA-TATTCCTCCACTAATAC
44473841 TTACCGATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATTCCTCCACTAATACATA
Found at i:44478986 original size:18 final size:19
Alignment explanation
Indices: 44478951--44478996 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
44478941 TAACCAAATA
*
44478951 AAAATAAAAATATTTAATT
1 AAAATAAAAATATGTAATT
*
44478970 AACATAAAAAT-TGTAATT
1 AAAATAAAAATATGTAATT
44478988 AAAATAAAA
1 AAAATAAAA
44478997 TAAAAAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATAAAAATATGTAATT
Found at i:44483699 original size:22 final size:22
Alignment explanation
Indices: 44483669--44483711 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44483659 CATTTTTATT
*
44483669 TTATTTTATTTATTATTATTTC
1 TTATATTATTTATTATTATTTC
*
44483691 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
44483712 TACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTC
Found at i:44483727 original size:42 final size:41
Alignment explanation
Indices: 44483660--44483741 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
44483650 TAATCACCCC
* ** *
44483660 ATTTTTATTTTATTTTATTTATTATTATTTCTTATATTATTT
1 ATTTTTATTTTACTAAATTTATTATTATTTATT-TATTATTT
* *
44483702 ATTTTTATTTTACTAAATTTTTTATTTTTTATTTATTATT
1 ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATT
44483742 CTTATACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (41 bp):
ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATTT
Found at i:44492737 original size:292 final size:292
Alignment explanation
Indices: 44492213--44492798 Score: 1156
Period size: 292 Copynumber: 2.0 Consensus size: 292
44492203 CAACAGGAAT
44492213 GTGGCTTCACGAGCCGATTCTTGCAACACTCCCATCGAGCTCTCATTTCTTACGGATGATGAAAG
1 GTGGCTTCACGAGCCGATTCTTGCAACACTCCCATCGAGCTCTCATTTCTTACGGATGATGAAAG
44492278 TTGGAATCTTTTGTGTAAGAAAGCATTCCCACGGAGCAAAATGGGTTCTCAATGCTGCTCAGAAG
66 TTGGAATCTTTTGTGTAAGAAAGCATTCCCACGGAGCAAAATGGGTTCTCAATGCTGCTCAGAAG
44492343 AATTTGTGAAGCTTGGAAAAGAGATGGTGAAAAAATGTGGAGGCTTGCCTTTAGCAATTGTTGTG
131 AATTTGTGAAGCTTGGAAAAGAGATGGTGAAAAAATGTGGAGGCTTGCCTTTAGCAATTGTTGTG
44492408 TTGGGTTGCTTGCTGGCAACAAAACAGTCCGTGGCTCAATGGGAGATGGTTCATAAAAACATCCA
196 TTGGGTTGCTTGCTGGCAACAAAACAGTCCGTGGCTCAATGGGAGATGGTTCATAAAAACATCCA
44492473 TGGACACTTAAATGAGCTCCCACACCAAGATC
261 TGGACACTTAAATGAGCTCCCACACCAAGATC
44492505 GTGGCTTCACGAGCCGATTCTTGCAACACTCCCATCGAGCTCTCATTTCTTACGGATGATGAAAG
1 GTGGCTTCACGAGCCGATTCTTGCAACACTCCCATCGAGCTCTCATTTCTTACGGATGATGAAAG
44492570 TTGGAATCTTTTGTGTAAGAAAGCATTCCCACGGAGCAAAATGGGTTCTCAATGCTGCTCAGAAG
66 TTGGAATCTTTTGTGTAAGAAAGCATTCCCACGGAGCAAAATGGGTTCTCAATGCTGCTCAGAAG
44492635 AATTTGTGAAGCTTGGAAAAGAGATGGTGAAAAAATGTGGAGGCTTGCCTTTAGCAATTGTTGTG
131 AATTTGTGAAGCTTGGAAAAGAGATGGTGAAAAAATGTGGAGGCTTGCCTTTAGCAATTGTTGTG
44492700 TTGGGTTGCTTGCTGGCAACCAAAACAGT-CGTGGCTCAATGGGAGATGGTTCATAAAAACATCC
196 TTGGGTTGCTTGCTGGCAA-CAAAACAGTCCGTGGCTCAATGGGAGATGGTTCATAAAAACATCC
44492764 ATGGACACTTAAATGAGCTCCCACACCAAGATC
260 ATGGACACTTAAATGAGCTCCCACACCAAGATC
44492797 GT
1 GT
44492799 CAATATGGTG
Statistics
Matches: 293, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
292 284 0.97
293 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (292 bp):
GTGGCTTCACGAGCCGATTCTTGCAACACTCCCATCGAGCTCTCATTTCTTACGGATGATGAAAG
TTGGAATCTTTTGTGTAAGAAAGCATTCCCACGGAGCAAAATGGGTTCTCAATGCTGCTCAGAAG
AATTTGTGAAGCTTGGAAAAGAGATGGTGAAAAAATGTGGAGGCTTGCCTTTAGCAATTGTTGTG
TTGGGTTGCTTGCTGGCAACAAAACAGTCCGTGGCTCAATGGGAGATGGTTCATAAAAACATCCA
TGGACACTTAAATGAGCTCCCACACCAAGATC
Found at i:44521907 original size:600 final size:600
Alignment explanation
Indices: 44520767--44523709 Score: 5859
Period size: 600 Copynumber: 4.9 Consensus size: 600
44520757 TTGTTATCAA
44520767 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
1 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
44520832 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
66 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
44520897 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
131 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
44520962 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
196 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
44521027 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
261 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
44521092 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
326 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
44521157 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
391 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
44521222 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
456 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
44521287 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
521 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
44521352 TATAAATTTATTAAT
586 TATAAATTTATTAAT
44521367 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
1 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
44521432 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
66 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
44521497 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
131 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
44521562 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
196 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
44521627 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
261 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
44521692 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
326 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
44521757 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
391 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
44521822 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
456 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
44521887 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
521 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
44521952 TATAAATTTATTAAT
586 TATAAATTTATTAAT
44521967 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
1 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
44522032 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
66 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
44522097 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
131 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
44522162 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
196 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
44522227 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
261 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
44522292 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
326 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
44522357 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
391 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
44522422 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
456 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
44522487 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
521 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
44522552 TATAAATTTATTAAT
586 TATAAATTTATTAAT
44522567 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
1 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
44522632 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
66 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
44522697 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
131 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
44522762 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
196 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
44522827 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
261 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
44522892 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
326 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
44522957 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
391 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
44523022 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
456 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
44523087 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
521 ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
44523152 TATAAATTTATTAAT
586 TATAAATTTATTAAT
44523167 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
1 AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
44523232 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
66 GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
44523297 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
131 AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
44523362 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
196 TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
44523427 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
261 GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
44523492 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
326 AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
*
44523557 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTCCCCTTACTCTTCTACAATTTAGGG
391 ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
* *
44523622 TTTTTTTAATAAAATAACTTTAAATATCACGTATCTACGAACTAAAATCTAAATAGTTCTTCGAT
456 TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
44523687 ACCGACCATCAAATTGACTTAGT
521 ACCGACCATCAAATTGACTTAGT
44523710 CTAAAATATA
Statistics
Matches: 2340, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
600 2340 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (600 bp):
AGTTTAGAGAAGTTGAGTATAATTTATCCAAATAATTATTTTTTTTCTTTTGGTCTTATCCTATC
GATTATGAGCAACGGCTGTTGGGTGTTCAAAGTGGTCCTTTAATTTTTGATAGAAAAATTTTATT
AATCGGGCAAAAAAACATTTTGGGTTTCAACGTTAATAAGAGTGTAATATCCGCATTGTGAATTT
TATTTATGATTAATTTAAGTATTGTATAAAAAATAACACAGTAAAAATAATAAATAATTGGAGTA
GTTAAATAACACCAAAGGTCACTAAATTACTATTTCGGTCAATTAATTTCATAAAGTTACAATAT
AGTCACTAAATTATTCGAAAGTTTTCATTTAAGTAACTGGACTATGAAAATCTTTGTTATATGGT
ATTTATTGTTCACATCGTCTGCACCAATAATAAACTCTTTGCCCTTACTCTTCTACAATTTAGGG
TTTTTTTAATAAAATAACTTTAAATATCATGTATCTACGAACTAAAATCTAAACAGTTCTTCGAT
ACCGACCATCAAATTGACTTAGTTCAATAACTATCTTGTAACTTTTTGAAGTTAAATAATTAAAA
TATAAATTTATTAAT
Found at i:44525978 original size:15 final size:15
Alignment explanation
Indices: 44525958--44525988 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44525948 ATCCACATCA
44525958 GAGCCATCATGTTTT
1 GAGCCATCATGTTTT
44525973 GAGCCATCATGTTTT
1 GAGCCATCATGTTTT
44525988 G
1 G
44525989 GAATTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (15 bp):
GAGCCATCATGTTTT
Found at i:44533717 original size:31 final size:31
Alignment explanation
Indices: 44533682--44533746 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
44533672 TAGTTCAATG
* *
44533682 ACTTAAACAAAAATTTTTGAATAATTTAATA
1 ACTTAAACAAAAACTATTGAATAATTTAATA
* *
44533713 ACTTAAATAAAAACTATTGAATAGTTTAATA
1 ACTTAAACAAAAACTATTGAATAATTTAATA
44533744 ACT
1 ACT
44533747 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.37
Consensus pattern (31 bp):
ACTTAAACAAAAACTATTGAATAATTTAATA
Found at i:44538419 original size:14 final size:14
Alignment explanation
Indices: 44538400--44538426 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44538390 TATTCGAGTG
44538400 ATAAAGTGTTTAAA
1 ATAAAGTGTTTAAA
44538414 ATAAAGTGTTTAA
1 ATAAAGTGTTTAA
44538427 GTGTTAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
ATAAAGTGTTTAAA
Found at i:44538628 original size:23 final size:23
Alignment explanation
Indices: 44538602--44538815 Score: 248
Period size: 23 Copynumber: 9.3 Consensus size: 23
44538592 AGTGTTATTG
44538602 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
44538625 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
44538648 TTCAATGGTAGCTACGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
*
44538671 ATCAGTGGTAGCTACGGATACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
44538694 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
44538717 TTCAGTGATAGCTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * **
44538740 ATTAGTGGTAGCTTCAACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * * *
44538763 TTCAGTGGTAGCAACTGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
44538786 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
44538809 ATCAGTG
1 ATCAGTG
44538816 TGGCACTTAT
Statistics
Matches: 159, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 159 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:44539310 original size:31 final size:30
Alignment explanation
Indices: 44539252--44539314 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
44539242 CTTTAGACTT
*
44539252 TTGTATAAATTTTATTTAAACATAAAAAATA
1 TTGTATAAATTTAATTTAAAC-TAAAAAATA
*
44539283 TTGTATAAATTTCAATTTTAA-TAAAAAATA
1 TTGTATAAATTT-AATTTAAACTAAAAAATA
44539313 TT
1 TT
44539315 ATTAGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 12 0.41
32 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTGTATAAATTTAATTTAAACTAAAAAATA
Found at i:44543253 original size:168 final size:169
Alignment explanation
Indices: 44542974--44543312 Score: 671
Period size: 168 Copynumber: 2.0 Consensus size: 169
44542964 TTTTGAATAT
44542974 TTTTCTAGAAAAACTAAATTTTTAATATCATTTTATTATTTCATATTTTTAATACATAAGAGATG
1 TTTTCTAGAAAAACTAAATTTTTAATATCATTTTATTATTTCATATTTTTAATACATAAGAGATG
44543039 ATAATATATCCATACCATTTTTTTTCTTGATGTAAGTTTACCTGGAATACACTTTGCCGAGATAT
66 ATAATATATCCATACCATTTTTTTTCTTGATGTAAGTTTACCTGGAATACACTTTGCCGAGATAT
44543104 CTAATTTCATTAAGTGTGTGTATGTATTTTTTATAAGAA
131 CTAATTTCATTAAGTGTGTGTATGTATTTTTTATAAGAA
44543143 TTTTCTAG-AAAACTAAATTTTTAATATCATTTTATTATTTCATATTTTTAATACATAAGAGATG
1 TTTTCTAGAAAAACTAAATTTTTAATATCATTTTATTATTTCATATTTTTAATACATAAGAGATG
44543207 ATAATATATCCATACCATTTTTTTTCTTGATGTAAGTTTACCTGGAATACACTTTGCCGAGATAT
66 ATAATATATCCATACCATTTTTTTTCTTGATGTAAGTTTACCTGGAATACACTTTGCCGAGATAT
44543272 CTAATTTCATTAAGTGTGTGTATGTATTTTTTATAAGAA
131 CTAATTTCATTAAGTGTGTGTATGTATTTTTTATAAGAA
44543311 TT
1 TT
44543313 AGATTACTAT
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 162 0.95
169 8 0.05
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (169 bp):
TTTTCTAGAAAAACTAAATTTTTAATATCATTTTATTATTTCATATTTTTAATACATAAGAGATG
ATAATATATCCATACCATTTTTTTTCTTGATGTAAGTTTACCTGGAATACACTTTGCCGAGATAT
CTAATTTCATTAAGTGTGTGTATGTATTTTTTATAAGAA
Found at i:44544691 original size:21 final size:21
Alignment explanation
Indices: 44544626--44544736 Score: 98
Period size: 21 Copynumber: 5.2 Consensus size: 21
44544616 TGTTGCTCAT
* *
44544626 TATTATTATTATTATTATTAT
1 TATTATTATTATTATCATTAC
*
44544647 TATTATTATTATTATTATTAC
1 TATTATTATTATTATCATTAC
* * *
44544668 TATTATTATTATTGTCCTTGC
1 TATTATTATTATTATCATTAC
** *
44544689 TATTATTATTGGTATTATTAC
1 TATTATTATTATTATCATTAC
*
44544710 TAATATATTTATTACTATCATTA-
1 T-AT-TA-TTATTATTATCATTAC
44544733 TATT
1 TATT
44544737 TATACTCATA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 54 0.74
22 4 0.05
23 3 0.04
24 12 0.16
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATTATTATTATCATTAC
Found at i:44544698 original size:3 final size:3
Alignment explanation
Indices: 44544624--44544680 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
44544614 TATGTTGCTC
*
44544624 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44544672 ATT ATT ATT
1 ATT ATT ATT
44544681 GTCCTTGCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:44544871 original size:14 final size:14
Alignment explanation
Indices: 44544852--44544884 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44544842 TCATTTTGTA
44544852 TATATATATATATT
1 TATATATATATATT
*
44544866 TATATATGTATATT
1 TATATATATATATT
44544880 TATAT
1 TATAT
44544885 TTTTCTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATATATATATT
Found at i:44545139 original size:8 final size:8
Alignment explanation
Indices: 44545128--44545170 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
44545118 TATATATATC
44545128 TTTTTATA
1 TTTTTATA
44545136 TTTTTATA
1 TTTTTATA
*
44545144 GTTTTATA
1 TTTTTATA
* *
44545152 TTTTTTTG
1 TTTTTATA
*
44545160 TTTTTTTA
1 TTTTTATA
44545168 TTT
1 TTT
44545171 ACATTTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:44546849 original size:19 final size:19
Alignment explanation
Indices: 44546825--44546862 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44546815 ATCTAGCCCT
44546825 CTCCAACACCTGAAATGAG
1 CTCCAACACCTGAAATGAG
44546844 CTCCAACACCTGAAATGAG
1 CTCCAACACCTGAAATGAG
44546863 GATGGTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
CTCCAACACCTGAAATGAG
Found at i:44546990 original size:21 final size:21
Alignment explanation
Indices: 44546966--44547013 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
44546956 CACCACTCTT
44546966 CTTTCTATTCCACTTTTGGTC
1 CTTTCTATTCCACTTTTGGTC
44546987 CTTTCTATTCCACTTTTGGTC
1 CTTTCTATTCCACTTTTGGTC
44547008 CTTTCT
1 CTTTCT
44547014 TCTTTCACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.29, G:0.08, T:0.54
Consensus pattern (21 bp):
CTTTCTATTCCACTTTTGGTC
Found at i:44555372 original size:104 final size:104
Alignment explanation
Indices: 44555184--44555451 Score: 360
Period size: 104 Copynumber: 2.6 Consensus size: 104
44555174 ATTGCATAAA
** * * *
44555184 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
*
44555249 TTTAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
66 TTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
* *
44555288 GAGGGGTTGCTAAGTGATGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
* *
44555352 CTTTGAAATGT-AAAGGGGGTTGCTAAGTGCTGATTCCCCC
65 -TTTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
** * * * *
44555392 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACC
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
44555452 GAAAACGGTT
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
103 1 0.01
104 132 0.92
105 10 0.07
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
TTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
Found at i:44563233 original size:18 final size:18
Alignment explanation
Indices: 44563210--44563244 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44563200 CCAATTAGCA
44563210 AAGCCCAAACGGCCCAAT
1 AAGCCCAAACGGCCCAAT
*
44563228 AAGCCCAACCGGCCCAA
1 AAGCCCAAACGGCCCAA
44563245 AATCCAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.43, G:0.17, T:0.03
Consensus pattern (18 bp):
AAGCCCAAACGGCCCAAT
Found at i:44564309 original size:3 final size:3
Alignment explanation
Indices: 44564301--44564346 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
44564291 TAGTCCTGTC
* *
44564301 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATC ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
44564347 CTCATTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:44564523 original size:16 final size:16
Alignment explanation
Indices: 44564502--44564537 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44564492 ATACCTTTTT
*
44564502 TATATATGTATATCTA
1 TATATATGTATATATA
44564518 TATATATGTATATATA
1 TATATATGTATATATA
44564534 TATA
1 TATA
44564538 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:44569236 original size:42 final size:42
Alignment explanation
Indices: 44569189--44569301 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
44569179 ATCCGATTCG
44569189 AAAAAAAGGAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
1 AAAAAAA-GAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
* * ** *
44569232 AAAAAAACAAAA-AGAAAAAGAGAAATCAATCAAAGTCAAAAT
1 AAAAAAAGAAAAGA-AAAAAAAGAAAAAAATCAAAATCAAAAT
* *
44569274 AAAAATATGAAAAGCAAAGAAAAGAAAA
1 AAAAA-AAGAAAAG-AAAAAAAAGAAAA
44569302 GAAGAGGCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 33 0.59
43 12 0.21
44 9 0.16
45 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (42 bp):
AAAAAAAGAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
Found at i:44569244 original size:20 final size:20
Alignment explanation
Indices: 44569207--44569243 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44569197 GAAAAGAAAA
44569207 AAAAGAAAAAAATCAAAATC
1 AAAAGAAAAAAATCAAAATC
*
44569227 AAAATAAAAAAA-CAAAA
1 AAAAGAAAAAAATCAAAA
44569244 AGAAAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAAGAAAAAAATCAAAATC
Found at i:44569672 original size:20 final size:20
Alignment explanation
Indices: 44569649--44569692 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44569639 ATGAAGTTCA
44569649 AAAAAAAAAGATG-AAAAATG
1 AAAAAAAAA-ATGAAAAAATG
**
44569669 AAAATGAAAATGAAAAAATG
1 AAAAAAAAAATGAAAAAATG
44569689 AAAA
1 AAAA
44569693 GTAAAATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAATGAAAAAATG
Found at i:44584528 original size:87 final size:87
Alignment explanation
Indices: 44584382--44584887 Score: 832
Period size: 87 Copynumber: 5.8 Consensus size: 87
44584372 AGATCAGTGA
* *
44584382 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
44584447 CTTCCTGCGTTAATAATGAAGC
66 CTTCCTGCGTTAATAATGAAGC
*
44584469 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
44584534 CTTCCTGCGTTAATAATGAAGC
66 CTTCCTGCGTTAATAATGAAGC
*
44584556 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
44584621 CTTCCTGCGTTAATAATGAAGC
66 CTTCCTGCGTTAATAATGAAGC
* * *
44584643 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAAATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
* * **
44584708 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTGCGTTAATAATGAAGC
*
44584730 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
* * **
44584795 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTGCGTTAATAATGAAGC
* * * *
44584817 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTACTGGAGCTGGTTAAAGATAGCAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
44584882 CTTCCT
66 CTTCCT
44584888 AAGTACTAGC
Statistics
Matches: 405, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 405 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
CTTCCTGCGTTAATAATGAAGC
Found at i:44584752 original size:43 final size:43
Alignment explanation
Indices: 44584703--44584839 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
44584693 AATAGCAGAT
44584703 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
44584746 CTTGCC-TCC-ATCGGTT-GCAGTGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCCTA-C-GTTAACAGCGAAGCAGATCGAAA-ACA-AAG-C
44584790 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
44584833 CTTGCCT
1 CTTGCCT
44584840 CCATCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 4 0.06
42 15 0.22
43 18 0.27
44 11 0.16
45 15 0.22
46 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:44585021 original size:44 final size:44
Alignment explanation
Indices: 44584966--44585373 Score: 238
Period size: 44 Copynumber: 9.6 Consensus size: 44
44584956 CCACCAGTCC
* *
44584966 TATCTCCCTAAGTAGTAGTGGAGCAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
44585010 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CA-TCAAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * * ** * *
44585050 TATCTCCCTAAGCAGTAGCGGAGCA-GACAAAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATTCTAGATCT
* * * * * * *
44585093 TATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * ** * * *
44585137 TATCTCTCTAAGCAATAGCAGAGCAGATCG--CA-TCCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
44585177 TATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
44585221 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CA-TCAAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * * * * ** * *
44585261 TATCTCCCTAAGCAGTAGCGGTGTA-GACAAAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATTCTAGATCT
* * * * *
44585304 TATCTCCCTGAGCAGTAGGGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* *
44585348 TATCTCTCTAAGCCA-TAGTAGAGCAG
1 TATCTCCCTAAG-CAGTAGTGGAGCAG
44585374 ATCGCATCCA
Statistics
Matches: 265, Mismatches: 80, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
39 2 0.01
40 80 0.30
41 9 0.03
42 6 0.02
43 63 0.24
44 103 0.39
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
Found at i:44585094 original size:127 final size:127
Alignment explanation
Indices: 44584922--44585194 Score: 357
Period size: 127 Copynumber: 2.1 Consensus size: 127
44584912 ACGGCGAATA
* * *** ** * * *
44584922 TTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGTAGTAGTGG
1 TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
* * **
44584987 AGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTC
66 AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
* * *
44585049 TTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAGCAGCATTGG
1 TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
* * * *
44585114 AGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATAGCAGAGCAGATCGCATCCAGTC
66 AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
44585176 TTATCTCCCTAAGCAGTAG
1 TTATCTCCCTAAGCAGTAG
44585195 TAGAGTAGGT
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (127 bp):
TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
Found at i:44585210 original size:84 final size:84
Alignment explanation
Indices: 44585093--44585278 Score: 264
Period size: 84 Copynumber: 2.2 Consensus size: 84
44585083 AAACCAATCC
* * * * * * *
44585093 TATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATAGCAG
1 TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
*
44585158 AGCAGATCGCATCCAGTCT
66 AGCAGATCGCATCAAGTCT
* * **
44585177 TATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
44585242 AGCAGATCGCATCAAGTCT
66 AGCAGATCGCATCAAGTCT
44585261 TATCTCCCTAAGCAGTAG
1 TATCTCCCTAAGCAGTAG
44585279 CGGTGTAGAC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (84 bp):
TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
AGCAGATCGCATCAAGTCT
Found at i:44585212 original size:211 final size:211
Alignment explanation
Indices: 44584959--44585396 Score: 759
Period size: 211 Copynumber: 2.1 Consensus size: 211
44584949 ATTTAAGCCA
* * * *
44584959 CCAGTCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCA
1 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
44585024 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
66 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
**
44585089 ATCCTATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
131 ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
44585154 GCAGAGCAGATCGCAT
196 GCAGAGCAGATCGCAT
*
44585170 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
1 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
* *
44585235 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGTGTAGACAAAAGAAACCA
66 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
* * *
44585300 ATCCTATCTCCCTGAGCAGTAGGGGAGTAGGTTGAAGATTGTAGATCTTATCTCTCTAAGCCATA
131 ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
*
44585365 GTAGAGCAGATCGCAT
196 GCAGAGCAGATCGCAT
44585381 CCAGTCTTATCTCCCT
1 CCAGTCTTATCTCCCT
44585397 GAAGTTACAG
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 214 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (211 bp):
CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
GCAGAGCAGATCGCAT
Found at i:44586745 original size:3 final size:3
Alignment explanation
Indices: 44586737--44586782 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
44586727 TAGTCCTGTC
* *
44586737 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATC ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
44586783 CTCATTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:44586959 original size:16 final size:16
Alignment explanation
Indices: 44586938--44586973 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44586928 ATACCTTTTT
*
44586938 TATATATGTATATCTA
1 TATATATGTATATATA
44586954 TATATATGTATATATA
1 TATATATGTATATATA
44586970 TATA
1 TATA
44586974 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:44588430 original size:9 final size:9
Alignment explanation
Indices: 44588416--44588442 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44588406 GTTTGAGGAT
44588416 TTAATATCA
1 TTAATATCA
44588425 TTAATATCA
1 TTAATATCA
44588434 TTAATATCA
1 TTAATATCA
44588443 CTCTTGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAATATCA
Found at i:44621441 original size:29 final size:30
Alignment explanation
Indices: 44621401--44621458 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
44621391 TCTTTTTATT
44621401 AAAAATAGAC-AAATTAAGATCAAAGTATA
1 AAAAATAGACAAAATTAAGATCAAAGTATA
44621430 AAAAATAGACAAAAATTAAGATCAAAGTA
1 AAAAATAGAC-AAAATTAAGATCAAAGTA
44621459 CAAATTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (30 bp):
AAAAATAGACAAAATTAAGATCAAAGTATA
Found at i:44626854 original size:57 final size:58
Alignment explanation
Indices: 44626744--44626854 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
44626734 GTTTAGCGCC
** * * * * *
44626744 TAACTTGGACTAAAAAAGTTTAGGTCCCAATGTGAGAATAATTGCCAAGTTCAAAGCT
1 TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAAAGCT
*
44626802 TAACTTGGA-TAAAAAAAATTAGGCCCCAATATGAGAAAAATTACTAAATTCAA
1 TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAA
44626855 GCCCCAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 36 0.80
58 9 0.20
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.26
Consensus pattern (58 bp):
TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAAAGCT
Found at i:44631740 original size:22 final size:22
Alignment explanation
Indices: 44631715--44631771 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
44631705 TCCACAAGTA
44631715 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
44631737 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
44631759 TATGTAGAAAATT
1 TATGTAGAAAATT
44631772 CTGACTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
TATGTAGAAAATTGCACAAATT
Found at i:44633965 original size:60 final size:60
Alignment explanation
Indices: 44633894--44634017 Score: 221
Period size: 60 Copynumber: 2.1 Consensus size: 60
44633884 ATTTCAAAAT
**
44633894 ATGATGGCTTAAACTTTAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
*
44633954 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTAGTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
44634014 ATGA
1 ATGA
44634018 CACCTCAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (60 bp):
ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
Found at i:44639758 original size:19 final size:19
Alignment explanation
Indices: 44639734--44639772 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44639724 GTCTGAAACC
44639734 GCTACTGCTGAAAATAGCG
1 GCTACTGCTGAAAATAGCG
*
44639753 GCTACTGTTGAAAATAGCG
1 GCTACTGCTGAAAATAGCG
44639772 G
1 G
44639773 TCTGAAGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (19 bp):
GCTACTGCTGAAAATAGCG
Found at i:44644794 original size:12 final size:12
Alignment explanation
Indices: 44644774--44644804 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44644764 GCAAGAGAGC
*
44644774 TATGCATGCATG
1 TATGTATGCATG
44644786 TATGTATGCATG
1 TATGTATGCATG
44644798 TATGTAT
1 TATGTAT
44644805 ATACCTCATC
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:0.10, G:0.23, T:0.42
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:44646869 original size:14 final size:14
Alignment explanation
Indices: 44646837--44646876 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
44646827 AATAATTAAG
*
44646837 AATTAAACTT-AAA
1 AATTAAAATTAAAA
44646850 AA-TAAAATTAAAA
1 AATTAAAATTAAAA
44646863 AATTAAAATTAAAA
1 AATTAAAATTAAAA
44646877 TTTACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
14 11 0.46
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AATTAAAATTAAAA
Found at i:44646878 original size:6 final size:6
Alignment explanation
Indices: 44646830--44646878 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
44646820 ATCTTAAAAT
* *
44646830 AATTAA GAATTAA ACTTAA AAATAA AATTAAAA AATTAA AATTAA AATT
1 AATTAA -AATTAA AATTAA AATTAA AATT--AA AATTAA AATTAA AATT
44646879 TACAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 24 0.67
7 6 0.17
8 6 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:44647776 original size:10 final size:10
Alignment explanation
Indices: 44647757--44647790 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
44647747 TTTAAAATAT
44647757 AATACACTAA
1 AATACACTAA
*
44647767 AATGCACTAA
1 AATACACTAA
*
44647777 AAAACACTAA
1 AATACACTAA
44647787 AATA
1 AATA
44647791 AAAGTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
AATACACTAA
Found at i:44652359 original size:24 final size:24
Alignment explanation
Indices: 44652282--44652365 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
44652272 GTAGCTCAAA
* *
44652282 AGAGCATCCCGTTACAAGCCCTATC
1 AGAGCATCCCGTTAAAAGCTCT-TC
* ** *
44652307 A-AGCTTCCCGTTATAGTGTTCTTGC
1 AGAGCATCCCGTTA-AAAGCTCTT-C
*
44652332 -GAGCTTCCCGTTAAAAGCTCTTC
1 AGAGCATCCCGTTAAAAGCTCTTC
44652355 AGAGCATCCCG
1 AGAGCATCCCG
44652366 ACTAGTTGTG
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.02
24 27 0.60
25 17 0.38
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (24 bp):
AGAGCATCCCGTTAAAAGCTCTTC
Found at i:44654915 original size:20 final size:20
Alignment explanation
Indices: 44654890--44654929 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44654880 AATATTTTCC
*
44654890 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44654910 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
44654930 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44654931 original size:34 final size:35
Alignment explanation
Indices: 44654878--44654944 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
44654868 CAAACACCAG
*
44654878 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
44654913 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44654945 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44654936 original size:14 final size:14
Alignment explanation
Indices: 44654913--44654952 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44654903 ACAGAAAAGT
*
44654913 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
44654927 AAATCATTTTACGG
1 AAAACATTTTACAG
44654941 AAAACATTTTAC
1 AAAACATTTTAC
44654953 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:44655720 original size:60 final size:59
Alignment explanation
Indices: 44655567--44655727 Score: 233
Period size: 54 Copynumber: 2.8 Consensus size: 59
44655557 TTGTACATTA
* *
44655567 ATGGGTTCATAAAGAGGTGCAAACGCAATCCCATTTTCAAGCATCTGGGAACTAGTATTT
1 ATGGGTTCATAAAGA-GTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
44655627 ATGGGTTCATAAAGAG-G----TGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
44655681 ATGGGTTCATAAAGAGTTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCATAAAGAG-TGCAAATGCAATCCCATTTTCAAGCATTTG
44655728 AATTCCATTG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
54 50 0.56
56 1 0.01
58 1 0.01
59 1 0.01
60 37 0.41
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (59 bp):
ATGGGTTCATAAAGAGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
Found at i:44661825 original size:21 final size:22
Alignment explanation
Indices: 44661799--44661839 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
44661789 AAACGATGTA
*
44661799 GTTTTGCCTTTTAA-CTTAATG
1 GTTTTGACTTTTAACCTTAATG
44661820 GTTTTGACTTTTAACCTTAA
1 GTTTTGACTTTTAACCTTAA
44661840 AAAAGGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
GTTTTGACTTTTAACCTTAATG
Found at i:44669204 original size:2 final size:2
Alignment explanation
Indices: 44669197--44669221 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44669187 TTATTTTATT
44669197 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44669222 CATCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44672959 original size:190 final size:190
Alignment explanation
Indices: 44672636--44673016 Score: 746
Period size: 190 Copynumber: 2.0 Consensus size: 190
44672626 TTCATATAGC
44672636 TATCCTCGTAAATTAATAGATTAGGAAATCTTAATTTTCATGGTACCCACCAACACTGAATTAAT
1 TATCCTCGTAAATTAATAGATTAGGAAATCTTAATTTTCATGGTACCCACCAACACTGAATTAAT
44672701 AAAAATTAAGCGAAGCCACACCTAAATCCGCTAAACTCGACTGAGCTGAATTGGTTAAATGATTA
66 AAAAATTAAGCGAAGCCACACCTAAATCCGCTAAACTCGACTGAGCTGAATTGGTTAAATGATTA
44672766 TATGGTTAGTTTATTTGATAATGTCAGTTACTAAATTTCATAATCGAATCGGTTGATTTA
131 TATGGTTAGTTTATTTGATAATGTCAGTTACTAAATTTCATAATCGAATCGGTTGATTTA
44672826 TATCCTCGTAAATTAATAGATTAGGAAATCTTAATTTTCATGGTACCCACCAACACTGAATTAAT
1 TATCCTCGTAAATTAATAGATTAGGAAATCTTAATTTTCATGGTACCCACCAACACTGAATTAAT
44672891 AAAAATTAAGCGAAGCCACACCTAAATCCGCTAAACCTCGACTGAG-TGAATTGGTTAAATGATT
66 AAAAATTAAGCGAAGCCACACCTAAATCCGCTAAA-CTCGACTGAGCTGAATTGGTTAAATGATT
44672955 ATATGGTTAGTTTATTTGATAATGTCAGTTACTAAATTTCATAATCGAATCGGTTGATTTA
130 ATATGGTTAGTTTATTTGATAATGTCAGTTACTAAATTTCATAATCGAATCGGTTGATTTA
44673016 T
1 T
44673017 TTTACCCATG
Statistics
Matches: 190, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
190 180 0.95
191 10 0.05
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (190 bp):
TATCCTCGTAAATTAATAGATTAGGAAATCTTAATTTTCATGGTACCCACCAACACTGAATTAAT
AAAAATTAAGCGAAGCCACACCTAAATCCGCTAAACTCGACTGAGCTGAATTGGTTAAATGATTA
TATGGTTAGTTTATTTGATAATGTCAGTTACTAAATTTCATAATCGAATCGGTTGATTTA
Found at i:44678611 original size:25 final size:25
Alignment explanation
Indices: 44678560--44678605 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
44678550 TAACAACTGT
*
44678560 CAAGTTTTCTTCATAATAAAATTGA
1 CAAGTTTTCTGCATAATAAAATTGA
44678585 CAAGTTTTC-GCA-AATAAAATT
1 CAAGTTTTCTGCATAATAAAATT
44678606 TTGACACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 9 0.45
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (25 bp):
CAAGTTTTCTGCATAATAAAATTGA
Found at i:44679607 original size:15 final size:16
Alignment explanation
Indices: 44679579--44679616 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
44679569 TTTCCACCGT
44679579 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
44679595 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
44679610 ATTTGTT
1 ATTTGTT
44679617 AAAATGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:44682512 original size:5 final size:5
Alignment explanation
Indices: 44682502--44682537 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
44682492 GATTTTTGGG
44682502 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
44682538 TTTTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:44683340 original size:16 final size:17
Alignment explanation
Indices: 44683314--44683346 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44683304 GTTAATTTGA
*
44683314 TAAAATGATAATTAAAT
1 TAAAATGATAATAAAAT
44683331 TAAAAT-ATAATAAAAT
1 TAAAATGATAATAAAAT
44683347 AAACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATGATAATAAAAT
Found at i:44684097 original size:22 final size:23
Alignment explanation
Indices: 44684053--44684099 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
44684043 AATATAAATG
44684053 TTTTATACTTTGCCGAATTTGAA
1 TTTTATACTTTGCCGAATTTGAA
*
44684076 TTTTATATTTTGCCG-ATTTGAA
1 TTTTATACTTTGCCGAATTTGAA
44684098 TT
1 TT
44684100 GTTTATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTATACTTTGCCGAATTTGAA
Found at i:44684183 original size:31 final size:30
Alignment explanation
Indices: 44684147--44684280 Score: 92
Period size: 31 Copynumber: 4.7 Consensus size: 30
44684137 GGATATATTG
44684147 ATTTGTATATGGTTGAATATTGTCGAAAATA
1 ATTTGTATATGGTT-AATATTGTCGAAAATA
* * *
44684178 ATTTGTATATGGTTATATATTATTGAAATTGA
1 ATTTGTATATGGTTA-ATATTGTCGAAAAT-A
*
44684210 A-TTGTATATGGAT-ATA-T-T-G------
1 ATTTGTATATGGTTAATATTGTCGAAAATA
*
44684229 ATTTGTATATGGTTGAATATTGTCTAAAATA
1 ATTTGTATATGGTT-AATATTGTCGAAAATA
*
44684260 ATTTGTACATGGTTATATATT
1 ATTTGTATATGGTTA-ATATT
44684281 ATTGAAATTG
Statistics
Matches: 81, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
22 3 0.04
23 1 0.01
24 1 0.01
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.04
30 2 0.02
31 54 0.67
32 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (30 bp):
ATTTGTATATGGTTAATATTGTCGAAAATA
Found at i:44684201 original size:82 final size:82
Alignment explanation
Indices: 44684098--44684358 Score: 418
Period size: 82 Copynumber: 3.2 Consensus size: 82
44684088 CCGATTTGAA
* *
44684098 TTGTTTATAGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
44684163 ATATTGTCGAAAATAAT
66 ATATTGTCGAAAATAAT
44684180 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
*
44684245 ATATTGTCTAAAATAAT
66 ATATTGTCGAAAATAAT
* * * * *
44684262 TTGTACATGGTTATATATTATTGAAATTGAATTTTAAATAGATATATTGATTCGTATAT-GTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
*
44684326 ATATTGTCGAAAGTAAT
66 ATATTGTCGAAAATAAT
44684343 TTGTAT-TGGTGTATAT
1 TTGTATATGGT-TATAT
44684359 GATGGAATTG
Statistics
Matches: 167, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 4 0.02
81 30 0.18
82 133 0.80
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (82 bp):
TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
ATATTGTCGAAAATAAT
Found at i:44684266 original size:51 final size:51
Alignment explanation
Indices: 44684178--44684277 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
44684168 GTCGAAAATA
* *
44684178 ATTTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTG
1 ATTTGTATATGGTTATATATTATTGAAAATGAATTGTACATGGATATATTG
* *
44684229 ATTTGTATATGGTTGA-ATATTGTCT-AAAAT-AATTTGTACATGGTTATAT
1 ATTTGTATATGGTT-ATATATTAT-TGAAAATGAA-TTGTACATGGATATAT
44684278 ATTATTGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
50 2 0.05
51 38 0.90
52 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (51 bp):
ATTTGTATATGGTTATATATTATTGAAAATGAATTGTACATGGATATATTG
Found at i:44685809 original size:78 final size:78
Alignment explanation
Indices: 44685711--44685866 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 78
44685701 AGAGTTGGTG
44685711 GTTCCAACGTCTTACTTGAATTATGTTACTCGATTGAGTGAAAAAAAAAAAAAAAAAAATTATGA
1 GTTCCAACGTCTTACTTGAATTATGTTACTCGATTGAGTG-AAAAAAAAAAAAAAAAAATTATGA
44685776 TGTCTCATTTAACT
65 TGTCTCATTTAACT
*
44685790 GTTCCAACGT-TTACTTGAATTATGTTACTCGATTGAGTGAAAAAAAAAAAAAAAAACTTATGAT
1 GTTCCAACGTCTTACTTGAATTATGTTACTCGATTGAGTGAAAAAAAAAAAAAAAAAATTATGAT
44685854 GTCTCATTTAACT
66 GTCTCATTTAACT
44685867 TGAATGGTGA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 37 0.49
78 29 0.38
79 10 0.13
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (78 bp):
GTTCCAACGTCTTACTTGAATTATGTTACTCGATTGAGTGAAAAAAAAAAAAAAAAAATTATGAT
GTCTCATTTAACT
Found at i:44687224 original size:15 final size:17
Alignment explanation
Indices: 44687206--44687246 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
44687196 TAATTTATCT
44687206 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
44687221 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
44687240 AATATTA
1 AATATTA
44687247 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:44689790 original size:929 final size:929
Alignment explanation
Indices: 44687994--44689852 Score: 3691
Period size: 929 Copynumber: 2.0 Consensus size: 929
44687984 GTATTTATTG
44687994 TTATTTATTTGTGTTTATAATTTTTTTTAGTATTCTTCATTTCAAGTTTATTTGCCTCATCTTTG
1 TTATTTATTTGTGTTTATAATTTTTTTTAGTATTCTTCATTTCAAGTTTATTTGCCTCATCTTTG
44688059 GTTAATTTAGCTGCAAATGCATTGAAACTCCAACGGTAGCTATGGAGCAAAACATCCTGCATAAA
66 GTTAATTTAGCTGCAAATGCATTGAAACTCCAACGGTAGCTATGGAGCAAAACATCCTGCATAAA
44688124 TAATTCATAAACCCAAGTCAAATATCAACGAATCCGAAGTGGATTAAAACGCGCATCTGAGCACA
131 TAATTCATAAACCCAAGTCAAATATCAACGAATCCGAAGTGGATTAAAACGCGCATCTGAGCACA
44688189 AGTCAAATCATTTGTTTAATTCATATAGCTATCCTCGTAAATTAATAGATTAGGAAATCTTAATT
196 AGTCAAATCATTTGTTTAATTCATATAGCTATCCTCGTAAATTAATAGATTAGGAAATCTTAATT
44688254 TTCATGGTACCCACCAACACTGAATTAATAAAAATTAAGCGAAGCCACACCTAAATCCGCTAAAC
261 TTCATGGTACCCACCAACACTGAATTAATAAAAATTAAGCGAAGCCACACCTAAATCCGCTAAAC
44688319 TCGACTGAGCTGAATTGGTTAAATGATTATATGGTTAGTTTATTTGATAATGTCAGTTACTAAAT
326 TCGACTGAGCTGAATTGGTTAAATGATTATATGGTTAGTTTATTTGATAATGTCAGTTACTAAAT
44688384 TTCATAATCGAATCGGTTGATTTATTTTACCCATGTGGAGAATTATTAGAAATCGGTTGATGATT
391 TTCATAATCGAATCGGTTGATTTATTTTACCCATGTGGAGAATTATTAGAAATCGGTTGATGATT
44688449 AATCTTGAAACACATCCAGAAATCAACTTTGATAGATTTTCTTGTTATCAACGGTGGGGATTGAT
456 AATCTTGAAACACATCCAGAAATCAACTTTGATAGATTTTCTTGTTATCAACGGTGGGGATTGAT
44688514 CAGCTTTGATAAAATTATTAGAAATCAATTGAAGGTGAAGAATGATCACGCTGTACATTTTCTTG
521 CAGCTTTGATAAAATTATTAGAAATCAATTGAAGGTGAAGAATGATCACGCTGTACATTTTCTTG
44688579 TAATCAACATTTATGGCAGAAAGATATATCATTGGTGAAGAATGAAAGGATCATAGAAATTGGTA
586 TAATCAACATTTATGGCAGAAAGATATATCATTGGTGAAGAATGAAAGGATCATAGAAATTGGTA
44688644 AAAGCCGGCAATGGACAAACATTGTTCCATTGGCGAGCTTAACAATGCTTGAAAGCTTCAAAAAT
651 AAAGCCGGCAATGGACAAACATTGTTCCATTGGCGAGCTTAACAATGCTTGAAAGCTTCAAAAAT
44688709 TAACGAATCCAATGGAGTTTATACCAATACCACACAAAAAGCTTATATAAAGTCCCCTTTCCATG
716 TAACGAATCCAATGGAGTTTATACCAATACCACACAAAAAGCTTATATAAAGTCCCCTTTCCATG
44688774 GCATTATCTACTGCAAAATCAAGCTCCACAATAAACTCAACAATGGCTGCCCAAACCTCCCCTTT
781 GCATTATCTACTGCAAAATCAAGCTCCACAATAAACTCAACAATGGCTGCCCAAACCTCCCCTTT
*
44688839 GGCATGGCTTTCGCTTATCAGCTTCACTCTTGCTATGCTTATCTGCTGCTGCTATGGTTCCTCTG
846 GGCATGGCTTTCGCTTATCAGCTTCACTCTTGCTATGCTTATCTGCTGCTGCCATGGTTCCTCTG
*
44688904 ATAACAGACAGGTTTGCAT
911 ATAACAGACAGGTTTACAT
44688923 TTATTTATTTGTGTTTATAATTTTTTTTAGTATTCTTCATTTCAAGTTTATTTGCCTCATCTTTG
1 TTATTTATTTGTGTTTATAATTTTTTTTAGTATTCTTCATTTCAAGTTTATTTGCCTCATCTTTG
44688988 GTTAATTTAGCTGCAAATGCATTGAAACTCCAACGGTAGCTATGGAGCAAAACATCCTGCATAAA
66 GTTAATTTAGCTGCAAATGCATTGAAACTCCAACGGTAGCTATGGAGCAAAACATCCTGCATAAA
44689053 TAATTCATAAACCCAAGTCAAATATCAACGAATCCGAAGTGGATTAAAACGCGCATCTGAGCACA
131 TAATTCATAAACCCAAGTCAAATATCAACGAATCCGAAGTGGATTAAAACGCGCATCTGAGCACA
44689118 AGTCAAATCATTTGTTTAATTCATATAGCTATCCTCGTAAATTAATAGATTAGGAAATCTTAATT
196 AGTCAAATCATTTGTTTAATTCATATAGCTATCCTCGTAAATTAATAGATTAGGAAATCTTAATT
44689183 TTCATGGTACCCACCAACACTGAATTAATAAAAATTAAGCGAAGCCACACCTAAATCCGCTAAAC
261 TTCATGGTACCCACCAACACTGAATTAATAAAAATTAAGCGAAGCCACACCTAAATCCGCTAAAC
44689248 TCGACTGAGCTGAATTGGTTAAATGATTATATGGTTAGTTTATTTGATAATGTCAGTTACTAAAT
326 TCGACTGAGCTGAATTGGTTAAATGATTATATGGTTAGTTTATTTGATAATGTCAGTTACTAAAT
44689313 TTCATAATCGAATCGGTTGATTTATTTTACCCATGTGGAGAATTATTAGAAATCGGTTGATGATT
391 TTCATAATCGAATCGGTTGATTTATTTTACCCATGTGGAGAATTATTAGAAATCGGTTGATGATT
44689378 AATCTTGAAACACATCCAGAAATCAACTTTGATAGATTTTCTTGTTATCAACGGTGGGGATTGAT
456 AATCTTGAAACACATCCAGAAATCAACTTTGATAGATTTTCTTGTTATCAACGGTGGGGATTGAT
44689443 CAGCTTTGATAAAATTATTAGAAATCAATTGAAGGTGAAGAATGATCACGCTGTACATTTTCTTG
521 CAGCTTTGATAAAATTATTAGAAATCAATTGAAGGTGAAGAATGATCACGCTGTACATTTTCTTG
44689508 TAATCAACATTTATGGCAGAAAGATATATCATTGGTGAAGAATGAAAGGATCATAGAAATTGGTA
586 TAATCAACATTTATGGCAGAAAGATATATCATTGGTGAAGAATGAAAGGATCATAGAAATTGGTA
44689573 AAAGCCGGCAATGGACAAACATTGTTCCATTGGCGAGCTTAACAATGCTTGAAAGCTTCAAAAAT
651 AAAGCCGGCAATGGACAAACATTGTTCCATTGGCGAGCTTAACAATGCTTGAAAGCTTCAAAAAT
44689638 TAACGAATCCAATGGAGTTTATACCAATACCACACAAAAAGCTTATATAAAGTCCCCTTTCCATG
716 TAACGAATCCAATGGAGTTTATACCAATACCACACAAAAAGCTTATATAAAGTCCCCTTTCCATG
44689703 GCATTATCTACTGCAAAATCAAGCTCCACAATAAACTCAACAATGGCTGCCCAAACCTCCCCTTT
781 GCATTATCTACTGCAAAATCAAGCTCCACAATAAACTCAACAATGGCTGCCCAAACCTCCCCTTT
*
44689768 GGCATGGCTTTCGCTTATCAGCTTCACTCTTGCTATGCTTATTTGCTGCTGCCATGGTTCCTCTG
846 GGCATGGCTTTCGCTTATCAGCTTCACTCTTGCTATGCTTATCTGCTGCTGCCATGGTTCCTCTG
44689833 ATAACAGACAGGTTTACAT
911 ATAACAGACAGGTTTACAT
44689852 T
1 T
44689853 GTTTATATGG
Statistics
Matches: 927, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
929 927 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (929 bp):
TTATTTATTTGTGTTTATAATTTTTTTTAGTATTCTTCATTTCAAGTTTATTTGCCTCATCTTTG
GTTAATTTAGCTGCAAATGCATTGAAACTCCAACGGTAGCTATGGAGCAAAACATCCTGCATAAA
TAATTCATAAACCCAAGTCAAATATCAACGAATCCGAAGTGGATTAAAACGCGCATCTGAGCACA
AGTCAAATCATTTGTTTAATTCATATAGCTATCCTCGTAAATTAATAGATTAGGAAATCTTAATT
TTCATGGTACCCACCAACACTGAATTAATAAAAATTAAGCGAAGCCACACCTAAATCCGCTAAAC
TCGACTGAGCTGAATTGGTTAAATGATTATATGGTTAGTTTATTTGATAATGTCAGTTACTAAAT
TTCATAATCGAATCGGTTGATTTATTTTACCCATGTGGAGAATTATTAGAAATCGGTTGATGATT
AATCTTGAAACACATCCAGAAATCAACTTTGATAGATTTTCTTGTTATCAACGGTGGGGATTGAT
CAGCTTTGATAAAATTATTAGAAATCAATTGAAGGTGAAGAATGATCACGCTGTACATTTTCTTG
TAATCAACATTTATGGCAGAAAGATATATCATTGGTGAAGAATGAAAGGATCATAGAAATTGGTA
AAAGCCGGCAATGGACAAACATTGTTCCATTGGCGAGCTTAACAATGCTTGAAAGCTTCAAAAAT
TAACGAATCCAATGGAGTTTATACCAATACCACACAAAAAGCTTATATAAAGTCCCCTTTCCATG
GCATTATCTACTGCAAAATCAAGCTCCACAATAAACTCAACAATGGCTGCCCAAACCTCCCCTTT
GGCATGGCTTTCGCTTATCAGCTTCACTCTTGCTATGCTTATCTGCTGCTGCCATGGTTCCTCTG
ATAACAGACAGGTTTACAT
Found at i:44690297 original size:12 final size:13
Alignment explanation
Indices: 44690272--44690296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44690262 TAATTAAATC
44690272 AAAATAATTTTTT
1 AAAATAATTTTTT
44690285 AAAATAATTTTT
1 AAAATAATTTTT
44690297 ATATAAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAATAATTTTTT
Found at i:44697315 original size:19 final size:19
Alignment explanation
Indices: 44697279--44697316 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44697269 GAGTAAGAAA
*
44697279 TTGGGCTGTTATAAAAGTT
1 TTGGGCTGTAATAAAAGTT
44697298 TTGGGCTG-AATAACAAGTT
1 TTGGGCTGTAATAA-AAGTT
44697317 GATGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGGGCTGTAATAAAAGTT
Found at i:44697432 original size:15 final size:15
Alignment explanation
Indices: 44697397--44697434 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44697387 TATTAGGATA
44697397 ATATTTTAATTTTTT
1 ATATTTTAATTTTTT
44697412 AGTATTTT-ATCTTTTT
1 A-TATTTTAAT-TTTTT
44697428 ATATTTT
1 ATATTTT
44697435 TAGATAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
ATATTTTAATTTTTT
Found at i:44713220 original size:14 final size:14
Alignment explanation
Indices: 44713174--44713221 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
44713164 AAAAATTCTG
*
44713174 AAAAATAAAAAAATT
1 AAAAATAAATAAA-T
44713189 AAAAACTCAAATAAAT
1 AAAAA-T-AAATAAAT
*
44713205 AAAAATAAATACAT
1 AAAAATAAATAAAT
44713219 AAA
1 AAA
44713222 CATCAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 7 0.24
17 6 0.21
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:44713499 original size:15 final size:15
Alignment explanation
Indices: 44713475--44713533 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
44713465 TGTTTGGTAA
44713475 ATTG-AAAATTAAGT
1 ATTGAAAAATTAAGT
44713489 ATTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
**
44713504 GCT-AAAATATTAAGT
1 ATTGAAAA-ATTAAGT
* *
44713519 ATTTAAAAGTTAAGT
1 ATTGAAAAATTAAGT
44713534 GCTAAATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.22
15 25 0.68
16 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.36
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:44713516 original size:30 final size:30
Alignment explanation
Indices: 44713482--44713539 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
44713472 TAAATTGAAA
44713482 ATTAAGTATTGAAAAATTAAGTGCTAAAAT
1 ATTAAGTATTGAAAAATTAAGTGCTAAAAT
* *
44713512 ATTAAGTATTTAAAAGTTAAGTGCTAAA
1 ATTAAGTATTGAAAAATTAAGTGCTAAA
44713540 TTTGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (30 bp):
ATTAAGTATTGAAAAATTAAGTGCTAAAAT
Found at i:44715933 original size:22 final size:21
Alignment explanation
Indices: 44715884--44715931 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
44715874 ATTTACTCAA
* *
44715884 TTAAAAAGTAAATGTCATTTT
1 TTAAATAGTAAATGTAATTTT
44715905 TTAAATAGTAAATGGTAATTTT
1 TTAAATAGTAAAT-GTAATTTT
44715927 ATTAA
1 -TTAA
44715932 TATTTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAAATAGTAAATGTAATTTT
Found at i:44729711 original size:20 final size:19
Alignment explanation
Indices: 44729669--44729711 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
44729659 CGGTCGAAAT
44729669 TTATTTTATAATAATATAA
1 TTATTTTATAATAATATAA
44729688 -TATTTTATATATCAAT-TAA
1 TTATTTTATA-AT-AATATAA
44729707 TTATT
1 TTATT
44729712 ACAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.43
19 5 0.24
20 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTTTATAATAATATAA
Found at i:44731000 original size:25 final size:25
Alignment explanation
Indices: 44730972--44731019 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
44730962 GCTATAACTT
*
44730972 TTTTTTATTTACCAAACTATATATA
1 TTTTTTATTTACCAAAATATATATA
44730997 TTTTTTATTTACCAAAATATATA
1 TTTTTTATTTACCAAAATATATA
44731020 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTTTATTTACCAAAATATATATA
Found at i:44731091 original size:27 final size:27
Alignment explanation
Indices: 44731060--44731145 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
44731050 CACCAGATCA
* *
44731060 TGCCAATTAAATTGGGGGCACCAAAGG
1 TGCCAATTAAATTGGCGGCACCAATGG
* *
44731087 TGCCAAATAAATTGGTGGCACCAATGG
1 TGCCAATTAAATTGGCGGCACCAATGG
44731114 TGCCAATGT-AATTGGCGGCACC-ATGG
1 TGCCAAT-TAAATTGGCGGCACCAATGG
44731140 TGCCAA
1 TGCCAA
44731146 AGAAAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.79
28 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (27 bp):
TGCCAATTAAATTGGCGGCACCAATGG
Found at i:44731256 original size:18 final size:19
Alignment explanation
Indices: 44731219--44731257 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44731209 TCAACTCATT
* *
44731219 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
44731238 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
44731256 TT
1 TT
44731258 AATTAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Done.