Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 172 of 325
Found at i:52905072 original size:16 final size:16
Alignment explanation
Indices: 52905053--52905084 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52905043 TATTTTTTTC
52905053 TGGAACAATTTCATGT
1 TGGAACAATTTCATGT
*
52905069 TGGAATAATTTCATGT
1 TGGAACAATTTCATGT
52905085 GTCTAGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (16 bp):
TGGAACAATTTCATGT
Found at i:52905185 original size:28 final size:28
Alignment explanation
Indices: 52905154--52905221 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
52905144 ATTGTGGTGT
* *
52905154 TTAATGTGTCTTAGTTTAATGCATG-TTA
1 TTAATGTGTCTTAGCTTAATACA-GATTA
* * *
52905182 TTAATATGTCCTAGCTTAATACAGATTT
1 TTAATGTGTCTTAGCTTAATACAGATTA
52905210 TTAATGTGTCTT
1 TTAATGTGTCTT
52905222 GGCTGCTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (28 bp):
TTAATGTGTCTTAGCTTAATACAGATTA
Found at i:52908363 original size:29 final size:28
Alignment explanation
Indices: 52908330--52908385 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
52908320 ATCACTCATT
52908330 TTTTTCACTTTCCTTACTATTTTCTTTTG
1 TTTTTCACTTTCCTTACT-TTTTCTTTTG
** * *
52908359 TTTTTTTCTTTCTTTTCTTTTTCTTTT
1 TTTTTCACTTTCCTTACTTTTTCTTTT
52908386 TTTCTTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTTTCACTTTCCTTACTTTTTCTTTTG
Found at i:52908372 original size:17 final size:16
Alignment explanation
Indices: 52908350--52908401 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
52908340 TCCTTACTAT
52908350 TTTCTTTTGTTTTTTTC
1 TTTCTTTT-TTTTTTTC
*
52908367 TTTC-TTTTCTTTTTC
1 TTTCTTTTTTTTTTTC
52908382 TTT-TTTTCTTTCTTTTC
1 TTTCTTTT-TTT-TTTTC
52908399 TTT
1 TTT
52908402 TTCATTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 13 0.43
16 5 0.17
17 12 0.40
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTC
Found at i:52908385 original size:23 final size:23
Alignment explanation
Indices: 52908349--52908435 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
52908339 TTCCTTACTA
*
52908349 TTTTC-TTTTGTTTTTTTCTTTC
1 TTTTCTTTTTCTTTTTTTCTTTC
52908371 TTTTCTTTTTCTTTTTTTCTTTC
1 TTTTCTTTTTCTTTTTTTCTTTC
* **
52908394 TTTTCTTTTTC--ATTTTCACTC
1 TTTTCTTTTTCTTTTTTTCTTTC
52908415 TTTTCTTTTTGCTTTTTTTCT
1 TTTTCTTTTT-CTTTTTTTCT
52908436 CTCAACTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.31
22 6 0.11
23 27 0.49
24 5 0.09
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTTTCTTTC
Found at i:52908403 original size:17 final size:17
Alignment explanation
Indices: 52908350--52908401 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
52908340 TCCTTACTAT
*
52908350 TTTCTTTTGTTTTTTTC
1 TTTCTTTTCTTTTTTTC
52908367 TTTCTTTTC--TTTTTC
1 TTTCTTTTCTTTTTTTC
52908382 TTT-TTTTCTTTCTTTTC
1 TTTCTTTTCTTT-TTTTC
52908399 TTT
1 TTT
52908402 TTCATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 1 0.03
17 16 0.52
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTCTTTTCTTTTTTTC
Found at i:52908410 original size:17 final size:16
Alignment explanation
Indices: 52908349--52908410 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
52908339 TTCCTTACTA
* *
52908349 TTTTCTTTTGTTTTTT
1 TTTTCTTTTCTTTTCT
52908365 TCTTTCTTTTCTTTTTCT
1 T-TTTCTTTTC-TTTTCT
*
52908383 TTTTTTCTTTCTTTTCT
1 TTTTCT-TTTCTTTTCT
52908400 TTTTCATTTTC
1 TTTTC-TTTTC
52908411 ACTCTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.03
17 26 0.68
18 11 0.29
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCT
Found at i:52908431 original size:7 final size:6
Alignment explanation
Indices: 52908349--52908431 Score: 59
Period size: 6 Copynumber: 13.7 Consensus size: 6
52908339 TTCCTTACTA
*
52908349 TTTTCT TTTGT-T TTTT-T CTTTC- TTTTCT TTTTCT TTTT-T TCTTTC-
1 TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT
*
52908394 TTTTCT TTTTCAT TTTCACT CTTTTCT TTTTGCT TTTT
1 TTTTCT TTTTC-T TTT-TCT -TTTTCT TTTT-CT TTTT
52908432 TTCTCTCAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
5 15 0.24
6 30 0.48
7 14 0.22
8 4 0.06
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:52910445 original size:21 final size:22
Alignment explanation
Indices: 52910419--52910462 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52910409 AAACGAGCTC
52910419 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
52910440 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
52910462 G
1 G
52910463 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:52915495 original size:11 final size:13
Alignment explanation
Indices: 52915479--52915511 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
52915469 ATAAATCACT
52915479 TTTTTTTTC-G-A
1 TTTTTTTTCGGAA
52915490 TTTTTTTTCGGAA
1 TTTTTTTTCGGAA
52915503 TTTTTTTTC
1 TTTTTTTTC
52915512 AAACTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (13 bp):
TTTTTTTTCGGAA
Found at i:52917099 original size:21 final size:22
Alignment explanation
Indices: 52917073--52917116 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52917063 AAACGAGCTC
52917073 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
52917094 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
52917116 G
1 G
52917117 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:52918993 original size:10 final size:10
Alignment explanation
Indices: 52918977--52919008 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
52918967 ATCAGCTCAC
52918977 TTGAGCTCGT
1 TTGAGCTCGT
*
52918987 TTTAGCTCGT
1 TTGAGCTCGT
52918997 TTGAGCTCGT
1 TTGAGCTCGT
52919007 TT
1 TT
52919009 CGGCATGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (10 bp):
TTGAGCTCGT
Found at i:52920709 original size:18 final size:19
Alignment explanation
Indices: 52920686--52920724 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52920676 TTTATCTCAA
*
52920686 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
52920704 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
52920723 TT
1 TT
52920725 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:52920763 original size:18 final size:18
Alignment explanation
Indices: 52920742--52920791 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
52920732 AAACTCTTTT
52920742 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
*
52920760 TCATTTTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
*
52920778 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
52920792 TTTTTCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:52923322 original size:20 final size:19
Alignment explanation
Indices: 52923258--52923323 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
52923248 AAGAAAGAAG
*
52923258 GAGCTGAAAGTAAGCTCGATT
1 GAGCTCAAA-TAAGCT-GATT
** **
52923279 GAGCTCAAACGAGCTGAAAC
1 GAGCTCAAATAAGCTG-ATT
52923299 GAGCTCAAATAAGCTGAGTT
1 GAGCTCAAATAAGCTGA-TT
52923319 GAGCT
1 GAGCT
52923324 GGACGGAGCT
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
19 2 0.06
20 24 0.71
21 8 0.24
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (19 bp):
GAGCTCAAATAAGCTGATT
Found at i:52925178 original size:29 final size:28
Alignment explanation
Indices: 52925146--52925248 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52925136 GTGACGAGAT
* *
52925146 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
52925175 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
52925204 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52925233 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52925249 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52936133 original size:29 final size:28
Alignment explanation
Indices: 52936101--52936203 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52936091 GTGACGAGAT
* *
52936101 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
52936130 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
52936159 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52936188 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52936204 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52941179 original size:18 final size:18
Alignment explanation
Indices: 52941156--52941219 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
52941146 TTTGATCAAA
52941156 CTCTTTTTCTTTCTCATT
1 CTCTTTTTCTTTCTCATT
**
52941174 CTCTTTTTCAATCTCATT
1 CTCTTTTTCTTTCTCATT
* *
52941192 -T-TGTTTC-CTCTC-TT
1 CTCTTTTTCTTTCTCATT
52941206 CCTCTTTTTCTTTC
1 -CTCTTTTTCTTTC
52941220 ATTTCTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
14 2 0.06
15 4 0.11
16 6 0.17
17 6 0.17
18 18 0.50
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (18 bp):
CTCTTTTTCTTTCTCATT
Found at i:52947257 original size:30 final size:30
Alignment explanation
Indices: 52947223--52947319 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
52947213 TAAACTAAAA
52947223 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
52947253 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
52947283 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
52947313 TGAGCTA
1 TGAGCTA
52947320 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:52949503 original size:30 final size:30
Alignment explanation
Indices: 52949432--52949514 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
52949422 CTTTTGTTTC
* *
52949432 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
52949463 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
52949492 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
52949515 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:52949514 original size:18 final size:18
Alignment explanation
Indices: 52949465--52949520 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
52949455 CACTCTCAAA
* *
52949465 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
52949482 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
52949500 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
52949519 TT
1 TT
52949521 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:52949521 original size:12 final size:12
Alignment explanation
Indices: 52949490--52949514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52949480 TTTTTCAATC
52949490 TCATTTTCTTTT
1 TCATTTTCTTTT
52949502 TCATTTTCTTTT
1 TCATTTTCTTTT
52949514 T
1 T
52949515 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:52949532 original size:12 final size:12
Alignment explanation
Indices: 52949517--52949547 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52949507 TTCTTTTTGC
52949517 TTTTCAAAGGCT
1 TTTTCAAAGGCT
52949529 TTTTCAAAGGCT
1 TTTTCAAAGGCT
*
52949541 CTTTCAA
1 TTTTCAA
52949548 GTTCTCTCAA
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:0.19, G:0.13, T:0.42
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:52949605 original size:5 final size:5
Alignment explanation
Indices: 52949595--52949642 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
52949585 CTCTTGCCTC
52949595 TCTTT TCTTT T-TATT TCTTTT TCTTTT TCTTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TC-TTT TCTTT TCTTT TCTTT
52949643 ATTTTCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.03
5 22 0.55
6 16 0.40
7 1 0.03
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:52949617 original size:6 final size:6
Alignment explanation
Indices: 52949608--52949642 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
52949598 TTTCTTTTTA
52949608 TTTCTT TTTCTT TTTCTT TTTC-T TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
52949643 ATTTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:52949624 original size:22 final size:22
Alignment explanation
Indices: 52949597--52949642 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
52949587 CTTGCCTCTC
52949597 TTTTCTTTTTA-TTTCTTTTTCT
1 TTTTCTTTTTATTTTC-TTTTCT
*
52949619 TTTTCTTTTTCTTTTCTTTTCT
1 TTTTCTTTTTATTTTCTTTTCT
52949641 TT
1 TT
52949643 ATTTTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTTATTTTCTTTTCT
Found at i:52950574 original size:12 final size:11
Alignment explanation
Indices: 52950557--52950610 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
52950547 CATTAAACAC
52950557 TTTTTTTTCAGA
1 TTTTTTTTCA-A
52950569 -TTTTTTTCGAA
1 TTTTTTTTC-AA
* *
52950580 ATTTTTTTGAA
1 TTTTTTTTCAA
52950591 TTTTTTTTCTAA
1 TTTTTTTTC-AA
52950603 TTTTTTTT
1 TTTTTTTT
52950611 GACTTTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 18 0.50
12 18 0.50
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:52950595 original size:23 final size:23
Alignment explanation
Indices: 52950569--52950612 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
52950559 TTTTTTCAGA
52950569 TTTTTTTCGAAATTTTTTTGAAT
1 TTTTTTTCGAAATTTTTTTGAAT
* *
52950592 TTTTTTTCTAATTTTTTTTGA
1 TTTTTTTCGAAATTTTTTTGA
52950613 CTTTATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTTTCGAAATTTTTTTGAAT
Found at i:52960101 original size:30 final size:30
Alignment explanation
Indices: 52960067--52960163 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
52960057 TAAACTAAAA
*
52960067 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
* * * * *
52960097 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTAAGCTAAAGT
* * *
52960127 TGAGCTAAGGTTTAGCTCGTCAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTAAGCT-AAAGT
52960157 TGAGCTA
1 TGAGCTA
52960164 GGAGTGAGTT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
Found at i:52970592 original size:27 final size:27
Alignment explanation
Indices: 52970557--52971092 Score: 244
Period size: 27 Copynumber: 19.9 Consensus size: 27
52970547 AATACTTTAG
52970557 TTTACTAAAATTACCGAAATACCCTCGA
1 TTTA-TAAAATTACCGAAATACCCTCGA
* * * *
52970585 TTTGTAAAATTACTGGAATACCTTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * *
52970612 CTTGTAAAATTACC-AAAGTACCCCCGG
1 TTTATAAAATTACCGAAA-TACCCTCGA
* **
52970639 TTTATAAAATTATCGAAATACTGTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* *
52970666 -TTGTAAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * *
52970692 CTTGTAAAATTATC-AAAGTACCCCCGA
1 TTTATAAAATTACCGAAA-TACCCTCGA
* * * ***
52970719 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ** *
52970746 TTTACAGAATTACC-ATTTTACCCTCAA
1 TTTATAAAATTACCGA-AATACCCTCGA
* ***
52970773 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* **
52970800 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* * ***
52970827 TTTATAGAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* ***
52970854 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ** * *
52970881 TTTACAGAATTACC-ATTTTACCCTTGG
1 TTTATAAAATTACCGA-AATACCCTCGA
* *** * *
52970908 TTTACAAAATTACCGTTTTACCCTTGG
1 TTTATAAAATTACCGAAATACCCTCGA
* * *
52970935 TTTACAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * *
52970961 GTTTGTAAAATTACCAAAATACCCTTGG
1 -TTTATAAAATTACCGAAATACCCTCGA
* * ** * *
52970989 TTTGTAAAATTGCTAAAATACCCTTGG
1 TTTATAAAATTACCGAAATACCCTCGA
*
52971016 TTTATAAAATTACCAAAATACCC-CTGA
1 TTTATAAAATTACCGAAATACCCTC-GA
* * * *
52971043 TTTGTGAAATTATCGAAAAACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
** *
52971070 TTCGTAAAA-TACTGAAATACCCT
1 TTTATAAAATTACCGAAATACCCT
52971093 TGTAGGGTAG
Statistics
Matches: 413, Mismatches: 80, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
26 37 0.09
27 369 0.89
28 7 0.02
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTATAAAATTACCGAAATACCCTCGA
Found at i:52970696 original size:80 final size:81
Alignment explanation
Indices: 52970556--52970748 Score: 262
Period size: 80 Copynumber: 2.4 Consensus size: 81
52970546 GAATACTTTA
* * *
52970556 GTTTACTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGGAATACCTTCGACTTGTAAAA
1 GTTTA-TAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAA
52970621 TTACCAAAGTACCCCCG
65 TTACCAAAGTACCCCCG
**
52970638 GTTTATAAAATTATCGAAATACTGTCGA-TTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT
1 GTTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT
*
52970702 TATCAAAGTACCCCCG
66 TACCAAAGTACCCCCG
* * * ***
52970718 ATTTACAGAATTATCGTTTTACCCTCGATTT
1 GTTTATAAAATTATCGAAATACCCTCGATTT
52970749 ACAGAATTAC
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 69 0.72
81 22 0.23
82 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (81 bp):
GTTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT
TACCAAAGTACCCCCG
Found at i:52970720 original size:53 final size:51
Alignment explanation
Indices: 52970562--52970720 Score: 156
Period size: 53 Copynumber: 3.0 Consensus size: 51
52970552 TTTAGTTTAC
** *
52970562 TAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGGAATACCTTCGACTTG
1 TAAAATTA-CGAAATACCCTCGATTTGTAAAATTA-TCAAATACCCTCGA-TTG
* * * * **
52970616 TAAAATTACCAAAGTACCCCCGGTTTATAAAATTATCGAAATACTGTCGATTG
1 TAAAATTACGAAA-TACCCTCGATTTGTAAAATTATC-AAATACCCTCGATTG
* *
52970669 TAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCCCGATT
1 TAAAATTAC-GAAATACCCTCGATTTGTAAAATTATCAAA-TACCCTCGATT
52970721 TACAGAATTA
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
52 3 0.04
53 44 0.52
54 38 0.45
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (51 bp):
TAAAATTACGAAATACCCTCGATTTGTAAAATTATCAAATACCCTCGATTG
Found at i:52970801 original size:81 final size:81
Alignment explanation
Indices: 52970710--52970948 Score: 334
Period size: 81 Copynumber: 3.0 Consensus size: 81
52970700 ATTATCAAAG
* * * *
52970710 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT
* *
52970775 TATAGAATTACCGTTT
66 TACAAAATTACCGTTT
* * * *
52970791 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT
52970856 TACAAAATTACCGTTT
66 TACAAAATTACCGTTT
* * * ***
52970872 TACCCTCGATTTACAGAATTACCATTTTACCCTTGGTTTACAAAATTACCGTTTTACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT
52970937 TACAAAATTACC
66 TACAAAATTACC
52970949 AAAATACCCC
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 140 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT
TACAAAATTACCGTTT
Found at i:52970949 original size:54 final size:54
Alignment explanation
Indices: 52970710--52970948 Score: 325
Period size: 54 Copynumber: 4.4 Consensus size: 54
52970700 ATTATCAAAG
* * *
52970710 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
52970764 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * *
52970818 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
52970872 TACCCTCGATTTACAGAATTACCATTTTACCCTTGGTTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * *
52970926 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAGAATTACC
52970949 AAAATACCCC
Statistics
Matches: 167, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
Found at i:52970957 original size:81 final size:81
Alignment explanation
Indices: 52970683--52970957 Score: 280
Period size: 81 Copynumber: 3.4 Consensus size: 81
52970673 ATTACTGAAA
* ** * * * * *
52970683 TACCCTCGACTTGTAAAATTATCAAAGTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
52970748 TACAGAATTACCATTT
66 TACAAAATTACCATTT
* * * **** *
52970764 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* * * *
52970829 TATAGAATTATCGTTT
66 TACAAAATTACCATTT
**** * *
52970845 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGGTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
52970910 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
* *
52970926 TACCCTTGGTTTACAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACCAAAATACCC
52970958 CTAGTTTGTA
Statistics
Matches: 163, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 163 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:52971112 original size:27 final size:27
Alignment explanation
Indices: 52971083--52971351 Score: 405
Period size: 27 Copynumber: 10.0 Consensus size: 27
52971073 GTAAAATACT
* *
52971083 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
52971110 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52971137 GAAATA-CCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52971163 GAAATACCCCTGTAGGGTAGAACTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52971190 GAAATACCCCTGTAGGGTAGAACTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52971217 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52971244 GAAATACCACTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52971271 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52971298 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
52971325 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52971352 ATTTTGCCCC
Statistics
Matches: 221, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 26 0.12
27 195 0.88
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:52971630 original size:24 final size:25
Alignment explanation
Indices: 52971554--52971623 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
52971544 AGGAAGTGCT
* * * *
52971554 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
52971579 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
52971604 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52971624 ATTAAAAGCG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:52981717 original size:48 final size:47
Alignment explanation
Indices: 52981563--52981723 Score: 159
Period size: 46 Copynumber: 3.4 Consensus size: 47
52981553 GGTGGTATGT
* * *
52981563 GAGCCAGTGTAAGACATGTCTTGGACATGCATCGG-C-C-AAATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGA-TAT-A
* * * * * *
52981609 GAGCTAGTGTAAGACATTTCTGGGACATGCATCAGCATTGAGA-AGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA
*
52981655 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGGGATATA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA
* *
52981702 CAAGCTAGTGTAAGACCTGTCT
1 -GAGCTAGTGTAAGACATGTCT
52981724 GGGATGTAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
46 69 0.74
47 3 0.03
48 19 0.20
49 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA
Found at i:52983160 original size:13 final size:13
Alignment explanation
Indices: 52983142--52983170 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52983132 ATATTACTTG
52983142 TATTATGATATTT
1 TATTATGATATTT
52983155 TATTATGATATTT
1 TATTATGATATTT
52983168 TAT
1 TAT
52983171 AATAATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (13 bp):
TATTATGATATTT
Found at i:52992031 original size:42 final size:42
Alignment explanation
Indices: 52991926--52992080 Score: 138
Period size: 44 Copynumber: 3.7 Consensus size: 42
52991916 AGCTCGTACA
* * * *
52991926 ATGCCAACGTCCCAG-ATGGTCTTACATGTAATCAAATATCA
1 ATGCCAATGTCCCAGAATGGTCTTACACGAAATCAAATATCG
* * * *
52991967 ATACCACTGTCCTA-AATAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGAAT-GGTCTTACACGAAATCAAATATCG
* *
52992008 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA-ATTG
1 ATGCCAATGTCCCAGA-ATGGTCTTACAC-GAAATCA-AATATCG
*
52992052 ATGCCAATGTCCCAAACATGGTCTTACAC
1 ATGCCAATGTCCCAGA-ATGGTCTTACAC
52992081 AATAACACAT
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 24 0.26
42 29 0.32
43 9 0.10
44 30 0.33
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAATGGTCTTACACGAAATCAAATATCG
Found at i:52995935 original size:17 final size:19
Alignment explanation
Indices: 52995893--52995936 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52995883 ATGAAATTTT
*
52995893 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
52995912 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
52995930 AA-TATTA
1 AATTATTA
52995937 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:52997761 original size:28 final size:28
Alignment explanation
Indices: 52997729--52997797 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
52997719 GCGTAGATCA
52997729 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
52997757 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
52997785 CGATA-TACCCCTA
1 CGAAATTACCCCTA
52997798 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53000101 original size:30 final size:28
Alignment explanation
Indices: 53000065--53000120 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
53000055 AAGCGAAAAA
* *
53000065 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
53000095 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
53000121 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:53005837 original size:9 final size:9
Alignment explanation
Indices: 53005808--53005866 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
53005798 ATTCATTAAC
53005808 AAACACATT
1 AAACACATT
*
53005817 AAAACAAATT
1 -AAACACATT
*
53005827 AAACACTTT
1 AAACACATT
*
53005836 AAGCACATT
1 AAACACATT
53005845 AAACACATT
1 AAACACATT
53005854 AAACACATT
1 AAACACATT
53005863 AAAC
1 AAAC
53005867 TTAATTAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
9 35 0.81
10 8 0.19
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:53005958 original size:34 final size:34
Alignment explanation
Indices: 53005911--53006009 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 34
53005901 TAACAATAAA
* *
53005911 TTATTCCAACAACTAAATTAACTAAGATAAGCAT
1 TTATTCCAGCAACTAAATTAACTAAAATAAGCAT
* * * *
53005945 TTATTCTAGCAACTCAATTAATAACTAAAATGAGTAT
1 TTATTCCAGCAACT-AA--ATTAACTAAAATAAGCAT
*
53005982 TTATTCCAGCAACTTAATTAACTAAAAT
1 TTATTCCAGCAACTAAATTAACTAAAAT
53006010 GAGTTTAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
34 23 0.43
35 2 0.04
36 1 0.02
37 27 0.51
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (34 bp):
TTATTCCAGCAACTAAATTAACTAAAATAAGCAT
Found at i:53006010 original size:34 final size:34
Alignment explanation
Indices: 53005911--53006013 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 34
53005901 TAACAATAAA
* * * *
53005911 TTATTCCAACAACTAAATTAACTAAGATAAGCAT
1 TTATTCCAGCAACTAAATTAACTAAAATGAGTAT
* *
53005945 TTATTCTAGCAACTCAATTAATAACTAAAATGAGTAT
1 TTATTCCAGCAACT-AA--ATTAACTAAAATGAGTAT
*
53005982 TTATTCCAGCAACTTAATTAACTAAAATGAGT
1 TTATTCCAGCAACTAAATTAACTAAAATGAGT
53006014 TTAATTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
34 27 0.47
35 2 0.04
36 1 0.02
37 27 0.47
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (34 bp):
TTATTCCAGCAACTAAATTAACTAAAATGAGTAT
Found at i:53007265 original size:23 final size:23
Alignment explanation
Indices: 53007237--53007280 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
53007227 TTAGTAGATA
53007237 AACACTTCATATCAATATGTACG
1 AACACTTCATATCAATATGTACG
53007260 AACACTTCATATCAATATGTA
1 AACACTTCATATCAATATGTA
53007281 TAATGAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (23 bp):
AACACTTCATATCAATATGTACG
Found at i:53008936 original size:10 final size:10
Alignment explanation
Indices: 53008921--53008960 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
53008911 TCACATTCAC
53008921 GAATTTTTTT
1 GAATTTTTTT
53008931 GAATTTTTTT
1 GAATTTTTTT
53008941 GAATTTTTTT
1 GAATTTTTTT
53008951 GAATTATTTT
1 GAATT-TTTT
53008961 CAAATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 25 0.86
11 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (10 bp):
GAATTTTTTT
Found at i:53010027 original size:9 final size:9
Alignment explanation
Indices: 53009998--53010038 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
53009988 ATTCATTAAC
53009998 AAACACATT
1 AAACACATT
*
53010007 AAAACAAATT
1 -AAACACATT
*
53010017 AAACACTTT
1 AAACACATT
53010026 AAACACATT
1 AAACACATT
53010035 AAAC
1 AAAC
53010039 TTAATTAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:53010131 original size:20 final size:20
Alignment explanation
Indices: 53010106--53010143 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53010096 GTTTATTCGC
*
53010106 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
53010126 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
53010144 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:53011833 original size:28 final size:27
Alignment explanation
Indices: 53011774--53011866 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
53011764 TAGAACACGA
*
53011774 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
53011801 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
53011828 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
53011855 AATATACCCCTA
1 AAT-TACCCCTA
53011867 GGGTTTAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.05
27 34 0.55
28 25 0.40
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:53013059 original size:34 final size:34
Alignment explanation
Indices: 53013006--53013104 Score: 117
Period size: 37 Copynumber: 2.8 Consensus size: 34
53012996 TAACAATACA
* *
53013006 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT
1 TTATTCCAGCAACTCAATTAACTAAAATAAGCAT
* * * *
53013040 TTATTCTAGTAACTCAATTAATAACTAAAATGAGTAT
1 TTATTCCAGCAACTCAA-T--TAACTAAAATAAGCAT
53013077 TTATTCCAGCAACTCAATTAACTAAAAT
1 TTATTCCAGCAACTCAATTAACTAAAAT
53013105 GAGTTTAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 24 0.44
35 1 0.02
36 1 0.02
37 28 0.52
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (34 bp):
TTATTCCAGCAACTCAATTAACTAAAATAAGCAT
Found at i:53013105 original size:34 final size:34
Alignment explanation
Indices: 53013006--53013108 Score: 125
Period size: 34 Copynumber: 2.9 Consensus size: 34
53012996 TAACAATACA
* * * *
53013006 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT
1 TTATTCCAGCAACTCAATTAACTAAAATGAGTAT
* *
53013040 TTATTCTAGTAACTCAATTAATAACTAAAATGAGTAT
1 TTATTCCAGCAACTCAA-T--TAACTAAAATGAGTAT
53013077 TTATTCCAGCAACTCAATTAACTAAAATGAGT
1 TTATTCCAGCAACTCAATTAACTAAAATGAGT
53013109 TTAATTAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 28 0.48
35 1 0.02
36 1 0.02
37 28 0.48
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (34 bp):
TTATTCCAGCAACTCAATTAACTAAAATGAGTAT
Found at i:53021497 original size:50 final size:49
Alignment explanation
Indices: 53021374--53021603 Score: 221
Period size: 50 Copynumber: 4.6 Consensus size: 49
53021364 CTGATATGCA
* * * * *
53021374 TAGTAGCCTGCACTTAGTACTACACATGCGACTAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATCTGATACACG
* *
53021423 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAACCATCTGATACACG
* * * *
53021473 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-CCATCTGA-TACACG
* ** * * *
53021524 TAGTAGCCTGCACTTAGTACTACACATGCAACTTAA-TAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-TAACCA-TCTGATACACG
* *
53021574 TAGTAGCTTGCACTGAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
53021604 TACTCACAAT
Statistics
Matches: 148, Mismatches: 27, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
49 30 0.20
50 80 0.54
51 38 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATCTGATACACG
Found at i:53028418 original size:49 final size:49
Alignment explanation
Indices: 53028345--53028577 Score: 217
Period size: 49 Copynumber: 4.7 Consensus size: 49
53028335 CGAAGCTATC
* *
53028345 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAAT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT
* * * *
53028393 CCGATACACGTAGTAGCCTGCACTTAGTACTACACACATG-AACTCACCATT
1 -TGATACACGTAGTAGCCTGCACTTAGTACT--ACACATGCGACTCAACAAT
* * *
53028444 TGATACACGTAGTAGCCTACA-TTAGTACTACACACGTGA-TCGAAGTC-AT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTC-AA--CAAT
* * * *
53028493 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT
* *
53028543 ATGGTACACGTAGTA-CCTTCACTTAGTACTACACA
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACA
53028578 CGTGTACTCA
Statistics
Matches: 149, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
47 8 0.05
48 2 0.01
49 59 0.40
50 47 0.32
51 32 0.21
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT
Found at i:53034009 original size:71 final size:71
Alignment explanation
Indices: 53033925--53034088 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53033915 CGATTTGTCT
53033925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53033990 CTTTCA
66 CTTTCA
53033996 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53034061 CTTTCA
66 CTTTCA
53034067 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53034089 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53034126 original size:71 final size:70
Alignment explanation
Indices: 53033925--53034122 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
53033915 CGATTTGTCT
* * * *
53033925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53033990 CTTTCA
65 CTTTCA
* * * *
53033996 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53034061 CTTTCA
65 CTTTCA
* *
53034067 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
53034123 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53038733 original size:40 final size:40
Alignment explanation
Indices: 53038688--53038854 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53038678 CGGAATATAA
53038688 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53038728 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53038768 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53038808 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53038847 CCGGATAT
1 CCGGATAT
53038855 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53044852 original size:30 final size:29
Alignment explanation
Indices: 53044758--53044859 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53044748 TATAGTGAAT
* * *
53044758 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53044787 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53044815 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53044845 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53044860 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53052007 original size:28 final size:29
Alignment explanation
Indices: 53051937--53052011 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
53051927 ATACTCGATT
*
53051937 TCGCACACTTAGTGCCATGCGATTTAGGC
1 TCGCACACTTAGTGCCATGCGATTGAGGC
* ** *
53051966 CCGCACACACAGTGCCATGC-CTTCGA-GC
1 TCGCACACTTAGTGCCATGCGATT-GAGGC
53051994 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
53052012 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATGCGATTGAGGC
Found at i:53052032 original size:29 final size:29
Alignment explanation
Indices: 53051995--53052068 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
53051985 CCTTCGAGCT
53051995 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
53052024 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
53052053 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
53052069 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:53058089 original size:40 final size:40
Alignment explanation
Indices: 53058007--53058225 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
53057997 ACCCAAGTAT
* ** * *
53058007 CTTCGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
53058044 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
53058084 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53058124 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
53058164 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53058204 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
53058226 CATTCGAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 7 0.05
38 4 0.03
39 16 0.10
40 127 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53066229 original size:40 final size:40
Alignment explanation
Indices: 53066182--53066365 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
53066172 GTCGCACAAG
* *
53066182 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
53066222 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
53066262 GCCTTCAGGTCTTAGCCCGGATATAG-CAACTCGTACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
53066302 GCCTTCGGATCTTAGTCTGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
53066342 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53066366 CATTCGAATA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:53071164 original size:40 final size:40
Alignment explanation
Indices: 53071119--53071248 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
53071109 CGGAATATAA
53071119 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53071159 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
53071199 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
53071239 CCGGATATAA
1 CCGGATATAA
53071249 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53071263 original size:40 final size:39
Alignment explanation
Indices: 53071135--53071285 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
53071125 ATAACCATGT
* * *
53071135 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
53071175 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
53071215 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* * *
53071254 AGCATAATTGTCTTCGGG-CATAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53071286 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 14 0.15
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:53071269 original size:80 final size:79
Alignment explanation
Indices: 53071119--53071285 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
53071109 CGGAATATAA
*
53071119 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
*
53071184 CCTTCGGGTCTTAGC
66 CCTTCGGG-CATAGC
* * * ** *
53071199 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
53071261 TTGTCTTCGGGCATAGC
64 -TGCCTTCGGGCATAGC
53071278 CCGGATAT
1 CCGGATAT
53071286 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 16 0.21
80 58 0.77
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCATAGC
Found at i:53073393 original size:21 final size:21
Alignment explanation
Indices: 53073369--53073408 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53073359 TGTTTCAGGG
*
53073369 AAAAATTTTCTAAGTTTTCCC
1 AAAAATTTTCAAAGTTTTCCC
*
53073390 AAAATTTTTCAAAGTTTTC
1 AAAAATTTTCAAAGTTTTC
53073409 AGTTTAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAAATTTTCAAAGTTTTCCC
Found at i:53092544 original size:17 final size:18
Alignment explanation
Indices: 53092522--53092558 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
53092512 AAGAAATGAA
53092522 ATTGTAAA-TTGTGAGAT
1 ATTGTAAATTTGTGAGAT
53092539 ATTGTAAATTTTGTGAGAT
1 ATTGTAAA-TTTGTGAGAT
53092558 A
1 A
53092559 AGGTTAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (18 bp):
ATTGTAAATTTGTGAGAT
Found at i:53097233 original size:30 final size:30
Alignment explanation
Indices: 53097197--53097298 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 30
53097187 GACAAGATTG
* *
53097197 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
53097227 GCACTAAGTGTGCGCGTTT--GATTCTATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
53097255 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
53097284 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
53097299 ATTCACTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.37
29 19 0.32
30 19 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGGGTTTAAAATTATATA
Found at i:53097309 original size:29 final size:28
Alignment explanation
Indices: 53097226--53097301 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
53097216 AAAATTGTAC
* *
53097226 AGCACTAAGTGTGCGCGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
53097254 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
53097283 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
53097302 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:53104353 original size:30 final size:30
Alignment explanation
Indices: 53104317--53104417 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 30
53104307 GACAAGATTG
* * *
53104317 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* * *
53104347 GCACTAAGTGCGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
53104375 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
53104404 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53104418 GATTCACTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
28 22 0.37
29 19 0.32
30 18 0.31
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:53109581 original size:28 final size:28
Alignment explanation
Indices: 53109516--53109616 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53109506 ATAGTGAATC
*
53109516 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53109545 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53109573 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53109603 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53109617 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53117515 original size:28 final size:28
Alignment explanation
Indices: 53117450--53117550 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53117440 ATAGTGAATC
*
53117450 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53117479 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53117507 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53117537 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53117551 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53123316 original size:7 final size:7
Alignment explanation
Indices: 53123304--53123328 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53123294 GTTGTCTTCT
53123304 TGTTTGA
1 TGTTTGA
53123311 TGTTTGA
1 TGTTTGA
53123318 TGTTTGA
1 TGTTTGA
53123325 TGTT
1 TGTT
53123329 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:53124257 original size:27 final size:28
Alignment explanation
Indices: 53124201--53124270 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
53124191 AAATTTGTAC
53124201 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
53124229 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53124256 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53124271 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53126190 original size:40 final size:40
Alignment explanation
Indices: 53126135--53126344 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53126125 AACATTGGAA
53126135 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53126175 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53126215 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53126255 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53126294 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53126335 CTATATCCGG
1 ATATATCCGG
53126345 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53134645 original size:40 final size:40
Alignment explanation
Indices: 53134568--53134784 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
53134558 AAACCAAGTC
* *
53134568 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
53134607 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53134647 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53134687 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53134727 CCTTCAGGG-CTTAGCCCGAAT-TAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53134766 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53134785 TTATCATCCG
Statistics
Matches: 166, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 116 0.70
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53136634 original size:57 final size:57
Alignment explanation
Indices: 53136481--53136639 Score: 221
Period size: 57 Copynumber: 2.8 Consensus size: 57
53136471 ATTTTTCAGG
* * *
53136481 TCATTTTCATTTTGGAG-AAAACCACATTCATGTCCAAATGATTTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAAACAAAATT-ATTTCCAAATGATTTCATTTCTCCATTT
* * * * *
53136538 TCATTTTCATTTTGGAGAAAACCATAATAATTTCAAAATGTTTTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTCATTTCTCCATTT
*
53136595 TCATTTTCATTTTGGAGAAAAACAAAATTGTTTCCAAATGATTTC
1 TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTC
53136640 CCAGTTATCC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 81 0.93
58 6 0.07
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTCATTTCTCCATTT
Found at i:53140200 original size:27 final size:27
Alignment explanation
Indices: 53140161--53140251 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
53140151 TTAAATAAAC
* *
53140161 TTAGGACATATTAAATAGCTGAACTAA
1 TTAGAACACATTAAATAGCTGAACTAA
53140188 TTAGAACACATTAAATA----AACT--
1 TTAGAACACATTAAATAGCTGAACTAA
* * *
53140209 TAAGATA-A-TTTAAATTGCTGAACTAA
1 TTAGA-ACACATTAAATAGCTGAACTAA
53140235 TTAGAACACATTAAATA
1 TTAGAACACATTAAATA
53140252 AACTAAGACA
Statistics
Matches: 47, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 1 0.02
23 4 0.09
24 4 0.09
25 1 0.02
26 5 0.11
27 21 0.45
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (27 bp):
TTAGAACACATTAAATAGCTGAACTAA
Found at i:53140209 original size:47 final size:46
Alignment explanation
Indices: 53140145--53140269 Score: 189
Period size: 47 Copynumber: 2.7 Consensus size: 46
53140135 TATTAACTAA
* *
53140145 AACATATTAAATAAACTTAGGACATATTAAATAGCTGAACTAATTAG
1 AACACATTAAATAAACTTAAGACA-ATTAAATAGCTGAACTAATTAG
* *
53140192 AACACATTAAATAAACTTAAGATAATTTAAATTGCTGAACTAATTAG
1 AACACATTAAATAAACTTAAGACAA-TTAAATAGCTGAACTAATTAG
53140239 AACACATTAAATAAAC-TAAGACAATTAAATA
1 AACACATTAAATAAACTTAAGACAATTAAATA
53140270 CTTAAACTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 6 0.08
46 8 0.11
47 57 0.80
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (46 bp):
AACACATTAAATAAACTTAAGACAATTAAATAGCTGAACTAATTAG
Found at i:53143593 original size:49 final size:47
Alignment explanation
Indices: 53143476--53143937 Score: 644
Period size: 47 Copynumber: 9.7 Consensus size: 47
53143466 GATTTTACGC
* *
53143476 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
53143523 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
53143570 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
53143619 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
53143668 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
53143715 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
53143813 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
53143860 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
53143907 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
53143938 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 22, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
46 6 0.02
47 182 0.48
48 16 0.04
49 173 0.45
50 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53143600 original size:96 final size:95
Alignment explanation
Indices: 53143476--53143937 Score: 657
Period size: 96 Copynumber: 4.8 Consensus size: 95
53143466 GATTTTACGC
53143476 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
53143540 ATATATGTGATAAGG-CTGAATGGCCAATGT
66 ATATATGTGATAAGGCCT-AATGGCCAATGT
53143570 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
53143635 TATATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATGGCCAATGT
*
53143668 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G
*
53143731 TGTATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
53143829 TATATATGTGATAAGG-CTGAATAGCCAATGT
65 TATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * * * * *
53143860 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
*
53143924 ATAAATGTGATAAG
66 ATATATGTGATAAG
53143938 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 20, Indels: 20
0.89 0.05 0.05
Matches are distributed among these distances:
94 64 0.19
95 9 0.03
96 172 0.51
97 12 0.04
98 77 0.23
99 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (95 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
ATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53143658 original size:145 final size:145
Alignment explanation
Indices: 53143476--53143937 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
53143466 GATTTTACGC
*
53143476 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
53143539 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
53143604 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
53143619 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
53143684 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
53143749 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
*
53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
* * *
53143829 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* * * *
53143892 CCGAGTGGCCAACGT
131 CCTAATGGCCGATGT
*
53143907 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
53143938 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 57 0.19
144 5 0.02
145 234 0.76
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGT
Found at i:53145931 original size:42 final size:41
Alignment explanation
Indices: 53145867--53146078 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
53145857 CTCGACGATG
* * *
53145867 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
53145909 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
53145949 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
53145989 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
53146029 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
53146071 ATTCGGGC
1 ATCCGGGC
53146079 CTTCGAGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:53146109 original size:43 final size:43
Alignment explanation
Indices: 53146061--53146323 Score: 456
Period size: 43 Copynumber: 6.1 Consensus size: 43
53146051 CAGTCATGCT
53146061 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
*
53146104 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
*
53146147 -GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
53146189 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
53146232 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
* * * **
53146275 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
53146318 GGTGAT
1 GGTGAT
53146324 TCGAGCAAGG
Statistics
Matches: 212, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 42 0.20
43 170 0.80
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
Found at i:53146217 original size:128 final size:129
Alignment explanation
Indices: 53146056--53146323 Score: 475
Period size: 128 Copynumber: 2.1 Consensus size: 129
53146046 AAGAGCAGTC
*
53146056 ATGCTGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
* *
53146121 CCTTCGTGCCTAGCAGGCTTTGTGCC-GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
*
53146184 GTGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
* *
53146249 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTA
66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
53146313 ATGCCGGTGAT
1 ATGCCGGTGAT
53146324 TCGAGCAAGG
Statistics
Matches: 132, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
128 88 0.67
129 44 0.33
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (129 bp):
ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
Found at i:53150133 original size:49 final size:47
Alignment explanation
Indices: 53150016--53150477 Score: 644
Period size: 47 Copynumber: 9.7 Consensus size: 47
53150006 GATTTTACGC
* *
53150016 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
53150063 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
53150110 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
53150159 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
53150208 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
53150255 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
53150353 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
53150400 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
53150447 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
53150478 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 22, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
46 6 0.02
47 182 0.48
48 16 0.04
49 173 0.45
50 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53150140 original size:96 final size:95
Alignment explanation
Indices: 53150016--53150477 Score: 657
Period size: 96 Copynumber: 4.8 Consensus size: 95
53150006 GATTTTACGC
53150016 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
53150080 ATATATGTGATAAGG-CTGAATGGCCAATGT
66 ATATATGTGATAAGGCCT-AATGGCCAATGT
53150110 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
53150175 TATATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATGGCCAATGT
*
53150208 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G
*
53150271 TGTATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
53150369 TATATATGTGATAAGG-CTGAATAGCCAATGT
65 TATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * * * * *
53150400 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
*
53150464 ATAAATGTGATAAG
66 ATATATGTGATAAG
53150478 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 20, Indels: 20
0.89 0.05 0.05
Matches are distributed among these distances:
94 64 0.19
95 9 0.03
96 172 0.51
97 12 0.04
98 77 0.23
99 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (95 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
ATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53150198 original size:145 final size:145
Alignment explanation
Indices: 53150016--53150477 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
53150006 GATTTTACGC
*
53150016 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
53150079 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
53150144 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
53150159 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
53150224 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
53150289 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
*
53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
* * *
53150369 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG
66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* * * *
53150432 CCGAGTGGCCAACGT
131 CCTAATGGCCGATGT
*
53150447 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
53150478 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 57 0.19
144 5 0.02
145 234 0.76
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGT
Found at i:53152156 original size:18 final size:18
Alignment explanation
Indices: 53152133--53152168 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53152123 ATAAACTTTC
53152133 TGTAACACCCTGAATTTG
1 TGTAACACCCTGAATTTG
53152151 TGTAACACCCTGAATTTG
1 TGTAACACCCTGAATTTG
53152169 GGCCTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
TGTAACACCCTGAATTTG
Found at i:53153324 original size:27 final size:27
Alignment explanation
Indices: 53153145--53153368 Score: 204
Period size: 27 Copynumber: 8.3 Consensus size: 27
53153135 CTTTGTTTAC
*
53153145 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * *
53153171 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
53153198 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
53153225 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
53153252 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** *
53153279 GAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
53153306 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* * ****
53153333 AGAATTATCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
53153360 AAAATTACC
1 AAAATTACC
53153369 GTTTTACCCT
Statistics
Matches: 163, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
26 18 0.11
27 143 0.88
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:53153532 original size:80 final size:80
Alignment explanation
Indices: 53153319--53153716 Score: 512
Period size: 80 Copynumber: 4.9 Consensus size: 80
53153309 ATTACCAAAG
* ** * *
53153319 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCC-CGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
* *
53153384 TACAGAATTACCGTTT
65 TACAAAATTACCATTT
** * * * **
53153400 TACCCTTAGTTTACAGAATTA-CTATTTTACCCTCGATTTATAGAATTACCGTTTGACCCTTAAT
1 TACCCCGA-TTTACAGAATTATC-GTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGAT
* *
53153464 TTACATAATTACCGTTT
64 TTACAAAATTACCATTT
*
53153481 TACCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT
1 TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT
*
53153546 ACAGAATTACCATTT
66 ACAAAATTACCATTT
*
53153561 TACCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT
1 TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT
53153626 ACAAAATTACCATTT
66 ACAAAATTACCATTT
* * * ** *
53153641 TACCCTCGATTTATAGAATTA-CTGTTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGAT
1 TACCC-CGATTTACAGAATTATC-GTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGAT
53153705 TTACAAAATTAC
64 TTACAAAATTAC
53153717 TAAAATACCC
Statistics
Matches: 284, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
80 149 0.52
81 135 0.48
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (80 bp):
TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT
ACAAAATTACCATTT
Found at i:53153718 original size:27 final size:27
Alignment explanation
Indices: 53153319--53153716 Score: 505
Period size: 27 Copynumber: 14.8 Consensus size: 27
53153309 ATTACCAAAG
* *
53153319 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
53153346 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
53153373 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
53153400 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
53153427 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** *
53153454 GACCCTTAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
53153481 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
53153507 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
53153534 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
53153561 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
53153587 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
53153614 CACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
53153641 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
53153668 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
53153695 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
53153717 TAAAATACCC
Statistics
Matches: 322, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 47 0.15
27 274 0.85
28 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:53154985 original size:25 final size:25
Alignment explanation
Indices: 53154957--53155004 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
53154947 TTATACCATG
* *
53154957 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53154982 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53155005 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53155107 original size:20 final size:20
Alignment explanation
Indices: 53155047--53155107 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
53155037 ATAAATATGG
*
53155047 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
53155067 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53155087 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53155107 T
1 T
53155108 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:53155184 original size:24 final size:24
Alignment explanation
Indices: 53155157--53155279 Score: 203
Period size: 24 Copynumber: 5.2 Consensus size: 24
53155147 GAGGAAGTGA
53155157 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53155181 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53155205 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
53155228 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
53155252 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
53155276 AAAA
1 AAAA
53155280 AAGGCTAGGC
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 23 0.24
24 72 0.76
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:53155250 original size:47 final size:47
Alignment explanation
Indices: 53155157--53155279 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
53155147 GAGGAAGTGA
53155157 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
53155205 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
53155252 GAAAGGGCTTTTGCCCCAGTTATTAAAA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAA
53155280 AAGGCTAGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 43 0.61
48 28 0.39
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:53155527 original size:31 final size:31
Alignment explanation
Indices: 53155491--53155554 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53155481 CGTTTACAGT
*
53155491 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
53155522 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53155553 AA
1 AA
53155555 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53157146 original size:27 final size:27
Alignment explanation
Indices: 53157111--53157316 Score: 195
Period size: 27 Copynumber: 7.7 Consensus size: 27
53157101 TTAGTTTATC
* *
53157111 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53157138 AAATTACCAAAATACCC-CTGGTTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
53157165 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
53157192 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
53157219 AAATTACTAAAATACCCCCTATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * ** *
53157246 AAATTATCGAAATACTTTCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
**
53157273 AAATTACTGAAATACCC-CGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
53157299 AAATTACTAAAATACCCT
1 AAATTACCAAAATACCCT
53157317 TGTAGGGTAG
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.16
27 127 0.83
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:53157249 original size:81 final size:82
Alignment explanation
Indices: 53157111--53157315 Score: 222
Period size: 81 Copynumber: 2.5 Consensus size: 82
53157101 TTAGTTTATC
* * * * *
53157111 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATA-CCCCTGGTTTATAAAATTACCA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCA
* *
53157174 AAATACCC-CTGGTTTGTA
65 AAATACCCTC-GATTTGCA
* * * *
53157192 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCCT-ATTTGCAAAATTATCGA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCAA
**
53157256 AATACTTTCGATTTGCA
66 AATACCCTCGATTTGCA
**
53157273 AAATTACTGAAATACCCC-GATTTGTAAAATTACTAAAATACCC
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC
53157316 TTGTAGGGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
80 24 0.23
81 71 0.68
82 10 0.10
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (82 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCAA
AATACCCTCGATTTGCA
Found at i:53157337 original size:27 final size:27
Alignment explanation
Indices: 53157274--53158274 Score: 1226
Period size: 27 Copynumber: 37.2 Consensus size: 27
53157264 CGATTTGCAA
** *
53157274 AATTACTGAAATACCCC-G-ATTTGTAA
1 AATTACTGAAATACCCCTGTA-GGGTAG
* *
53157300 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53157327 AAATACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53157354 AATTACTAAAATACCCTTGTAGGTTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157381 AATTACCG-AATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157407 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157434 AATTACTAAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
53157461 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157488 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157515 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157542 AATTA-TCGAAATACCCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
53157569 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157596 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157623 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53157650 AATTACTGAAATACCCTTGTATGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157677 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
53157704 AATTACCAAAATACCCCTGTCA-GGTAG
1 AATTACTGAAATACCCCTGT-AGGGTAG
* * *
53157731 AATTA-TCGAAATACTCCTGTAAGGTAT
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
53157758 AATTACTAAAATACCCCTATAAGGTAT
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157785 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157812 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53157839 AATTACTGAAATACCCCTGAAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * **
53157866 AATTATTGAAATATCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53157893 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157920 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53157947 AAATACCGAAATA-CCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53157973 AATTACTAAAATACCCTTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53158000 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53158027 AAATACCGAAATACACCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53158054 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53158081 AATTACTGAAACACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53158108 AAATACCGAAATA-CCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53158134 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53158161 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53158188 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53158215 AATTACTGAAATACCCCTATAGGGCAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * ** * *
53158242 TATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
53158269 AATTAC
1 AATTAC
53158275 CATTCTGTCC
Statistics
Matches: 843, Mismatches: 121, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
26 86 0.10
27 753 0.89
28 4 0.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53158696 original size:22 final size:22
Alignment explanation
Indices: 53158668--53158727 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
53158658 TTATTTTGAT
*
53158668 TATGGCTTTGTGCCAACCT-ACA
1 TATGGCTATGTGCCAACCTGA-A
* * *
53158690 TATGGCTCTGTGTCAACCTGAT
1 TATGGCTATGTGCCAACCTGAA
53158712 TATGGCTATGTGCCAA
1 TATGGCTATGTGCCAA
53158728 ACGTATTTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (22 bp):
TATGGCTATGTGCCAACCTGAA
Found at i:53160197 original size:49 final size:49
Alignment explanation
Indices: 53160120--53160263 Score: 173
Period size: 51 Copynumber: 2.9 Consensus size: 49
53160110 GCCGAAGCTA
* * *
53160120 TCTGGTACGCATAGTAGCTTGCAGTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * *
53160169 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
* *
53160220 TCGGGTACACATAGTAGTCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
53160264 TCACAATAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 37 0.47
51 38 0.48
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:53162405 original size:15 final size:14
Alignment explanation
Indices: 53162351--53162401 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
53162341 ACAAGAAAAC
53162351 GAATAAAAAATCCA
1 GAATAAAAAATCCA
*
53162365 -AGATAGAAAAACCCA
1 GA-ATA-AAAAATCCA
53162380 GAATAAAGAAATCCA
1 GAATAAA-AAATCCA
53162395 GAATAAA
1 GAATAAA
53162402 GAAACCCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 24 0.77
16 1 0.03
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.12
Consensus pattern (14 bp):
GAATAAAAAATCCA
Found at i:53165464 original size:49 final size:49
Alignment explanation
Indices: 53165395--53165535 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 49
53165385 GAAGCTATCT
* *
53165395 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG-TCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAGTTCG
** * * *
53165444 GGTACATGTAGTAGCCTGCACTTACTACTACACACGTGATCACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG--TTCG
*
53165495 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
53165536 TCACAATAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 35 0.46
51 37 0.49
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAGTTCG
Found at i:53165516 original size:51 final size:49
Alignment explanation
Indices: 53165395--53165528 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 49
53165385 GAAGCTATCT
* * *
53165395 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCG
** * *
53165444 GGTACATGTAGTAGCCTGCACTTACTACTACACACGTGATC-ACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCG
53165495 GGTACACATAGTAGCCTGCACTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
53165529 TGCGACCTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
48 4 0.06
49 35 0.49
51 33 0.46
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCG
Found at i:53167164 original size:27 final size:27
Alignment explanation
Indices: 53167126--53167232 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
53167116 TTCTGTTAAA
* *
53167126 TGGCTTTGCCACATTATCTGTTTCTGG
1 TGGCTATGCCACAATATCTGTTTCTGG
*
53167153 TGGTTATGCCACAAATATCTG-TTCTGG
1 TGGCTATGCCAC-AATATCTGTTTCTGG
* *
53167180 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTATGCCACAATATCTGTTTCTGG
* * * *
53167207 TGACTTTGTCACAATATATG-TTCTGG
1 TGGCTATGCCACAATATCTGTTTCTGG
53167233 CATCCATGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 47 0.70
28 7 0.10
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGCTATGCCACAATATCTGTTTCTGG
Found at i:53167220 original size:54 final size:53
Alignment explanation
Indices: 53167126--53167232 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
53167116 TTCTGTTAAA
* * * * *
53167126 TGGCTTTGCCACATTATCTGTTTCTGGTGGTTATGCCACAAATATCTGTTCTGG
1 TGGCTCTGCCACAATATCTGTATCTGGTGCTTATGCCAC-AATATATGTTCTGG
*
53167180 TGGCTCTGCCACAATATCTGTATCTGGTGACTT-TGTCACAATATATGTTCTGG
1 TGGCTCTGCCACAATATCTGTATCTGGTG-CTTATGCCACAATATATGTTCTGG
53167233 CATCCATGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 13 0.28
54 31 0.67
55 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (53 bp):
TGGCTCTGCCACAATATCTGTATCTGGTGCTTATGCCACAATATATGTTCTGG
Found at i:53167407 original size:31 final size:31
Alignment explanation
Indices: 53167372--53167460 Score: 81
Period size: 37 Copynumber: 2.7 Consensus size: 31
53167362 ATTCTGTTAC
53167372 CTGATATTGATTCTGATTTTGTCACCTAATT
1 CTGATATTGATTCTGATTTTGTCACCTAATT
* *
53167403 CTGATTATGATTTTGATTCTGATTCTGTCACCTGATT
1 CTG---AT-A--TTGATTCTGATTTTGTCACCTAATT
*
53167440 CTGAT-TCTGATTCTCATTTTG
1 CTGATAT-TGATTCTGATTTTG
53167461 ATTCCAATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
30 1 0.02
31 15 0.32
34 4 0.09
35 1 0.02
37 26 0.55
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
CTGATATTGATTCTGATTTTGTCACCTAATT
Found at i:53167420 original size:37 final size:37
Alignment explanation
Indices: 53167373--53167451 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53167363 TTCTGTTACC
* *
53167373 TGATATTGATTCTGATTTTGTCACCTAATTCTGATTA
1 TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA
* *
53167410 TGATTTTGATTCTGATTCTGTCACCTGATTCTGATTC
1 TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA
53167447 TGATT
1 TGATT
53167452 CTCATTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (37 bp):
TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA
Found at i:53167427 original size:6 final size:6
Alignment explanation
Indices: 53167400--53167474 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
53167390 TTGTCACCTA
* * *
53167400 ATTCTG ATTATG ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * **
53167449 ATTCTC ATTTTG ATTCCA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
53167475 AATGTTTCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
5 1 0.02
6 48 0.91
7 3 0.06
8 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:53167463 original size:37 final size:37
Alignment explanation
Indices: 53167381--53167464 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
53167371 CCTGATATTG
* * *
53167381 ATTCTGATTTTGTCACCTAATTCTGATTATGATTTTG
1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC
* *
53167418 ATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTC
1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC
*
53167455 ATTTTGATTC
1 ATTCTGATTC
53167465 CAATTCTGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC
Found at i:53169504 original size:26 final size:26
Alignment explanation
Indices: 53169431--53169520 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 26
53169421 TTTAGTTTAC
*
53169431 TAAAATTACCGAAATACGCTT-AGTTTG
1 TAAAATTACTGAAATAC-CTTGA-TTTG
*
53169458 TAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACTGAAATA-CCTTGATTTG
*
53169485 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTT-GATTTG
53169512 TAAAATTAC
1 TAAAATTAC
53169521 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 50 0.89
28 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (26 bp):
TAAAATTACTGAAATACCTTGATTTG
Found at i:53169537 original size:54 final size:54
Alignment explanation
Indices: 53169431--53169537 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
53169421 TTTAGTTTAC
* * **
53169431 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
53169485 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
53169538 ACAGAATTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 7 0.16
54 37 0.84
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:53169545 original size:27 final size:27
Alignment explanation
Indices: 53169515--53169576 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
53169505 CGACTTGTAA
53169515 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
53169542 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
53169569 AATTACCA
1 AATTACCA
53169577 TTTTACCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:53169577 original size:27 final size:27
Alignment explanation
Indices: 53169526--53169720 Score: 120
Period size: 27 Copynumber: 6.8 Consensus size: 27
53169516 ATTACCAAAG
53169526 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
53169553 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * *
53169580 TACCCCTGTTTTACCCTCGACTTACAGAATTACCATTT
1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT
** * *
53169618 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* ** * **
53169645 TATCGTCGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** *
53169672 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
53169699 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
53169721 TAAAATACCC
Statistics
Matches: 135, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
27 105 0.78
28 2 0.01
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 18 0.13
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:53169584 original size:54 final size:54
Alignment explanation
Indices: 53169526--53169720 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 54
53169516 ATTACCAAAG
** *
53169526 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* * *
53169580 TACCCCTGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTTGATTTACAGAATTATCGTTT
1 TA---C-------CCC-CGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* ** * ** *
53169645 TATCGTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* *
53169699 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
53169721 TAAAATACCC
Statistics
Matches: 110, Mismatches: 20, Indels: 22
0.72 0.13 0.14
Matches are distributed among these distances:
54 61 0.55
55 1 0.01
57 1 0.01
64 3 0.03
65 44 0.40
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
Found at i:53169592 original size:38 final size:38
Alignment explanation
Indices: 53169550--53169631 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
53169540 AGAATTACCA
* *
53169550 TTTTACCCCCGATTTACATAATTACCATTTTACCCCTG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG
* *
53169588 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTTG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG
*
53169626 ATTTAC
1 TTTTAC
53169632 AGAATTATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.40
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG
Found at i:53169721 original size:27 final size:27
Alignment explanation
Indices: 53169588--53169722 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
53169578 TTTACCCCTG
* *
53169588 TTTTACCCTCGACTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTA
* *
53169615 TTTTACCCTTGATTTACAGAATTA-TCG
1 TTTTACCCTCGATTTACAGAATTACT-A
* * * *
53169642 TTTTATCGTCGATTTATAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTA
*
53169669 TTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
*
53169696 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
53169723 AAATACCCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 90 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:53169729 original size:27 final size:27
Alignment explanation
Indices: 53169672--53169866 Score: 117
Period size: 27 Copynumber: 7.2 Consensus size: 27
53169662 ATTACTGTTT
* * * ***
53169672 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
53169699 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
53169726 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* ** *
53169753 TACCC-CTAGTTTGTAAAATCACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** *
53169780 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
53169807 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
53169834 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
53169861 TACCCT
1 TACCCT
53169867 TGACTTTCTA
Statistics
Matches: 137, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 135 0.99
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Done.