Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 212 of 318
Found at i:66674378 original size:19 final size:19
Alignment explanation
Indices: 66674338--66674379 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
66674328 TTGATATAGC
* *
66674338 TAATTAGTTGTGATTTAGT
1 TAATTAGTAGTGATGTAGT
66674357 TAATTAGTAGATGATGTA-T
1 TAATTAGTAG-TGATGTAGT
66674376 TAAT
1 TAAT
66674380 GTTTGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (19 bp):
TAATTAGTAGTGATGTAGT
Found at i:66675361 original size:3 final size:3
Alignment explanation
Indices: 66675353--66675494 Score: 203
Period size: 3 Copynumber: 47.3 Consensus size: 3
66675343 CTTGTTTACC
66675353 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
66675401 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
66675449 TTG TTG TTG TTG TTG TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
66675495 AATATTGTGT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 135 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66683326 original size:21 final size:21
Alignment explanation
Indices: 66683302--66683346 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
66683292 TATTTTAAAA
*
66683302 AATGATAGTAATAGTAATAGT
1 AATGATAATAATAGTAATAGT
* *
66683323 AATGATAATAATATTAATGGT
1 AATGATAATAATAGTAATAGT
66683344 AAT
1 AAT
66683347 AATACAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGATAATAATAGTAATAGT
Found at i:66683340 original size:15 final size:15
Alignment explanation
Indices: 66683316--66683350 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66683306 ATAGTAATAG
66683316 TAATAGTAATGATAA
1 TAATAGTAATGATAA
* *
66683331 TAATATTAATGGTAA
1 TAATAGTAATGATAA
66683346 TAATA
1 TAATA
66683351 CAAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (15 bp):
TAATAGTAATGATAA
Found at i:66683486 original size:3 final size:3
Alignment explanation
Indices: 66683478--66683845 Score: 294
Period size: 3 Copynumber: 122.0 Consensus size: 3
66683468 GGTAAAAAAT
* *
66683478 ATA ATA ATA ATA AT- ATA ATG GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
66683525 ATA ATA ATA ATA ATA ATA AGGTA ATAA ATA ATA ATG ATA ACA GTA ATA
1 ATA ATA ATA ATA ATA ATA A--TA AT-A ATA ATA ATA ATA ATA ATA ATA
** *
66683573 ATA AT- ATA AGTA ATA AT- ATA AGTAA ATA CGGA GAGA AT- ATA TATA
1 ATA ATA ATA A-TA ATA ATA ATA A-T-A ATA -ATA -ATA ATA ATA -ATA
* * * *
66683618 AT- ATA ATA ATA ACA AT- ATA A-A ATTA ATTA GT- CTA ATA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA
* * * * **
66683660 ATG ATA ATA CTA GTA ATA ATA ATA A-A GTGGA A-A ACG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA
66683705 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * **
66683753 ATA ATA ATA ATA ATA ATA ATA ATG ACA ACC ATA AT- ATAA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A
* *
66683799 ATA A-A AAA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66683846 TTGTTAGAAA
Statistics
Matches: 302, Mismatches: 37, Indels: 52
0.77 0.09 0.13
Matches are distributed among these distances:
2 24 0.08
3 248 0.82
4 24 0.08
5 6 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:66684529 original size:6 final size:6
Alignment explanation
Indices: 66684515--66684598 Score: 150
Period size: 6 Copynumber: 14.0 Consensus size: 6
66684505 AATATAAAAC
*
66684515 TATAAG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
66684563 TATATG TATATG TATATG TATATG TATATG TCTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
66684599 CAGTTTCAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:66686111 original size:17 final size:18
Alignment explanation
Indices: 66686089--66686135 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
66686079 AAATATTATT
66686089 ATTTTAATAATTTTTT-A
1 ATTTTAATAATTTTTTAA
66686106 ATTTTAAT--TTTTTTAA
1 ATTTTAATAATTTTTTAA
*
66686122 ATATTAA-AATTTTT
1 ATTTTAATAATTTTT
66686136 ATATAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAATAATTTTTTAA
Found at i:66686812 original size:20 final size:20
Alignment explanation
Indices: 66686787--66686863 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
66686777 AAAGAAAAGA
*
66686787 AAAGGGAAAG-GAGAGGAGAG
1 AAAGGGAAAGAGAGAAGA-AG
66686807 AAAGGG-AAG-G-GAAGGGAAGG
1 AAAGGGAAAGAGAGAA--GAA-G
66686827 AAA-GGAAAGAGAGAAGAAG
1 AAAGGGAAAGAGAGAAGAAG
*
66686846 AGAGGGAAAGAGAGAAGA
1 AAAGGGAAAGAGAGAAGA
66686864 GAGGGAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.04
19 10 0.21
20 32 0.67
21 1 0.02
22 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (20 bp):
AAAGGGAAAGAGAGAAGAAG
Found at i:66686861 original size:17 final size:18
Alignment explanation
Indices: 66686836--66686871 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
66686826 GAAAGGAAAG
66686836 AGAGAAGAAGAGAGGGAA
1 AGAGAAGAAGAGAGGGAA
66686854 AGAG-AGAAGAGAGGGAA
1 AGAGAAGAAGAGAGGGAA
66686871 A
1 A
66686872 AAAAAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AGAGAAGAAGAGAGGGAA
Found at i:66693673 original size:13 final size:13
Alignment explanation
Indices: 66693655--66693691 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
66693645 TCTATTAAGA
66693655 TAATGGATATTAC
1 TAATGGATATTAC
66693668 TAATGGATATTAC
1 TAATGGATATTAC
66693681 TAATGGATATT
1 TAATGGATATT
66693692 TTTTGGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (13 bp):
TAATGGATATTAC
Found at i:66700606 original size:44 final size:44
Alignment explanation
Indices: 66700555--66700639 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
66700545 CGGTAAATTA
* *
66700555 AATTATAATTATTTTTA-AATGTGTAATTATCACAACTTCTATTC
1 AATTATAATTACTTTTATAA-GTATAATTATCACAACTTCTATTC
*
66700599 AATTATAATTACTTTTATAAGTATAATTATCACTACTTCTA
1 AATTATAATTACTTTTATAAGTATAATTATCACAACTTCTA
66700640 CTTTACTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.47
Consensus pattern (44 bp):
AATTATAATTACTTTTATAAGTATAATTATCACAACTTCTATTC
Found at i:66701296 original size:31 final size:31
Alignment explanation
Indices: 66701258--66701320 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
66701248 ATTATTATAA
66701258 CAAATATATTGGTGAATTAATGAATATTCCT
1 CAAATATATTGGTGAATTAATGAATATTCCT
66701289 CAAATATATTGGTGAATTAATGAATATTCCT
1 CAAATATATTGGTGAATTAATGAATATTCCT
66701320 C
1 C
66701321 CATGCGTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (31 bp):
CAAATATATTGGTGAATTAATGAATATTCCT
Found at i:66710830 original size:29 final size:29
Alignment explanation
Indices: 66710795--66710871 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
66710785 AATTGATATC
66710795 ATGGCCCGAAGCCAAATCAACCGATATTA
1 ATGGCCCGAAGCCAAATCAACCGATATTA
*
66710824 ATGGCCCGAAGCCAAATCAACCGATATTC
1 ATGGCCCGAAGCCAAATCAACCGATATTA
66710853 ATGGCCCGAAGCCAAATCA
1 ATGGCCCGAAGCCAAATCA
66710872 GTATAACTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (29 bp):
ATGGCCCGAAGCCAAATCAACCGATATTA
Found at i:66712567 original size:20 final size:20
Alignment explanation
Indices: 66712538--66712582 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66712528 GTACCAACTT
*
66712538 ACAACTTACCATAATCTTTC
1 ACAACATACCATAATCTTTC
* *
66712558 ACAACATACCTTAGTCTTTC
1 ACAACATACCATAATCTTTC
66712578 ACAAC
1 ACAAC
66712583 TTAAACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (20 bp):
ACAACATACCATAATCTTTC
Found at i:66712788 original size:42 final size:42
Alignment explanation
Indices: 66712673--66712790 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
66712663 ATACCAATGT
* ** *
66712673 CATATCCTAGATATGGTCTTACATGGGATATCATATCGATGC
1 CATATCCTAGATATGGTCTTACACGAAATCTCATATCGATGC
* * *
66712715 CAATAGCATAGCTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCTAGATATGGTCTTACACGAAATCTCATATCGATGC
* * *
66712758 CATATCCCAGATATGGTCCTACACGTAATCTCA
1 CATATCCTAGATATGGTCTTACACGAAATCTCA
66712791 ACTAACCTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCCTAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:66714527 original size:40 final size:40
Alignment explanation
Indices: 66714309--66714529 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
66714299 ACCCAAGTTT
* * * *
66714309 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
66714348 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
66714388 CTTCGGGTCTTAGCCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
66714428 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
66714468 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
66714508 CTTCGAGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
66714530 CATTCAAATG
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 158 0.93
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:66716589 original size:29 final size:29
Alignment explanation
Indices: 66716557--66716717 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
66716547 AATTTAAGCA
* *** *
66716557 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
66716586 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
66716615 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
66716645 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
66716673 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
66716702 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66716718 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:66716686 original size:87 final size:87
Alignment explanation
Indices: 66716553--66716714 Score: 198
Period size: 87 Copynumber: 1.9 Consensus size: 87
66716543 ACGCAATTTA
* * * * * **
66716553 AGCACGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGC
1 AGCACGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGC
66716618 ACACATAGTGTCATATTTTTCC
66 ACACATAGTGTCATATTTTTCC
* * * * **
66716640 AGCATGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGC
1 AGCACGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGC
*
66716705 ACACTTAGTG
66 ACACATAGTG
66716715 CCAATCTCGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (87 bp):
AGCACGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGC
ACACATAGTGTCATATTTTTCC
Found at i:66724774 original size:39 final size:40
Alignment explanation
Indices: 66724718--66724896 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
66724708 ACCCAAGTTT
* * * *
66724718 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
66724757 CTTC-GGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
66724796 CTTCGGGTCTTAGCCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
66724836 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
66724876 CTTC-GGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
66724897 CATTCAAATG
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.01
38 5 0.04
39 45 0.35
40 76 0.60
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:66726977 original size:29 final size:29
Alignment explanation
Indices: 66726920--66727077 Score: 99
Period size: 29 Copynumber: 5.6 Consensus size: 29
66726910 AATTTAAGCC
* *** *
66726920 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACACAGTGCCATATTTTTCCAGCT
* *
66726949 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACACAGTGCCATATTTTTCCAGCT
* * *
66726978 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACACAGTGCCATATTTTTCCAGC-T
** *
66727008 -GCACA-TTAGTGCCATATATTTCCAG--
1 CGCACACACAGTGCCATATTTTTCCAGCT
* ** * *
66727033 CACACACTTAGTGCCATATATTTCCAGCA
1 CGCACACACAGTGCCATATTTTTCCAGCT
**
66727062 CGCACACTTAGTGCCA
1 CGCACACACAGTGCCA
66727078 ATCTCGTCAC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 20 0.19
28 17 0.16
29 65 0.61
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACACAGTGCCATATTTTTCCAGCT
Found at i:66727051 original size:27 final size:28
Alignment explanation
Indices: 66726958--66727077 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 28
66726948 TCGCACACCC
* * * *
66726958 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATATATTTCCAGC-AGCACACTT
* *
66726987 AGTGTCATATTTTTCCAGCATGCACA-TT
1 AGTGCCATATATTTCCAGCA-GCACACTT
66727015 AGTGCCATATATTTCCAGCA-CACACTT
1 AGTGCCATATATTTCCAGCAGCACACTT
66727042 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCA-GCACACTT
66727071 AGTGCCA
1 AGTGCCA
66727078 ATCTCGTCAC
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
26 4 0.05
27 22 0.27
28 19 0.23
29 36 0.44
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (28 bp):
AGTGCCATATATTTCCAGCAGCACACTT
Found at i:66730360 original size:38 final size:38
Alignment explanation
Indices: 66730318--66730392 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
66730308 CTCACCATGT
66730318 TCATTTTGTCCACTAACTTAACAAATGATTTAATTATA
1 TCATTTTGTCCACTAACTTAACAAATGATTTAATTATA
66730356 TCATTTTGTCCACTAACTTAACAAATGATTTAATTAT
1 TCATTTTGTCCACTAACTTAACAAATGATTTAATTAT
66730393 CATATAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (38 bp):
TCATTTTGTCCACTAACTTAACAAATGATTTAATTATA
Found at i:66734315 original size:22 final size:22
Alignment explanation
Indices: 66734288--66734341 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
66734278 AACTTAAACT
* * *
66734288 TTTCTTTATTCCTAAACATGTC
1 TTTCTTTATTCCCAAAAATGAC
66734310 TTTCTTCTA-TCCCAAAAATGAC
1 TTTCTT-TATTCCCAAAAATGAC
66734332 TTT-TTTATTC
1 TTTCTTTATTC
66734342 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 19 0.70
23 2 0.07
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTCTTTATTCCCAAAAATGAC
Found at i:66734743 original size:22 final size:21
Alignment explanation
Indices: 66734692--66734744 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
66734682 AATTTTTAAC
*
66734692 AAAAAA-AATATTAAAATGTA
1 AAAAAATAATATTAAAATCTA
** *
66734712 AAAATTTAATGTTGAAAATCTA
1 AAAAAATAATATT-AAAATCTA
66734734 AAAAAATAATA
1 AAAAAATAATA
66734745 ATCACAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 15 0.62
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (21 bp):
AAAAAATAATATTAAAATCTA
Found at i:66735012 original size:8 final size:8
Alignment explanation
Indices: 66734999--66735024 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
66734989 GGTTAAGGGC
66734999 GGAAATTG
1 GGAAATTG
66735007 GGAAATTG
1 GGAAATTG
66735015 GGAAATTG
1 GGAAATTG
66735023 GG
1 GG
66735025 GTAAAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (8 bp):
GGAAATTG
Found at i:66738159 original size:16 final size:16
Alignment explanation
Indices: 66738137--66738208 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
66738127 CGTTTGGTTC
*
66738137 ACTGTAATGGAATAGG
1 ACTGTAATGGAATAGA
* *
66738153 GCTGTAATTGAATAGA
1 ACTGTAATGGAATAGA
* * *
66738169 ACTGTATTTGAATAAA
1 ACTGTAATGGAATAGA
66738185 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
*
66738201 GCTGTAAT
1 ACTGTAAT
66738209 AAATAATTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:66739191 original size:65 final size:65
Alignment explanation
Indices: 66739082--66739204 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
66739072 AAAAAAAATG
*
66739082 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTACATCCGTTAACAAACATA
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTACAACCGTTAACAAACATA
* * * *
66739147 ATCAAAAATTTACCTGTTCTGTTCAATAATAATCCTCCTTCAATTTGCAACCGTTAAC
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTACAACCGTTAAC
66739205 TATTGGGGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (65 bp):
ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTACAACCGTTAACAAACATA
Found at i:66747721 original size:30 final size:30
Alignment explanation
Indices: 66747687--66747747 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66747677 TCCTTAACTC
66747687 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66747717 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66747747 A
1 A
66747748 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66749892 original size:19 final size:18
Alignment explanation
Indices: 66749859--66749897 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
66749849 CTTTCAAACT
66749859 AATACCAAACAAATA-AA
1 AATACCAAACAAATATAA
66749876 AATACTCAAATCAAATATAA
1 AATAC-CAAA-CAAATATAA
66749896 AA
1 AA
66749898 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 6 0.32
20 4 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (18 bp):
AATACCAAACAAATATAA
Found at i:66750644 original size:14 final size:13
Alignment explanation
Indices: 66750624--66750660 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
66750614 CGTTTATACT
66750624 TTAATTAAATTAA
1 TTAATTAAATTAA
66750637 TATAATTATAATTAA
1 T-TAATTA-AATTAA
66750652 TTAATTAAA
1 TTAATTAAA
66750661 ACTTTGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:66755903 original size:15 final size:15
Alignment explanation
Indices: 66755880--66755935 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
66755870 TGATATTTTC
*
66755880 TTCTGGATTTCTTTA
1 TTCTGGATTTCTATA
66755895 TGT-TGGATTTCTATA
1 T-TCTGGATTTCTATA
* *
66755910 TTCTGGATTTCTCTG
1 TTCTGGATTTCTATA
*
66755925 TTATGGATTTC
1 TTCTGGATTTC
66755936 CTTATCTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.55
Consensus pattern (15 bp):
TTCTGGATTTCTATA
Found at i:66761064 original size:24 final size:24
Alignment explanation
Indices: 66761035--66761081 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
66761025 CCGAAAATAC
66761035 TTCATGAGGAATCTTTCGGCTAAA
1 TTCATGAGGAATCTTTCGGCTAAA
66761059 TTCATGAGGAATCTTTCGGCTAA
1 TTCATGAGGAATCTTTCGGCTAA
66761082 CTCTTGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (24 bp):
TTCATGAGGAATCTTTCGGCTAAA
Found at i:66762301 original size:31 final size:31
Alignment explanation
Indices: 66762266--66762329 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66762256 CCTTTTCATG
66762266 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
66762297 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
66762328 TT
1 TT
66762330 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:66762572 original size:24 final size:24
Alignment explanation
Indices: 66762521--66762663 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
66762511 GCTTTATCAT
*
66762521 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
66762546 ATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
66762570 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
66762593 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
66762617 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
66762641 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66762664 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:66762604 original size:47 final size:48
Alignment explanation
Indices: 66762521--66762662 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
66762511 GCTTTATCAT
* * *
66762521 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
66762570 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
66762617 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
66762663 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:66762621 original size:71 final size:72
Alignment explanation
Indices: 66762520--66762663 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
66762510 TGCTTTATCA
*
66762520 TATAACTGGAGGCCTAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
66762585 GCCCTTT
66 GCCCTTT
* * * **
66762592 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATA
66762655 AGCCCTTT
65 AGCCCTTT
66762663 T
1 T
66762664 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:66762738 original size:20 final size:20
Alignment explanation
Indices: 66762713--66762773 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
66762703 TTATGATTAC
66762713 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
66762733 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
66762753 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
66762773 A
1 A
66762774 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:66762848 original size:25 final size:25
Alignment explanation
Indices: 66762816--66762863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66762806 ATACATAAAC
* * *
66762816 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
66762841 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
66762864 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:66783104 original size:28 final size:27
Alignment explanation
Indices: 66783082--66783149 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
66783072 TTTAGATGGT
66783082 GCCACAAAGGCATTCCTTTTTAGAGATA
1 GCCACAAAGGC-TTCCTTTTTAGAGATA
* ** *
66783110 GCCACAATGGCTTCCTTATCCAGAGATT
1 GCCACAAAGGCTTCCTT-TTTAGAGATA
*
66783138 GTCACAAAGGCT
1 GCCACAAAGGCT
66783150 GCGTAACACC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTTAGAGATA
Found at i:66787696 original size:38 final size:39
Alignment explanation
Indices: 66787644--66787786 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
66787634 GAATGTTCGA
66787644 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
66787683 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
66787721 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
66787760 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
66787787 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:66787732 original size:77 final size:79
Alignment explanation
Indices: 66787645--66787826 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
66787635 AATGTTCGAG
66787645 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
66787708 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
66787722 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
66787787 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
66787801 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
66787827 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:66790329 original size:18 final size:18
Alignment explanation
Indices: 66790274--66790360 Score: 68
Period size: 18 Copynumber: 4.6 Consensus size: 18
66790264 TTACTCGAAA
*
66790274 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCACTT
* *
66790292 TATTTTTTCCTTTCTTTCACTC
1 T-CTTTTT-C-TT-TTTCACTT
66790314 TCTTTTTCTTTTTCACTT
1 TCTTTTTCTTTTTCACTT
** *
66790332 TCTCGTTCTTTTTTGA-TT
1 TCTTTTTC-TTTTTCACTT
66790350 TCTTTTTCTTT
1 TCTTTTTCTTT
66790361 CATTTTTCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.06
18 22 0.41
19 13 0.24
20 2 0.04
21 7 0.13
22 7 0.13
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCTTTTTCACTT
Found at i:66793093 original size:553 final size:549
Alignment explanation
Indices: 66792033--66793126 Score: 1877
Period size: 553 Copynumber: 2.0 Consensus size: 549
66792023 GTATTGCCCC
66792033 GAATATTATATGGCTTAAGGTGAAGGATGGTTGGTAGATGGATAGAAGAACGCCACACCAAAGAG
1 GAATATTATATGGCTTAAGGTGAAGGATGGTTGGTAGATGGATAGAAGAACGCCACACCAAAGAG
66792098 ATGGTGATAAGTTCAGAAAAAAAGTTCGGTTGACGCCACTAGCAAGCTAAATAAGTCGCTCGAGA
66 ATGGTGATAAGTTCAGAAAAAAAGTTCGGTTGACGCCACTAGCAAGCTAAATAAGTCGCTCGAGA
*
66792163 CTCGTTCAAAAGTTGAGAGGAAGTAAACCTCATAGAAACATAGTTTCATTAATCAAAATGTCAAA
131 CTAGTTCAAAAGTTGAGAGGAAGTAAACCTCATAGAAACATAGTTTCATTAATCAAAATGTCAAA
*
66792228 AGTTTTTTTTTACAACCTGAAATTAACTAAGTATTTATAGCCAAAAAGCTAGGCTAGCCAAATGG
196 AGTTTTTTTTTACAACCTGAAATTAACTAAGTATTAATAGCCAAAAAGCTAGGCTAGCCAAATGG
*
66792293 ACAATTAGATAGCCAAATGGTCACTTAATTTTTTAATGAGCTAAAAATTCTAGAAAAATTCAAGA
261 ACAATTAGATAGCCAAATGGTCACTTAATTTTTTAATGAGCTAAAAATTCCAGAAAAATTCAAGA
* * *
66792358 AAATTCCAGGAAGCTTCTCCAGCCTTGGGAACGTCTTTGGACATCTTCTAGAGTGATTACATGCA
326 AAATTCCAGAAAGCTTCTCCAGCCTTGGGAACATCTTTGGACATCTTCTAGAGTGATTACATACA
*
66792423 GCTGGAATTAATTAGGATGCATGAGAGTTAGGTAGCCTTCTTGGGAACATCTAAGGGCTGCCTTT
391 GCTGGAATTAAGTAGGATGCATGAGAGTTAGGTAGCCTTCTTGGGAACATCTAAGGGCTGCCTTT
*
66792488 TGGTGTTATCAACCAGCGTTCACTGAAGAAAGTTAATTATTGAGATGAACAATTGAATGAAGTGG
456 TGGTGTTATCAACCAGCGTTCACTGAAGAAAGTTAATTATTGAGATGAACAATTGAATAAAGTGG
66792553 CTGGAGCTAGGCTAGATTCGGTTGATGCT
521 CTGGAGCTAGGCTAGATTCGGTTGATGCT
*
66792582 GAATCTTATATGGCTTAAGGTGAAGGATGGTTGGTAGATGGATAGAAGAACGCCACACCAAAGAG
1 GAATATTATATGGCTTAAGGTGAAGGATGGTTGGTAGATGGATAGAAGAACGCCACACCAAAGAG
*
66792647 ATGGTGATAAGTTCA-AAAAATAAGTTCGGTTGACGCCACTAGCAAGCTAAATAAGTCGCTTGAG
66 ATGGTGATAAGTTCAGAAAAA-AAGTTCGGTTGACGCCACTAGCAAGCTAAATAAGTCGCTCGAG
*
66792711 ACTAGTTCGAAAGTTGAGAGGAAGTAAACCTCATAGAAACATAGTTTCATTAATCAAAATGTC-A
130 ACTAGTTCAAAAGTTGAGAGGAAGTAAACCTCATAGAAACATAGTTTCATTAATCAAAATGTCAA
* * * *
66792775 AATTTTTTTTTTACAACTTGAAATTAACTAAGTATTAATGGCCAAAAAGCTAGGCTAGCCTAATG
195 AAGTTTTTTTTTACAACCTGAAATTAACTAAGTATTAATAGCCAAAAAGCTAGGCTAGCCAAATG
* *
66792840 GACAATTGGATAGCCAAATGGTCACTTAATTTCAGCTTTTAATGAGCTGAAAATTCCAGAAAAAT
260 GACAATTAGATAGCCAAATGGTCACTTAA-TT----TTTTAATGAGCTAAAAATTCCAGAAAAAT
* * *
66792905 TCAAGAAAATTTCAGAAAGCTTTTCCAGCCTTGGGAACATCTTTGGACATCTTCTAGAGTGTTTA
320 TCAAGAAAATTCCAGAAAGCTTCTCCAGCCTTGGGAACATCTTTGGACATCTTCTAGAGTGATTA
* * *
66792970 CATATAGCTGGAATTAAGTAGGATGCATGAGAGTTAGTTAGCCTTCTTGGGAACATCTACGGGCT
385 CATACAGCTGGAATTAAGTAGGATGCATGAGAGTTAGGTAGCCTTCTTGGGAACATCTAAGGGCT
* * *
66793035 GCCTTTTGGTGTTATCAACCAGCTTTCATTGAAGGAAGTTAATTATTGAGATGAACAATTGAATA
450 GCCTTTTGGTGTTATCAACCAGCGTTCACTGAAGAAAGTTAATTATTGAGATGAACAATTGAATA
*
66793100 AAGTGGTTGGAGCTAGGCTAGATTCGG
515 AAGTGGCTGGAGCTAGGCTAGATTCGG
66793127 CCAAAGAGTT
Statistics
Matches: 512, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
548 94 0.18
549 184 0.36
553 234 0.46
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (549 bp):
GAATATTATATGGCTTAAGGTGAAGGATGGTTGGTAGATGGATAGAAGAACGCCACACCAAAGAG
ATGGTGATAAGTTCAGAAAAAAAGTTCGGTTGACGCCACTAGCAAGCTAAATAAGTCGCTCGAGA
CTAGTTCAAAAGTTGAGAGGAAGTAAACCTCATAGAAACATAGTTTCATTAATCAAAATGTCAAA
AGTTTTTTTTTACAACCTGAAATTAACTAAGTATTAATAGCCAAAAAGCTAGGCTAGCCAAATGG
ACAATTAGATAGCCAAATGGTCACTTAATTTTTTAATGAGCTAAAAATTCCAGAAAAATTCAAGA
AAATTCCAGAAAGCTTCTCCAGCCTTGGGAACATCTTTGGACATCTTCTAGAGTGATTACATACA
GCTGGAATTAAGTAGGATGCATGAGAGTTAGGTAGCCTTCTTGGGAACATCTAAGGGCTGCCTTT
TGGTGTTATCAACCAGCGTTCACTGAAGAAAGTTAATTATTGAGATGAACAATTGAATAAAGTGG
CTGGAGCTAGGCTAGATTCGGTTGATGCT
Found at i:66796468 original size:53 final size:53
Alignment explanation
Indices: 66796380--66796686 Score: 321
Period size: 53 Copynumber: 5.8 Consensus size: 53
66796370 TAGTCCTTCT
* * * *
66796380 CATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGATTTTCTTTC
1 CATATGATGCCATAACCCACCAATTACGGTCTTACACGATATGGTTTTCTTTC
* * * * * *
66796433 CATATTG-TGCCATAACCCACGAATTACTGTTTTACACGATGTGGTCTTCTTTT
1 CATA-TGATGCCATAACCCACCAATTACGGTCTTACACGATATGGTTTTCTTTC
* * ** *
66796486 TATATGATGTCATAACCCACCAGCTACGGTCTTACACGATATGATTTTCTTTC
1 CATATGATGCCATAACCCACCAATTACGGTCTTACACGATATGGTTTTCTTTC
* * * * *
66796539 CATATGGTGCCATAACCTACCAATTAAGGTCTTACAAGATATGGTCTTCCTTT-
1 CATATGATGCCATAACCCACCAATTACGGTCTTACACGATATGGT-TTTCTTTC
* * * * *
66796592 CATATGATGTCATAACCTACCAGTTACGGTCTTACAAGATATGGTCTTCTTTC
1 CATATGATGCCATAACCCACCAATTACGGTCTTACACGATATGGTTTTCTTTC
* * * *
66796645 TATATGATGCCATAACCCACCAATTATGGCCTTACACAATAT
1 CATATGATGCCATAACCCACCAATTACGGTCTTACACGATAT
66796687 AGTCCTTCAA
Statistics
Matches: 207, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
52 7 0.03
53 192 0.93
54 8 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (53 bp):
CATATGATGCCATAACCCACCAATTACGGTCTTACACGATATGGTTTTCTTTC
Found at i:66796574 original size:106 final size:106
Alignment explanation
Indices: 66796373--66796686 Score: 412
Period size: 106 Copynumber: 3.0 Consensus size: 106
66796363 CTTCCCTTAG
* * *
66796373 TCCTTCTCATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGATTTTCTTTCCATAT
1 TCCTT-TCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATTTTCTTTCCATAT
* * ** * *
66796438 TGTGCCATAACCCACGAATTACTGTTTTACACGATGTGGTCT
65 GGTGCCATAACCCACCAATTAAGGTCTTACACGATATGGTCT
* * *
66796480 TCTTTTTATATGATGTCATAACCCACCAGCTACGGTCTTACACGATATGATTTTCTTTCCATATG
1 TCCTTTCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATTTTCTTTCCATATG
* *
66796545 GTGCCATAACCTACCAATTAAGGTCTTACAAGATATGGTCT
66 GTGCCATAACCCACCAATTAAGGTCTTACACGATATGGTCT
* * * * *
66796586 TCCTTTCATATGATGTCATAACCTACCAGTTACGGTCTTACAAGATATGGTCTTCTTTCTATATG
1 TCCTTTCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATTTTCTTTCCATATG
* * * *
66796651 ATGCCATAACCCACCAATTATGGCCTTACACAATAT
66 GTGCCATAACCCACCAATTAAGGTCTTACACGATAT
66796687 AGTCCTTCAA
Statistics
Matches: 179, Mismatches: 28, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
106 175 0.98
107 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (106 bp):
TCCTTTCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATTTTCTTTCCATATG
GTGCCATAACCCACCAATTAAGGTCTTACACGATATGGTCT
Found at i:66796679 original size:159 final size:159
Alignment explanation
Indices: 66796380--66796686 Score: 368
Period size: 159 Copynumber: 1.9 Consensus size: 159
66796370 TAGTCCTTCT
* * * *
66796380 CATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGATTTTCTTTCCATATTGTGCCA
1 CATATGATGCCATAACCCACCAATTACAGTCTTACAAGATATGATTTCCTTTCCATATTGTGCCA
* * * * * * * *
66796445 TAACCCACGAATTACTGTTTTACACGATGTGGTCTTCTTTTTATATGATGTCATAACCCACCAGC
66 TAACCCACCAATTACGGTCTTACAAGATATGGTCTTCTTTCTATATGATGCCATAACCCACCAAC
* *
66796510 TACGGTCTTACACGATATGATTTTCTTTC
131 TACGGCCTTACACAATATGATTTTCTTTC
* * *
66796539 CATATGGTGCCATAACCTACCAATTA-AGGTCTTACAAGATATGGTCTTCCTTT-CATA-TGATG
1 CATATGATGCCATAACCCACCAATTACA-GTCTTACAAGATATGAT-TTCCTTTCCATATTG-TG
* * *
66796601 TCATAACCTACCAGTTACGGTCTTACAAGATATGGTCTTCTTTCTATATGATGCCATAACCCACC
63 CCATAACCCACCAATTACGGTCTTACAAGATATGGTCTTCTTTCTATATGATGCCATAACCCACC
* *
66796666 AATTATGGCCTTACACAATAT
128 AACTACGGCCTTACACAATAT
66796687 AGTCCTTCAA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
158 3 0.02
159 114 0.93
160 6 0.05
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (159 bp):
CATATGATGCCATAACCCACCAATTACAGTCTTACAAGATATGATTTCCTTTCCATATTGTGCCA
TAACCCACCAATTACGGTCTTACAAGATATGGTCTTCTTTCTATATGATGCCATAACCCACCAAC
TACGGCCTTACACAATATGATTTTCTTTC
Found at i:66799088 original size:21 final size:20
Alignment explanation
Indices: 66799051--66799090 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
66799041 CCCTTGAAAC
*
66799051 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
*
66799071 AGGGCAACACACCTGTGTGG
1 AGGGC-ACACACCCGTGTGG
66799091 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:66800447 original size:48 final size:47
Alignment explanation
Indices: 66800376--66800550 Score: 183
Period size: 48 Copynumber: 3.7 Consensus size: 47
66800366 ACAACAAGCT
* *
66800376 GATGCCATGTCCCAAATAGGTCTTACACTAGCTTGTATCTCACGAGGCC
1 GATG-CATGTCCCAAACATGTCTTACACTAGCTT-TATCTCACGAGGCC
* ** ** *
66800425 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGCCTCA--TTGCT
1 GATGCATGTCCCAAACATGTCTTACACTAGCT-TTATCTCACGAGGCC
* * * *
66800471 GATGCATGTCCCAAACATGTTTTACACTAGCTTAAATATCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTT-TATCTCACGAGGCC
*
66800519 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GATGCATGTCCCAAACATGTCTTACACTAGCT
66800551 CACAAATGTC
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 34 0.33
48 62 0.61
49 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTTTATCTCACGAGGCC
Found at i:66800503 original size:94 final size:95
Alignment explanation
Indices: 66800373--66800551 Score: 288
Period size: 94 Copynumber: 1.9 Consensus size: 95
66800363 CACACAACAA
* ** *
66800373 GCTGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGTATCTCACGAGGCCGATGCATGTCCCA
1 GCTGATGCCATGTCCCAAACAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCA
66800438 GACATGTCTTACACTAGCTCTTGCCTCATT
66 GACATGTCTTACACTAGCTCTTGCCTCATT
* * *
66800468 GCTGATG-CATGTCCCAAACATGTTTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCCA
1 GCTGATGCCATGTCCCAAACAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCA
66800532 GACATGTCTTACACTAGCTC
66 GACATGTCTTACACTAGCTC
66800552 ACAAATGTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 70 0.91
95 7 0.09
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (95 bp):
GCTGATGCCATGTCCCAAACAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTCTTGCCTCATT
Found at i:66806772 original size:21 final size:20
Alignment explanation
Indices: 66806741--66806780 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
66806731 CCCTTGAAAT
*
66806741 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
66806761 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
66806781 TCATTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:66811053 original size:68 final size:70
Alignment explanation
Indices: 66810981--66811178 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
66810971 ACACCCTGTA
* * * *
66810981 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
66811043 ATAAAT
65 ATAAAT
*
66811049 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
66811114 ATAAAT
65 ATAAAT
*
66811120 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
66811179 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:66811092 original size:41 final size:41
Alignment explanation
Indices: 66811047--66811164 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66811037 TGAAAGATAA
66811047 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66811088 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66811118 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66811159 ATGTAG
1 ATGTAG
66811165 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:66811104 original size:71 final size:71
Alignment explanation
Indices: 66811015--66811178 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66811005 GAGATGTATC
66811015 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66811080 AGGACA
66 AGGACA
66811086 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66811151 AGGACA
66 AGGACA
66811157 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66811179 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66818623 original size:68 final size:70
Alignment explanation
Indices: 66818551--66818748 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
66818541 ACACCCTGTA
* * * *
66818551 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
66818613 ATAAAT
65 ATAAAT
*
66818619 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
66818684 ATAAAT
65 ATAAAT
*
66818690 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
66818749 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:66818662 original size:41 final size:41
Alignment explanation
Indices: 66818617--66818734 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66818607 TGAAAGATAA
66818617 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66818658 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66818688 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66818729 ATGTAG
1 ATGTAG
66818735 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:66818674 original size:71 final size:71
Alignment explanation
Indices: 66818585--66818748 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66818575 GAGATGTATC
66818585 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66818650 AGGACA
66 AGGACA
66818656 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66818721 AGGACA
66 AGGACA
66818727 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66818749 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66821880 original size:29 final size:28
Alignment explanation
Indices: 66821827--66821889 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
66821817 TTAGTAATTA
*
66821827 GGACTAAATTGAAAAAATAATAAAT-TGAT
1 GGACTAAATTGAAAAAAT-AGAAATAT-AT
66821856 GGACTAAATGTGAAATAAAT-GAAATATAT
1 GGACTAAAT-TGAAA-AAATAGAAATATAT
66821885 GGACT
1 GGACT
66821890 TATATGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 20 0.67
30 6 0.20
31 4 0.13
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (28 bp):
GGACTAAATTGAAAAAATAGAAATATAT
Found at i:66822420 original size:45 final size:45
Alignment explanation
Indices: 66822352--66822485 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
66822342 TAGGATTCTG
* * *
66822352 ATATGTGTTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTG-TTTTCGTGTAAGACCACGTTTGGGACGTCGGCATCGAT
*
66822398 ATATGTGTTTTCGTGTAAGACCACATTTGGGACGTCGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTCGGCATCGAT
* * * *
66822443 ATATGTGGTTACGTGTAAGACCATGTTTGGGACATCGGCATCG
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTCGGCATCG
66822486 TATTCGATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 72 0.91
46 7 0.09
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTCGGCATCGAT
Found at i:66828346 original size:15 final size:15
Alignment explanation
Indices: 66828326--66828357 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
66828316 ACTTTGTAGC
66828326 AATTATAATTCCTCA
1 AATTATAATTCCTCA
66828341 AATTATAATTCCTCA
1 AATTATAATTCCTCA
66828356 AA
1 AA
66828358 ATTGTCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAATTCCTCA
Found at i:66844998 original size:40 final size:40
Alignment explanation
Indices: 66844939--66845055 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 40
66844929 CACTGGAGTA
* * *
66844939 CAAACAGAAACAGAGAAGTGTAAATAGAGGCATTGAAATG
1 CAAACAGAGACACAAAAGTGTAAATAGAGGCATTGAAATG
* * * * * *
66844979 CAAGCAGAGACACCAAAGTGTAAACAAAGGCATCGAACTG
1 CAAACAGAGACACAAAAGTGTAAATAGAGGCATTGAAATG
66845019 CAAACAGAGACACAAAAGTGTAAATAGAGGCATTGAA
1 CAAACAGAGACACAAAAGTGTAAATAGAGGCATTGAA
66845056 GCGCAAACTC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.13
Consensus pattern (40 bp):
CAAACAGAGACACAAAAGTGTAAATAGAGGCATTGAAATG
Found at i:66848972 original size:49 final size:49
Alignment explanation
Indices: 66848905--66849351 Score: 786
Period size: 49 Copynumber: 9.1 Consensus size: 49
66848895 TTTACCACAT
* * *
66848905 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66848954 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66849003 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* * *
66849052 ATATGTATACATTTTTACATTCATCACATCGGCCATTAGGTCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
66849101 ATATCTATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
66849150 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
66849199 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGTCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66849248 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
66849297 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66849346 ATATAT
1 ATATAT
66849352 TATTATGTAC
Statistics
Matches: 382, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 382 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:66849173 original size:27 final size:27
Alignment explanation
Indices: 66849143--66849227 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
66849133 CCATTAGGCC
66849143 TCATCACATATGTATACATTTTCACAT
1 TCATCACATATGTATACATTTTCACAT
* ** **
66849170 TCATCACAT-CG--GCCATTAGGC-C--
1 TCATCACATATGTATACATT-TTCACAT
66849192 TCATCACATATGTATACATTTTCACAT
1 TCATCACATATGTATACATTTTCACAT
66849219 TCATCACAT
1 TCATCACAT
66849228 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
22 9 0.22
23 1 0.02
24 6 0.15
25 6 0.15
26 1 0.02
27 18 0.44
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (27 bp):
TCATCACATATGTATACATTTTCACAT
Found at i:66853401 original size:20 final size:19
Alignment explanation
Indices: 66853376--66853419 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
66853366 TTAATCATGG
66853376 TTTAATTAACATAAACTTAA
1 TTTAATTAAC-TAAACTTAA
*
66853396 TTTAATTAACTTAACTTAA
1 TTTAATTAACTAAACTTAA
*
66853415 CTTAA
1 TTTAA
66853420 CCTTAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAATTAACTAAACTTAA
Found at i:66862547 original size:2 final size:2
Alignment explanation
Indices: 66862540--66862564 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66862530 GAGACTAGTC
66862540 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
66862565 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66875051 original size:52 final size:51
Alignment explanation
Indices: 66874972--66875191 Score: 198
Period size: 51 Copynumber: 4.3 Consensus size: 51
66874962 ATTGTGAGAA
* * * *
66874972 CACATGTGTAATACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTAT-AAATGGTTTTAGGT
* * *
66875024 CACATGTGTAGTACTAAGTGAAAGCTACTACGTGTACCAAATGG--TTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTA-TAAATGGTTTTAGGT
* * * *
66875074 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCAATAGCTTTTA--T
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTA-TAAAT-GGTTTTAGGT
* * * * *
66875125 CACATGTGTGGTACTAAGTGCAAGCCACTATGTGTAAAAGATAGCTTT-GGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTATAA-ATGGTTTTAGGT
* *
66875176 CATAAGTGTAGTACTA
1 CACATGTGTAGTACTA
66875192 TGTGAAGGCC
Statistics
Matches: 135, Mismatches: 26, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
50 46 0.34
51 50 0.37
52 36 0.27
53 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAATGGTTTTAGGT
Found at i:66875185 original size:102 final size:101
Alignment explanation
Indices: 66874972--66875209 Score: 239
Period size: 102 Copynumber: 2.3 Consensus size: 101
66874962 ATTGTGAGAA
* * * *
66874972 CACATGTGTAATACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACATGTGTAGTA
1 CACAAGTGTAGTACTATGTGCAGGCTACTATGTGTTCAAAATGCTTTTA-GTCACATGTGTAGTA
* * *
66875037 CTAAGTGAAAGCTACTACGTGTACCAAATGGTTAGGT
65 CTAAGTGAAAGCCACTACGTGTACAAAATGCTTAGGT
* * * * *
66875074 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCAATA-GCTTTTA-TCACATGTGTGGT
1 CACAAGTGTAGTACTATGTGCAGGCTACTATGTGT--TCAAAATGCTTTTAGTCACATGTGTAGT
* * *
66875137 ACTAAGTGCAAGCCACTATGTGTA-AAAGATAGCTTTGGT
64 ACTAAGTGAAAGCCACTACGTGTACAAA-AT-GCTTAGGT
* * * *
66875176 CATAAGTGTAGTACTATGTGAAGGCCACTTTGTG
1 CACAAGTGTAGTACTATGTGCAGGCTACTATGTG
66875210 AAGAAGGTAG
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
100 2 0.02
101 35 0.31
102 65 0.58
103 6 0.05
104 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (101 bp):
CACAAGTGTAGTACTATGTGCAGGCTACTATGTGTTCAAAATGCTTTTAGTCACATGTGTAGTAC
TAAGTGAAAGCCACTACGTGTACAAAATGCTTAGGT
Found at i:66884881 original size:40 final size:40
Alignment explanation
Indices: 66884836--66885003 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
66884826 CGGAATACAA
66884836 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
66884876 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
66884916 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
66884956 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
66884996 CCGGATAT
1 CCGGATAT
66885004 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:66890895 original size:47 final size:47
Alignment explanation
Indices: 66890827--66891043 Score: 362
Period size: 47 Copynumber: 4.6 Consensus size: 47
66890817 CCTGTATATA
* *
66890827 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
66890874 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
66890921 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
66890968 TTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 -TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
66891016 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
66891044 CGAAATGTGT
Statistics
Matches: 162, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 117 0.72
48 45 0.28
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:66891008 original size:95 final size:94
Alignment explanation
Indices: 66890826--66891043 Score: 364
Period size: 95 Copynumber: 2.3 Consensus size: 94
66890816 ACCTGTATAT
* *
66890826 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
66890891 AATGGCCAATGTGATGAATGTGAACATGC
66 AATGGCCAATGTGATGAATGTGAACATGC
*
66890920 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTTATGTGTGATAAGGCC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG-TATGTGTGATAAGGCC
*
66890985 GAATGGCCAATGTGATGAATGTGAACATGT
65 GAATGGCCAATGTGATGAATGTGAACATGC
* * *
66891015 ATATATGTGGTAAGGCCGAATGGCTAATG
1 ATATGTGTGATAAGGCCGAATGGCCAATG
66891044 CGAAATGTGT
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 45 0.39
95 70 0.61
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (94 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
AATGGCCAATGTGATGAATGTGAACATGC
Found at i:66891069 original size:95 final size:92
Alignment explanation
Indices: 66890801--66891052 Score: 335
Period size: 95 Copynumber: 2.7 Consensus size: 92
66890791 TTAGGATTTT
*
66890801 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCAATGTGA-GAATGTG
*
66890866 AACATGTGTATGTGTGATAAGGCCGAATGGCCA
61 AACATG-ATATGTGTGATAAGGCCGAATGGCCA
** *
66890899 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACA
*
66890964 TGCGTTATGTGTGATAAGGCCGAATGGCCA
65 T--GATATGTGTGATAAGGCCGAATGGCCA
* * *
66890994 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AATGTG
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGAGAATGTG
66891053 TATGAGATAG
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
93 6 0.04
94 39 0.28
95 72 0.51
96 5 0.04
98 19 0.13
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (92 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGAGAATGTGAACAT
GATATGTGTGATAAGGCCGAATGGCCA
Found at i:66891083 original size:46 final size:46
Alignment explanation
Indices: 66891017--66891106 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
66891007 GAACATGTAT
* * *
66891017 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
66891063 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
66891107 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:66891115 original size:2 final size:2
Alignment explanation
Indices: 66891108--66891134 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
66891098 GTATGAGATG
66891108 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
66891135 TGTGGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66894456 original size:29 final size:29
Alignment explanation
Indices: 66894327--66894457 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
66894317 TACTCGATTT
** * *
66894327 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
66894356 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
66894385 CGCACACTTAGTGCCATATATTTCCA-CA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
66894413 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
66894442 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66894458 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 28 0.33
29 56 0.67
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:66900918 original size:29 final size:29
Alignment explanation
Indices: 66900884--66900958 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66900874 TACTCGATTT
* *
66900884 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
* * * *
66900913 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
66900942 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
66900959 ATATTTCCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:66900975 original size:29 final size:29
Alignment explanation
Indices: 66900942--66901016 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
66900932 CCTTCGAGCT
66900942 CGCACACTTAGTGCCATATATTTCCAACA
1 CGCACACTTAGTGCCATATATTTCCAACA
* *
66900971 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAACA
66901000 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
66901017 CTCGTCACCG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAACA
Found at i:66907192 original size:40 final size:40
Alignment explanation
Indices: 66907147--66907314 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
66907137 CGGAATACAA
66907147 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
66907187 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
66907227 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
66907267 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
66907307 CCGGATAT
1 CCGGATAT
66907315 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:66910884 original size:40 final size:40
Alignment explanation
Indices: 66910786--66910965 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
66910776 TCGAATGGTG
* * *
66910786 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
66910827 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * * *
66910867 ACCGGGTTAAGTACCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
66910907 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66910948 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
66910966 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
40 84 0.75
41 28 0.25
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66910925 original size:80 final size:81
Alignment explanation
Indices: 66910787--66910965 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 81
66910777 CGAATGGTGT
* * * *
66910787 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTACCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
66910852 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * * *
66910868 CCGGGTTAAGTACCGAAGGCATTCGTG-TGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTACCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * * *
66910931 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
* *
66910948 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTACCGAAG
66910966 ACAATCGAGC
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.01
80 57 0.70
81 23 0.28
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTACCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:66910983 original size:40 final size:40
Alignment explanation
Indices: 66910908--66910991 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
66910898 GTTATTAAAT
* * *
66910908 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* *
66910948 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCACTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
66910988 CCGG
1 CCGG
66910992 TTAAATTCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:66910990 original size:80 final size:80
Alignment explanation
Indices: 66910821--66910991 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
66910811 GTGCTAAGTG
* * * *
66910821 ACTAAATCCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTACCGAAG
1 ACTAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTACCGAAG
* * * * *
66910886 GCATTCGTGTGAGTT
66 ACAATCGAGCGAGTC
* * * * * *
66910901 ATTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTACCGAA
66910965 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTC
*
66910981 ACTATATCCGG
1 ACTAAATCCGG
66910992 TTAAATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
79 1 0.01
80 72 0.99
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTACCGAAG
ACAATCGAGCGAGTC
Found at i:66913681 original size:10 final size:10
Alignment explanation
Indices: 66913663--66913709 Score: 76
Period size: 10 Copynumber: 4.7 Consensus size: 10
66913653 GGGGAGTTAC
*
66913663 ATTTGTTGGG
1 ATTTCTTGGG
66913673 ATTTCTTGGG
1 ATTTCTTGGG
66913683 ATTTCTTGGG
1 ATTTCTTGGG
*
66913693 ATTACTTGGG
1 ATTTCTTGGG
66913703 ATTTCTT
1 ATTTCTT
66913710 CCAAAGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.13, C:0.09, G:0.28, T:0.51
Consensus pattern (10 bp):
ATTTCTTGGG
Found at i:66928577 original size:15 final size:15
Alignment explanation
Indices: 66928557--66928585 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
66928547 TTGGAACCTA
66928557 TCTCTCATATATATC
1 TCTCTCATATATATC
66928572 TCTCTCATATATAT
1 TCTCTCATATATAT
66928586 TCAAACGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
TCTCTCATATATATC
Found at i:66929173 original size:97 final size:94
Alignment explanation
Indices: 66929041--66929233 Score: 341
Period size: 97 Copynumber: 2.0 Consensus size: 94
66929031 GTTGCACTAA
*
66929041 ATGTTAACTTTGTATTTTGAGATACTTTAGAGTTTTATGTTAGTTTCTTGTTCTTTATTTTTTTT
1 ATGTTAACTTAGTATTTTGAGATACTTTAGAGTTTTATGTTAGTTTCTTGTTCTTTA---TTTTT
66929106 TTCTATTTATCATTGGACTAACAATTTTCTTT
63 TTCTATTTATCATTGGACTAACAATTTTCTTT
*
66929138 ATGTTAACTTAGTATTTTGAGATACTTTGGAGTTTTATGTTAGTTTCTTGTTCTTTATTTTTTTC
1 ATGTTAACTTAGTATTTTGAGATACTTTAGAGTTTTATGTTAGTTTCTTGTTCTTTATTTTTTTC
66929203 TATTTATCATTGGACTAACAATTTTCTTT
66 TATTTATCATTGGACTAACAATTTTCTTT
66929232 AT
1 AT
66929234 ATCTTAAGCT
Statistics
Matches: 94, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
94 39 0.41
97 55 0.59
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (94 bp):
ATGTTAACTTAGTATTTTGAGATACTTTAGAGTTTTATGTTAGTTTCTTGTTCTTTATTTTTTTC
TATTTATCATTGGACTAACAATTTTCTTT
Found at i:66930777 original size:14 final size:14
Alignment explanation
Indices: 66930732--66930777 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
66930722 ATCGAGGAAG
66930732 CAACGGTCATATTC
1 CAACGGTCATATTC
* * *
66930746 TAATGGTCATATTG
1 CAACGGTCATATTC
*
66930760 CAACGGTCACATTC
1 CAACGGTCATATTC
66930774 CAAC
1 CAAC
66930778 AATTATATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (14 bp):
CAACGGTCATATTC
Found at i:66931623 original size:8 final size:7
Alignment explanation
Indices: 66931607--66931639 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
66931597 ACTATTAAAA
66931607 TTATATT
1 TTATATT
66931614 TTATATT
1 TTATATT
66931621 TT-TATT
1 TTATATT
66931627 TATATATT
1 T-TATATT
66931635 TTATA
1 TTATA
66931640 ATTAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATATT
Found at i:66931648 original size:21 final size:21
Alignment explanation
Indices: 66931608--66931649 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
66931598 CTATTAAAAT
* **
66931608 TATATTTTATATTTTTATTTA
1 TATATTTTATAATTAAATTTA
66931629 TATATTTTATAATTAAATTTA
1 TATATTTTATAATTAAATTTA
66931650 AATTTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATTTTATAATTAAATTTA
Found at i:66940222 original size:17 final size:19
Alignment explanation
Indices: 66940188--66940225 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
66940178 ATTGTTTTTA
66940188 TTAAGCAATAAGTATTATT
1 TTAAGCAATAAGTATTATT
*
66940207 TTAAG-AATAA-TTTTATT
1 TTAAGCAATAAGTATTATT
66940224 TT
1 TT
66940226 TTATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAAGCAATAAGTATTATT
Found at i:66940321 original size:2 final size:2
Alignment explanation
Indices: 66940314--66940351 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
66940304 ATATAATCTA
*
66940314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66940352 TTAGATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66944430 original size:23 final size:25
Alignment explanation
Indices: 66944404--66944455 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
66944394 ATTTTTTTTC
66944404 ATTTATTTAATGATATTT-TA-ATA
1 ATTTATTTAATGATATTTATATATA
* * *
66944427 ATTTTTTTTATGTTATTTATATATA
1 ATTTATTTAATGATATTTATATATA
66944452 ATTT
1 ATTT
66944456 TGGTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.62
24 2 0.08
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
ATTTATTTAATGATATTTATATATA
Found at i:66944431 original size:33 final size:34
Alignment explanation
Indices: 66944394--66944467 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
66944384 ATCATTTTGT
66944394 ATTTTTTTTCAT-TTATTTA-ATGAT-ATTTTAATA
1 ATTTTTTTT-ATGTTATTTATAT-ATAATTTTAATA
**
66944427 ATTTTTTTTATGTTATTTATATATAATTTTGGTA
1 ATTTTTTTTATGTTATTTATATATAATTTTAATA
66944461 ATTTTTT
1 ATTTTTT
66944468 AAACTCAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 2 0.06
33 18 0.50
34 16 0.44
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.66
Consensus pattern (34 bp):
ATTTTTTTTATGTTATTTATATATAATTTTAATA
Found at i:66945736 original size:20 final size:21
Alignment explanation
Indices: 66945696--66945738 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
66945686 GTATGAAAGG
66945696 ATATTTTATGAAAATTTAAAT
1 ATATTTTATGAAAATTTAAAT
66945717 ATATTTTAAT-AAAA-TTAAAT
1 ATATTTT-ATGAAAATTTAAAT
66945737 AT
1 AT
66945739 TTAAACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 11 0.52
22 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTTTATGAAAATTTAAAT
Found at i:66945898 original size:81 final size:80
Alignment explanation
Indices: 66945790--66945948 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 80
66945780 GATGAACATA
* * * *
66945790 TATTTCTTTTGTATATTGCTATTTCAATCTCCTCTAAATCTTTTTCCTTTCTACAAATACAAAGT
1 TATTTCTTTTGTATACTGCTATTTCAATCTCCTCT-AATCTTTTTCCTTTCGACAAACACAAAAT
*
66945855 TGTTTTAAACCTATAT
65 TCTTTTAAACCTATAT
*
66945871 TATTTCTTTTGTATGCTGCTATTTCAATCTCCTCTAATCTTTTTCCTTTCGACAAACACAAAATT
1 TATTTCTTTTGTATACTGCTATTTCAATCTCCTCTAATCTTTTTCCTTTCGACAAACACAAAATT
*
66945936 CTTTTTAACCTAT
66 CTTTTAAACCTAT
66945949 CTTCTAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 38 0.54
81 33 0.46
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (80 bp):
TATTTCTTTTGTATACTGCTATTTCAATCTCCTCTAATCTTTTTCCTTTCGACAAACACAAAATT
CTTTTAAACCTATAT
Found at i:66947032 original size:547 final size:547
Alignment explanation
Indices: 66945998--66948186 Score: 4369
Period size: 547 Copynumber: 4.0 Consensus size: 547
66945988 AATTTTGTGC
66945998 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
1 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
66946063 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66946128 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
131 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
66946193 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
196 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
66946258 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
261 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
66946323 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
326 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
66946388 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
391 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
66946453 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
456 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
66946518 TCTCAAGTCTGTCCAGAAGAGTAAAGG
521 TCTCAAGTCTGTCCAGAAGAGTAAAGG
66946545 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
1 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
66946610 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66946675 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
131 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
66946740 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
196 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
66946805 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
261 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
66946870 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
326 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
66946935 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
391 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
66947000 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
456 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
66947065 TCTCAAGTCTGTCCAGAAGAGTAAAGG
521 TCTCAAGTCTGTCCAGAAGAGTAAAGG
66947092 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
1 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
*
66947157 TATATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66947222 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
131 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
66947287 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
196 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
66947352 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
261 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
66947417 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
326 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
66947482 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
391 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
66947547 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
456 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
66947612 TCTCAAGTCTGTCCAGAAGAGTAAAGG
521 TCTCAAGTCTGTCCAGAAGAGTAAAGG
66947639 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
1 GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
66947704 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66 TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
66947769 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
131 CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
66947834 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
196 TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
66947899 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
261 GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
66947964 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
326 GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
66948029 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
391 TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
66948094 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
456 TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
66948159 TCTCAAGTCTGTCCAGAAGAGTAAAGG
521 TCTCAAGTCTGTCCAGAAGAGTAAAGG
66948186 G
1 G
66948187 GCTCAGGTTC
Statistics
Matches: 1640, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
547 1640 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (547 bp):
GACTTAATCCAATAACCATTAATAGGAATGCCAATGGACCGGAAGGACAGATTTTGCATATCATT
TTTATATCCTTTATCCAATAAATGTTGAGTCAAATGTCAACCAATAATCTAACATCTTCTAAGCT
CCAATAAATGATAATTAGACCCCTACACCATGCAATTAACACTTTGTTGAGGGGTCAATAAACAA
TGTGTTATAAGCGAAGGACCATTAAAATGACCAGCCATTTTGGTTATTAGTACATGGTGAACCAA
GTTGCTCTGACTTTCAAGTGTTCGTGTCGAACATCTTTATTAGACTCCTATTATGGCATGGGAAT
GGCATTACAAATCTTCAAAATACATAGAAACTTAGAAAGAAATGAAAACACCCATCTGGGTCACA
TATAACTATCCCACACTTGCATCTGAGTTAACATAAACGATGATCATCATCCTGTAATCTTACTT
TCAACAAGAGGGAATAATTTTTCTTAGACACGTACATGAAAGCTCCATGCAACTACCTGACAAAC
TCTCAAGTCTGTCCAGAAGAGTAAAGG
Found at i:66951587 original size:15 final size:16
Alignment explanation
Indices: 66951567--66951599 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
66951557 TATCAAAACT
*
66951567 TAAAGTTAAATTA-AA
1 TAAAGTCAAATTATAA
66951582 TAAAGTCAAATTATAA
1 TAAAGTCAAATTATAA
66951598 TA
1 TA
66951600 CATTTGCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAGTCAAATTATAA
Found at i:66952365 original size:21 final size:20
Alignment explanation
Indices: 66952328--66952374 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
66952318 TAAAATTTAC
66952328 AAATATATTTTTATTTATTAA
1 AAATATATTTTTATTTA-TAA
66952349 AAAT-TATTTTTATTT-TATA
1 AAATATATTTTTATTTATA-A
66952368 AAATATA
1 AAATATA
66952375 ATTAGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 5 0.21
20 13 0.54
21 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATATTTTTATTTATAA
Found at i:66952556 original size:22 final size:24
Alignment explanation
Indices: 66952528--66952572 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
66952518 TTGTTATTCC
66952528 TGCTAT-AAA-TAAAAATAAAAAT
1 TGCTATAAAAGTAAAAATAAAAAT
66952550 TGCTATAAAAGGTAAAAATAAAA
1 TGCTATAAAA-GTAAAAATAAAA
66952573 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
25 11 0.55
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (24 bp):
TGCTATAAAAGTAAAAATAAAAAT
Found at i:66953566 original size:24 final size:24
Alignment explanation
Indices: 66953534--66953582 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
66953524 ATCAGATTAC
66953534 CAGTCAAATCATGTCTTAAATCAA
1 CAGTCAAATCATGTCTTAAATCAA
66953558 CAGTCAAATCATGTCTTAAATCAA
1 CAGTCAAATCATGTCTTAAATCAA
66953582 C
1 C
66953583 CCATATCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (24 bp):
CAGTCAAATCATGTCTTAAATCAA
Found at i:66954113 original size:23 final size:23
Alignment explanation
Indices: 66954085--66954175 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
66954075 GAGGCATCAT
* *
66954085 AGAATACACCATAAAGGCTTTAC
1 AGAATACGCCACAAAGGCTTTAC
* * * * *
66954108 AAAATATGCCAGACAGGCTTTAT
1 AGAATACGCCACAAAGGCTTTAC
66954131 AGAATACGCCACAAAGGCTTTAC
1 AGAATACGCCACAAAGGCTTTAC
* *
66954154 AGAATAAGCCACAAAAGCTTTA
1 AGAATACGCCACAAAGGCTTTA
66954176 TAAAACATTA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCTTTAC
Found at i:66954174 original size:46 final size:46
Alignment explanation
Indices: 66954083--66954177 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 46
66954073 CAGAGGCATC
* * * * *
66954083 ATAGAATACACCATAAAGGCTTTACAAAATATGCCAGACAGGCTTT
1 ATAGAATACACCACAAAGGCTTTACAAAATAAGCCACAAAAGCTTT
* *
66954129 ATAGAATACGCCACAAAGGCTTTACAGAATAAGCCACAAAAGCTTT
1 ATAGAATACACCACAAAGGCTTTACAAAATAAGCCACAAAAGCTTT
66954175 ATA
1 ATA
66954178 AAACATTACG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (46 bp):
ATAGAATACACCACAAAGGCTTTACAAAATAAGCCACAAAAGCTTT
Found at i:66954721 original size:80 final size:80
Alignment explanation
Indices: 66954583--66954746 Score: 303
Period size: 80 Copynumber: 2.1 Consensus size: 80
66954573 TTATCATGTA
*
66954583 GTAAGCTTACAATACTTCATACACAAATACACTCATTAGCTATCAAAATAGACATCAACAATTGA
1 GTAACCTTACAATACTTCATACACAAATACACTCATTAGCTATCAAAATAGACATCAACAATTGA
66954648 TCTACCATTATAAAC
66 TCTACCATTATAAAC
*
66954663 GTAACCTTACAATACTTCATGCACAAATACACTCATTAGCTATCAAAATAGACATCAACAATTGA
1 GTAACCTTACAATACTTCATACACAAATACACTCATTAGCTATCAAAATAGACATCAACAATTGA
66954728 TCTACCATTATAAAC
66 TCTACCATTATAAAC
66954743 -TAAC
1 GTAAC
66954747 ATGCATGAGT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 4 0.05
80 78 0.95
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.27
Consensus pattern (80 bp):
GTAACCTTACAATACTTCATACACAAATACACTCATTAGCTATCAAAATAGACATCAACAATTGA
TCTACCATTATAAAC
Found at i:66962840 original size:34 final size:34
Alignment explanation
Indices: 66962797--66962864 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
66962787 TATACATCGT
66962797 GGAATCATCGATTAAATATAGGTAAGCTCATTAC
1 GGAATCATCGATTAAATATAGGTAAGCTCATTAC
66962831 GGAATCATCGATTAAATATAGGTAAGCTCATTAC
1 GGAATCATCGATTAAATATAGGTAAGCTCATTAC
66962865 ATCATAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (34 bp):
GGAATCATCGATTAAATATAGGTAAGCTCATTAC
Found at i:66972233 original size:66 final size:68
Alignment explanation
Indices: 66972157--66972343 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
66972147 TAGTACCACT
*
66972157 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
66972219 CACG
65 CACG
66972223 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
66972288 ATCACG
63 ATCACG
66972294 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
66972344 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:66972268 original size:71 final size:71
Alignment explanation
Indices: 66972180--66972343 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66972170 CGATTTGTCT
66972180 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66972245 CTTTCA
66 CTTTCA
66972251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66972316 CTTTCA
66 CTTTCA
66972322 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66972344 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66972381 original size:71 final size:70
Alignment explanation
Indices: 66972180--66972377 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
66972170 CGATTTGTCT
* * *
66972180 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66972245 CTTTCA
65 CTTTCA
* * *
66972251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66972316 CTTTCA
65 CTTTCA
* *
66972322 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
66972378 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66979329 original size:66 final size:68
Alignment explanation
Indices: 66979253--66979439 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
66979243 TAGTACCACT
*
66979253 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
66979315 CACG
65 CACG
66979319 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
66979384 ATCACG
63 ATCACG
66979390 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
66979440 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:66979364 original size:71 final size:71
Alignment explanation
Indices: 66979276--66979439 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66979266 CGATTTGTCT
66979276 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66979341 CTTTCA
66 CTTTCA
66979347 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66979412 CTTTCA
66 CTTTCA
66979418 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66979440 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66979477 original size:71 final size:70
Alignment explanation
Indices: 66979276--66979473 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
66979266 CGATTTGTCT
* * *
66979276 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66979341 CTTTCA
65 CTTTCA
* * *
66979347 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66979412 CTTTCA
65 CTTTCA
* *
66979418 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
66979474 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66993613 original size:44 final size:43
Alignment explanation
Indices: 66993546--66993677 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
66993536 ATAGCGATCA
* *
66993546 CCTTTATATAC-GAAGATCGATGGATTACCTGTCCCGGGCTAAAT
1 CCTTTATATACTGAA-ATCAATGGATTACCCGT-CCGGGCTAAAT
* *
66993590 CCTTTATATACTGAAATCAATGGATTACCCATCTGGGCTAAAT
1 CCTTTATATACTGAAATCAATGGATTACCCGTCCGGGCTAAAT
* ** * * *
66993633 CCATTCCATATTGAGATCAATGTATTACCCGTCCGGGCTAAAT
1 CCTTTATATACTGAAATCAATGGATTACCCGTCCGGGCTAAAT
66993676 CC
1 CC
66993678 ATTCCATCAC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
43 47 0.63
44 25 0.33
45 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
CCTTTATATACTGAAATCAATGGATTACCCGTCCGGGCTAAAT
Found at i:66996497 original size:31 final size:31
Alignment explanation
Indices: 66996462--66996524 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
66996452 CATACACAAG
66996462 TATACATTTTATACCATATCGAAGCATTAAT
1 TATACATTTTATACCATATCGAAGCATTAAT
66996493 TATACATTTTATACCATATCGAAGCATTAAT
1 TATACATTTTATACCATATCGAAGCATTAAT
66996524 T
1 T
66996525 TCATAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
TATACATTTTATACCATATCGAAGCATTAAT
Found at i:66996537 original size:27 final size:30
Alignment explanation
Indices: 66996462--66996537 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 30
66996452 CATACACAAG
* *
66996462 TATACATTTTATACCATATCGAAGCATTAAT
1 TATACA-TTAATAACATATCGAAGCATTAAT
* *
66996493 TATACATTTTATACCATATCGAAGCATTAAT
1 TATACA-TTAATAACATATCGAAGCATTAAT
66996524 T-T-CA-TAATAACATA
1 TATACATTAATAACATA
66996538 ATAATGAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 8 0.19
29 2 0.05
30 1 0.02
31 32 0.74
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (30 bp):
TATACATTAATAACATATCGAAGCATTAAT
Found at i:67004048 original size:43 final size:44
Alignment explanation
Indices: 67003952--67004098 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 44
67003942 AATCCTAGAT
** * * *
67003952 ATGGTCTTACATGTTATCAC-ATATC-GATGCCATTGTCCCAGAT
1 ATGGTCTTACATGAAATCTCAATA-CAGATGCCAATGTCCCAGAC
* * * * *
67003995 AGGGTTTTACATGAAAT-TGATTA-ATGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGAAATCTCAATACA-GATGCCAATGTCCCAGAC
* *
67004038 ATGGTCTTACACGTAATCTCAATACA-ATGCCAATGTCCCAGAC
1 ATGGTCTTACATGAAATCTCAATACAGATGCCAATGTCCCAGAC
*
67004081 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGAAATC
67004099 ACATCTCGGT
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
43 76 0.94
44 4 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (44 bp):
ATGGTCTTACATGAAATCTCAATACAGATGCCAATGTCCCAGAC
Found at i:67019196 original size:18 final size:18
Alignment explanation
Indices: 67019156--67019213 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
67019146 CTTGGCCTAT
*
67019156 TGCAGTAACAGTAAAAAG
1 TGCAGTAACAGTAATAAG
* * *
67019174 GGCAGTAACAATAATCAG
1 TGCAGTAACAGTAATAAG
* *
67019192 TGCAGTAATAGTAATTAG
1 TGCAGTAACAGTAATAAG
67019210 TGCA
1 TGCA
67019214 TTAAAAGTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAATAAG
Found at i:67024315 original size:40 final size:40
Alignment explanation
Indices: 67024236--67024403 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
67024226 CAGATGATAA
* * **
67024236 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * *
67024276 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
* *
67024316 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* *
67024356 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
67024396 TC-GGCTAA
1 CCGGGCTAA
67024404 ATCCTGAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 8 0.07
40 99 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:67024394 original size:80 final size:79
Alignment explanation
Indices: 67024236--67024403 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
67024226 CAGATGATAA
* * *
67024236 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
67024301 TGCTAGTGATTATAT
65 TGCGAGTGATTATAT
* *
67024316 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCG-GCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
67024381 TGCGAGTTG-TTATAT
65 TGCGAG-TGATTATAT
*
67024396 TCGGCTAA
1 CCGGCTAA
67024404 ATCCTGAAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 5 0.06
80 71 0.90
81 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCGAGTGATTATAT
Found at i:67024680 original size:22 final size:22
Alignment explanation
Indices: 67024640--67024681 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
67024630 GAATGTGCAT
*
67024640 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
67024662 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
67024682 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:67025867 original size:40 final size:40
Alignment explanation
Indices: 67025823--67025936 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
67025813 AAAAATAGTC
* *
67025823 TGGGCCTAAGCCCATATCAGTAACAGTGACA-ACATCAGTT
1 TGGGCCTTAGCCCAT-TCAGTAACAGTAACAGACATCAGTT
* * * * **
67025863 TGGGCTTTAGCCCATCTCAAT-ACAGAAACAGTCATGTGTT
1 TGGGCCTTAGCCCAT-TCAGTAACAGTAACAGACATCAGTT
67025903 TGGGCCTTAGCCCATTGCAGTAACAGTAAACAGA
1 TGGGCCTTAGCCCATT-CAGTAACAGT-AACAGA
67025937 GCAGTAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
39 8 0.14
40 40 0.70
41 4 0.07
42 5 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (40 bp):
TGGGCCTTAGCCCATTCAGTAACAGTAACAGACATCAGTT
Found at i:67025960 original size:18 final size:18
Alignment explanation
Indices: 67025918--67025981 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
67025908 CTTAGCCCAT
* * *
67025918 TGCAGTAACAGTAAACAG
1 TGCAGTAATAATAATCAG
* *
67025936 AGCAGTAATTATAATCAG
1 TGCAGTAATAATAATCAG
* *
67025954 TGTAGTAACAATAATCAG
1 TGCAGTAATAATAATCAG
67025972 TGCAGTAATA
1 TGCAGTAATA
67025982 GTTTTAACAG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (18 bp):
TGCAGTAATAATAATCAG
Found at i:67029461 original size:18 final size:18
Alignment explanation
Indices: 67029432--67029479 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
67029422 CATGACCCAT
*
67029432 TGCAGGAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
*
67029450 AT-CAGTAACAGTAATCAG
1 -TGCAGTAACAGTAAACAG
67029468 TGCAGTAACAGT
1 TGCAGTAACAGT
67029480 TTTAACAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:67029947 original size:27 final size:27
Alignment explanation
Indices: 67029863--67029949 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
67029853 GGCATTTTAG
*
67029863 TCATCTTACCACATAAGGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAACAA
* *
67029890 CCATTTTACCATATAAGGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAACAA
* * * *
67029917 TCATTTTACCACCTAAGGGAAAAATAG
1 TCATTTTACCACATAAGGGCAAAACAA
67029944 TCATTT
1 TCATTT
67029950 CATCAAATTG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.25
Consensus pattern (27 bp):
TCATTTTACCACATAAGGGCAAAACAA
Found at i:67032553 original size:30 final size:30
Alignment explanation
Indices: 67032517--67032647 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
67032507 GACAAGATTG
* * * * *
67032517 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
67032547 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
67032575 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
67032605 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
67032634 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
67032648 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Done.