Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold157
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: 491920
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 108800 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:5491 original size:21 final size:22
Alignment explanation
Indices: 5467--5516 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
5457 ATCAAATCTT
* *
5467 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
5488 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
5510 --TCAAAAT
1 CTTCAAAAT
5517 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:9306 original size:13 final size:13
Alignment explanation
Indices: 9288--9371 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
9278 AGCTTCGTAG
9288 CGATACATTGTAT
1 CGATACATTGTAT
9301 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
9320 CGATACATTGTAT
1 CGATACATTGTAT
9333 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
9352 CGATACATTGTAT
1 CGATACATTGTAT
9365 CGATACA
1 CGATACA
9372 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:9320 original size:19 final size:18
Alignment explanation
Indices: 9296--9409 Score: 122
Period size: 19 Copynumber: 6.7 Consensus size: 18
9286 AGCGATACAT
9296 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
9315 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
9328 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
9347 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
9360 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
9379 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
9398 TGTATCGATACA
1 TGTATCGATACA
9410 GTTACGATTT
Statistics
Matches: 83, Mismatches: 0, Indels: 24
0.78 0.00 0.22
Matches are distributed among these distances:
13 22 0.27
14 2 0.02
16 4 0.05
18 2 0.02
19 53 0.64
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:9329 original size:32 final size:32
Alignment explanation
Indices: 9288--9390 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
9278 AGCTTCGTAG
9288 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
9320 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
9352 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
9384 CGATACA
1 CGATACA
9391 ACACTTATGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:9646 original size:15 final size:15
Alignment explanation
Indices: 9626--9655 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9616 ATTTTAGCCG
9626 AAGTTATGATACAAT
1 AAGTTATGATACAAT
9641 AAGTTATGATACAAT
1 AAGTTATGATACAAT
9656 TCGTCCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
AAGTTATGATACAAT
Found at i:11477 original size:13 final size:13
Alignment explanation
Indices: 11459--11484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11449 CACACTCAAA
11459 TGTATCGATACAT
1 TGTATCGATACAT
11472 TGTATCGATACAT
1 TGTATCGATACAT
11485 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:11493 original size:19 final size:20
Alignment explanation
Indices: 11469--11524 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
11459 TGTATCGATA
*
11469 CATTGTATCGATACATGT-T
1 CATTGTATCGATACATGTGC
11488 CATTGTATCGATACAATGTGC
1 CATTGTATCGATAC-ATGTGC
*
11509 CA-TGTATTGATACATG
1 CATTGTATCGATACATG
11525 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.52
20 14 0.42
21 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGTGC
Found at i:11514 original size:20 final size:20
Alignment explanation
Indices: 11469--11522 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
11459 TGTATCGATA
*
11469 CATTGTATCGATAC-ATGTT
1 CATTGTATCGATACAATGTC
11488 CATTGTATCGATACAATGTGC
1 CATTGTATCGATACAATGT-C
*
11509 CA-TGTATTGATACA
1 CATTGTATCGATACA
11523 TGAAACTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
CATTGTATCGATACAATGTC
Found at i:13610 original size:154 final size:149
Alignment explanation
Indices: 13286--13610 Score: 341
Period size: 150 Copynumber: 2.1 Consensus size: 149
13276 GTTCTAATGC
* * * * * *
13286 AAAATTACTAAAATGTCTTTAGGGTATATCTTTGACATAAAAGTATCACAGTAACTTTAAAAGAC
1 AAAATTA-TAAAATGTCCTTAGGGTATACCTTCGACATAAAAATATCACAGTAACTCTAAAAAAC
* * * * *
13351 TTAAAAATGATCATGGATGAACCTATCCTAAATGCACACCTTTGGTATAAAAGCATCCCGTGACA
65 ATAAAAATGATCATGGATGAACATATCCTAAATGCACACCGTTGGCATAAAAGCATCCAGTGACA
*
13416 ACCTAGGACTTAGTTTTAGA
130 ACCTAGGACTTAATTTTAGA
* * *
13436 AAAATTATGAAAATTTCCTTAGGGTATACCTTCGATATAAAAATATCTCAGTAACTCTAAAAAAC
1 AAAATTAT-AAAATGTCCTTAGGGTATACCTTCGACATAAAAATATCACAGTAACTCTAAAAAAC
* * *
13501 ATAAAAA-GATCATAAAAAGGATGAACATATCCTATATGTATACCGTTGGCATAAAAGC-TACCT
65 ATAAAAATGATCAT-----GGATGAACATATCCTAAATGCACACCGTTGGCATAAAAGCAT-CC-
* *
13564 AGTGACTACTTAGGACTTAATTTTA-A
123 AGTGACAACCTAGGACTTAATTTTAGA
* *
13590 CAAATTATAACAATGCCCTTA
1 AAAATTATAA-AATGTCCTTA
13611 TGTACACCTT
Statistics
Matches: 143, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
149 7 0.05
150 60 0.42
153 3 0.02
154 52 0.36
155 21 0.15
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (149 bp):
AAAATTATAAAATGTCCTTAGGGTATACCTTCGACATAAAAATATCACAGTAACTCTAAAAAACA
TAAAAATGATCATGGATGAACATATCCTAAATGCACACCGTTGGCATAAAAGCATCCAGTGACAA
CCTAGGACTTAATTTTAGA
Found at i:13968 original size:166 final size:167
Alignment explanation
Indices: 13748--14098 Score: 467
Period size: 166 Copynumber: 2.1 Consensus size: 167
13738 TTAAGCCCCT
** * **
13748 CTTTTGAAAA-TTTCATTTCATACCCAATGAAAAAATGAGAGGATATGAAAAGTCTTGAGAGCTT
1 CTTTTGAAAATTTTCATTTCATACCCAATGAAAAAACAAGAGGATACGAAAAGTCTTGA-AAATT
** **
13812 T-TATACC-CCAACAGAAGGCCATAGGAATAATAGAAATCTTTAAAAATGACTAAAATAATGATT
65 TCTATACCTCCAA-AGAAAACCATAGGAATAATAGAAATCTAAAAAAATGACTAAAATAATGATT
* *
13875 TTACCTCTAGAAACTAAAATTTACTATTTAATCCCTAAA
129 TTAACTCTAAAAACTAAAATTTACTATTTAATCCCTAAA
* *
13914 -TTTTGAAAATTTTCATTTCATACCTAATGAAAAACCAAGAGGATACGAAAAGTCTTGAAAATTT
1 CTTTTGAAAATTTTCATTTCATACCCAATGAAAAAACAAGAGGATACGAAAAGTCTTGAAAATTT
* * * ** *
13978 CTATACCTCTAAGGAAAACCATAGGAATAATAGAAATCTAAAAAAATGATTTCAATGATGATTTT
66 CTATACCTCCAAAGAAAACCATAGGAATAATAGAAATCTAAAAAAATGACTAAAATAATGATTTT
*
14043 AACTCTAAAAACTAAAATTTGCTATTTAATCCCTAAA
131 AACTCTAAAAACTAAAATTTACTATTTAATCCCTAAA
*
14080 CTTTTGAAAATTTTTATTT
1 CTTTTGAAAATTTTCATTT
14099 TAGTCCCTAC
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
165 13 0.08
166 127 0.79
167 20 0.12
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (167 bp):
CTTTTGAAAATTTTCATTTCATACCCAATGAAAAAACAAGAGGATACGAAAAGTCTTGAAAATTT
CTATACCTCCAAAGAAAACCATAGGAATAATAGAAATCTAAAAAAATGACTAAAATAATGATTTT
AACTCTAAAAACTAAAATTTACTATTTAATCCCTAAA
Found at i:15928 original size:47 final size:47
Alignment explanation
Indices: 15859--15956 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
15849 ATCTTTTTAG
15859 CCAGGAAGAATTTTTTTCAATACTAACTCTCTTTCATGAAATTATCT
1 CCAGGAAGAATTTTTTTCAATACTAACTCTCTTTCATGAAATTATCT
*
15906 CCAGGAAGAATTTTTTTCAATACTAACTCTTTTTCATGAAATTATCT
1 CCAGGAAGAATTTTTTTCAATACTAACTCTCTTTCATGAAATTATCT
15953 CCAG
1 CCAG
15957 CGGAGTTTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (47 bp):
CCAGGAAGAATTTTTTTCAATACTAACTCTCTTTCATGAAATTATCT
Found at i:17736 original size:156 final size:157
Alignment explanation
Indices: 17453--17849 Score: 482
Period size: 156 Copynumber: 2.6 Consensus size: 157
17443 TAAAGGACTA
* * * * *
17453 AGTTCAAAAAAATTACGAAAATGCCCCT-AGGATATA-CTTTCAACGTAAAAGGA-CCTGATACC
1 AGTTCTAAAAAATTACGAAAATGCCCCTAAGGGTATACCTTT-AACGTGAAAGTATCCTGATAAC
* * * * *
17515 CCTAAAAGACTTAAAAAGGATT-ATAAATGGGATGAACCTATTCTAAATACTCACCTTTGGCATA
65 CCTAAAAGACTTAAAAA-GATTAATAAATGAGATAAACCTATCCTAAATACTCACATTCGGCATA
* * * *
17579 AAATCAGACTCGGTGACAACCTAGGAGTT
129 AAAGCAGACTCGGTGAAAACCTAAGAGTC
* *
17608 AGTTCTAAAAAATTATGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGGTAACC
1 AGTTCTAAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACC
* * * * * *
17673 TTACAGGACTTCAAAAGATTAAT-GATGAGATAAACCTATCCTAAATGCTCACATTCGGCATAAA
66 CTAAAAGACTTAAAAAGATTAATAAATGAGATAAACCTATCCTAAATACTCACATTCGGCATAAA
*
17737 AGCAGACTCGGTGAAAACGTAAGAGTC
131 AGCAGACTCGGTGAAAACCTAAGAGTC
* * * * *
17764 AATTTTAAAAAATTACGAAAAT-ACCCTAAGGGTATACCTTTGACGTGAAAGTATCCCGATAACC
1 AGTTCTAAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACC
17828 CTAAAAGACTTAAAAAGATTAA
66 CTAAAAGACTTAAAAAGATTAA
17850 AGACAGGATG
Statistics
Matches: 204, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
155 82 0.40
156 96 0.47
157 26 0.13
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (157 bp):
AGTTCTAAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACC
CTAAAAGACTTAAAAAGATTAATAAATGAGATAAACCTATCCTAAATACTCACATTCGGCATAAA
AGCAGACTCGGTGAAAACCTAAGAGTC
Found at i:17864 original size:155 final size:155
Alignment explanation
Indices: 17459--17875 Score: 484
Period size: 155 Copynumber: 2.7 Consensus size: 155
17449 ACTAAGTTCA
* * * *
17459 AAAAAATTACGAAAATGCCCCT-AGGATATA-CTTTCAACGTAAAAGGA-CCTGATACCCCTAAA
1 AAAAAATTACGAAAATGCCCCTAAGGGTATACCTTT-AACGTGAAAGTATCCTGATAACCCTAAA
* * * * *
17521 AGACTTAAAAAGGATTATAA-ATGGGATGAACCTATTCTAAATACTCACCTTTGGCATAAAATCA
65 AGACTTAAAAA-GATTA-AAGA-AGGATGAACCTATCCTAAATACTCACATTCGGCATAAAAGCA
* * * *
17585 GACTCGGTGACAACCTAGGAGTTAGTTCT
127 GACTCGGTGAAAACCTAAGAGTCAATTCT
* * * * *
17614 AAAAAATTATGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGGTAACCTTACAG
1 AAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACCCTAAAA
* * * * *
17679 GACTTCAAAAGATTAATGATGAGATAAACCTATCCTAAATGCTCACATTCGGCATAAAAGCAGAC
66 GACTTAAAAAGATTAAAGAAG-GATGAACCTATCCTAAATACTCACATTCGGCATAAAAGCAGAC
* *
17744 TCGGTGAAAACGTAAGAGTCAATTTT
130 TCGGTGAAAACCTAAGAGTCAATTCT
* * *
17770 AAAAAATTACGAAAAT-ACCCTAAGGGTATACCTTTGACGTGAAAGTATCCCGATAACCCTAAAA
1 AAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACCCTAAAA
*
17834 GACTTAAAAAGATTAAAGACAGGATGAACCTATCTTAAATAC
66 GACTTAAAAAGATTAAAGA-AGGATGAACCTATCCTAAATAC
17876 CCTAGGACTA
Statistics
Matches: 218, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
155 98 0.45
156 96 0.44
157 24 0.11
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (155 bp):
AAAAAATTACGAAAATGCCCCTAAGGGTATACCTTTAACGTGAAAGTATCCTGATAACCCTAAAA
GACTTAAAAAGATTAAAGAAGGATGAACCTATCCTAAATACTCACATTCGGCATAAAAGCAGACT
CGGTGAAAACCTAAGAGTCAATTCT
Found at i:19554 original size:12 final size:12
Alignment explanation
Indices: 19537--19576 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
19527 AGTTTTGCTA
19537 TTTTTCTTTTTT
1 TTTTTCTTTTTT
19549 TTTTTCTCTTTTT
1 TTTTTCT-TTTTT
*
19562 TCTTTCCTTTTTT
1 T-TTTTCTTTTTT
19575 TT
1 TT
19577 CTCCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:19560 original size:13 final size:13
Alignment explanation
Indices: 19537--19587 Score: 61
Period size: 12 Copynumber: 4.1 Consensus size: 13
19527 AGTTTTGCTA
19537 TTTTTCT-TTTTT
1 TTTTTCTCTTTTT
19549 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
*
19562 TCTTTC-CTTTTT
1 TTTTTCTCTTTTT
* *
19574 TTTCTCCCTTTTT
1 TTTTTCTCTTTTT
19587 T
1 T
19588 GCTGAGCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 17 0.50
13 17 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:19567 original size:25 final size:25
Alignment explanation
Indices: 19537--19587 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
19527 AGTTTTGCTA
19537 TTTTTCTTT--TTTTTTTTCT--CT
1 TTTTTCTTTCCTTTTTTTTCTCCCT
19558 TTTTTCTTTCCTTTTTTTTCTCCCT
1 TTTTTCTTTCCTTTTTTTTCTCCCT
19583 TTTTT
1 TTTTT
19588 GCTGAGCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.35
23 10 0.38
25 7 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTCTTTCCTTTTTTTTCTCCCT
Found at i:19577 original size:14 final size:14
Alignment explanation
Indices: 19542--19587 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
19532 TGCTATTTTT
19542 CTTTTTTTT-TTT-
1 CTTTTTTTTCTTTC
*
19554 CTCTTTTTTCTTTC
1 CTTTTTTTTCTTTC
*
19568 CTTTTTTTTC-TCC
1 CTTTTTTTTCTTTC
19581 CTTTTTT
1 CTTTTTT
19588 GCTGAGCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.28
13 12 0.41
14 9 0.31
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTTTCTTTC
Found at i:20497 original size:166 final size:168
Alignment explanation
Indices: 20082--20614 Score: 680
Period size: 167 Copynumber: 3.2 Consensus size: 168
20072 AAAATTAATG
* * * * *
20082 AAATAAATTAAAATTTTCAAAACTGAA-TTAATGGGAGTTCAATTACAATATTAGATGCATTTTA
1 AAATAAATT-AAATTTTCAAAACT-AATTTAATGGGAATTCCATGACATTATTAGATACATTTTA
* * * * *
20146 AAAATTTTGGACCCAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAACTCGATTTTTTAGG
64 AAAATTTTAGACCAAAGAAAATCCCCCCGGAAATATTTATGGAATAGAAAACTAGGTTTTTTAGG
* *
20211 AAAAAA-GAAATTTCAAAGAAAAAAATCCAAAACTCATGA
129 AAAAAAGGAGATTTCAAAGAAAAAAATCTAAAACTCATGA
* * * *
20250 AAATGAACTAAATTTTCAAAACCAATTTAGTGGGAATTCCATGACATTATTAGATACATTTTAAA
1 AAATAAATTAAATTTTCAAAACTAATTTAATGGGAATTCCATGACATTATTAGATACATTTTAAA
* ** *
20315 AATTTTAGACCAAAGAAAAT-CCTCCGGAAATATTTATGGAATAGAAATTTTGGTTTTTTAGGAA
66 AATTTTAGACCAAAGAAAATCCCCCCGGAAATATTTATGGAATAGAAAACTAGGTTTTTTAGGAA
20379 AAAAGGAGATTTCAAAGAAAAAAATCTAAAACTCATGA
131 AAAAGGAGATTTCAAAGAAAAAAATCTAAAACTCATGA
* *
20417 AAATAAATTAAATTTTGAAAACTAATTTAATGAGAATTCCATGACATTATTAGATACATTTT-AA
1 AAATAAATTAAATTTTCAAAACTAATTTAATGGGAATTCCATGACATTATTAGATACATTTTAAA
* * * ***
20481 ATTTTTATACCAAAGAAAATCCCCCCAGAAATATTTATGGAATAGAAAACTAGGTTTTGGGGGAA
66 AATTTTAGACCAAAGAAAATCCCCCCGGAAATATTTATGGAATAGAAAACTAGGTTTTTTAGGAA
** * *
20546 AAGCGG-GATATCAAAGAAAAAAATTTCAAAACTCATGA
131 AAAAGGAGATTTCAAAGAAAAAAATCT-AAAACTCATGA
* * * *
20584 AAATGAATTAAATTTTTAAAAATATTTTAAT
1 AAATAAATTAAATTTTCAAAACTAATTTAAT
20615 ATGAATCACA
Statistics
Matches: 318, Mismatches: 43, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
166 82 0.26
167 229 0.72
168 7 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (168 bp):
AAATAAATTAAATTTTCAAAACTAATTTAATGGGAATTCCATGACATTATTAGATACATTTTAAA
AATTTTAGACCAAAGAAAATCCCCCCGGAAATATTTATGGAATAGAAAACTAGGTTTTTTAGGAA
AAAAGGAGATTTCAAAGAAAAAAATCTAAAACTCATGA
Found at i:20672 original size:334 final size:334
Alignment explanation
Indices: 20082--20783 Score: 742
Period size: 334 Copynumber: 2.1 Consensus size: 334
20072 AAAATTAATG
* * * * *
20082 AAATAAATTAAAATTTTCAAAACTGAA-TTAATGGGAGTTCAATTACAATATTAGATGCATTTTA
1 AAATAAATT-AAATTTTGAAAACT-AATTTAATGAGAATTCAATGACAATATTAGATACATTTTA
* * * **
20146 AAAATTTTGGACCCAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAACTCGATTTTTTAGG
64 AAAATTTTAGACCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAACTAGATTTTGGAGG
* *
20211 AAAAAAGAAATTTCAAAGAAAAAAATCCAAAACTCATGAAAATGAACTAAATTTTCAAAACCAAT
129 AAAAAAGAAATATCAAAGAAAAAAATCCAAAACTCATGAAAATGAACTAAATTTTCAAAAACAAT
* * * * ** *
20276 TTAGTGGGAATTCCATGACATTATTAGATACATTTTAAAAATTTTAGACCAAAGAAAATCCT-CC
194 TTAATAGGAATTCCATAACAATATTAGATACATTTTAAAAATTAAAAACCAAAGAAAATCCTCCC
** * * * * *
20340 -GGAAATATTTATGGAATAG-AAATTTTGGTTTTTTAGGAAAAAAG-GAGATTTCAAAGAAAAAA
259 AAAAAAAATTTACGGAATAGAAAACTCT-GTATTTT-GGAAAAAAGAGA-ATTTC-AAGAAAAAA
*
20402 ATCTAAAACTCATGA
320 ATCAAAAACTCATGA
* *
20417 AAATAAATTAAATTTTGAAAACTAATTTAATGAGAATTCCATGACATTATTAGATACATTTT-AA
1 AAATAAATTAAATTTTGAAAACTAATTTAATGAGAATTCAATGACAATATTAGATACATTTTAAA
* * * *
20481 ATTTTTATACCAAAGAAAATCCCCCC-AGAAATATTTATGGAATAGAAAACTAGGTTTTGGGGGA
66 AATTTTAGACCAAAGAAAATCCCCCCGA-AAATATTTATGGAATAGAAAACTAGATTTTGGAGGA
** ** * * * * *
20545 AAAGCGGGATATCAAAGAAAAAAATTTCAAAACTCATGAAAATGAATTAAATTTTTAAAAATATT
130 AAAAAGAAATATCAAAGAAAAAAA-TCCAAAACTCATGAAAATGAACTAAATTTTCAAAAACAAT
* * **
20610 TTAATATGAA-TCACATAATAATATTTTATGA-ATTTTAAAAATTAAAAACCAAA-ATAAATCCT
194 TTAATAGGAATTC-CATAACAATATTAGAT-ACATTTTAAAAATTAAAAACCAAAGA-AAATCCT
* **
20672 CCCAAAAAAAAATTTACGGAGTAGAAAACTCTGTATTTTGGAAACCAGAGAATTTCAAGAAAAAA
256 CCC-AAAAAAAATTTACGGAATAGAAAACTCTGTATTTTGGAAAAAAGAGAATTTCAAGAAAAAA
*
20737 TTCAAAAACTCATGA
320 ATCAAAAACTCATGA
* *
20752 AGATGAA-TAAATTTTTGAAAACTAATTTAATG
1 AAATAAATTAAA-TTTTGAAAACTAATTTAATG
20784 TGAGTTAAAT
Statistics
Matches: 303, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
332 1 0.00
333 79 0.26
334 125 0.41
335 59 0.19
336 12 0.04
337 22 0.07
338 5 0.02
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (334 bp):
AAATAAATTAAATTTTGAAAACTAATTTAATGAGAATTCAATGACAATATTAGATACATTTTAAA
AATTTTAGACCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAACTAGATTTTGGAGGAA
AAAAGAAATATCAAAGAAAAAAATCCAAAACTCATGAAAATGAACTAAATTTTCAAAAACAATTT
AATAGGAATTCCATAACAATATTAGATACATTTTAAAAATTAAAAACCAAAGAAAATCCTCCCAA
AAAAAATTTACGGAATAGAAAACTCTGTATTTTGGAAAAAAGAGAATTTCAAGAAAAAAATCAAA
AACTCATGA
Found at i:20798 original size:168 final size:162
Alignment explanation
Indices: 20562--21019 Score: 486
Period size: 162 Copynumber: 2.8 Consensus size: 162
20552 GATATCAAAG
* * *
20562 AAAAAAATTTC-AAAACTCATGAAAATGAATTAAATTTTT-AAAAATATTTTAATATGAATCACA
1 AAAAAAA-TTCAAAAACTCATGAAAATGAA-TAAATTTTTGAAAAATAATTTAATATGAATTAAA
*
20625 TAATAATATTTTATGAATTTTAAAAATTAAAAACCAA-AATAAATCCTCCCAAAAAAAAATTTAC
64 TAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAA-AAATCCTCCCAAAAAAAAATTTAC
* * * * *
20689 GGAGTAGAAAA-CTCTGTATTTTGGAAACCAGAGAATTT
128 GAAGTAGAAAATCTC-ATATTTT-GAAA--AAAAAAGTT
* * * *
20727 CAAGAAAAAATTCAAAAACTCATGAAGATGAATAAATTTTTGAAAACTAATTTAATGTGAGTTAA
1 --A-AAAAAATTCAAAAACTCATGAAAATGAATAAATTTTTGAAAAATAATTTAATATGAATTAA
* * * * *
20792 ATAATAATATTTGATGAATTTTATAAATTAAAAAAAATCGAGAAAAATCC-CTCC--AAAAAGAT
63 ATAATAATATTTAATGAATTTTAAAAATT---AAAAACCAAGAAAAATCCTC-CCAAAAAAAAAT
*
20854 TTACGAAGTAGAAAATTTCATATTTTGAAAAAAAAAGTT
124 TTACGAAGTAGAAAATCTCATATTTTGAAAAAAAAAGTT
* * * * * *
20893 AAAAAAA-TCAAAAATTTATGAAAATGAATGAATTTTTGAAAATTGATTTTATATGAATTAAATA
1 AAAAAAATTCAAAAACTCATGAAAATGAATAAATTTTTGAAAAATAATTTAATATGAATTAAATA
*
20957 ATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCTTCCC--AAAAAAATTTACGAA
66 ATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAAAATTTACGAA
21020 AAGGAAAACC
Statistics
Matches: 248, Mismatches: 33, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
159 31 0.12
160 1 0.00
162 72 0.29
163 6 0.02
164 1 0.00
166 6 0.02
167 13 0.05
168 71 0.29
169 27 0.11
170 3 0.01
171 15 0.06
172 2 0.01
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (162 bp):
AAAAAAATTCAAAAACTCATGAAAATGAATAAATTTTTGAAAAATAATTTAATATGAATTAAATA
ATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAAAATTTACGAA
GTAGAAAATCTCATATTTTGAAAAAAAAAGTT
Found at i:23997 original size:33 final size:33
Alignment explanation
Indices: 23935--23997 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
23925 TGGGACAATG
* ** **
23935 TATCGATACAATTTGTTATGTATTGATACATTA
1 TATCGATACAATGTGCCATGTATCAATACATTA
23968 TATCGATACAATGTGCCATGTATCAATACA
1 TATCGATACAATGTGCCATGTATCAATACA
23998 AACAGTGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (33 bp):
TATCGATACAATGTGCCATGTATCAATACATTA
Found at i:24071 original size:19 final size:20
Alignment explanation
Indices: 24027--24077 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
24017 CTGCCAGTTT
**
24027 CATGTATCGATATAATTGTG
1 CATGTATCGATATAATTGAA
24047 CATGTATCGATATAA-TGAA
1 CATGTATCGATATAATTGAA
24066 CATGTATCGATA
1 CATGTATCGATA
24078 CAAAGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
CATGTATCGATATAATTGAA
Found at i:26594 original size:13 final size:13
Alignment explanation
Indices: 26558--26596 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
26548 ATAGTAACCT
26558 ATGTATCGATACA
1 ATGTATCGATACA
* *
26571 TTGTAT-AATACA
1 ATGTATCGATACA
26583 ATGTATCGATACA
1 ATGTATCGATACA
26596 A
1 A
26597 AGAACATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:32804 original size:16 final size:16
Alignment explanation
Indices: 32783--32813 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32773 ATACAATTCA
32783 TCATGTATCGATACAT
1 TCATGTATCGATACAT
32799 TCATGTATCGATACA
1 TCATGTATCGATACA
32814 AACAATGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (16 bp):
TCATGTATCGATACAT
Found at i:32887 original size:19 final size:20
Alignment explanation
Indices: 32843--32893 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
32833 CTGCCAGTTT
**
32843 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
32863 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
32882 CATGTATCGATA
1 CATGTATCGATA
32894 TGTCGATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:35476 original size:21 final size:21
Alignment explanation
Indices: 35433--35485 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
35423 TTTTCAAAAA
* *
35433 TTCATTCATTTTCATGAATTTT
1 TTCATT-ATTTTCATCAAATTT
*
35455 TTCATTATTTTCTTCAAATTT
1 TTCATTATTTTCATCAAATTT
35476 TTC--TATTTTC
1 TTCATTATTTTC
35486 GAAATACAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.25
21 15 0.54
22 6 0.21
ACGTcount: A:0.21, C:0.15, G:0.02, T:0.62
Consensus pattern (21 bp):
TTCATTATTTTCATCAAATTT
Found at i:36179 original size:10 final size:10
Alignment explanation
Indices: 36164--36204 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
36154 TTGGCGAGTG
36164 AGAGAAAAAA
1 AGAGAAAAAA
36174 AGAGAAAAAA
1 AGAGAAAAAA
* *
36184 GAAAGGAAAAA
1 -AGAGAAAAAA
36195 AGAGAAAAAA
1 AGAGAAAAAA
36205 TAAGGAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:36195 original size:21 final size:20
Alignment explanation
Indices: 36169--36212 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
36159 GAGTGAGAGA
36169 AAAAAAGAGAAAAAAGAAAGG
1 AAAAAAGAGAAAAAA-AAAGG
*
36190 AAAAAAGAGAAAAAATAAGG
1 AAAAAAGAGAAAAAAAAAGG
36210 AAA
1 AAA
36213 TTTGCTAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAGAGAAAAAAAAAGG
Found at i:36202 original size:20 final size:21
Alignment explanation
Indices: 36169--36212 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
36159 GAGTGAGAGA
36169 AAAAAAGAGAAAAAAGA-AAGG
1 AAAAAAGAGAAAAAA-ATAAGG
36190 AAAAAAGAG-AAAAAATAAGG
1 AAAAAAGAGAAAAAAATAAGG
36210 AAA
1 AAA
36213 TTTGCTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAATAAGG
Found at i:43441 original size:27 final size:27
Alignment explanation
Indices: 43366--43433 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
43356 TGATTATCGG
*
43366 GATACTCCAACCCCGTTCTTCTGAGGA
1 GATACTCCAACCCCGTTCTTCTGAAGA
43393 GATACTCCAACCCCGTTCTTCTGAAGA
1 GATACTCCAACCCCGTTCTTCTGAAGA
43420 GATACTCCAACCCC
1 GATACTCCAACCCC
43434 ACTTTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.24
Consensus pattern (27 bp):
GATACTCCAACCCCGTTCTTCTGAAGA
Found at i:49643 original size:30 final size:29
Alignment explanation
Indices: 49606--49900 Score: 252
Period size: 30 Copynumber: 9.9 Consensus size: 29
49596 CATCCTCTTT
* *
49606 TCAAAGTCCATGACTCAGTAGCATCCCTTC
1 TCAAAGTCCACGACTCAGTGGCAT-CCTTC
* *
49636 TCCAAGTCCACGACTCAGTGGCATCGTTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTC
* * *
49665 TCCAAGTCCACGACGT-AGTGACATCGTTC
1 TCAAAGTCCACGAC-TCAGTGGCATCCTTC
* * * *
49694 TCCAAGTCCACAATTTAGTGGCATCCTTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTC
*
49723 TTCAAAGTCTACGACTCAGTGGCATCTCTTC
1 -TCAAAGTCCACGACTCAGTGGCATC-CTTC
* * * *
49754 CCCAAGTCCACGACTCAATGGCATCATTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTC
*
49783 TTCAAAGTCCACGCCTCAGTGGCA-CCTCATC
1 -TCAAAGTCCACGACTCAGTGGCATCCT--TC
* *
49814 TCAAAGTCCACAACTCAGTGGCATCCCTTTT
1 TCAAAGTCCACGACTCAGTGGCAT-CC-TTC
** * * *
49845 TTTAAGTCCATGAATTAGTGGCATCCTTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTC
**
49874 TTCAAAGTCCATAACTCAGTGGCATCC
1 -TCAAAGTCCACGACTCAGTGGCATCC
49901 CCTATTTTTA
Statistics
Matches: 215, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.00
29 60 0.28
30 126 0.59
31 25 0.12
32 2 0.01
33 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
TCAAAGTCCACGACTCAGTGGCATCCTTC
Found at i:49764 original size:60 final size:60
Alignment explanation
Indices: 49596--49986 Score: 294
Period size: 60 Copynumber: 6.5 Consensus size: 60
49586 CCCCTAGTTA
* * * * *
49596 CATCCTCTTTTCAAAGTCCATGACTCAGTAGCATCCCTTCTCCAAGTCCACGACTCAGTGG
1 CATCCT-TCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
* * * * * *
49657 CATCGTTC-TCCAAGTCCACGACGT-AGTGACATC-GTTCTCCAAGTCCACAATTTAGTGG
1 CATCCTTCTTCAAAGTCCACGAC-TCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
* * * *
49715 CATCCTTCTTCAAAGTCTACGACTCAGTGGCATCTCTTCCCCAAGTCCACGACTCAATGG
1 CATCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
* * * * *
49775 CATCATTCTTCAAAGTCCACGCCTCAGTGGCACCTCATCTCAAAGTCCACAACTCAGTGG
1 CATCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
* ** * * * * *
49835 CATCCCTTTTTTTAAGTCCATGAATTAGTGGCATC-CTTCTTCAAAGTCCATAACTCAGTGG
1 CAT-CCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTC-TCCAAGTCCACAACTCAGTGG
* * * ** * ** * *
49896 CATCCCCTATTTTTAAAGTCCACAACTCCTTGGCATCCCTT-TTAAAGTCCATAACTCCGTGG
1 CAT--CCT-TCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
* * *
49958 CACCCTT-TT--AAGTCCACAACTCAATGGCA
1 CATCCTTCTTCAAAGTCCACGACTCAGTGGCA
49987 CATTTTTCTT
Statistics
Matches: 269, Mismatches: 52, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
56 18 0.07
58 31 0.12
59 40 0.15
60 81 0.30
61 50 0.19
62 25 0.09
63 21 0.08
64 3 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (60 bp):
CATCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGG
Found at i:49923 original size:33 final size:30
Alignment explanation
Indices: 49757--50373 Score: 316
Period size: 32 Copynumber: 19.9 Consensus size: 30
49747 TCTCTTCCCC
* * * * * *
49757 AAGTCCACGACTCAATGGCATCATTCTTCA
1 AAGTCCACAACTCAGTGGCACCCTTTTTTA
** * * *
49787 AAGTCCACGCCTCAGTGGCA-CCTCATCTCA
1 AAGTCCACAACTCAGTGGCACCCT-TTTTTA
*
49817 AAGTCCACAACTCAGTGGCATCCCTTTTTTT
1 AAGTCCACAACTCAGTGGCA-CCCTTTTTTA
* * * * *
49848 AAGTCCATGAA-TTAGTGGCATCCTTCTTCA
1 AAGTCCA-CAACTCAGTGGCACCCTTTTTTA
*
49878 AAGTCCATAACTCAGTGGCATCCCCTATTTTTA
1 AAGTCCACAACTCAGTGGCA--CCCT-TTTTTA
**
49911 AAGTCCACAACTCCTTGGCATCCC--TTTTA
1 AAGTCCACAACTCAGTGGCA-CCCTTTTTTA
* *
49940 AAGTCCATAACTCCGTGGCACCC--TTTT-
1 AAGTCCACAACTCAGTGGCACCCTTTTTTA
* **
49967 AAGTCCACAACTCAATGGCACATTTTTCTTTTA
1 AAGTCCACAACTCAGTGGCAC--CCTT-TTTTA
* * * *
50000 AAATCCACAACTCTGTGGCACCTTTTTTCTTTT
1 AAGTCCACAACTCAGTGGCACC--CTTT-TTTA
* * *
50033 AAGTCCATAACTTTA-TGGCACCTTTTTCTTTA
1 AAGTCCACAAC-TCAGTGGCACC-CTTT-TTTA
* * *
50065 AAATCCACAACT-TGTGGCACTCTTTTTGTTTTA
1 AAGTCCACAACTCAGTGGCAC-C--CTT-TTTTA
* *
50098 AAGTGCACAACTCTGTGGCAGCCCTTTTTTA
1 AAGTCCACAACTCAGTGGCA-CCCTTTTTTA
* *
50129 GAAGTCCACAGCTCCGTGGCACCCCTTTTTTA
1 -AAGTCCACAACTCAGTGGCA-CCCTTTTTTA
* *
50161 GAAGTCTACAACTCCGTGGCACCCTTTTTTTA
1 -AAGTCCACAACTCAGTGGCACCC-TTTTTTA
*
50193 GAAGTCTACAACTCCA-TGGCATCCC--TTTTA
1 -AAGTCCACAACT-CAGTGGCA-CCCTTTTTTA
*
50223 AAGTCCACAACTCCA-TGGTACCC--TTTT-
1 AAGTCCACAACT-CAGTGGCACCCTTTTTTA
* * *
50250 AAGTCCACAACGCTGTGGTACCCTTTTTCTTTTA
1 AAGTCCACAACTCAGTGGCACCC---TT-TTTTA
* * *
50284 AAGTCCACAACACTGTGGCACCC-ATTTTA
1 AAGTCCACAACTCAGTGGCACCCTTTTTTA
*
50313 AAGTTCACAACTCAGTGGCACCCTTTCCTTTTA
1 AAGTCCACAACTCAGTGGCACCC-TT--TTTTA
*
50346 AAGTCCACAACTCCA-TGGCACTCTTTTT
1 AAGTCCACAACT-CAGTGGCACCCTTTTT
50374 CTTTCAAAGT
Statistics
Matches: 476, Mismatches: 70, Indels: 82
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.00
27 37 0.08
28 14 0.03
29 70 0.15
30 68 0.14
31 32 0.07
32 110 0.23
33 110 0.23
34 33 0.07
35 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (30 bp):
AAGTCCACAACTCAGTGGCACCCTTTTTTA
Found at i:49939 original size:91 final size:90
Alignment explanation
Indices: 49605--49947 Score: 235
Period size: 91 Copynumber: 3.8 Consensus size: 90
49595 ACATCCTCTT
** * * * * * * * **
49605 TTCAAAGTCCATGACTCAGTAGCATCCCTTCTCCAAGTCCACGACTCAGTGGCAT-CGTTCTCCA
1 TTCAAAGTCCACAACTCAGTGGCACCCCATCTCAAAGTCCACAACTCAGTGGCATCCCTTTTTAA
* ** * *
49669 AGTCCACGACGTAGTGACATCGTTC
66 AGTCCATGAATTAGTGGCATCATTC
* * * * * * * * ****
49694 -TCCAAGTCCACAATTTAGTGGCA-TCCTTCTTCAAAGTCTACGACTCAGTGGCATCTCTTCCCC
1 TTCAAAGTCCACAACTCAGTGGCACCCCATC-TCAAAGTCCACAACTCAGTGGCATCCCTTTTTA
* * * *
49757 AAGTCCACGACTCAATGGCATCATTC
65 AAGTCCATGAATTAGTGGCATCATTC
** * *
49783 TTCAAAGTCCACGCCTCAGTGGCACCTCATCTCAAAGTCCACAACTCAGTGGCATCCCTTTTTTT
1 TTCAAAGTCCACAACTCAGTGGCACCCCATCTCAAAGTCCACAACTCAGTGGCATCCC-TTTTTA
*
49848 AAGTCCATGAATTAGTGGCATCCTTC
65 AAGTCCATGAATTAGTGGCATCATTC
* * * **
49874 TTCAAAGTCCATAACTCAGTGGCATCCCCTATTTTTAAAGTCCACAACTCCTTGGCATCCC-TTT
1 TTCAAAGTCCACAACTCAGTGGCA-CCCC-A-TCTCAAAGTCCACAACTCAGTGGCATCCCTTTT
49938 TAAAGTCCAT
63 TAAAGTCCAT
49948 AACTCCGTGG
Statistics
Matches: 200, Mismatches: 46, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
87 5 0.03
88 39 0.19
89 26 0.13
90 42 0.21
91 47 0.23
92 15 0.08
93 1 0.00
94 25 0.12
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (90 bp):
TTCAAAGTCCACAACTCAGTGGCACCCCATCTCAAAGTCCACAACTCAGTGGCATCCCTTTTTAA
AGTCCATGAATTAGTGGCATCATTC
Found at i:49951 original size:62 final size:61
Alignment explanation
Indices: 49798--49966 Score: 179
Period size: 61 Copynumber: 2.8 Consensus size: 61
49788 AGTCCACGCC
* * *
49798 TCAGTGGCA-CC-TCATCTCAAAGTCCACAACTCAGTGGCATCCCTTTTTTTAAGTCCATGAA
1 TCAGTGGCATCCTTC-T-TCAAAGTCCATAACTCAGTGGCATCCCTTTTTTAAAGTCCATCAA
*
49859 TTAGTGGCATCCTTCTTCAAAGTCCATAACTCAGTGGCATCCCCTATTTTTAAAGTCCA-CAA
1 TCAGTGGCATCCTTCTTCAAAGTCCATAACTCAGTGGCAT-CCCT-TTTTTAAAGTCCATCAA
** *
49921 CTCCTTGGCATCCCTT-TT-AAAGTCCATAACTCCGTGGCA-CCCTTTT
1 -TCAGTGGCAT-CCTTCTTCAAAGTCCATAACTCAGTGGCATCCCTTTT
49967 AAGTCCACAA
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
59 3 0.03
60 4 0.04
61 31 0.33
62 29 0.31
63 23 0.24
64 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (61 bp):
TCAGTGGCATCCTTCTTCAAAGTCCATAACTCAGTGGCATCCCTTTTTTAAAGTCCATCAA
Found at i:50117 original size:65 final size:64
Alignment explanation
Indices: 49963--50419 Score: 209
Period size: 64 Copynumber: 7.2 Consensus size: 64
49953 CGTGGCACCC
* *
49963 TTTTAAGTCCACAACTCAATGGCACATTTTTCTTTTAAAATCCACAACTCTGTGGCACCTTTTTT
1 TTTTAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAATCCACAACTCTGTGGCACC-TTTTT
* *
50028 CTTTTAAGTCCATAACTTTATGGCACCTTTTTC-TTTAAAATCCACAACT-TGTGGCACTCTTTT
1 -TTTTAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAATCCACAACTCTGTGGCAC-CTTTT
50091 T
64 T
* * * * * * *
50092 GTTTTAAAGTGCACAACTCTGTGGCAGCC--CTT-TTTTAGAAGTCCACAGCTCCGTGGCACCCC
1 -TTTT-AAGTCCACAACTCTATGGCA-CCTTTTTCTTTTA-AAATCCACAACTCTGTGGCA-CCT
50154 TTTT
61 TTTT
** * ** * * * ** *
50158 TTAGAAGTCTACAACTCCGTGGCACC-CTTT-TTTTAGAAGTCTACAACTCCATGGCATCC---C
1 TTTTAAGTCCACAACTCTATGGCACCTTTTTCTTTTA-AAATCCACAACTCTGTGGCA-CCTTTT
50218 T
64 T
* * * * * *
50219 TTTAAAGTCCACAACTCCATGGTACC-----CTTTT-AAGTCCACAACGCTGTGGTACCCTTTTT
1 TTTTAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAATCCACAACTCTGTGGCA-CCTTTTT
* * * * *
50278 CTTTTAAAGTCCACAACACTGTGGCACC-----CATTTTAAAGTTCACAACTCAGTGGCACCCTT
1 -TTTT-AAGTCCACAACTCTATGGCACCTTTTTC-TTTTAAAATCCACAACTCTGTGGCA-CCTT
*
50338 TCCT
62 T-TT
* * * * * ***
50342 TTTAAAGTCCACAACTCCATGGCACTCTTTTTCTTTCAAAGTCCATAACTCCACGGCACTCTTTT
1 TTTTAAGTCCACAACTCTATGGCAC-CTTTTTCTTTTAAAATCCACAACTCTGTGGCAC-CTTTT
50407 T
64 T
50408 CTTTTGAAGTCC
1 -TTTT-AAGTCC
50420 TCTTCTAAAG
Statistics
Matches: 306, Mismatches: 59, Indels: 50
0.74 0.14 0.12
Matches are distributed among these distances:
56 17 0.06
58 4 0.01
59 1 0.00
60 3 0.01
61 41 0.13
62 22 0.07
63 28 0.09
64 68 0.22
65 45 0.15
66 43 0.14
67 27 0.09
68 7 0.02
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (64 bp):
TTTTAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAATCCACAACTCTGTGGCACCTTTTT
Found at i:50155 original size:32 final size:32
Alignment explanation
Indices: 49817--50366 Score: 242
Period size: 33 Copynumber: 17.7 Consensus size: 32
49807 CCTCATCTCA
* * *
49817 AAGTCCACAACTCAGTGGCATCCCTTTTTT-T
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* ** * * *
49848 AAGTCCATGAA-TTAGTGGCA-TCCTTCTTCA-
1 AAGTCCA-CAACTCCGTGGCACCCCTTTTTTAG
* *
49878 AAGTCCATAACTCAGTGGCATCCCCTATTTTTA-
1 AAGTCCACAACTCCGTGGCA-CCCCT-TTTTTAG
* *
49911 AAGTCCACAACTCCTTGGCATCCC--TTTTA-
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
*
49940 AAGTCCATAACTCCGTGGCA-CCC--TTTT--
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
** ***
49967 AAGTCCACAACTCAATGGCACATTTTTCTTTTA-
1 AAGTCCACAACTCCGTGGCAC-CCCTT-TTTTAG
* * ** **
50000 AAATCCACAACTCTGTGGCACCTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCCCTTTT-TTAG
* *** **
50033 AAGTCCATAACTTTATGGCACCTTTTTCTTTA-
1 AAGTCCACAACTCCGTGGCACCCCTTT-TTTAG
* * **
50065 AAATCCACAACT-TGTGGCACTCTTTTTGTTTTA-
1 AAGTCCACAACTCCGTGGCAC-C-CCTT-TTTTAG
* * *
50098 AAGTGCACAACTCTGTGGCAGCCCTTTTTTAG
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
*
50130 AAGTCCACAGCTCCGTGGCACCCCTTTTTTAG
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* *
50162 AAGTCTACAACTCCGTGGCACCCTTTTTTTAG
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* * *
50194 AAGTCTACAACTCCATGGCATCCC--TTTTA-
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* *
50223 AAGTCCACAACTCCATGGTA-CCC--TTTT--
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* * * *
50250 AAGTCCACAACGCTGTGGTACCCTTTTTCTTTTA-
1 AAGTCCACAACTCCGTGGCACCC--CTT-TTTTAG
* * *
50284 AAGTCCACAACACTGTGGCA-CCC-ATTTTA-
1 AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
* * *
50313 AAGTTCACAACTCAGTGGCACCCTTTCCTTTTA-
1 AAGTCCACAACTCCGTGGCACCCCTT--TTTTAG
*
50346 AAGTCCACAACTCCATGGCAC
1 AAGTCCACAACTCCGTGGCAC
50367 TCTTTTTCTT
Statistics
Matches: 420, Mismatches: 68, Indels: 60
0.77 0.12 0.11
Matches are distributed among these distances:
27 34 0.08
28 16 0.04
29 65 0.15
30 28 0.07
31 29 0.07
32 109 0.26
33 112 0.27
34 27 0.06
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCCCTTTTTTAG
Found at i:50277 original size:28 final size:28
Alignment explanation
Indices: 50194--50277 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 28
50184 CTTTTTTTAG
* * * *
50194 AAGTCTACAACTCCATGGCATCCCTTTTA
1 AAGTCCACAACGCCATGGTA-CCCTTTTT
*
50223 AAGTCCACAACTCCATGGTACCC-TTTT
1 AAGTCCACAACGCCATGGTACCCTTTTT
**
50250 AAGTCCACAACGCTGTGGTACCCTTTTT
1 AAGTCCACAACGCCATGGTACCCTTTTT
50278 CTTTTAAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.48
28 7 0.15
29 18 0.38
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (28 bp):
AAGTCCACAACGCCATGGTACCCTTTTT
Found at i:50282 original size:61 final size:61
Alignment explanation
Indices: 49816--50372 Score: 224
Period size: 61 Copynumber: 9.0 Consensus size: 61
49806 ACCTCATCTC
* * * *
49816 AAAGTCCACAACTCAGTGGCATCCCTTT--TTTT-AAGTCCATGAA-T-TAGTGGCATCCTTCTT
1 AAAGTCCACAACGCAGTGGCA-CCCTTTCCTTTTAAAGTCCA-CAACTCCA-TGGCACCCTT-TT
* * * *
49876 CAAAGTCCATAACTCAGTGGCATCCCCTAT--TTTTAAAGTCCACAACTCCTTGGCATCCCTTTT
1 -AAAGTCCACAACGCAGTGGCA--CCCTTTCCTTTTAAAGTCCACAACTCCATGGCA-CCCTTTT
* * * * *
49939 AAAGTCCATAACTCCGTGGCA--C---CCTTTT-AAGTCCACAACTCAATGGCACATTTTTCTTT
1 AAAGTCCACAACGCAGTGGCACCCTTTCCTTTTAAAGTCCACAACTCCATGGCAC-----CCTTT
49998 T
61 T
* * * * * * ** *
49999 AAAATCCACAACTCTGTGGCACCTTTTTTCTTTT-AAGTCCATAACTTTATGGCACCTTTTTCTT
1 AAAGTCCACAACGCAGTGGCACC-CTTTCCTTTTAAAGTCCACAACTCCATGGCACC---CT-TT
50063 T
61 T
* ** * ** * **
50064 AAAATCCACAAC-TTGTGGCACTCTTTTTGTTTTAAAGTGCACAACTCTGTGGCAGCCCTTTTTT
1 AAAGTCCACAACGCAGTGGCAC-CCTTTCCTTTTAAAGTCCACAACTCCATGGCA-CCC--TTTT
* * * * * *
50128 AGAAGTCCACAGCTCCGTGGCACCCCTT--TTTTAGAAGTCTACAACTCCGTGGCACCCTTTTTT
1 A-AAGTCCACAACGCAGTGGCACCCTTTCCTTTTA-AAGTCCACAACTCCATGGCACCC---TTT
50191 T
61 T
* * * *
50192 AGAAGTCTACAACTCCA-TGGCA----TCCCTTTTAAAGTCCACAACTCCATGGTACCCTTTT
1 A-AAGTCCACAAC-GCAGTGGCACCCTTTCCTTTTAAAGTCCACAACTCCATGGCACCCTTTT
* * * * **
50250 -AAGTCCACAACGCTGTGGTACCCTTTTTCTTTTAAAGTCCACAACACTGTGGCACCCATTTT
1 AAAGTCCACAACGCAGTGGCACCC-TTTCCTTTTAAAGTCCACAACTCCATGGCACCC-TTTT
* * *
50312 AAAGTTCACAACTCAGTGGCACCCTTTCCTTTTAAAGTCCACAACTCCATGGCACTCTTTT
1 AAAGTCCACAACGCAGTGGCACCCTTTCCTTTTAAAGTCCACAACTCCATGGCACCCTTTT
50373 TCTTTCAAAG
Statistics
Matches: 390, Mismatches: 64, Indels: 84
0.72 0.12 0.16
Matches are distributed among these distances:
55 2 0.01
56 32 0.08
57 4 0.01
58 5 0.01
60 24 0.06
61 70 0.18
62 68 0.17
63 42 0.11
64 65 0.17
65 46 0.12
66 32 0.08
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (61 bp):
AAAGTCCACAACGCAGTGGCACCCTTTCCTTTTAAAGTCCACAACTCCATGGCACCCTTTT
Found at i:50494 original size:33 final size:31
Alignment explanation
Indices: 50421--50690 Score: 240
Period size: 31 Copynumber: 8.9 Consensus size: 31
50411 TTGAAGTCCT
** *
50421 CTTCTAAAGTACACACAAGTAGGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
50452 CTT-TCAAAGCCCACACAAGTCAGTGGGAACC
1 CTTCT-AAAGCCCACACAAGTCGGTGGCAACC
*
50483 TTTCTTTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTC--TAAAGCCCACACAAGTCGGTGGCAACC
*
50516 CTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
50547 CTTCTAAAGCCCACACAAGTTGGTGGCAA-C
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC
* **
50577 C--CT-------ATACAAGTCAATGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * * *
50599 CGTTTCTAAATCCTACATAAGTCGATGGCAACCC
1 C--TTCTAAAGCCCACACAAGTCGGTGGCAA-CC
**
50633 CTT-TAAAGCCCACACAAGTTTGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
50663 CTTCTTAAGCCCACACAAGTCGGTGGCA
1 CTTCTAAAGCCCACACAAGTCGGTGGCA
50691 CCTTTTAGTC
Statistics
Matches: 195, Mismatches: 26, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
21 13 0.07
22 2 0.01
26 2 0.01
28 2 0.01
30 8 0.04
31 121 0.62
32 2 0.01
33 41 0.21
34 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (31 bp):
CTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:50526 original size:64 final size:62
Alignment explanation
Indices: 50421--50690 Score: 231
Period size: 64 Copynumber: 4.5 Consensus size: 62
50411 TTGAAGTCCT
** *
50421 CTTCTAAAGTACACACAAGTAGGTGGCAACCCTTTCAAAGCCCACACAAGTCAGTGGGAACC
1 CTTCTAAAGCCCACACAAGTAGGTGGCAACCCTTTCAAAGCCCACACAAGTCAGTGGCAACC
* * **
50483 TTTCTTTAAAGCCCACACAAGTCGGTGGCAACCC-TTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTTC--TAAAGCCCACACAAGTAGGTGGCAACCCTTTC-AAAGCCCACACAAGTCAGTGGCAACC
* * *
50547 CTTCTAAAGCCCACACAAGTTGGTGGCAACCC--T--------ATACAAGTCAATGGCAACC
1 CTTCTAAAGCCCACACAAGTAGGTGGCAACCCTTTCAAAGCCCACACAAGTCAGTGGCAACC
* * * * * **
50599 CGTTTCTAAATCCTACATAAGTCGATGGCAACCCCTTT-AAAGCCCACACAAGTTTGTGGCAACC
1 C--TTCTAAAGCCCACACAAGTAGGTGGCAA-CCCTTTCAAAGCCCACACAAGTCAGTGGCAACC
* *
50663 CTTCTTAAGCCCACACAAGTCGGTGGCA
1 CTTCTAAAGCCCACACAAGTAGGTGGCA
50691 CCTTTTAGTC
Statistics
Matches: 166, Mismatches: 27, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
52 16 0.10
54 23 0.14
55 3 0.02
57 1 0.01
61 1 0.01
62 52 0.31
63 3 0.02
64 67 0.40
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (62 bp):
CTTCTAAAGCCCACACAAGTAGGTGGCAACCCTTTCAAAGCCCACACAAGTCAGTGGCAACC
Found at i:50640 original size:85 final size:83
Alignment explanation
Indices: 50499--50664 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 83
50489 TAAAGCCCAC
** * *
50499 ACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACA
1 ACAAGTCAATGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACA
50564 AGTTGGTGGCAACCCTAT
66 AGTTGGTGGCAACCCTAT
* * *
50582 ACAAGTCAATGGCAACCCGTTTCTAAATCCTACATAAGTCGATGGCAACCCCTT-TAAAGCCCAC
1 ACAAGTCAATGGCAACCC--TTCTAAAGCCCACACAAGTCGATGGCAA-CCCTTCTAAAGCCCAC
*
50646 ACAAGTTTGTGGCAACCCT
63 ACAAGTTGGTGGCAACCCT
50665 TCTTAAGCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
83 16 0.22
85 51 0.71
86 5 0.07
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (83 bp):
ACAAGTCAATGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACA
AGTTGGTGGCAACCCTAT
Found at i:50778 original size:68 final size:68
Alignment explanation
Indices: 50669--50894 Score: 319
Period size: 68 Copynumber: 3.3 Consensus size: 68
50659 AACCCTTCTT
50669 AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCTTT
1 AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCTTT
50734 TTA
66 TTA
50737 AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCTTT
1 AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCTTT
50802 TTA
66 TTA
* * * * * * * * ** *
50805 AAGCCCACACAAGTTGATGGCACTTTTTAGTCTTAAAAAAGCAGGACTCCTTTCC-TTTTTCTCA
1 AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCT-T
50869 TTTA
65 TTTA
* *
50873 AAGCCCATACAAGTTGGTGGCA
1 AAGCCCACACAAGTCGGTGGCA
50895 TCCCTCTCTT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
67 7 0.05
68 137 0.95
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (68 bp):
AAGCCCACACAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTCACCTTTTTTCTTT
TTA
Found at i:50989 original size:112 final size:111
Alignment explanation
Indices: 50791--51162 Score: 446
Period size: 112 Copynumber: 3.3 Consensus size: 111
50781 GACACCTCAC
* * * * * *
50791 CTTTTTT-CTTTTTAAAGCCCACACAAGTTGATGGCA-CTTTTTAGTCTTAAAAAAGCAGGACTC
1 CTTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATTC-TCAAAGAGCAGGACGC
* * * *
50854 CTTTCCTTTTTCTCATTTAAAGCCCATACAAGTTGGTGGCATCCCTCT
65 CTTTCCTTTTTCCCTTTTTAAGCCCACACAAGTTGGTGGCATCCCT-T
* * * *
50902 CTTTTTTCCTTTTTAAAGCCCACATAAGTTGGTGGTACCTTTTAATTCTCAAAGTGTAGGACGCC
1 CTTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATTCTCAAAGAGCAGGACGCC
*
50967 TTTCCTTTTTCCCTTTTTAAGCCCACACAAGTTGGTTGCATCCCTTT
66 TTTCCTTTTTCCCTTTTTAAGCCCACACAAGTTGGTGGCATCCC-TT
* * * * *
51014 CTTTTTTCATTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAGACGCC
1 CTTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATTCTCAAAGAGCAGGACGCC
*
51079 TTT-CTTTTCTCCTTTTCTTTAAGCCCACACAAGTTGGTGGCAT-CCTT
66 TTTCCTTTT-TCC-CTT-TTTAAGCCCACACAAGTTGGTGGCATCCCTT
* * *
51126 ATTTTTTCCTTTTCAAAGCCCACACCAGTTGGTGGCA
1 CTTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA
51163 TCATCTTTAA
Statistics
Matches: 225, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
111 12 0.05
112 175 0.78
113 13 0.06
114 25 0.11
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (111 bp):
CTTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATTCTCAAAGAGCAGGACGCC
TTTCCTTTTTCCCTTTTTAAGCCCACACAAGTTGGTGGCATCCCTT
Found at i:54940 original size:28 final size:28
Alignment explanation
Indices: 54880--54940 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
54870 TTTTCGAGAT
* * **
54880 AATAACGGGGTTGGAGTATCCCCTCGGA
1 AATAACAGGGTTAGAGTATCCCCGAGGA
* *
54908 GATAACAGGGTTAGAGTATCCCCGATGA
1 AATAACAGGGTTAGAGTATCCCCGAGGA
54936 AATAA
1 AATAA
54941 TGAGGTTGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (28 bp):
AATAACAGGGTTAGAGTATCCCCGAGGA
Found at i:55080 original size:51 final size:51
Alignment explanation
Indices: 54968--55312 Score: 216
Period size: 51 Copynumber: 6.6 Consensus size: 51
54958 CGATTGTGAA
* * * * *
54968 AAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTG
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTG
*
55020 AAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTG
* * * * * *
55070 AGAAATAAAACCGGGGTTAGAGTATCCCCGATCATGAGAAATCAATATTTTG
1 A-AAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTG
* * * * * *** * ***
55122 AAAATAAAGCCGGGGTTGGGGTATCCCCTCA-GAGGTAACGGGGTTGGAGTATCCCCG
1 AAAATAAAACCGGGGTTGGAGTATCCCC-GATTATG-AA--AAATT--AGTGT-TTTG
** * * * *
55179 ATGAT-TAA-CGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTG
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG--TTTTG
* * *
55230 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTG
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTG
* *
55281 AAAATAAAATCGGAGTT-GAGATATCCCCGATT
1 AAAATAAAACCGGGGTTGGAG-TATCCCCGATT
55313 GCAGAGAATT
Statistics
Matches: 224, Mismatches: 53, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
50 6 0.03
51 117 0.52
52 39 0.17
53 32 0.14
54 4 0.02
55 17 0.08
56 5 0.02
57 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
AAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTG
Found at i:55173 original size:28 final size:27
Alignment explanation
Indices: 55132--55204 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
55122 AAAATAAAGC
*
55132 CGGGGTTGGGGTATCCCCTCA-GAGGTAA
1 CGGGGTTGGAGTATCCCC-CATGA-GTAA
* *
55160 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCCATGAGTAA
*
55187 CGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
55205 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCCATGAGTAA
Found at i:57679 original size:34 final size:33
Alignment explanation
Indices: 57640--57706 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
57630 AACTTCCTAG
* *
57640 ATGTATTGATACAAAGAATAGATATATCGATACA
1 ATGTATCGATACAAAGAA-AAATATATCGATACA
* *
57674 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATATATCGATACA
57707 TTTCCTTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATATATCGATACA
Found at i:57777 original size:32 final size:32
Alignment explanation
Indices: 57730--57802 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
57720 AGCTTCCTAG
*
57730 CGATATATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
57762 TGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
57794 CGATACATT
1 CGATACATT
57803 TACTGAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:57794 original size:19 final size:18
Alignment explanation
Indices: 57738--57800 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
57728 AGCGATATAT
57738 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
57757 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
57770 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
57789 TGTATCGATACA
1 TGTATCGATACA
57801 TTTACTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:57814 original size:21 final size:19
Alignment explanation
Indices: 57770--57818 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
57760 ATTGATACAT
*
57770 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTAA
*
57789 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-ATACT-AA
57810 TGTATCGAT
1 TGTATCGAT
57819 GCAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 12 0.46
20 4 0.15
21 10 0.38
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (19 bp):
TGTATCGATACAATACTAA
Found at i:58172 original size:19 final size:20
Alignment explanation
Indices: 58148--58201 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
58138 ACCTTATGCT
*
58148 TTGTATCGATACATGTTCA-
1 TTGTATCGATACATGCTCAC
* *
58167 TTGTATTGATACATACTCAC
1 TTGTATCGATACATGCTCAC
*
58187 TTATATCGATACATG
1 TTGTATCGATACATG
58202 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAC
Found at i:62425 original size:53 final size:54
Alignment explanation
Indices: 62365--62469 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 54
62355 AAGAATGTAA
62365 AACAAACACCATACAAA-TATTTGTTTGAATTCAATACATATATATATATATAT
1 AACAAACACCATACAAATTATTTGTTTGAATTCAATACATATATATATATATAT
* *
62418 AACAAACACCATACAAATTTTTTTTTTTGAATTCAATACATATATATATATA
1 AACAAACACCATACAAA-TTATTTGTTTGAATTCAATACATATATATATATA
62470 ACTTAAACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 17 0.35
55 31 0.65
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (54 bp):
AACAAACACCATACAAATTATTTGTTTGAATTCAATACATATATATATATATAT
Found at i:63371 original size:20 final size:21
Alignment explanation
Indices: 63332--63374 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
63322 GACTACAAAT
63332 TGAGATAAAAATTTAGAATTAA
1 TGAGATAAAAATTTA-AATTAA
* *
63354 TGAGATAAATATTTAATTTAA
1 TGAGATAAAAATTTAAATTAA
63375 ATTAGTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAGATAAAAATTTAAATTAA
Found at i:65953 original size:2 final size:2
Alignment explanation
Indices: 65946--65989 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
65936 CGCTTTATCA
* * *
65946 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG GG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
65988 AG
1 AG
65990 CGGTGCTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:66242 original size:22 final size:23
Alignment explanation
Indices: 66209--66251 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
66199 ATGTCTAACC
66209 GGTTTGGACTTAGTAAATATTCG
1 GGTTTGGACTTAGTAAATATTCG
* *
66232 GGTTT-GACTTATTAATTATT
1 GGTTTGGACTTAGTAAATATT
66252 AAATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (23 bp):
GGTTTGGACTTAGTAAATATTCG
Found at i:66295 original size:25 final size:25
Alignment explanation
Indices: 66245--66297 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
66235 TTGACTTATT
* **
66245 AATTATTAAATTAAATTAGATTTTA
1 AATTATTAAAATAAATTAGAAGTTA
66270 AATTATTTAAAATAAATTA-AAGTTA
1 AATTA-TTAAAATAAATTAGAAGTTA
66295 AAT
1 AAT
66298 ATAGATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTATTAAAATAAATTAGAAGTTA
Found at i:67459 original size:20 final size:20
Alignment explanation
Indices: 67422--67459 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67412 TAATATTATT
*
67422 TAAATTATTAATTCAATACA
1 TAAATTATAAATTCAATACA
67442 TAAATTTATAAATT-AATA
1 TAAA-TTATAAATTCAATA
67460 ATATATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTATAAATTCAATACA
Found at i:76229 original size:14 final size:15
Alignment explanation
Indices: 76210--76247 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
76200 ATAAAATGGA
76210 TATTTATTTTATT-T
1 TATTTATTTTATTAT
76224 TATTTA-TTTATTAT
1 TATTTATTTTATTAT
76238 TA-TTATTTTA
1 TATTTATTTTA
76248 GAAAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTATTTTATTAT
Found at i:78320 original size:805 final size:805
Alignment explanation
Indices: 76769--78382 Score: 3192
Period size: 805 Copynumber: 2.0 Consensus size: 805
76759 CTGATGGGTC
76769 AAAATAGCCCAAACAGAATGTAATGTGTTGGTTCGAGGCAGCAAAGATTTGAAAAATTATAATTC
1 AAAATAGCCCAAACAGAATGTAATGTGTTGGTTCGAGGCAGCAAAGATTTGAAAAATTATAATTC
76834 CCTCAACTGGGATGATCCGAAGGCAAACCAGATATTTTGGAAAGATAATTCAATGATTTCAAGGA
66 CCTCAACTGGGATGATCCGAAGGCAAACCAGATATTTTGGAAAGATAATTCAATGATTTCAAGGA
76899 AAAAAATATCAAAAAATTCTAGAAAAAGTTTATGGTTTGAAAATAATTTTCAAATCCAAACTACG
131 AAAAAATATCAAAAAATTCTAGAAAAAGTTTATGGTTTGAAAATAATTTTCAAATCCAAACTACG
76964 ATGTTGCTAGAGCAAAAACAAGGATTATTTGATATTTTGAGTTTCTTGGGGTCAAACTCGAGCCA
196 ATGTTGCTAGAGCAAAAACAAGGATTATTTGATATTTTGAGTTTCTTGGGGTCAAACTCGAGCCA
77029 TAGACAATCGAATGTCTTTGACACAAGGAAAAAAATGACATGGGCATCATAAGTTTATTCCATAA
261 TAGACAATCGAATGTCTTTGACACAAGGAAAAAAATGACATGGGCATCATAAGTTTATTCCATAA
77094 TCCCGAAGTAGTTTAGGACAATAAAATAACTTGTTAACCATGCCGCAAATGAAGGTGTTAACTCA
326 TCCCGAAGTAGTTTAGGACAATAAAATAACTTGTTAACCATGCCGCAAATGAAGGTGTTAACTCA
77159 AGATCAAGGCTTATTATTATTTTTAATCAACTAAAAGGGTTATTATTGTTTGTAAAAAAAAGAAA
391 AGATCAAGGCTTATTATTATTTTTAATCAACTAAAAGGGTTATTATTGTTTGTAAAAAAAAGAAA
77224 CTTGTTTCATAATGAATCCAAACCTAGAATATTTTATTTGTCTCTAAGATTGGAAGACCAATTTT
456 CTTGTTTCATAATGAATCCAAACCTAGAATATTTTATTTGTCTCTAAGATTGGAAGACCAATTTT
*
77289 GTGAAAGCATTAAATCCATGCTAGTCTCCATCTATTGAAGGTGGCATAGGCTTAACTTGGATTTT
521 GTGAAAACATTAAATCCATGCTAGTCTCCATCTATTGAAGGTGGCATAGGCTTAACTTGGATTTT
77354 TTTGAATCAAATTTCGCTAAAAACAAAAATGCATTTTAAACATTATGAACAAAATGCAACATATA
586 TTTGAATCAAATTTCGCTAAAAACAAAAATGCATTTTAAACATTATGAACAAAATGCAACATATA
77419 TAATAGTGAACATAAATAACATATTCAAACAAGCAAGAAATGACATTTGGACATAGAAAAGATGA
651 TAATAGTGAACATAAATAACATATTCAAACAAGCAAGAAATGACATTTGGACATAGAAAAGATGA
77484 CAAAAATGCAAGGAAGTGACAAATAGGATGCATAGAGATGACATCAAAAATCATGTTATAAAAGT
716 CAAAAATGCAAGGAAGTGACAAATAGGATGCATAGAGATGACATCAAAAATCATGTTATAAAAGT
77549 TGATATGACCATGTTTAAGTAAAGA
781 TGATATGACCATGTTTAAGTAAAGA
*
77574 AAAATAGCCCAAACAGAATGTAATGTGTTGGTTTGAGGCAGCAAAGATTTGAAAAATTATAATTC
1 AAAATAGCCCAAACAGAATGTAATGTGTTGGTTCGAGGCAGCAAAGATTTGAAAAATTATAATTC
77639 CCTCAACTGGGATGATCCGAAGGCAAACCAGATATTTTGGAAAGATAATTCAATGATTTCAAGGA
66 CCTCAACTGGGATGATCCGAAGGCAAACCAGATATTTTGGAAAGATAATTCAATGATTTCAAGGA
77704 AAAAAATATCAAAAAATTCTAGAAAAAGTTTATGGTTTGAAAATAATTTTCAAATCCAAACTACG
131 AAAAAATATCAAAAAATTCTAGAAAAAGTTTATGGTTTGAAAATAATTTTCAAATCCAAACTACG
77769 ATGTTGCTAGAGCAAAAACAAGGATTATTTGATATTTTGAGTTTCTTGGGGTCAAACTCGAGCCA
196 ATGTTGCTAGAGCAAAAACAAGGATTATTTGATATTTTGAGTTTCTTGGGGTCAAACTCGAGCCA
77834 TAGACAATCGAATGTCTTTGACACAAGGAAAAAAATGACATGGGCATCATAAGTTTATTCCATAA
261 TAGACAATCGAATGTCTTTGACACAAGGAAAAAAATGACATGGGCATCATAAGTTTATTCCATAA
* *
77899 TCCCGAAGTAGTTTTGGACAATAAAATAACTTGTTAACCATGCTGCAAATGAAGGTGTTAACTCA
326 TCCCGAAGTAGTTTAGGACAATAAAATAACTTGTTAACCATGCCGCAAATGAAGGTGTTAACTCA
77964 AGATCAAGGCTTATTATTATTTTTAATCAACTAAAAGGGTTATTATTGTTTGTAAAAAAAAGAAA
391 AGATCAAGGCTTATTATTATTTTTAATCAACTAAAAGGGTTATTATTGTTTGTAAAAAAAAGAAA
78029 CTTGTTTCATAATGAATCCAAACCTAGAATATTTTATTTGTCTCTAAGATTGGAAGACCAATTTT
456 CTTGTTTCATAATGAATCCAAACCTAGAATATTTTATTTGTCTCTAAGATTGGAAGACCAATTTT
78094 GTGAAAACATTAAATCCATGCTAGTCTCCATCTATTGAAGGTGGCATAGGCTTAACTTGGATTTT
521 GTGAAAACATTAAATCCATGCTAGTCTCCATCTATTGAAGGTGGCATAGGCTTAACTTGGATTTT
78159 TTTGAATCAAATTTCGCTAAAAACAAAAATGCATTTTAAACATTATGAACAAAATGCAACATATA
586 TTTGAATCAAATTTCGCTAAAAACAAAAATGCATTTTAAACATTATGAACAAAATGCAACATATA
78224 TAATAGTGAACATAAATAACATATTCAAACAAGCAAGAAATGACATTTGGACATAGAAAAGATGA
651 TAATAGTGAACATAAATAACATATTCAAACAAGCAAGAAATGACATTTGGACATAGAAAAGATGA
78289 CAAAAATGCAAGGAAGTGACAAATAGGATGCATAGAGATGACATCAAAAATCATGTTATAAAAGT
716 CAAAAATGCAAGGAAGTGACAAATAGGATGCATAGAGATGACATCAAAAATCATGTTATAAAAGT
78354 TGATATGACCATGTTTAAGTAAAGA
781 TGATATGACCATGTTTAAGTAAAGA
78379 AAAA
1 AAAA
78383 CATGCTGGGA
Statistics
Matches: 805, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
805 805 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (805 bp):
AAAATAGCCCAAACAGAATGTAATGTGTTGGTTCGAGGCAGCAAAGATTTGAAAAATTATAATTC
CCTCAACTGGGATGATCCGAAGGCAAACCAGATATTTTGGAAAGATAATTCAATGATTTCAAGGA
AAAAAATATCAAAAAATTCTAGAAAAAGTTTATGGTTTGAAAATAATTTTCAAATCCAAACTACG
ATGTTGCTAGAGCAAAAACAAGGATTATTTGATATTTTGAGTTTCTTGGGGTCAAACTCGAGCCA
TAGACAATCGAATGTCTTTGACACAAGGAAAAAAATGACATGGGCATCATAAGTTTATTCCATAA
TCCCGAAGTAGTTTAGGACAATAAAATAACTTGTTAACCATGCCGCAAATGAAGGTGTTAACTCA
AGATCAAGGCTTATTATTATTTTTAATCAACTAAAAGGGTTATTATTGTTTGTAAAAAAAAGAAA
CTTGTTTCATAATGAATCCAAACCTAGAATATTTTATTTGTCTCTAAGATTGGAAGACCAATTTT
GTGAAAACATTAAATCCATGCTAGTCTCCATCTATTGAAGGTGGCATAGGCTTAACTTGGATTTT
TTTGAATCAAATTTCGCTAAAAACAAAAATGCATTTTAAACATTATGAACAAAATGCAACATATA
TAATAGTGAACATAAATAACATATTCAAACAAGCAAGAAATGACATTTGGACATAGAAAAGATGA
CAAAAATGCAAGGAAGTGACAAATAGGATGCATAGAGATGACATCAAAAATCATGTTATAAAAGT
TGATATGACCATGTTTAAGTAAAGA
Found at i:79302 original size:67 final size:65
Alignment explanation
Indices: 79152--79306 Score: 193
Period size: 65 Copynumber: 2.4 Consensus size: 65
79142 ATTAGGGGAT
* *
79152 AACTTCAAGTACTATGCTCAACTGCTTTTATTTCCATTAGTTTACCATGCAGTGTATGGTGCAAA
1 AACTTCAAGTACTATGCTCAACTGCTCTTATTTCCATTAGTTTACCATGCAGAGTATGGTGCAAA
* * * * ** * *
79217 AACTTTAGGTATTGTGCTCAGTTGCTCTTATTTCCATTGGTTCTACCATGCGGAGTAGTGGTGCA
1 AACTTCAAGTACTATGCTCAACTGCTCTTATTTCCATTAGTT-TACCATGCAGAGTA-TGGTGCA
79282 AA
64 AA
*
79284 AACTCCAAGTACTATGCTCAACT
1 AACTTCAAGTACTATGCTCAACT
79307 ATTCTTGTTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
65 34 0.48
66 12 0.17
67 25 0.35
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (65 bp):
AACTTCAAGTACTATGCTCAACTGCTCTTATTTCCATTAGTTTACCATGCAGAGTATGGTGCAAA
Found at i:79321 original size:67 final size:66
Alignment explanation
Indices: 79152--79352 Score: 190
Period size: 67 Copynumber: 3.0 Consensus size: 66
79142 ATTAGGGGAT
* * *
79152 AACTTCAAGTACTATGCTCAACTGCTT-TTATTTCCATTAGTTTACCATGCAGTGTA-TGGTGCA
1 AACTTCAAGTACTATGCTCAACT-ATTCTTATTTCCATTGGTTTACCATGCAGAGTAGTGGTGCA
79215 AA
65 AA
* * * * ** ** *
79217 AACTTTAGGTATTGTGCTCAGTTGCTCTTATTTCCATTGGTTCTACCATGCGGAGTAGTGGTGCA
1 AACTTCAAGTACTATGCTCAACTATTCTTATTTCCATTGGTT-TACCATGCAGAGTAGTGGTGCA
79282 AA
65 AA
* * * * * * *
79284 AACTCCAAGTACTATGCTCAACTATTCTTGTTGCCATTGGTTTTGCCATGTAAAGCAGTGGTGCA
1 AACTTCAAGTACTATGCTCAACTATTCTTATTTCCATTGG-TTTACCATGCAGAGTAGTGGTGCA
79349 AA
65 AA
79351 AA
1 AA
79353 GGCTAGTAGC
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
64 1 0.01
65 31 0.30
66 12 0.11
67 59 0.56
68 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (66 bp):
AACTTCAAGTACTATGCTCAACTATTCTTATTTCCATTGGTTTACCATGCAGAGTAGTGGTGCAA
A
Found at i:81749 original size:21 final size:20
Alignment explanation
Indices: 81725--81773 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
81715 TACAATTTGC
**
81725 ATCGATACAACAAGTTGATGT
1 ATCGATAC-ACAAGTAAATGT
*
81746 ATCGATACATAAGTAAATGT
1 ATCGATACACAAGTAAATGT
81766 ATCGATAC
1 ATCGATAC
81774 TAGACCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
ATCGATACACAAGTAAATGT
Found at i:81892 original size:20 final size:21
Alignment explanation
Indices: 81867--81919 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
81857 GACCCAATTG
81867 TATCGATACATTCTT-CAATA
1 TATCGATACATTCTTGCAATA
* *
81887 TATCGATACATGCTTGCAATG
1 TATCGATACATTCTTGCAATA
*
81908 TGTCGATACATT
1 TATCGATACATT
81920 TCTCATTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (21 bp):
TATCGATACATTCTTGCAATA
Found at i:84468 original size:79 final size:80
Alignment explanation
Indices: 84356--84766 Score: 309
Period size: 80 Copynumber: 5.2 Consensus size: 80
84346 AACATCAAAA
* * * * * *
84356 GGGATACTCCAATCCTGTTTATATTTTTAAAACACCCAAATTTTCATCTTAAGGGATATTCCAAC
1 GGGATACTCTAACCCTGTTTTTACTTCTAAAACACCCAAATTTTCATCTTAAGGGATACTCCAAC
** **
84421 CCCATAATTTTTGAG
66 CCCACCATTTTCAAG
* * * *
84436 GGGATACTCTAACCCTG-TCTTACTTCTAAAACATCAAAAATTTCATC-TAAGGGGATACTCCAA
1 GGGATACTCTAACCCTGTTTTTACTTCTAAAACACCCAAATTTTCATCTTAA-GGGATACTCCAA
*
84499 CCCCACCATTTTTAAG
65 CCCCACCATTTTCAAG
* * * ** * *
84515 GGGATACT-TCAA-CCTCGTTTTTATTTTTCAAACACTGAATTTTTCATC-T-ATGGATACTCCA
1 GGGATACTCT-AACCCT-GTTTTTACTTCTAAAACACCCAAATTTTCATCTTAAGGGATACTCCA
* * *
84576 ACCCCACCATCTCCGAG
64 ACCCCACCATTTTCAAG
* *** * *
84593 GGGATACTCCAAGCCC-GTTTTTACTTCTAAAACACCTGTATTTTCATCTCAGGGGATACTCCAA
1 GGGATACTCTAA-CCCTGTTTTTACTTCTAAAACACCCAAATTTTCATCTTAAGGGATACTCCAA
84657 CCCCACCATTTTCAAG
65 CCCCACCATTTTCAAG
* * * * * * * * *
84673 GGGGTACTTTCACCCTGATTTTACTTCCAAAACA-CCGAATTTTACATCTCT-AGTGATATTCTA
1 GGGATACTCTAACCCTGTTTTTACTTCTAAAACACCCAAATTTT-CATCT-TAAGGGATACTCCA
* * *
84736 GCCCCACCATCTCCAAG
64 ACCCCACCATTTTCAAG
*
84753 GGGATACTCCAACC
1 GGGATACTCTAACC
84767 TCGATTTTCA
Statistics
Matches: 257, Mismatches: 62, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
78 64 0.25
79 69 0.27
80 124 0.48
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (80 bp):
GGGATACTCTAACCCTGTTTTTACTTCTAAAACACCCAAATTTTCATCTTAAGGGATACTCCAAC
CCCACCATTTTCAAG
Found at i:84647 original size:158 final size:156
Alignment explanation
Indices: 84356--84766 Score: 430
Period size: 158 Copynumber: 2.6 Consensus size: 156
84346 AACATCAAAA
* * * * * *
84356 GGGATACTCCAATCCTGTTTATATTTTTAAAACACCCAAATTTTCATCTTAAGGGATATTCCAAC
1 GGGATACTTCAA-CCTGTTTTTATTTTTCAAACACCGAATTTTTCATC-T-ATGGATATTCCAAC
** * ** * *
84421 CCCATAATTTTTGAGGGGATACTCTAACCCTGTCTTACTTCTAAAACATCAAAAATTTCATCTAA
63 CCCACCATCTCCGAGGGGATACTCCAACCCTGTCTTACTTCTAAAACACCAAAAATTTCATCTAA
*
84486 GGGGATACTCCAACCCCACCATTTTTAAG
128 GGGGATACTCCAACCCCACCATTTTCAAG
* *
84515 GGGATACTTCAACCTCGTTTTTATTTTTCAAACACTGAATTTTTCATCTATGGATACTCCAACCC
1 GGGATACTTCAACCT-GTTTTTATTTTTCAAACACCGAATTTTTCATCTATGGATATTCCAACCC
* *** * *
84580 CACCATCTCCGAGGGGATACTCCAAGCCC-GTTTTTACTTCTAAAACACCTGTATTTTCATCTCA
65 CACCATCTCCGAGGGGATACTCCAA-CCCTG-TCTTACTTCTAAAACACCAAAAATTTCATCTAA
84644 GGGGATACTCCAACCCCACCATTTTCAAG
128 GGGGATACTCCAACCCCACCATTTTCAAG
* * * * * * * * *
84673 GGGGTACTTTCACCCTGATTTTA-CTTCCAAAACACCGAATTTTACATCTCTAGTGATATTCTAG
1 GGGATAC-TTCAACCTGTTTTTATTTTTC-AAACACCGAATTTTTCATCTAT-G-GATATTCCAA
*
84737 CCCCACCATCTCCAAGGGGATACTCCAACC
62 CCCCACCATCTCCGAGGGGATACTCCAACC
84767 TCGATTTTCA
Statistics
Matches: 211, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
157 37 0.18
158 92 0.44
159 48 0.23
160 34 0.16
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (156 bp):
GGGATACTTCAACCTGTTTTTATTTTTCAAACACCGAATTTTTCATCTATGGATATTCCAACCCC
ACCATCTCCGAGGGGATACTCCAACCCTGTCTTACTTCTAAAACACCAAAAATTTCATCTAAGGG
GATACTCCAACCCCACCATTTTCAAG
Found at i:85976 original size:19 final size:19
Alignment explanation
Indices: 85931--85986 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
85921 CTACCAATTT
*
85931 CATGTATCGATACAATCGAG
1 CATGTATCGATACAAT-GAA
* *
85951 TATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
85970 CATGTATCGATACAATG
1 CATGTATCGATACAATG
85987 TATCAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:87563 original size:13 final size:13
Alignment explanation
Indices: 87545--87569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87535 CATTATGCTT
87545 TGTATCGATACAA
1 TGTATCGATACAA
87558 TGTATCGATACA
1 TGTATCGATACA
87570 TGTTTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:87665 original size:20 final size:20
Alignment explanation
Indices: 87639--87692 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
87629 CTATCACTAT
*
87639 TTGTATCGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
87660 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
87679 TTGTATCGATACAT
1 TTGTATCGATACAT
87693 TGCCTTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:91189 original size:17 final size:16
Alignment explanation
Indices: 91159--91217 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
91149 TTTGGAAGGC
*
91159 AAAAAGAAAAAAATAA
1 AAAAATAAAAAAATAA
*
91175 TAAAAATAAATAAATAA
1 -AAAAATAAAAAAATAA
*
91192 ATAAATAAAATTAAATTAA
1 AAAAATAAAA--AAA-TAA
91211 AAAAATA
1 AAAAATA
91218 CATTTTTGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.24
17 14 0.41
18 3 0.09
19 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAAATAAAAAAATAA
Found at i:91200 original size:22 final size:23
Alignment explanation
Indices: 91165--91217 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
91155 AGGCAAAAAG
91165 AAAAAAAT-AATAAAAATAAA-T
1 AAAAAAATAAATAAAAATAAATT
* *
91186 AAATAAATAAATAAAATTAAATT
1 AAAAAAATAAATAAAAATAAATT
91209 AAAAAAATA
1 AAAAAAATA
91218 CATTTTTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAAATAAATAAAAATAAATT
Found at i:91382 original size:19 final size:18
Alignment explanation
Indices: 91324--91386 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
91314 AAACCGTAAA
91324 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
91343 TGTATCGATAC---A--T
1 TGTATCGATACATAAGTT
*
91356 TATATCGATACATAAGTT
1 TGTATCGATACATAAGTT
91374 CTGTATCGATACA
1 -TGTATCGATACA
91387 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:91394 original size:32 final size:32
Alignment explanation
Indices: 91322--91399 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 32
91312 ACAAACCGTA
91322 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
* *
91354 ATTATATCGATACATAAGT-TCTGTATCGATAC
1 AATGTATCGATACATAAGTGT-TGTATCGATAC
*
91386 AATGTATCGCTACA
1 AATGTATCGATACA
91400 AAGCTACTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:91437 original size:21 final size:21
Alignment explanation
Indices: 91411--91468 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
91401 AGCTACTGCC
91411 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
91432 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
91453 AAGGAAATGTATCGAT
1 AAGGAAATGTATCGAT
91469 CCATCGATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:94303 original size:262 final size:261
Alignment explanation
Indices: 93833--94659 Score: 1334
Period size: 262 Copynumber: 3.1 Consensus size: 261
93823 TCTCAATTAT
* * * *
93833 TCATAATCGGGGATACTCCAAACCCGATTTTATTTCCAAAATATTAA-TTTCTCATAATCGGGGA
1 TCATAATCGGGGATACTCC-AACCCGGTTTTATTTCTAAAACATTAATTTTC-CACAATCGGGGA
*
93897 TACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCCAACTCCG
64 TACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCCAACTCCG
* *
93962 ATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCGTTATTTCATCGGG
129 ATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGG
*
94027 GATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAACATTGAT
194 GATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAACATTGAT
94092 TTC
259 TTC
94095 TCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGAT
1 TCATAATCGGGGATACTCCAACC-CGGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGAT
94160 ACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCCAACTCCGA
65 ACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCCAACTCCGA
94225 TTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGG
130 TTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGG
*
94290 ATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAACATTGATT
195 ATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAACATTGATT
94355 TC
260 TC
94357 TCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGAT
1 TCATAATCGGGGATACTCCAA-CCCGGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGAT
94422 ACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCTAACTTCGG
65 ACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC------------T--T-TAA-TT-GG
94487 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
113 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
*
94552 TCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTA
178 TCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA
*
94617 TTTCC-AAAATATTGATTTC
243 -TTCCTAAAACATTGATTTC
*
94636 TCATAATTGGGGATACTCCAACCC
1 TCATAATCGGGGATACTCCAACCC
94660 CGTTATTTTC
Statistics
Matches: 531, Mismatches: 13, Indels: 26
0.93 0.02 0.05
Matches are distributed among these distances:
261 4 0.01
262 344 0.65
263 6 0.01
274 1 0.00
276 1 0.00
277 3 0.01
278 5 0.01
279 163 0.31
280 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (261 bp):
TCATAATCGGGGATACTCCAACCCGGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATA
CTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCCAACTCCGAT
TTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGA
TACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAACATTGATTT
C
Found at i:94449 original size:51 final size:52
Alignment explanation
Indices: 93837--94460 Score: 340
Period size: 51 Copynumber: 12.0 Consensus size: 52
93827 AATTATTCAT
* * * * *
93837 AATCGGGGATACTCCAAACCCGATTTTATTTCC-AAAATATTAA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTC-CAC
* * * **
93888 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCC-AC
* * * * * *
93940 AATTGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCCAC
* * * ** * * * *
93992 AATTGAGGATACTCCAACCTC-G--TTATTTCATCGGGGATAC-TCCAACCCCGTTACCTCC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTC--C--TAAAACAT-CAA----TTTTCC-AC
* ** *
94050 GA--GGGGATACTCCAACCCCGGTTTTA-TTCCTAAAACATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTC-CAC
* *
94099 AATCGGGGATACTCCAACCTCGGTTTTATTT-CTAAAACATTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCCAC
* * **
94150 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCC-AC
* * * * * *
94202 AATTGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCCAC
* * * ** * * * *
94254 AATCGAGGATACTCCAACCTC---ATTATTTCATCGGGGATAC-TCTAACCCCGTTACCTCC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTC--C--TAAAACATC-AA----TTTTCC-AC
* * ** *
94312 GA--GGGGATACTCCAACCCCGGCTTTA-TTCCTAAAACATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTC-CAC
*
94361 AATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACATTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCCAC
* *
94412 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCC
94461 TTTAATTGGG
Statistics
Matches: 446, Mismatches: 82, Indels: 90
0.72 0.13 0.15
Matches are distributed among these distances:
49 22 0.05
50 2 0.00
51 202 0.45
52 114 0.26
53 41 0.09
54 8 0.02
55 2 0.00
56 32 0.07
57 7 0.02
58 10 0.02
59 6 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCCTAAAACATCAATTTTCCAC
Found at i:94543 original size:69 final size:69
Alignment explanation
Indices: 94414--94546 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 69
94404 TTTTCCACAA
* * ** * *
94414 TCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGGATACTCT
1 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTACAATCGAGGATACTCT
94479 AACT
66 AACT
* *
94483 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-ACAATCGAGGATACTC
1 TCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCTACAATCGAGGATACTC
94547 CAACCTCATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 40 0.73
70 15 0.27
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (69 bp):
TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTACAATCGAGGATACTCT
AACT
Found at i:94658 original size:79 final size:79
Alignment explanation
Indices: 94565--94798 Score: 274
Period size: 79 Copynumber: 2.9 Consensus size: 79
94555 TTATTTCATC
** * *
94565 GGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATT
*
94630 GATTTCTCATAATT
66 GATTTCTCATAACT
* * * * *
94644 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATTCTCCAATCCCGATTTTATTTCC-TAATCAT
1 GGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-AT
* * *
94708 CGATTTTTCACAACT
65 TGATTTCTCATAACT
* * *
94723 GGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCAAACCCC-GTTATTATCTCCAAAATAT
1 GGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATAT
*
94787 TAAATTTCTCAT
65 T-GATTTCTCAT
94799 CGGGAAATAT
Statistics
Matches: 126, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 111 0.88
80 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATT
GATTTCTCATAACT
Found at i:94683 original size:107 final size:107
Alignment explanation
Indices: 94485--94689 Score: 234
Period size: 107 Copynumber: 1.9 Consensus size: 107
94475 CTCTAACTTC
* * *
94485 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
*
94550 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAA
66 CCCCATTATTTCA-CGGGGATACTCCAACCCCGTTACCTCCAA
* * *** * * *
94593 GGGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
* * *
94657 CCCCGTTATTTTCGA-GGGGATTCTCCAATCCCG
66 CCCCATTA-TTTC-ACGGGGATACTCCAACCCCG
94690 ATTTTATTTC
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
107 49 0.61
108 30 0.38
109 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
CCCCATTATTTCACGGGGATACTCCAACCCCGTTACCTCCAA
Found at i:101142 original size:20 final size:19
Alignment explanation
Indices: 101117--101182 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
101107 TAGATATATT
*
101117 GATACATTATGCTTTGTATC
1 GATACATTAT-CATTGTATC
101137 GATACATGT-TCATTGTATC
1 GATACAT-TATCATTGTATC
* *
101156 GATACATTAACAAATGTATC
1 GATACATTATC-ATTGTATC
101176 GATACAT
1 GATACAT
101183 GAAACTAGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.40
20 22 0.55
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (19 bp):
GATACATTATCATTGTATC
Found at i:101247 original size:13 final size:13
Alignment explanation
Indices: 101229--101258 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
101219 GATACATGGC
101229 ACAATGTATCGAT
1 ACAATGTATCGAT
101242 ACAATGTATCGAT
1 ACAATGTATCGAT
101255 ACAA
1 ACAA
101259 GAATTGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:102449 original size:57 final size:58
Alignment explanation
Indices: 102385--102503 Score: 231
Period size: 57 Copynumber: 2.1 Consensus size: 58
102375 AATGTTGTAT
102385 AAAATAATTCACACAAAATCATGATCAAAATATATCTTAGAATTGT-CTCGATTATCC
1 AAAATAATTCACACAAAATCATGATCAAAATATATCTTAGAATTGTCCTCGATTATCC
102442 AAAATAATTCACACAAAATCATGATCAAAATATATCTTAGAATTGTCCTCGATTATCC
1 AAAATAATTCACACAAAATCATGATCAAAATATATCTTAGAATTGTCCTCGATTATCC
102500 AAAA
1 AAAA
102504 AATAACCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 46 0.75
58 15 0.25
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (58 bp):
AAAATAATTCACACAAAATCATGATCAAAATATATCTTAGAATTGTCCTCGATTATCC
Found at i:108647 original size:13 final size:13
Alignment explanation
Indices: 108629--108654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108619 CACACCCAGA
108629 TGTATCGATACAT
1 TGTATCGATACAT
108642 TGTATCGATACAT
1 TGTATCGATACAT
108655 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:108663 original size:19 final size:19
Alignment explanation
Indices: 108638--108696 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
108628 ATGTATCGAT
*
108638 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
*
108657 TCATTGTATCGATACATGGA
1 ACATTGTATCGATACAT-GA
*
108677 AAATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
108696 A
1 A
108697 ACTGGTAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:108684 original size:20 final size:20
Alignment explanation
Indices: 108640--108694 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
108630 GTATCGATAC
***
108640 ATTGTATCGATACAT-GTTC
1 ATTGTATCGATACATGGAAA
108659 ATTGTATCGATACATGGAAA
1 ATTGTATCGATACATGGAAA
108679 ATTGTATCGATACATG
1 ATTGTATCGATACATG
108695 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGAAA
Found at i:108761 original size:33 final size:33
Alignment explanation
Indices: 108724--108788 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
108714 TACCACTGTT
*
108724 TGTATCGATACATGGT-ACATTGTATCAATACAA
1 TGTATCGATACATGATGA-ATTGTATCAATACAA
108757 TGTATCGATACATGATGAATTGTATCAATACA
1 TGTATCGATACATGATGAATTGTATCAATACA
108789 TTGCTTCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCAATACAA
Found at i:108858 original size:13 final size:13
Alignment explanation
Indices: 108840--108866 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108830 GTATTATGCT
108840 TTGTATCGATACA
1 TTGTATCGATACA
108853 TTGTATCGATACA
1 TTGTATCGATACA
108866 T
1 T
108867 GAAACTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:108920 original size:20 final size:20
Alignment explanation
Indices: 108895--108948 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
108885 CTACCACTAT
*
108895 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
108915 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
108935 TTGTATTGATACAT
1 TTGTATCGATACAT
108949 TGCTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:110472 original size:22 final size:22
Alignment explanation
Indices: 110444--110487 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
110434 CTCATAGGTT
110444 CCTTATTAACCTACGAGATGAA
1 CCTTATTAACCTACGAGATGAA
110466 CCTTATTAACCTACGAGATGAA
1 CCTTATTAACCTACGAGATGAA
110488 GATTAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (22 bp):
CCTTATTAACCTACGAGATGAA
Found at i:113218 original size:39 final size:39
Alignment explanation
Indices: 113175--113257 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
113165 ATCTCTTATG
113175 TGCAACTTATGTGCAAGAAGTTATTTTCATCCATTTGGA
1 TGCAACTTATGTGCAAGAAGTTATTTTCATCCATTTGGA
*
113214 TGCAACTTATGTGCAGGAAGTTATTTTCATCCATTTGGA
1 TGCAACTTATGTGCAAGAAGTTATTTTCATCCATTTGGA
113253 TGCAA
1 TGCAA
113258 ATGTTTTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (39 bp):
TGCAACTTATGTGCAAGAAGTTATTTTCATCCATTTGGA
Found at i:115554 original size:20 final size:20
Alignment explanation
Indices: 115529--115613 Score: 112
Period size: 20 Copynumber: 4.6 Consensus size: 20
115519 AAAACCTAGA
115529 TGTATCGATACAATATTCTT
1 TGTATCGATACAATATTCTT
*
115549 TGTATCGATACAATATTTTT
1 TGTATCGATACAATATTCTT
115569 TGTATCGATAC---A----T
1 TGTATCGATACAATATTCTT
115582 TGTATCGATACAATATTCTT
1 TGTATCGATACAATATTCTT
115602 TGTATCGATACA
1 TGTATCGATACA
115614 TTGTATCGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
13 12 0.21
16 1 0.02
17 1 0.02
20 43 0.75
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTCTT
Found at i:115586 original size:13 final size:13
Alignment explanation
Indices: 115568--115627 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
115558 ACAATATTTT
115568 TTGTATCGATACA
1 TTGTATCGATACA
115581 TTGTATCGATACA
1 TTGTATCGATACA
* *
115594 ----AT--ATTCT
1 TTGTATCGATACA
115601 TTGTATCGATACA
1 TTGTATCGATACA
115614 TTGTATCGATACA
1 TTGTATCGATACA
115627 T
1 T
115628 GAGTTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 3 0.08
9 2 0.05
11 2 0.05
13 30 0.81
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:115590 original size:33 final size:33
Alignment explanation
Indices: 115548--115626 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
115538 ACAATATTCT
*
115548 TTGTATCGATACAATATTTTTTGTATCGATACA
1 TTGTATCGATACAATATTCTTTGTATCGATACA
115581 TTGTATCGATACAATATTCTTTGTATCGATACA
1 TTGTATCGATACAATATTCTTTGTATCGATACA
115614 TTGTATCGATACA
1 TTGTATCGATACA
115627 TGAGTTACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (33 bp):
TTGTATCGATACAATATTCTTTGTATCGATACA
Found at i:115792 original size:20 final size:20
Alignment explanation
Indices: 115754--115793 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
115744 TTACAGATTT
115754 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
115775 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
115794 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:116975 original size:19 final size:19
Alignment explanation
Indices: 116951--117015 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
116941 TAGCCAAACT
116951 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
116970 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
116983 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
117004 TGTATCGATACA
1 TGTATCGATACA
117016 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:116987 original size:13 final size:13
Alignment explanation
Indices: 116969--116994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116959 TACACAAAAT
116969 ATGTATCGATACA
1 ATGTATCGATACA
116982 ATGTATCGATACA
1 ATGTATCGATACA
116995 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:116992 original size:32 final size:33
Alignment explanation
Indices: 116951--117015 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
116941 TAGCCAAACT
116951 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
116983 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
117016 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:121074 original size:15 final size:15
Alignment explanation
Indices: 121054--121084 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
121044 TAAAAATGTC
*
121054 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
121069 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
121084 C
1 C
121085 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:125914 original size:52 final size:51
Alignment explanation
Indices: 125836--125984 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
125826 CGAAATATGA
125836 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
125888 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
125940 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
125985 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:125991 original size:13 final size:13
Alignment explanation
Indices: 125973--125997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125963 CAAAGATCAG
125973 TGTATCGATACAA
1 TGTATCGATACAA
125986 TGTATCGATACA
1 TGTATCGATACA
125998 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:126079 original size:13 final size:13
Alignment explanation
Indices: 126061--126085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126051 AAAAAAAATA
126061 TGTATCGATACAT
1 TGTATCGATACAT
126074 TGTATCGATACA
1 TGTATCGATACA
126086 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127165 original size:49 final size:49
Alignment explanation
Indices: 127001--127271 Score: 335
Period size: 49 Copynumber: 5.7 Consensus size: 49
126991 GGATGTCAAC
*
127001 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* * *
127053 ATGCTGATTCAAGGCCAGCTATATTGGACTT-AAGGTG-AGGTGCC-AT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
127099 GTGCTGATTCAAGGCCAGCTACACTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
127148 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
127197 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTACCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
127240 GTGCTGAGTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
127272 GAATGGTTGC
Statistics
Matches: 197, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
43 36 0.18
46 32 0.16
47 13 0.07
48 7 0.04
49 76 0.39
50 1 0.01
51 4 0.02
52 28 0.14
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:127315 original size:33 final size:33
Alignment explanation
Indices: 127276--127447 Score: 195
Period size: 33 Copynumber: 5.5 Consensus size: 33
127266 GGCTTAGAAT
*
127276 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
127309 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
*
127342 GGTTGCCACCGACTTGTGTGGGCTTT--TAAA-
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
* *
127372 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
**
127403 GG-TGCCACTAAC-T-TGT-GGCTTT-GAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
**
127431 GG-TGCCACTAACTTGTG
1 GGTTGCCACCGACTTGTG
127448 GGCTTAAAAA
Statistics
Matches: 129, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
28 28 0.22
29 8 0.06
30 30 0.23
31 5 0.04
33 58 0.45
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAG
Found at i:127367 original size:66 final size:61
Alignment explanation
Indices: 127276--127578 Score: 207
Period size: 58 Copynumber: 5.0 Consensus size: 61
127266 GGCTTAGAAT
127276 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTT-GA-AA-GGTTGCCACCGAC-T-TGTGGGCTTTAGAAAA
127341 G
61 G
* * *
127342 GGTTGCCACCGACTTGTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGTTGCCACCGACTTGTGGGCTTTAGAAAAG
** * ** *
127403 GG-TGCCACTAAC-T-TGT-GGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAAGAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTG-AAAGGTTGCCACCGACTTGTGGGCTT---TAGAAAAG
* * ** ** * * * * * *
127464 AGATGTTATAGA-GT-TGTGAGCTTTGGAAAAG-AGGCACCGACTTGTGGGC-TTCGAAAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTT-GAAAGGTTGCCACCGACTTGTGGGCTTTAG-AAAAG
* * *
127523 GG-TGCCACTGA-TT-TGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGGCTTTTGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGTTGCCACCGACTTGTGGGCTTTAGAAAA
127579 AAATGCCACT
Statistics
Matches: 190, Mismatches: 36, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
56 3 0.02
57 26 0.14
58 46 0.24
59 7 0.04
60 8 0.04
61 26 0.14
62 23 0.12
63 21 0.11
64 3 0.02
65 1 0.01
66 26 0.14
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (61 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGTTGCCACCGACTTGTGGGCTTTAGAAAAG
Found at i:127403 original size:30 final size:30
Alignment explanation
Indices: 127276--127636 Score: 217
Period size: 30 Copynumber: 11.9 Consensus size: 30
127266 GGCTTAGAAT
* * *
127276 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGA-AAA
* *
127309 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAA
*
127341 GGGTTGCCACCGACTTGTGTGGGCTTTT--AAA
1 -GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAA
127372 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
* *
127402 GGGTGCCACTAACTTGT-GGC-TTTGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
* * **
127430 GGGTGCCACTAACTTGTGGGCTTAAAAAGAAAA
1 GGTTGCCACTGACTTGTGGGCTT---TTGAAAA
* ** * * *
127463 GAGATGTTA-TAGAGTTGTGAGCTTTGGAAAA
1 G-GTTGCCACT-GACTTGTGGGCTTTTGAAAA
* *
127494 GAG--G-CACCGACTTGTGGGC-TTCGAAAAA
1 G-GTTGCCACTGACTTGTGGGCTTTTG-AAAA
* *
127522 GGGTGCCACTGATTTGTGGGC-TTTG--AA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
127549 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAA
*** *
127579 AAATGCCACTGACTTGAGGGC-TTTGAAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTG-AAAA
*** *
127609 AAATGCCACTGACTTGTGGACTTTTGAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAA
127637 GGGTGATAAA
Statistics
Matches: 277, Mismatches: 31, Indels: 43
0.79 0.09 0.12
Matches are distributed among these distances:
27 25 0.09
28 55 0.20
29 13 0.05
30 91 0.33
31 15 0.05
32 2 0.01
33 62 0.22
34 14 0.05
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (30 bp):
GGTTGCCACTGACTTGTGGGCTTTTGAAAA
Found at i:129035 original size:1 final size:1
Alignment explanation
Indices: 129029--129125 Score: 68
Period size: 1 Copynumber: 97.0 Consensus size: 1
129019 TCCGGACCCC
* * * * * * ** * *
129029 TTTTTTTGTTTTTGTTTGTTTTTTTTTGTTTTGTTTTTGTTTTGGTTTTTTTGTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
129094 TTTTTGTTTTTTTTTTGTTTTGTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
129126 GGAGGACGCC
Statistics
Matches: 70, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:129048 original size:10 final size:10
Alignment explanation
Indices: 129029--129124 Score: 84
Period size: 9 Copynumber: 10.4 Consensus size: 10
129019 TCCGGACCCC
129029 TTTT-TTTGT
1 TTTTGTTTGT
129038 TTTTGTTTGT
1 TTTTGTTTGT
*
129048 TTTTTTTTG-
1 TTTTGTTTGT
*
129057 TTTTGTTTTT
1 TTTTGTTTGT
*
129067 GTTTTGGTT-T
1 -TTTTGTTTGT
*
129077 TTTTGTTTTT
1 TTTTGTTTGT
129087 TTTTG-TT-T
1 TTTTGTTTGT
129095 TTTTG-TT-T
1 TTTTGTTTGT
129103 TTTT-TTTG-
1 TTTTGTTTGT
129111 TTTTGTTTGT
1 TTTTGTTTGT
129121 TTTT
1 TTTT
129125 TGGAGGACGC
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
8 19 0.26
9 24 0.32
10 24 0.32
11 7 0.09
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTGTTTGT
Found at i:129054 original size:20 final size:19
Alignment explanation
Indices: 129029--129125 Score: 130
Period size: 19 Copynumber: 5.2 Consensus size: 19
129019 TCCGGACCCC
129029 TTTTTTTGTTTTTGTTTGTT
1 TTTTTTTG-TTTTGTTTGTT
129049 TTTTTTTGTTTTG-TT-TT
1 TTTTTTTGTTTTGTTTGTT
* *
129066 TGTTTTGGTTTT-TTTGTT
1 TTTTTTTGTTTTGTTTGTT
129084 TTTTTTTGTTTT-TTTGTTT
1 TTTTTTTGTTTTGTTTG-TT
129103 TTTTTTTGTTTTGTTTGTT
1 TTTTTTTGTTTTGTTTGTT
129122 TTTT
1 TTTT
129126 GGAGGACGCC
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.20
18 18 0.26
19 25 0.36
20 12 0.17
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (19 bp):
TTTTTTTGTTTTGTTTGTT
Found at i:129060 original size:25 final size:24
Alignment explanation
Indices: 129032--129125 Score: 120
Period size: 24 Copynumber: 3.9 Consensus size: 24
129022 GGACCCCTTT
129032 TTTTGTTTTTGTTTGTTTTTTTTTG
1 TTTTGTTTTTGTTT-TTTTTTTTTG
*
129057 TTTTGTTTTTGTTTTGGTTTTTTTG
1 TTTTGTTTTTGTTTT-TTTTTTTTG
*
129082 TTTT-TTTTTGTTTTTTTGTTTTTT
1 TTTTGTTTTTGTTTTTTT-TTTTTG
*
129106 TTTTG-TTTTGTTTGTTTTTT
1 TTTTGTTTTTGTTTTTTTTTT
129126 GGAGGACGCC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
23 5 0.08
24 31 0.50
25 26 0.42
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (24 bp):
TTTTGTTTTTGTTTTTTTTTTTTG
Found at i:129089 original size:38 final size:37
Alignment explanation
Indices: 129029--129125 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 37
129019 TCCGGACCCC
* *
129029 TTTTTTTGTTTTTGTTTGTTTTTTTTTGTTTTGTT-TT
1 TTTTTTTGGTTTT-TTTGTTTTTTTTTGTTTTTTTGTT
* * * *
129066 TGTTTTGGTTTTTTTG-TTTTTTTTTGTTTTTTTGTT
1 TTTTTTTGGTTTTTTTGTTTTTTTTTGTTTTTTTGTT
*
129102 TTTTTTTTGTTTTGTTTGTTTTTT
1 TTTTTTTGGTTTT-TTTGTTTTTT
129126 GGAGGACGCC
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
35 16 0.33
36 13 0.27
37 13 0.27
38 6 0.12
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (37 bp):
TTTTTTTGGTTTTTTTGTTTTTTTTTGTTTTTTTGTT
Found at i:251375 original size:28 final size:28
Alignment explanation
Indices: 251294--251375 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
251284 TTTTGGAGAT
*
251294 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
251322 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
251350 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
251376 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:251518 original size:51 final size:51
Alignment explanation
Indices: 251358--251528 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
251348 GAAATAACGA
* * *
251358 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
251410 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
251463 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
251514 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
251529 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:251574 original size:27 final size:28
Alignment explanation
Indices: 251511--251586 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
251501 AAAATAAAGT
*
251511 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
251539 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
251566 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
251587 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:254069 original size:13 final size:13
Alignment explanation
Indices: 254051--254076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
254041 ACAAAGATCC
254051 ATGTATCGATACA
1 ATGTATCGATACA
254064 ATGTATCGATACA
1 ATGTATCGATACA
254077 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:254072 original size:33 final size:33
Alignment explanation
Indices: 254030--254096 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
254020 AAAATTTCCA
***
254030 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
254063 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
254096 A
1 A
254097 TTTCTTGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:254140 original size:19 final size:18
Alignment explanation
Indices: 254116--254183 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
254106 CAGTAGCTAA
254116 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
254135 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
254150 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
254167 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
254184 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:254156 original size:13 final size:13
Alignment explanation
Indices: 254138--254162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
254128 ACAATACTTA
254138 TGTATCGATACAT
1 TGTATCGATACAT
254151 TGTATCGATACA
1 TGTATCGATACA
254163 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:254160 original size:32 final size:32
Alignment explanation
Indices: 254119--254181 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
254109 TAGCTAATTA
*
254119 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
254151 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
254182 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:254265 original size:21 final size:21
Alignment explanation
Indices: 254241--254294 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
254231 TTGTAGGATG
254241 TATCGATACATTCCACAAATC
1 TATCGATACATTCCACAAATC
* *
254262 TATCGATACATTCTACAAATG
1 TATCGATACATTCCACAAATC
254283 TATCGATACATT
1 TATCGATACATT
254295 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (21 bp):
TATCGATACATTCCACAAATC
Found at i:254316 original size:14 final size:14
Alignment explanation
Indices: 254297--254323 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
254287 GATACATTTA
254297 AATTTTTTTTTTTC
1 AATTTTTTTTTTTC
254311 AATTTTTTTTTTT
1 AATTTTTTTTTTT
254324 TCAAACACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
AATTTTTTTTTTTC
Done.