Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 18
Found at i:322437 original size:22 final size:22
Alignment explanation
Indices: 322409--322457 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
322399 ATATATCCCC
322409 CAGTGCTAA-GACACATTAGTAT
1 CAGTGCTAATG-CACATTAGTAT
* *
322431 CAGTGCTAATGCACTTTTGTAT
1 CAGTGCTAATGCACATTAGTAT
322453 CAGTG
1 CAGTG
322458 TTGAGGCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (22 bp):
CAGTGCTAATGCACATTAGTAT
Found at i:341249 original size:3 final size:3
Alignment explanation
Indices: 341243--341300 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
341233 CAGCAGCAGC
341243 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
341291 AGA AGA AGA A
1 AGA AGA AGA A
341301 TGAGGGTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:346508 original size:20 final size:19
Alignment explanation
Indices: 346483--346523 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
346473 AAAACACTTG
346483 GAGAGTGAATTCAGAATGTT
1 GAGAGTGAATTCAGAA-GTT
* *
346503 GAGAGTGAGTTGAGAAGTT
1 GAGAGTGAATTCAGAAGTT
346522 GA
1 GA
346524 ATTTAGCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.02, G:0.37, T:0.27
Consensus pattern (19 bp):
GAGAGTGAATTCAGAAGTT
Found at i:349024 original size:14 final size:14
Alignment explanation
Indices: 349007--349036 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
348997 TACCATTGTT
349007 CTCATATAGATCTC
1 CTCATATAGATCTC
*
349021 CTCATCTAGATCTC
1 CTCATATAGATCTC
349035 CT
1 CT
349037 TTCAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
CTCATATAGATCTC
Found at i:350888 original size:22 final size:22
Alignment explanation
Indices: 350857--350899 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
350847 ATTTAAAAAT
350857 ACTAACATTTATATAGCTATTA
1 ACTAACATTTATATAGCTATTA
*
350879 ACTAATATTTATATAGCTATT
1 ACTAACATTTATATAGCTATT
350900 TAATAAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (22 bp):
ACTAACATTTATATAGCTATTA
Found at i:352180 original size:20 final size:19
Alignment explanation
Indices: 352155--352195 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
352145 AAAATACTTG
352155 GAGAGTGAATTCAGAATGTT
1 GAGAGTGAATTCAGAA-GTT
* *
352175 GAGAGTGAGTTGAGAAGTT
1 GAGAGTGAATTCAGAAGTT
352194 GA
1 GA
352196 ATTTAGCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.02, G:0.37, T:0.27
Consensus pattern (19 bp):
GAGAGTGAATTCAGAAGTT
Found at i:352924 original size:16 final size:16
Alignment explanation
Indices: 352891--352926 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
352881 ATTACCCGAT
*
352891 CTGTTTTCAACTTAAC
1 CTGTTTTCAACCTAAC
*
352907 CTGTTTTCAACCTGAC
1 CTGTTTTCAACCTAAC
352923 CTGT
1 CTGT
352927 AAATGATCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (16 bp):
CTGTTTTCAACCTAAC
Found at i:353651 original size:17 final size:17
Alignment explanation
Indices: 353629--353662 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
353619 TCCATATTAA
353629 TTCATGTTGAATTGCAT
1 TTCATGTTGAATTGCAT
*
353646 TTCATGTTGCATTGCAT
1 TTCATGTTGAATTGCAT
353663 GTTAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.47
Consensus pattern (17 bp):
TTCATGTTGAATTGCAT
Found at i:353875 original size:3 final size:3
Alignment explanation
Indices: 353860--353919 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
353850 TTTGTCCGGG
* *
353860 TTA TTA ATA TTA TTA TTA ATA 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
353908 TTA TTA TT- TTA T
1 TTA TTA TTA TTA T
353920 GTAGGTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:354703 original size:25 final size:25
Alignment explanation
Indices: 354629--354708 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
354619 GTTTGAGATA
* *
354629 AGAAAAATAACGAGAAAAAGCAAAAC
1 AGAAAAATAACAAGAAAAAG-AAAAG
*
354655 A-AAAAA-AACAGAGAGAATCA-AAAAG
1 AGAAAAATAACA-AGA-AA-AAGAAAAG
354680 AGAAAAATAACAAGAAAAAGAAAAG
1 AGAAAAATAACAAGAAAAAGAAAAG
354705 AGAA
1 AGAA
354709 GAGAGTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
24 4 0.09
25 24 0.55
26 11 0.25
27 5 0.11
ACGTcount: A:0.72, C:0.07, G:0.16, T:0.04
Consensus pattern (25 bp):
AGAAAAATAACAAGAAAAAGAAAAG
Found at i:355658 original size:30 final size:32
Alignment explanation
Indices: 355564--355703 Score: 129
Period size: 30 Copynumber: 4.7 Consensus size: 32
355554 TGTTTTTGCC
355564 ATTTTAGTCCTTTAAGTTTCTAT-TTT-TACT
1 ATTTTAGTCCTTTAAGTTTCTATGTTTGTACT
*
355594 ATTTTAG-CCATTTAAGTTTCTATTTTTGT-C-
1 ATTTTAGTCC-TTTAAGTTTCTATGTTTGTACT
*
355624 ATTTTAGTCCTTTAA-ATTC-ATGTTTGTACT
1 ATTTTAGTCCTTTAAGTTTCTATGTTTGTACT
* * * *
355654 ATTTTGGTCCTTTCAG-TT-TATGTTTTTATT
1 ATTTTAGTCCTTTAAGTTTCTATGTTTGTACT
* *
355684 ATTTTGGTCC-TCAAGTTTCT
1 ATTTTAGTCCTTTAAGTTTCT
355704 GTTAATCCTA
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
28 7 0.08
29 9 0.10
30 68 0.74
31 7 0.08
32 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.57
Consensus pattern (32 bp):
ATTTTAGTCCTTTAAGTTTCTATGTTTGTACT
Found at i:355680 original size:60 final size:60
Alignment explanation
Indices: 355554--355694 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 60
355544 TTCCATTTTT
* * *
355554 TGTTTTTGCCATTTTAGTCCTTTAAGTTTCTATTTTTACTATTTTAGCCATTTAAGTTTC
1 TGTTTTTGTCATTTTAGTCCTTTAAGATTCTATTTTTACTATTTTAGCCATTTAAGTTTA
* * *
355614 TATTTTTGTCATTTTAGTCCTTTAA-ATTC-ATGTTTGTACTATTTTGGTCC-TTTCAGTTTA
1 TGTTTTTGTCATTTTAGTCCTTTAAGATTCTAT-TTT-TACTATTTTAG-CCATTTAAGTTTA
* * *
355674 TGTTTTTATTATTTTGGTCCT
1 TGTTTTTGTCATTTTAGTCCT
355695 CAAGTTTCTG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.03
59 6 0.09
60 58 0.85
61 2 0.03
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.58
Consensus pattern (60 bp):
TGTTTTTGTCATTTTAGTCCTTTAAGATTCTATTTTTACTATTTTAGCCATTTAAGTTTA
Found at i:360812 original size:16 final size:16
Alignment explanation
Indices: 360791--360821 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
360781 CTCACAGATT
360791 AACATATACATACATC
1 AACATATACATACATC
360807 AACATATACATACAT
1 AACATATACATACAT
360822 GACACATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (16 bp):
AACATATACATACATC
Found at i:361698 original size:40 final size:40
Alignment explanation
Indices: 361643--361748 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 40
361633 TGGCCTACCG
*
361643 TCCTCATCGCGTAGGAACCGTGTCATCCCC-CAACCAGACA
1 TCCTCATCACGTAGGAACCGTGTCA-CCCCACAACCAGACA
* * * *
361683 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAATCAGGCA
1 TCCTCATCACGTAGGAACCGTGTCACCCC---ACAACCAGACA
*
361726 TCATCATCACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAACCGTGT
361749 TATCATTCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 4 0.07
40 23 0.42
43 28 0.51
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCACCCCACAACCAGACA
Found at i:361864 original size:131 final size:131
Alignment explanation
Indices: 361627--361885 Score: 356
Period size: 131 Copynumber: 2.0 Consensus size: 131
361617 CCATTATCCT
* * * * *
361627 TAAAGATGGCCTACCGTCCTCATCGCGTAGGAACCGTGTCATCCCCCAACCAGACATCCTCATCA
1 TAAAGATGGCCTACCGTCCTCATCACGTAAGAACCGTGTCATCACCCAACCAAACATCATCATCA
* * * *
361692 CGTAGGAGCCGTGTCACCCCTAGATAATCAGGCATCATCATCACGTAGGAACCGTGTTATCATTC
66 CGTAGGAGCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAGTTATCATTC
361757 C
131 C
* * *
361758 TAAAGATGGCCTGCCGTCCTCATCACGTAAGAACCGTGTCATCACCCGACCAAACCTCATCATCA
1 TAAAGATGGCCTACCGTCCTCATCACGTAAGAACCGTGTCATCACCCAACCAAACATCATCATCA
* * * * * *
361823 TGTAGGATCCGTGTCACCCATAGATAACCAGTCATCCTCATCGCATAGGAACTGAGTTATCAT
66 CGTAGGAGCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAGTTATCAT
361886 CATTCCTAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 110 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (131 bp):
TAAAGATGGCCTACCGTCCTCATCACGTAAGAACCGTGTCATCACCCAACCAAACATCATCATCA
CGTAGGAGCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAGTTATCATTC
C
Found at i:361955 original size:134 final size:131
Alignment explanation
Indices: 361627--361974 Score: 326
Period size: 131 Copynumber: 2.6 Consensus size: 131
361617 CCATTATCCT
* * * * * * * * * *
361627 TAAAGATGGCCTA-CCGTCCTCATCGCGTAGGAACCGTGTCATCCCCCAACCAGACATCCTCATC
1 TAAAGATGGCC-AGACGTCCTCATCACATAAGAACCGAGTCATCACCCGACCAAACCTCATCATC
* * * * *
361691 ACGTAGGAGCCGTGTCACCCCTAGATAATCAGGCATCATCATCACGTAGGAACCGTGTTATCATT
65 ACGTAGGATCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAGTTATCATT
361756 CC
130 CC
* * * *
361758 TAAAGATGGCCTGCCGTCCTCATCACGTAAGAACCGTGTCATCACCCGACCAAACCTCATCATCA
1 TAAAGATGGCCAGACGTCCTCATCACATAAGAACCGAGTCATCACCCGACCAAACCTCATCATCA
* * * * *
361823 TGTAGGATCCGTGTCACCCATAGATAACCAGTCATCCTCATCGCATAGGAACTGAGTTATCATCA
66 CGTAGGATCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAG-T-T-ATCA
361888 TTCC
128 TTCC
* * * * * * *
361892 TAAAGTTGGCCAGAAC-TCTTCATCACATATGAGCCGAGTCATC-CACCGACCATATCTCTTCAT
1 TAAAGATGGCCAG-ACGTCCTCATCACATAAGAACCGAGTCATCAC-CCGACCAAACCTCATCAT
361955 CACGTAGGAGT-CGTGTCACC
64 CACGTAGGA-TCCGTGTCACC
361975 TTTAGGCGAC
Statistics
Matches: 180, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
131 102 0.57
132 1 0.01
133 2 0.01
134 73 0.41
135 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (131 bp):
TAAAGATGGCCAGACGTCCTCATCACATAAGAACCGAGTCATCACCCGACCAAACCTCATCATCA
CGTAGGATCCGTGTCACCCATAGATAACCAGGCATCATCATCACATAGGAACCGAGTTATCATTC
C
Found at i:362224 original size:28 final size:29
Alignment explanation
Indices: 362163--362227 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
362153 AAAATATTAA
* * *
362163 TATATTATAATTATTATTATTTACTATTG
1 TATATTTTTATTAATATTATTTACTATTG
362192 T-TATTTTTATTAATATTATTTAC-ATCT-
1 TATATTTTTATTAATATTATTTACTAT-TG
362219 TATATTTTT
1 TATATTTTT
362228 GTAGGCTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 27 0.87
29 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (29 bp):
TATATTTTTATTAATATTATTTACTATTG
Found at i:362866 original size:42 final size:41
Alignment explanation
Indices: 362811--362896 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 41
362801 ATTCGGGTTT
* *
362811 GAGAGAAGAAAAAA-ACGAGAAAA-AGTAAAACAAAGAAAAATA
1 GAGAGAAGAAAAAAGAC-A-AAAATAATAAAAAAAAGAAAAA-A
**
362853 GAGAGAATCAAAAAGACAAAAATAATAAAAAAAAGAAAAAA
1 GAGAGAAGAAAAAAGACAAAAATAATAAAAAAAAGAAAAAA
362894 GAG
1 GAG
362897 TATAAGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
41 8 0.21
42 28 0.74
43 2 0.05
ACGTcount: A:0.72, C:0.05, G:0.17, T:0.06
Consensus pattern (41 bp):
GAGAGAAGAAAAAAGACAAAAATAATAAAAAAAAGAAAAAA
Found at i:363708 original size:29 final size:29
Alignment explanation
Indices: 363675--363765 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
363665 CTCTGATTTA
363675 TTTTGTAATTA-ATGTTTAGCCCTTTAAGT
1 TTTTGTAATTACAT-TTTAGCCCTTTAAGT
** *
363704 TTTTGTTTTTACCATTTTAGTCCTTTAAGT
1 TTTTGTAATTA-CATTTTAGCCCTTTAAGT
** *
363734 TTCTT-TTTTTACTATTTTAGCCATTTAAGT
1 TT-TTGTAATTAC-ATTTTAGCCCTTTAAGT
363764 TT
1 TT
363766 CTATTTTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
29 10 0.19
30 39 0.74
31 4 0.08
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (29 bp):
TTTTGTAATTACATTTTAGCCCTTTAAGT
Found at i:363729 original size:30 final size:30
Alignment explanation
Indices: 363689--363833 Score: 123
Period size: 30 Copynumber: 4.8 Consensus size: 30
363679 GTAATTAATG
*
363689 TTTAGCCCTTTAAGTTTTTGTTTTTACCAT
1 TTTAGTCCTTTAAGTTTTTGTTTTTACCAT
*
363719 TTTAGTCCTTTAAGTTTCTT-TTTTTACTAT
1 TTTAGTCCTTTAAGTTT-TTGTTTTTACCAT
* * **
363749 TTTAG-CCATTTAAGTTTCTATTTTTGTCAT
1 TTTAGTCC-TTTAAGTTTTTGTTTTTACCAT
** * * * *
363779 TTTAGTTATCTAAATTCTTGTTTTTACTAT
1 TTTAGTCCTTTAAGTTTTTGTTTTTACCAT
* * *
363809 TTTGGTCCTTTGAGTTTATGTTTTT
1 TTTAGTCCTTTAAGTTTTTGTTTTT
363834 GTTATTTTTG
Statistics
Matches: 87, Mismatches: 24, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
29 3 0.03
30 82 0.94
31 2 0.02
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTTTGTTTTTACCAT
Found at i:363763 original size:60 final size:59
Alignment explanation
Indices: 363689--363833 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 59
363679 GTAATTAATG
* * * *
363689 TTTAGCCCTTTAAGTTTTTGTTTTTACCATTTTAGTCCTTTAAGTTTCTT-TTTTTACTAT
1 TTTAG-CCTTTAAGTTTATGTTTTTACCATTTTAGTCATCTAA-ATTCTTGTTTTTACTAT
* * ** *
363749 TTTAGCCATTTAAGTTTCTATTTTTGTCATTTTAGTTATCTAAATTCTTGTTTTTACTAT
1 TTTAGCC-TTTAAGTTTATGTTTTTACCATTTTAGTCATCTAAATTCTTGTTTTTACTAT
* *
363809 TTTGGTCCTTTGAGTTTATGTTTTT
1 TTTAG-CCTTTAAGTTTATGTTTTT
363834 GTTATTTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
59 7 0.10
60 61 0.87
61 2 0.03
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (59 bp):
TTTAGCCTTTAAGTTTATGTTTTTACCATTTTAGTCATCTAAATTCTTGTTTTTACTAT
Found at i:363773 original size:22 final size:22
Alignment explanation
Indices: 363745--363790 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
363735 TCTTTTTTTA
*
363745 CTATTTTAGCCATTTAAGTT-T
1 CTATTTTTGCCATTTAAGTTAT
* *
363766 CTATTTTTGTCATTTTAGTTAT
1 CTATTTTTGCCATTTAAGTTAT
363788 CTA
1 CTA
363791 AATTCTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (22 bp):
CTATTTTTGCCATTTAAGTTAT
Found at i:363840 original size:30 final size:28
Alignment explanation
Indices: 363797--363878 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 28
363787 TCTAAATTCT
*
363797 TGTTTTTACTATTTTGGTCCTTTGAGTTTA
1 TGTTTTT-TTATTTTGGTCCTTTG-GTTTA
* ** *
363827 TGTTTTTGTTATTTTTGTCCTCAGGTTTC
1 TGTTTTT-TTATTTTGGTCCTTTGGTTTA
*
363856 TGTTAATTTTATTTTGGTCCTTT
1 TGTT-TTTTTATTTTGGTCCTTT
363879 AAATTTTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (28 bp):
TGTTTTTTTATTTTGGTCCTTTGGTTTA
Found at i:363985 original size:15 final size:16
Alignment explanation
Indices: 363958--363995 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
363948 TTATTTCGCA
363958 TATTTCTATTTGTATT
1 TATTTCTATTTGTATT
363974 TATTTCTA-TTGTATT
1 TATTTCTATTTGTATT
*
363989 TCTTTCT
1 TATTTCT
363996 TTAAATATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (16 bp):
TATTTCTATTTGTATT
Found at i:370349 original size:23 final size:23
Alignment explanation
Indices: 370323--370385 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
370313 ATATAACCAC
370323 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
370346 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
370369 TACCTATTACATCATAT
1 TACCTATTACATTATAT
370386 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:370571 original size:30 final size:29
Alignment explanation
Indices: 370531--370597 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
370521 TCATTTGCAC
* * *
370531 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
370561 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
370590 AATAATAT
1 AA-AATAT
370598 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:370763 original size:430 final size:430
Alignment explanation
Indices: 369963--371448 Score: 2828
Period size: 430 Copynumber: 3.5 Consensus size: 430
369953 TATTACATTA
*
369963 TATTATATTAAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
370028 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
370093 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
370158 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
370223 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
370288 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
370353 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
370393 TATTATATTTAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
370458 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
370523 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
370588 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* * *
370653 TTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAATTATGGACATTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
370718 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
370783 TACATTATATAAGCGCTACCTATTACATCATATGTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
370823 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
370888 TTATGTTTCAAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
370953 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
371018 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
371083 TTAAAACTCACTTAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
371148 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
371213 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
371253 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
371318 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
371383 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
371448 A
196 A
371449 CAACATTAAC
Statistics
Matches: 1032, Mismatches: 24, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
430 1032 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:370779 original size:23 final size:23
Alignment explanation
Indices: 370753--370815 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
370743 ATATAACCAC
370753 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
370776 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
370799 TACCTATTACATCATAT
1 TACCTATTACATTATAT
370816 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:371209 original size:23 final size:23
Alignment explanation
Indices: 371183--371245 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
371173 ATATAACCAC
371183 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
371206 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
371229 TACCTATTACATCATAT
1 TACCTATTACATTATAT
371246 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:371722 original size:39 final size:39
Alignment explanation
Indices: 371668--371753 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
371658 CAAGTTGTAG
*
371668 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
371707 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
371746 ATTTTGAT
1 ATTTTGAT
371754 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:372034 original size:18 final size:18
Alignment explanation
Indices: 372011--372047 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
372001 CGAAATATAT
372011 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
372029 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
372047 A
1 A
372048 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:372504 original size:23 final size:23
Alignment explanation
Indices: 372478--372540 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
372468 ATATAATCAC
372478 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
372501 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
372524 TACCTATTACATCATAT
1 TACCTATTACATTATAT
372541 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:372944 original size:25 final size:25
Alignment explanation
Indices: 372887--372952 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
372877 CACTCAAAAG
*
372887 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
372912 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
372937 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
372953 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:375729 original size:183 final size:183
Alignment explanation
Indices: 375420--376278 Score: 1531
Period size: 183 Copynumber: 4.7 Consensus size: 183
375410 TTAAAATTAC
* *
375420 CGATACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
375485 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
375550 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
375603 TGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
375668 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
375733 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCAGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
375786 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
375851 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
375916 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
375969 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAACTACCGACACAAT
1 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
376034 ATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
376099 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* * *
376152 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
* *
376216 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACTGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
376279 ATAGCATTGC
Statistics
Matches: 654, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
183 651 1.00
184 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:377788 original size:3 final size:3
Alignment explanation
Indices: 377780--377818 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
377770 ACTTGTTTGG
* *
377780 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
377819 TTTATCGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:377797 original size:12 final size:12
Alignment explanation
Indices: 377780--377872 Score: 54
Period size: 12 Copynumber: 8.2 Consensus size: 12
377770 ACTTGTTTGG
377780 ATCATCATCTTC
1 ATCATCATCTTC
377792 ATCATCA---TC
1 ATCATCATCTTC
*
377801 ATCATCATCGTC
1 ATCATCATCTTC
377813 ATCATC-T-TT-
1 ATCATCATCTTC
** *
377822 ATCGCCAGCTTC
1 ATCATCATCTTC
* *
377834 ATCGTCATCATC
1 ATCATCATCTTC
**
377846 ATGGTCATCTTC
1 ATCATCATCTTC
* *
377858 ATCGTCAGCTTC
1 ATCATCATCTTC
377870 ATC
1 ATC
377873 TTCTGCGACC
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
9 13 0.20
10 1 0.02
11 3 0.05
12 47 0.73
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:377843 original size:36 final size:36
Alignment explanation
Indices: 377796--377872 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
377786 ATCTTCATCA
* *
377796 TCATCATCATCATCGTCATCATCTTTATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* ** *
377832 TCATCGTCATCATCATGGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
377868 TCATC
1 TCATC
377873 TTCTGCGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.32, G:0.10, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:377871 original size:18 final size:18
Alignment explanation
Indices: 377814--377875 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
377804 ATCATCGTCA
* *
377814 TCATCTTTATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * *
377832 TCATCGTCATCATCATG-G
1 TCATCTTCATCGTCA-GCT
377850 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
377868 TCATCTTC
1 TCATCTTC
377876 TGCGACCGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:380024 original size:198 final size:199
Alignment explanation
Indices: 379334--380305 Score: 1795
Period size: 199 Copynumber: 4.9 Consensus size: 199
379324 TTTAAATTAG
379334 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
379399 ATTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
379464 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
379529 AAAA
196 AAAA
*
379533 TATCGACACAAACTATATTAGTGTCAACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
379598 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
379663 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTATGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
379728 AAAA
196 AAAA
*
379732 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
379797 ATTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
379862 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
379926 AAAA
196 AAAA
379930 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
379995 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
380060 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACATTGTTTTCCATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
380124 AAAA
196 AAAA
* *
380128 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
* * *
380193 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
380258 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
380306 GGCCATATTG
Statistics
Matches: 752, Mismatches: 19, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
198 312 0.41
199 402 0.53
200 38 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:380470 original size:19 final size:19
Alignment explanation
Indices: 380424--380472 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
380414 TTATATTCAC
*
380424 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
380443 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
380462 ATACAAAATTA
1 ATACAAAATTA
380473 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:382301 original size:33 final size:33
Alignment explanation
Indices: 382264--382329 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
382254 CATCTTAATA
*
382264 TCACCACTTAACACCCCAACTTCTTTCACCACT
1 TCACCACTCAACACCCCAACTTCTTTCACCACT
* * *
382297 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCACTCAACACCCCAACTTCTTTCACCACT
382330 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCACTCAACACCCCAACTTCTTTCACCACT
Found at i:382403 original size:21 final size:21
Alignment explanation
Indices: 382363--382427 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
382353 CCCCTTATGC
* *
382363 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
382384 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
** *
382405 CGATCAAGTTTCTCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
382426 CT
1 CT
382428 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:384664 original size:17 final size:18
Alignment explanation
Indices: 384642--384684 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
384632 ATATATCCGG
384642 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
384659 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
384679 TATCAT
1 TATCAT
384685 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:384702 original size:20 final size:19
Alignment explanation
Indices: 384647--384693 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
384637 TCCGGTATCA
384647 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
384666 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
384687 TTTTACC
1 TTTTACC
384694 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:384855 original size:20 final size:20
Alignment explanation
Indices: 384828--384874 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
384818 TCCGGTAACA
384828 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
384847 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
384868 TTTTACC
1 TTTTACC
384875 TGGTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:384918 original size:181 final size:182
Alignment explanation
Indices: 384614--385086 Score: 707
Period size: 181 Copynumber: 2.6 Consensus size: 182
384604 CGTACTTACG
*
384614 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
384679 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
384744 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
384795 AAAGTATCGACACTTTTAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
384860 TATCATATTTTTACCTGGTATATAGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
384925 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * ** *
384977 AAAGTACCGACACTTTAAATGTATCCGGCATCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
385041 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
385087 AATTTGGATC
Statistics
Matches: 262, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 166 0.63
182 95 0.36
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:394405 original size:41 final size:42
Alignment explanation
Indices: 394326--394407 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
394316 GACATCAGTA
* * * *
394326 AGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATC
1 AGTCTTTCAAGCAAGATGAATAAATCCTTCAGGCCATCTATC
* *
394368 AGTCTTTCAAGCAAGAT-AATAAGTCCTTCGGGCCATCTAT
1 AGTCTTTCAAGCAAGATGAATAAATCCTTCAGGCCATCTAT
394408 AAGATCTTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 19 0.56
42 15 0.44
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
AGTCTTTCAAGCAAGATGAATAAATCCTTCAGGCCATCTATC
Found at i:394589 original size:196 final size:197
Alignment explanation
Indices: 394240--394668 Score: 531
Period size: 196 Copynumber: 2.2 Consensus size: 197
394230 TGAAAATGAA
* * * * * *
394240 ATTTTTGAAAAGTTAGAAAGCGATTTCCAAAGTTTCTTAGCCAGTAAACTATTTCCCAAACTGGT
1 ATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCATAGCCAGTAAACTATTTCCAAAACTGAT
* *** * *
394305 AAATCCTTTGGGACATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATCAG
66 AAATACTCCAGGACATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCAGGTCATCTATAAG
* * * *
394370 TCTTTCAAGCAAGATAATAAGTCCTTCGGGCCATCTA-TAAGATCTTCGGGCAGAATGTTTTCAT
131 CCTTTCAAGCAAGATAATAAGTCCTTCGGGCCATC-AGTAAGACCTTCAGGCAGAATGTTTTCAC
394434 ATG
195 ATG
* * *
394437 ATTTTCGAAAAATGAGAAAGCGCTTTCCAAAGTTTCATA-CCAGTAAACTATTTCCAAAATTTAT
1 ATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCATAGCCAGTAAACTATTTCCAAAACTGAT
* * *
394501 AAGTACTCCAGGCCATTAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTC-GAGTCATCTATAA
66 AAATACTCCAGGACATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCAG-GTCATCTATAA
** * * * * * * *
394565 GCCTTTTGAGCGAGATGATAAGTCCTTTGGGCTATCAGTAAGACCTTTAGGTAGGATGTTTTCAC
130 GCCTTTCAAGCAAGATAATAAGTCCTTCGGGCCATCAGTAAGACCTTCAGGCAGAATGTTTTCAC
394630 ATG
195 ATG
*
394633 ATTTTCGAAAAATGAGAAAGTGATTTCCAAAGTTTC
1 ATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTC
394669 TCATTTAATG
Statistics
Matches: 197, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
195 2 0.01
196 161 0.82
197 34 0.17
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (197 bp):
ATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCATAGCCAGTAAACTATTTCCAAAACTGAT
AAATACTCCAGGACATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCAGGTCATCTATAAG
CCTTTCAAGCAAGATAATAAGTCCTTCGGGCCATCAGTAAGACCTTCAGGCAGAATGTTTTCACA
TG
Found at i:394873 original size:174 final size:175
Alignment explanation
Indices: 394583--394955 Score: 570
Period size: 174 Copynumber: 2.1 Consensus size: 175
394573 AGCGAGATGA
* * *
394583 TAAGTCCTTTGGGCTATCAGTAAGACCTTTAGGTAGGATGTTTTCACATGATTTTCGAAAAATGA
1 TAAGTCCTTTGGGCCATCAGTAAGACCTTCAGGTAGGATGTTTTCACATGATTTTCAAAAAATGA
** *
394648 GAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTCTAAAAATGAAATTTTTGAAACA-TAAGAA
66 GAAAGCAATTTCCAAAATTTCTCATTTAATGTTTTCTAAAAATGAAATTTTTGAAA-AGTAAGAA
*
394712 AGTGATTTCCAAAGTTTCTTA-CCAGTAAACTATTTCCAAAATTGG
130 AGTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGG
* * *
394757 TAAGTCCTTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAATGA
1 TAAGTCCTTTGGGCCATCAGTAAGACCTTCAGGTAGGATGTTTTCACATGATTTTCAAAAAATGA
* * * *
394822 TAAAGCAATTTCTAAAATTTTTCATTTAATGTTTTCTGAAAATGAAATTTTTGAAAAGTAAGAAA
66 GAAAGCAATTTCCAAAATTTCTCATTTAATGTTTTCTAAAAATGAAATTTTTGAAAAGTAAGAAA
*
394887 GTGATTTCCAAAGTTTCTTACCCAATAAGCTATTTCCAAAATTGG
131 GTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGG
* *
394932 TAAATCCTTTGGGCCATCAATAAG
1 TAAGTCCTTTGGGCCATCAGTAAG
394956 TCTTTCGAGC
Statistics
Matches: 178, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
173 1 0.01
174 135 0.76
175 42 0.24
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (175 bp):
TAAGTCCTTTGGGCCATCAGTAAGACCTTCAGGTAGGATGTTTTCACATGATTTTCAAAAAATGA
GAAAGCAATTTCCAAAATTTCTCATTTAATGTTTTCTAAAAATGAAATTTTTGAAAAGTAAGAAA
GTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGG
Found at i:395000 original size:42 final size:41
Alignment explanation
Indices: 394954--395033 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
394944 GCCATCAATA
* *
394954 AGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTTTC
1 AGTCTTTCGAGCAGGATGA-TAAATCCTTCGAGCCATCTTTC
* * *
394996 AGTCTTTTGAGCAGGATGATAAGTTCTTCGAGCCATCT
1 AGTCTTTCGAGCAGGATGATAAATCCTTCGAGCCATCT
395034 ATAAGACCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 16 0.48
42 17 0.52
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (41 bp):
AGTCTTTCGAGCAGGATGATAAATCCTTCGAGCCATCTTTC
Found at i:396003 original size:82 final size:82
Alignment explanation
Indices: 395862--396226 Score: 552
Period size: 82 Copynumber: 4.6 Consensus size: 82
395852 AGGCTTTAAA
395862 TTATTTCAATTTGAT-ACTACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTT
1 TTATTTCAATTTGATCA-TACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTT
395926 AGGCTTTAAATTTTTATT
65 AGGCTTTAAATTTTTATT
* * *
395944 TTATTTCAATTTGATCATATGAATTTTATAATTTAATATATATAAATATATAATTTATTAATTTA
1 TTATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTA
396009 GGCTTTAAATTTTTATT
66 GGCTTTAAATTTTTATT
* *
396026 TTATTTCAATTTGATCAT----A----A-AATTTAATATATACAACTATATAATGTATTAGTTTA
1 TTATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTA
* *
396082 CGCTTTAAATTTTTGTT
66 GGCTTTAAATTTTTATT
*
396099 TCATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTA
1 TTATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTA
* *
396164 GCCTTTAAAATTTTATT
66 GGCTTTAAATTTTTATT
*
396181 TTATTTCAATTTGATCCTACGAATTTTATAATTTAATATATATAAC
1 TTATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAAC
396227 GCTATATTTA
Statistics
Matches: 255, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
73 64 0.25
74 1 0.00
77 1 0.00
78 1 0.00
81 1 0.00
82 186 0.73
83 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.50
Consensus pattern (82 bp):
TTATTTCAATTTGATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTA
GGCTTTAAATTTTTATT
Found at i:396064 original size:155 final size:155
Alignment explanation
Indices: 395891--396196 Score: 522
Period size: 155 Copynumber: 2.0 Consensus size: 155
395881 CGAATTTTAT
* * *
395891 AATTTAATATATATAACTATATAATGTATTAATTTAGGCTTTAAATTTTTATTTTATTTCAATTT
1 AATTTAATATATACAACTATATAATGTATTAATTTACGCTTTAAATTTTTATTTCATTTCAATTT
* * * *
395956 GATCATATGAATTTTATAATTTAATATATATAAATATATAATTTATTAATTTAGGCTTTAAATTT
66 GATCATACGAATTTTATAATTTAATATATATAAATATATAATGTATTAATTTAGCCTTTAAAATT
396021 TTATTTTATTTCAATTTGATCATAA
131 TTATTTTATTTCAATTTGATCATAA
* *
396046 AATTTAATATATACAACTATATAATGTATTAGTTTACGCTTTAAATTTTTGTTTCATTTCAATTT
1 AATTTAATATATACAACTATATAATGTATTAATTTACGCTTTAAATTTTTATTTCATTTCAATTT
*
396111 GATCATACGAATTTTATAATTTAATATATATAACTATATAATGTATTAATTTAGCCTTTAAAATT
66 GATCATACGAATTTTATAATTTAATATATATAAATATATAATGTATTAATTTAGCCTTTAAAATT
396176 TTATTTTATTTCAATTTGATC
131 TTATTTTATTTCAATTTGATC
396197 CTACGAATTT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 141 1.00
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.51
Consensus pattern (155 bp):
AATTTAATATATACAACTATATAATGTATTAATTTACGCTTTAAATTTTTATTTCATTTCAATTT
GATCATACGAATTTTATAATTTAATATATATAAATATATAATGTATTAATTTAGCCTTTAAAATT
TTATTTTATTTCAATTTGATCATAA
Found at i:396264 original size:22 final size:21
Alignment explanation
Indices: 396237--396455 Score: 99
Period size: 22 Copynumber: 10.0 Consensus size: 21
396227 GCTATATTTA
396237 TATACTTTAATACTTTATATT
1 TATACTTTAATACTTTATATT
396258 GTATAC-TT-ATA-TTATATAGTT
1 -TATACTTTAATACTT-TATA-TT
396279 TAATACTTT-ATA-TTATATACTT
1 T-ATACTTTAATACTT-TATA-TT
396301 ATATAAC-TT-ATA-TTTAATATT
1 -TAT-ACTTTAATACTTT-ATATT
396322 TATA-TTTATATACTTTAATACTT
1 TATACTTTA-ATACTTT-ATA-TT
396345 TATA-TATGGT-ATACTTTAATATT
1 TATACT-T--TAATACTTT-ATATT
396368 TAATA-TTTAATAC-TTATATT
1 T-ATACTTTAATACTTTATATT
* *
396388 ATATAGTTTAATACTTTATAGTA
1 -TATACTTTAATACTTTATA-TT
*
396411 TATACTTTAATACTTATAACTTATA
1 TATACTTTAATACTT-T-A--TATT
396436 TATAC-TT-ATACTTTATATT
1 TATACTTTAATACTTTATATT
396455 T
1 T
396456 TATATATATA
Statistics
Matches: 168, Mismatches: 4, Indels: 53
0.75 0.02 0.24
Matches are distributed among these distances:
19 9 0.05
20 19 0.11
21 27 0.16
22 62 0.37
23 22 0.13
24 19 0.11
25 7 0.04
26 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TATACTTTAATACTTTATATT
Found at i:396269 original size:13 final size:14
Alignment explanation
Indices: 396246--397298 Score: 166
Period size: 14 Copynumber: 74.9 Consensus size: 14
396236 ATATACTTTA
*
396246 ATACTTTATATTGT
1 ATACTTTATATTAT
396260 ATAC-TTATATTAT
1 ATACTTTATATTAT
*
396273 ATAGTTTAATACTT-T
1 ATACTTT-ATA-TTAT
396288 ATA-TTATATACTTAT
1 ATACTT-TATA-TTAT
396303 ATAAC-TTATATT-T
1 AT-ACTTTATATTAT
396316 AATA-TTTATATT-T
1 -ATACTTTATATTAT
396329 ATA---TACT-TTA-
1 ATACTTTA-TATTAT
*
396339 ATACTTTATATATGGT
1 ATACTTTATAT-T-AT
396355 ATACTTTAATATT-T
1 ATACTTT-ATATTAT
396369 AATA-TTTAATACTTAT
1 -ATACTTT-ATA-TTAT
*
396385 AT--TATATAGTT-T
1 ATACTTTATA-TTAT
*
396397 AATACTTTATAGTAT
1 -ATACTTTATATTAT
396412 ATACTTTAATACTTAT
1 ATACTTT-ATA-TTAT
396428 A-AC-TTATATATACTT
1 ATACTTTATAT-TA--T
396443 ATACTTTATATTTTAT
1 ATACTTTATA--TTAT
*
396459 ATA-TATATATATAT
1 ATACTTTATAT-TAT
* * *
396473 ACACACTTATACT-T
1 ATAC-TTTATATTAT
396487 ATACTTTATATGTATAT
1 ATACTTTATA--T-TAT
396504 ATACTTATATACTT-T
1 ATACTT-TATA-TTAT
* *
396519 ATA-TTATATACTAG
1 ATACTT-TATATTAT
396533 A-ACTTTATATATAT
1 ATACTTTATAT-TAT
*
396547 ACACTTTATAGTTTAT
1 ATACTTTATA--TTAT
* *
396563 ATA-TATATATACACTT
1 ATACTTTATAT-TA--T
396579 ATACTTTATAGTTTAT
1 ATACTTTATA--TTAT
396595 ATAC-TTATATATAT
1 ATACTTTATAT-TAT
396609 ATAC-TTATACTT-T
1 ATACTTTATA-TTAT
* *
396622 TTA-TGTATATGTAT
1 ATACTTTATAT-TAT
396636 ATA---TACT-TT-T
1 ATACTTTA-TATTAT
*
396646 ATACTATATAGTTTAT
1 ATACTTTATA--TTAT
*
396662 ATAC-TTATACTTTT
1 ATACTTTATA-TTAT
396676 ATACTTTATATTAT
1 ATACTTTATATTAT
**
396690 ATACTAAACT-TTAT
1 ATACTTTA-TATTAT
*
396704 ATA-TATATA-TAT
1 ATACTTTATATTAT
*
396716 ATA-TATATATATAT
1 ATACTTTATAT-TAT
*
396730 ATA-TATATATATAT
1 ATACTTTATAT-TAT
*
396744 ATA-TATATATATAT
1 ATACTTTATAT-TAT
* * *
396758 ATA-TATACACTA-
1 ATACTTTATATTAT
* *
396770 ATAATTTGTATGTATAT
1 AT-ACTT-TATAT-TAT
*
396787 ATACATTATATTAT
1 ATACTTTATATTAT
396801 ATACTTATATACTT-T
1 ATACTT-TATA-TTAT
396816 AGT-CTTTATAATTAT
1 A-TACTTTAT-ATTAT
396831 A-A-TTTATA-TAT
1 ATACTTTATATTAT
*
396842 ATA--ATATAGTTAT
1 ATACTTTATA-TTAT
396855 AT--TTTATATTAT
1 ATACTTTATATTAT
* *
396867 -TA-TATATGTATAT
1 ATACTTTATAT-TAT
* *
396880 ATAGTTTATACTA-
1 ATACTTTATATTAT
*
396893 AAACTTTATATATAT
1 ATACTTTATAT-TAT
* ** *
396908 ATA-TATATACACACAC
1 ATACT-T-TATA-TTAT
*
396924 ACACTTTATAGTT-T
1 ATACTTTATA-TTAT
*
396938 ATA-TATATACTTAT
1 ATACTTTATA-TTAT
396952 ATACTTTATATTAT
1 ATACTTTATATTAT
396966 ATAC-TTATATT-T
1 ATACTTTATATTAT
*
396978 AATACTTATATATTTT
1 -ATACTT-TATATTAT
396994 ATA-TTATATACTTAT
1 ATACTT-TATA-TTAT
397009 ATACTTTATATAATAT
1 ATACTTTATAT--TAT
* *
397025 AGACTTTATACTA-
1 ATACTTTATATTAT
* *
397038 AAACTTCATA-TAT
1 ATACTTTATATTAT
* *
397051 ATGC---ATCTT-T
1 ATACTTTATATTAT
*
397061 ATAGTTTATA-TAT
1 ATACTTTATATTAT
397074 ATACTTATACTATATAT
1 ATACTT-TA-TAT-TAT
* * *
397091 GTA-TATATACTTTT
1 ATACTTTATA-TTAT
*
397105 ATACTATATAGTTTAT
1 ATACTTTATA--TTAT
397121 ATACTTTATATTAT
1 ATACTTTATATTAT
397135 ATACTTATATACTT-T
1 ATACTT-TATA-TTAT
* *
397150 AGT-CCTTATAGT-T
1 A-TACTTTATATTAT
*
397163 ATACTTTATAATAT
1 ATACTTTATATTAT
*
397177 ATA-TATATA-TAT
1 ATACTTTATATTAT
*
397189 ATA-TATATATATAT
1 ATACTTTATAT-TAT
* *
397203 ATA-TAATATACT-T
1 ATACT-TTATATTAT
397216 ATACTTTATATTATT
1 ATACTTTATATTA-T
397231 ATA-TATGTATATATGATT
1 ATACT-T-TATAT-T-A-T
*
397249 ATA-TATATATATAT
1 ATACTTTATAT-TAT
*
397263 ATAATTTATA-TAT
1 ATACTTTATATTAT
397276 ATAC--T-TATTAT
1 ATACTTTATATTAT
397287 ATACTTTATATT
1 ATACTTTATATT
397299 TAAACTATAT
Statistics
Matches: 797, Mismatches: 101, Indels: 282
0.68 0.09 0.24
Matches are distributed among these distances:
10 18 0.02
11 20 0.03
12 54 0.07
13 159 0.20
14 230 0.29
15 163 0.20
16 105 0.13
17 32 0.04
18 14 0.02
19 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (14 bp):
ATACTTTATATTAT
Found at i:396311 original size:9 final size:8
Alignment explanation
Indices: 396229--397148 Score: 148
Period size: 8 Copynumber: 123.9 Consensus size: 8
396219 TATATAACGC
*
396229 TATATTTA
1 TATACTTA
396237 TATACTT-
1 TATACTTA
396244 TAATACTT-
1 T-ATACTTA
*
396252 TATA-TTG
1 TATACTTA
396259 TATAC-T-
1 TATACTTA
396265 TATA-TTA
1 TATACTTA
*
396272 TATAGTT-
1 TATACTTA
396279 TAATACTT-
1 T-ATACTTA
396287 TATA-TTA
1 TATACTTA
396294 TATACTTA
1 TATACTTA
396302 TATAACTTA
1 TAT-ACTTA
396311 TAT--TTA
1 TATACTTA
396317 -ATA-TT-
1 TATACTTA
*
396322 TATATTTA
1 TATACTTA
396330 TATACTT-
1 TATACTTA
396337 TAATACTTTA
1 T-ATAC-TTA
**
396347 TATA-TGG
1 TATACTTA
396354 TATACTT-
1 TATACTTA
*
396361 TAATATTTA
1 T-ATACTTA
*
396370 -ATATTTA
1 TATACTTA
396377 -ATAC-T-
1 TATACTTA
396382 TATA-TTA
1 TATACTTA
*
396389 TATAGTT-
1 TATACTTA
396396 TAATACTT-
1 T-ATACTTA
*
396404 TATA-GTA
1 TATACTTA
396411 TATACTT-
1 TATACTTA
396418 TAATACTTA
1 T-ATACTTA
396427 TA-ACTTA
1 TATACTTA
396434 TATA--TA
1 TATACTTA
396440 CTTATACTT-
1 --TATACTTA
*
396449 TATA-TTT
1 TATACTTA
396456 TATA--TA
1 TATACTTA
396462 TATA-TATA
1 TATACT-TA
**
396470 TATACACA
1 TATACTTA
396478 CTTATAC-T-
1 --TATACTTA
396486 TATACTT-
1 TATACTTA
*
396493 TATATGTATA
1 TATA-CT-TA
396503 TATACTTA
1 TATACTTA
396511 TATACTT-
1 TATACTTA
396518 TATA-TTA
1 TATACTTA
396525 TATAC-TA
1 TATACTTA
*
396532 GA-ACTT-
1 TATACTTA
396538 TATA-TATA
1 TATACT-TA
*
396546 TACACTT-
1 TATACTTA
*
396553 TATAGTTTA
1 TATA-CTTA
396562 TATA-TATA
1 TATACT-TA
*
396570 TATACACT-
1 TATAC-TTA
396578 TATACTT-
1 TATACTTA
*
396585 TATAGTTTA
1 TATA-CTTA
396594 TATACTTA
1 TATACTTA
396602 TATA--TA
1 TATACTTA
396608 TATAC-T-
1 TATACTTA
396614 TATACTT-
1 TATACTTA
*
396621 TTTA-TGTA
1 TATACT-TA
*
396629 TAT-GTATA
1 TATACT-TA
*
396637 TATACTTT
1 TATACTTA
396645 TATAC-TA
1 TATACTTA
*
396652 TATAGTTTA
1 TATA-CTTA
396661 TATAC-T-
1 TATACTTA
*
396667 TATACTTT
1 TATACTTA
396675 TATACTT-
1 TATACTTA
396682 TATA-TTA
1 TATACTTA
396689 TATAC-TA
1 TATACTTA
396696 -A-ACTT-
1 TATACTTA
396701 TATA--TA
1 TATACTTA
396707 TATA-TATA
1 TATACT-TA
396715 TATA-TATA
1 TATACT-TA
396723 TATA-TATA
1 TATACT-TA
396731 TATA-TATA
1 TATACT-TA
396739 TATA-TATA
1 TATACT-TA
396747 TATA-TATA
1 TATACT-TA
396755 TATA-TATA
1 TATACT-TA
* *
396763 TACACTAA
1 TATACTTA
* *
396771 TA-ATTTG
1 TATACTTA
*
396778 TAT-GTATA
1 TATACT-TA
*
396786 TATACAT-
1 TATACTTA
396793 TATA-TTA
1 TATACTTA
396800 TATACTTA
1 TATACTTA
396808 TATACTT-
1 TATACTTA
396815 TAGT-CTT-
1 TA-TACTTA
*
396822 TATAATTA
1 TATACTTA
*
396830 TA-ATTTA
1 TATACTTA
396837 TATA-TATAA
1 TATACT-T-A
*
396846 TATAGTTA
1 TATACTTA
*
396854 TAT-TTTA
1 TATACTTA
396861 TATTA-TTA
1 TA-TACTTA
*
396869 TATATGTATA
1 TATA-CT-TA
*
396879 TATAGTT-
1 TATACTTA
396886 TATAC-TA
1 TATACTTA
*
396893 -AAACTT-
1 TATACTTA
396899 TATA-TATA
1 TATACT-TA
396907 TATA-TATA
1 TATACT-TA
* **
396915 TACACACA
1 TATACTTA
* *
396923 CACACTT-
1 TATACTTA
*
396930 TATAGTT-
1 TATACTTA
396937 TATA--TA
1 TATACTTA
396943 TATACTTA
1 TATACTTA
396951 TATACTT-
1 TATACTTA
396958 TATA-TTA
1 TATACTTA
396965 TATACTTA
1 TATACTTA
396973 TAT--TTA
1 TATACTTA
396979 -ATACTTA
1 TATACTTA
*
396986 TATA-TTT
1 TATACTTA
396993 TATA-TTA
1 TATACTTA
397000 TATACTTA
1 TATACTTA
397008 TATACTTTA
1 TATAC-TTA
*
397017 TATA-ATA
1 TATACTTA
*
397024 TAGACTT-
1 TATACTTA
397031 TATAC-TA
1 TATACTTA
*
397038 -AAACTTCA
1 TATACTT-A
397046 TATA--TA
1 TATACTTA
397052 TGCAT-CTT-
1 T--ATACTTA
*
397060 TATAGTT-
1 TATACTTA
397067 TATA--TA
1 TATACTTA
397073 TATAC-T-
1 TATACTTA
397079 TATAC-TA
1 TATACTTA
*
397086 TATATGTATA
1 TATA-CT-TA
*
397096 TATACTTT
1 TATACTTA
397104 TATAC-TA
1 TATACTTA
*
397111 TATAGTTTA
1 TATA-CTTA
397120 TATACTT-
1 TATACTTA
397127 TATA-TTA
1 TATACTTA
397134 TATACTTA
1 TATACTTA
397142 TATACTT
1 TATACTT
397149 TAGTCCTTAT
Statistics
Matches: 708, Mismatches: 74, Indels: 260
0.68 0.07 0.25
Matches are distributed among these distances:
5 9 0.01
6 105 0.15
7 230 0.32
8 280 0.40
9 60 0.08
10 24 0.03
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (8 bp):
TATACTTA
Found at i:396369 original size:7 final size:7
Alignment explanation
Indices: 396310--396405 Score: 65
Period size: 7 Copynumber: 13.0 Consensus size: 7
396300 TATATAACTT
396310 ATATTTA
1 ATATTTA
396317 ATATTT-
1 ATATTTA
396323 ATATTTA
1 ATATTTA
396330 TATACTTTA
1 -ATA-TTTA
396339 ATACTTTA
1 ATA-TTTA
*
396347 TATATGGT-
1 -ATAT-TTA
396355 ATACTTTA
1 ATA-TTTA
396363 ATATTTA
1 ATATTTA
396370 ATATTTA
1 ATATTTA
*
396377 ATACTT-
1 ATATTTA
396383 ATA-TTA
1 ATATTTA
396389 TATAGTTTA
1 -ATA-TTTA
396398 ATACTTTA
1 ATA-TTTA
396406 TAGTATATAC
Statistics
Matches: 74, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
5 2 0.03
6 9 0.12
7 29 0.39
8 23 0.31
9 11 0.15
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (7 bp):
ATATTTA
Found at i:396426 original size:43 final size:42
Alignment explanation
Indices: 396295--396453 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 42
396285 TTTATATTAT
*
396295 ATACTTATATAACTTATA-TTTAATA-TTTATATTTATATACTTTA
1 ATACTTATATTA--TATAGTTTAATACTTTATA--TATATACTTTA
* *
396339 ATACTT-TA-TATAT-G-GT-ATACTTTAATATTTAATA-TTTA
1 ATACTTATATTATATAGTTTAATACTTT-ATATAT-ATACTTTA
396377 ATACTTATATTATATAGTTTAATACTTTATAGTATATACTTTA
1 ATACTTATATTATATAGTTTAATACTTTATA-TATATACTTTA
396420 ATACTTATAACTTATATA-TACTT-ATACTTTATAT
1 ATACTTAT-A-TTATATAGT--TTAATACTTTATAT
396454 TTTATATATA
Statistics
Matches: 95, Mismatches: 5, Indels: 30
0.73 0.04 0.23
Matches are distributed among these distances:
38 15 0.16
39 9 0.09
40 11 0.12
41 1 0.01
42 8 0.08
43 23 0.24
44 9 0.09
45 17 0.18
46 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (42 bp):
ATACTTATATTATATAGTTTAATACTTTATATATATACTTTA
Found at i:396485 original size:104 final size:104
Alignment explanation
Indices: 396377--396573 Score: 244
Period size: 104 Copynumber: 1.9 Consensus size: 104
396367 TTAATATTTA
* * *
396377 ATACTTATA--TTATATAGTTTA-ATACTT-TATAGTATATACTT-TAATACTTATAAC-TTATA
1 ATACTTATACTTTATAT-GTATATATACTTATATACTATATA-TTAT-ATAC-TAGAACTTTATA
* *
396436 TATACTTATACTTTATATTTTATATATATATATATATACACACTT
62 TATA--TACACTTTATAGTTTATATATATATATATATACACACTT
*
396481 ATACTTATACTTTATATGTATATATACTTATATACTTTATATTATATACTAGAACTTTATATATA
1 ATACTTATACTTTATATGTATATATACTTATATACTATATATTATATACTAGAACTTTATATATA
396546 TACACTTTATAGTTTATATATATATATA
66 TACACTTTATAGTTTATATATATATATA
396574 CACTTATACT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
104 35 0.43
105 9 0.11
106 27 0.33
107 10 0.12
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (104 bp):
ATACTTATACTTTATATGTATATATACTTATATACTATATATTATATACTAGAACTTTATATATA
TACACTTTATAGTTTATATATATATATATATACACACTT
Found at i:396503 original size:67 final size:65
Alignment explanation
Indices: 396432--396670 Score: 217
Period size: 67 Copynumber: 3.6 Consensus size: 65
396422 ACTTATAACT
*
396432 TATATATAC-TTATACTTTATATTTTATATA-TATATATATATACACACTTATACTTATACTTTA
1 TATATATACTTTATACTTTATAGTTTATATACTATATATATATA-ACACTTATACTT-TA--TTA
396495 TATG
62 TATG
* *
396499 TATATATACTTATATACTTTATA--TTATATACTAGAACTTTATATATATACACTTTATAGTTTA
1 TATATATACTT-TATACTTTATAGTTTATATACT---A-TATATATATA-ACAC-TTATACTTTA
*
396562 -TATATA
59 TTATATG
* *
396568 TATATACAC-TTATACTTTATAGTTTATATACT-TATATATAT-ATACTTATACTTTTTATGTAT
1 TATATATACTTTATACTTTATAGTTTATATACTATATATATATAACACTTATAC--TTTAT-TAT
396630 ATG
63 ATG
*
396633 TATATATACTTTTATACTATATAGTTTATATACT-TATA
1 TATATATAC-TTTATACTTTATAGTTTATATACTATATA
396671 CTTTTATACT
Statistics
Matches: 145, Mismatches: 11, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
61 5 0.03
62 3 0.02
63 4 0.03
64 8 0.06
65 13 0.09
67 53 0.37
68 3 0.02
69 33 0.23
71 1 0.01
72 15 0.10
73 7 0.05
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (65 bp):
TATATATACTTTATACTTTATAGTTTATATACTATATATATATAACACTTATACTTTATTATATG
Found at i:396706 original size:2 final size:2
Alignment explanation
Indices: 396701--397338 Score: 181
Period size: 2 Copynumber: 320.0 Consensus size: 2
396691 TACTAAACTT
396701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
396743 TA TA TA TA TA TA TA TA TA TA TA CA CTA -A TA -A TT TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
396784 TA TA TA CA T- TA TA T- TA TA TA CT- TA TA TA CTT TA GTC TT TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA
* *
396824 TA -A T- TA TA -A TT TA TA TA TA TA -A TA TA GT- TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
396861 TA T- TA T- TA TA TA TG TA TA TA TA GTT TA TA CTA -A AA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA
* * * * * * *
396901 TA TA TA TA TA TA TA TA CA CA CA CA CA CTT TA TA GTT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* *
396945 TA CT- TA TA TA CTT TA TA T- TA TA TA CT- TA TA TT TA -A TA CT-
1 TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* *
396984 TA TA TA T- TT TA TA T- TA TA TA CT- TA TA TA CTT TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA
* * * * * * * *
397024 TA GA CTT TA TA CTA -A AA CT- TCA TA TA TA TG CA TC TT TA TA GTT
1 TA TA -TA TA TA -TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA -TA
* *
397067 TA TA TA TA TA CT- TA TA CTA TA TA TG TA TA TA TA CT- TT TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
397108 CTA TA TA GTT TA TA TA CTT TA TA T- TA TA TA CT- TA TA TA CTT TA
1 -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* *
397151 GTCC T- TA TA GT- TA TA CTT TA TA -A TA TA TA TA TA TA TA TA TA
1 -T-A TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
397192 TA TA TA TA TA TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* *
397232 TA TA TG TA TA TA TGA T- TA TA TA TA TA TA TA TA TA -A TT TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
397273 TA TA TA CT- TA T- TA TA TA CTT TA TA TT TA AA CTA TA TA AA CTA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
* *
397315 TA TA -A TT TA TA CA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
397339 ATTTATAATT
Statistics
Matches: 473, Mismatches: 81, Indels: 164
0.66 0.11 0.23
Matches are distributed among these distances:
1 42 0.09
2 390 0.82
3 41 0.09
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:396983 original size:35 final size:34
Alignment explanation
Indices: 396281--397309 Score: 239
Period size: 35 Copynumber: 30.1 Consensus size: 34
396271 ATATAGTTTA
396281 ATACTTTATATTATATACTTATATAAC-TTATATT-T
1 ATAC-TTATA-TATATACTTATAT-ACTTTATATTAT
* *
396316 AATATTTATATTTATATACTT-TAATACTTTATATATGGT
1 -ATACTTATA--TATATACTTAT-ATACTTTATAT-T-AT
* *
396355 ATACTTTAATATTTAATATTTA-ATAC-TTATATTAT
1 ATAC-TT-ATATAT-ATACTTATATACTTTATATTAT
* * *
396390 ATAGTTTAATACTTTATA-GTATATACTTTAATACTTAT
1 ATA-CTT-ATA-TATATACTTATATACTTT-ATA-TTAT
396428 A-AC-T-TATATATAC-T-TATACTTTATATTTTAT
1 ATACTTATATATATACTTATATACTTTATA--TTAT
**
396459 ATA-TATATATATATACACACTTATAC-TTATACTT-T
1 ATACT-TATATATATACTTA--TATACTTTATA-TTAT
*
396494 ATA--TGTATATATACTTATATACTTTATATTAT
1 ATACTTATATATATACTTATATACTTTATATTAT
* * *
396526 ATAC-TAGAACTTTATA-TATATACACTTTATAGTT-T
1 ATACTTA-TA-TATATACT-TATATACTTTATA-TTAT
*
396561 ATA--TATATATATACACT-TATACTTTATAGTTTAT
1 ATACTTATATATATAC-TTATATACTTTATA--TTAT
* *
396595 ATACTTATATATATA--TACTTATACTTTTTA-TGT
1 ATACTTATATATATACTTA--TATACTTTATATTAT
* * *
396628 ATA--TGTATATATACTTTTATACTATATAGTTTAT
1 ATACTTATATATATACTTATATACTTTATA--TTAT
*
396662 ATACTTATACTTTTATACTT-TATA--TTATA-TACT
1 ATACTTATA--TATATACTTATATACTTTATATTA-T
* *
396695 AAACTTTATATATATA-TATATATA-TATATATATAT
1 ATAC-TTATATATATACT-TATATACTTTATAT-TAT
*
396730 ATA-TATATATATATA-TATATATA-TATATATATAT
1 ATACT-TATATATATACT-TATATACTTTATAT-TAT
* * * * * *
396764 ACACTAATAATTTGTATGTATATATACATTATATTAT
1 ATACTTAT-ATATATA-CT-TATATACTTTATATTAT
396801 ATAC---T-TATATACTT-TAGT-CTTTATAATTAT
1 ATACTTATATATATACTTATA-TACTTTAT-ATTAT
* * *
396831 A-A-TT-TATATATA-TAATATA-GTTATATTTT
1 ATACTTATATATATACTTATATACTTTATATTAT
* * *
396860 ATA-TTAT-TATATATGTATATATAGTTTATACTA-
1 ATACTTATATATATA-CT-TATATACTTTATATTAT
* *** *
396893 AAACTTTATATATATA-TATATATACACACACACACTT-T
1 ATAC-TTATATATATACT-TATAT--AC-TTTATA-TTAT
*
396931 ATAGTTTATATATATACTTATATACTTTATATTAT
1 ATA-CTTATATATATACTTATATACTTTATATTAT
* *
396966 ATACTTATATTTAATACTTATATATTTTATATTAT
1 ATACTTATATAT-ATACTTATATACTTTATATTAT
* *
397001 ATACTTATATACTTTATA-TAATATAGACTTTATACTA-
1 ATACTTATATA---TATACT--TATATACTTTATATTAT
* *
397038 AAACTTCATATATATGCATCTT-TATAGTTTATA-TAT
1 ATACTT-ATATATAT--A-CTTATATACTTTATATTAT
* *
397074 ATACTTATACTATATATGTATATATACTTTTATACTAT
1 ATACTTATA-TATATA-CT-TATATAC-TTTATATTAT
*
397112 ATA-GT-T-TATATACTT-TATA-TTATATACTTAT
1 ATACTTATATATATACTTATATACTT-TATA-TTAT
* * *
397143 ATACTT-TAGTCCTTATA-GT-TATACTTTATAATAT
1 ATACTTATA-T--ATATACTTATATACTTTATATTAT
* *
397177 ATA-TATATATATATA-TATATATA-TATATATAAT
1 ATACT-TATATATATACT-TATATACTTTATATTAT
* * *
397210 ATACTTATACTTTATA-TTAT-TA-TATATGTATAT
1 ATACTTATA-TATATACTTATATACTTTATAT-TAT
*
397243 ATGA-TTATATATATA-TATATATAATTTATA-TAT
1 AT-ACTTATATATATACT-TATATACTTTATATTAT
* *
397276 ATACTTAT-TATATACTT-TATA-TTTAAACTAT
1 ATACTTATATATATACTTATATACTTTATATTAT
397307 ATA
1 ATA
397310 AACTATATAA
Statistics
Matches: 765, Mismatches: 101, Indels: 259
0.68 0.09 0.23
Matches are distributed among these distances:
29 15 0.02
30 36 0.05
31 69 0.09
32 73 0.10
33 84 0.11
34 121 0.16
35 129 0.17
36 96 0.13
37 53 0.07
38 76 0.10
39 10 0.01
40 3 0.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (34 bp):
ATACTTATATATATACTTATATACTTTATATTAT
Found at i:397049 original size:143 final size:144
Alignment explanation
Indices: 396792--397052 Score: 324
Period size: 143 Copynumber: 1.8 Consensus size: 144
396782 TATATATACA
*
396792 TTATATTATATACTTATATACTTTAGTCTTTATAATTATAATTTATATATATAATATAGTTATAT
1 TTATATTATATACTTATATACTTTAGTATTTATAATTATAATTTATATATATAATATAGTTATAT
* * *
396857 TTTATATTATTATATATGTATATATAGTTTATACTAAAACTTTATATATATATATATATACACAC
66 TATATATTATTATATATATATATATAGTTTATACTAAAACTTTACATATATATATATATACACAC
396922 ACACACTTTATAGT
131 ACACACTTTATAGT
* *
396936 TTATA-TATATACTTATATACTTTA-TATTATATACTTAT-ATTTA-ATACT-T-ATATATTTTA
1 TTATATTATATACTTATATACTTTAGTATT-TATAATTATAATTTATATA-TATAATATA-GTTA
*
396995 TATTATATACTTA-TATACTTTATATAATATAGACTTTATACTAAAAC-TT-CATATATAT
63 TATTATATA-TTATTATA-TATATAT-ATATAG--TTTATACTAAAACTTTACATATATAT
397053 GCATCTTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
140 5 0.05
141 19 0.19
142 17 0.17
143 41 0.40
144 7 0.07
145 13 0.13
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.50
Consensus pattern (144 bp):
TTATATTATATACTTATATACTTTAGTATTTATAATTATAATTTATATATATAATATAGTTATAT
TATATATTATTATATATATATATATAGTTTATACTAAAACTTTACATATATATATATATACACAC
ACACACTTTATAGT
Found at i:397095 original size:25 final size:25
Alignment explanation
Indices: 397067--397145 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
397057 CTTTATAGTT
397067 TATATATATACTTATACTATATATG
1 TATATATATACTTATACTATATATG
*
397092 TATATATACT-TTTATACTATATA-G
1 TATATATA-TACTTATACTATATATG
*
397116 T-T-TATATACTTTATATTATATACT-
1 TATATATATAC-TTATACTATATA-TG
397140 TATATA
1 TATATA
397146 CTTTAGTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 12 0.27
24 3 0.07
25 21 0.48
26 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (25 bp):
TATATATATACTTATACTATATATG
Found at i:397398 original size:21 final size:21
Alignment explanation
Indices: 397361--397400 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
397351 ACATAAAATA
*
397361 TAAATATAAGTTGTATATATT
1 TAAATATAAGTTATATATATT
397382 TAAATATAA-TTCATATATA
1 TAAATATAAGTT-ATATATA
397401 AACTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAATATAAGTTATATATATT
Found at i:397426 original size:22 final size:20
Alignment explanation
Indices: 397385--397451 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 20
397375 ATATATTTAA
*
397385 ATATAATTCATATATAAACT
1 ATATAATTTATATATAAACT
397405 ATATAATTTATATTAATAAACT
1 ATATAATTTATA-T-ATAAACT
* *
397427 ATATAGTTTATACAT-AA-T
1 ATATAATTTATATATAAACT
397445 ATATAAT
1 ATATAAT
397452 AATATAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.17
19 2 0.05
20 13 0.32
21 1 0.02
22 18 0.44
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (20 bp):
ATATAATTTATATATAAACT
Found at i:400722 original size:68 final size:68
Alignment explanation
Indices: 400617--400870 Score: 411
Period size: 68 Copynumber: 3.8 Consensus size: 68
400607 TGTTTAACCG
** * *
400617 TTCATCTAACT-GCATAAGGGACACCTTTCTGTAAAATGCACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
400681 CCT
66 CCT
* * *
400684 TTCATATAACTGGCATAATTGACATCTTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
400749 CCT
66 CCT
*
400752 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
400817 CCT
66 CCT
* *
400820 TTTATCTAACTGGCATAATTGACACCTTTCTGTCAAATACACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
400871 ACTATCCTTT
Statistics
Matches: 174, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 10 0.06
68 164 0.94
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:401090 original size:55 final size:55
Alignment explanation
Indices: 401030--401637 Score: 726
Period size: 55 Copynumber: 11.1 Consensus size: 55
401020 GATGCACATG
* * * * *
401030 TAGTGCCTATA-GGGTATTTCATAAACTCATAATGAATTCCGTGGATTTGTACACA
1 TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* *
401085 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACC
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * *
401140 TAGTGCCTGTACAGTTATTCATCAACTCATGATGAATTTCGTGGA-ATGCACACT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
** *
401194 TAGTGCCTGTACAATTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
401249 TAGTGCCTGTACGGTTATTCATCTACTCAAGATGAATTCTGTGGATTTGCAAACC
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
** * * * * *
401304 TAGTGGTTGTACAGCTATTCATCAACTCATGATGAATTACGTGGA-ATGCACACT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
401358 TAGTGCCTGTAAGGTTATTCATTAACTCATGATGAATTCTGTGGA-ATGCACACT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
401412 TAGTGCATGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTACACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
401467 TAGTGCATG-ATGGTTATTCATCAACTCATGATGAATTCTGTGGATCTGAACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*
401521 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGTACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * ** *
401576 TAGAGCTTGTACGGTTATTCATCCACAT-AGGATGAATTCCGT-GAAATGCACACT
1 TAGTGCCTGTACGGTTATTCATCAAC-TCATGATGAATTCCGTGGATTTGCACACA
401630 TAGTGCCT
1 TAGTGCCT
401638 ATTTGGCAAT
Statistics
Matches: 479, Mismatches: 69, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
54 204 0.43
55 270 0.56
56 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
Found at i:401239 original size:109 final size:110
Alignment explanation
Indices: 401030--401637 Score: 746
Period size: 109 Copynumber: 5.6 Consensus size: 110
401020 GATGCACATG
* * * * * * * * *
401030 TAGTGCCTATA-GGGTATTTCATAAACTCATAATGAATTCCGTGGATTTGTACACATAGTGCCTA
1 TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGGATATGCACACTTAGTGCCTG
*
401094 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACC
65 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*
401140 TAGTGCCTGTACAGTTATTCATCAACTCATGATGAATT-TCGTGGA-ATGCACACTTAGTGCCTG
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATATGCACACTTAGTGCCTG
** *
401203 TACAATTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACA
65 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * * **
401249 TAGTGCCTGTACGGTTATTCATCTACTCAAGATGAATTCTGTGGATTTGCAAACCTAGTGGTTGT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATATGCACACTTAGTGCCTGT
* * * * *
401314 ACAGCTATTCATCAACTCATGATGAATTACGTGGA-ATGCACACT
66 ACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
401358 TAGTGCCTGTAAGGTTATTCATTAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTGCATGT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATATGCACACTTAGTGCCTGT
* *
401422 ACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTACACACA
66 ACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
401467 TAGTGCATG-ATGGTTATTCATCAACTCATGATGAATTCTGTGGATCTGAACACATAGTGCCTGT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATATGCACACTTAGTGCCTGT
*
401531 ACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGTACACA
66 ACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * * *
401576 TAGAGCTTGTACGGTTATTCATCCACAT-AGGATGAATTCCGT-GAAATGCACACTTAGTGCCT
1 TAGTGCCTGTACGGTTATTCATCAAC-TCATGATGAATTCTGTGGATATGCACACTTAGTGCCT
401638 ATTTGGCAAT
Statistics
Matches: 428, Mismatches: 62, Indels: 17
0.84 0.12 0.03
Matches are distributed among these distances:
108 79 0.18
109 238 0.56
110 107 0.25
111 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (110 bp):
TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATATGCACACTTAGTGCCTGT
ACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
Found at i:401295 original size:164 final size:164
Alignment explanation
Indices: 401047--401637 Score: 771
Period size: 164 Copynumber: 3.6 Consensus size: 164
401037 TATAGGGTAT
* * * *
401047 TTCATAAACTCATAATGAATTCCGTGGATTTGTACACATAGTGCCTATACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
401112 CATGATGAATTCCGTGGATTTGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAAT
66 CATGATGAATTCCGTGGATTTGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAAT
*
401177 TTCGTGGAATGCACACTTAGTGCCTGTACAATTA
131 TTCGTGGAATGCACACTTAGTGCCTGTACAGTTA
* *
401211 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCTACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
* * * ** *
401276 CAAGATGAATTCTGTGGATTTGCAAACCTAGTGGTTGTACAGCTATTCATCAACTCATGATGAAT
66 CATGATGAATTCCGTGGATTTGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAAT
*
401341 TACGTGGAATGCACACTTAGTGCCTGTA-AGGTTA
131 TTCGTGGAATGCACACTTAGTGCCTGTACA-GTTA
* * * * *
401375 TTCATTAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
* * * * **
401439 CATGATGAATTTCGTGGATTTACACACATAGTGCATG-ATGGTTATTCATCAACTCATGATGAA-
66 CATGATGAATTCCGTGGATTTGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAAT
* * * *
401502 TTCTGTGGATCTGAACACATAGTGCCTGTACGGTTA
131 TTC-GTGGA-ATGCACACTTAGTGCCTGTACAGTTA
* * * *
401538 TTCATCAACTCATGATGAATTCCGTGGATTTGTACACATAGAGCTTGTACGGTTATTCATCCACA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAAC-
* ** *
401603 T-AGGATGAATTCCGT-GAAATGCACACTTAGTGCCT
65 TCATGATGAATTCCGTGGATTTGCACACCTAGTGCCT
401638 ATTTGGCAAT
Statistics
Matches: 369, Mismatches: 52, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
161 2 0.01
162 28 0.08
163 124 0.34
164 214 0.58
165 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (164 bp):
TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
CATGATGAATTCCGTGGATTTGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAAT
TTCGTGGAATGCACACTTAGTGCCTGTACAGTTA
Found at i:402124 original size:96 final size:95
Alignment explanation
Indices: 401984--402182 Score: 326
Period size: 96 Copynumber: 2.1 Consensus size: 95
401974 ACCCTGATAC
* * *
401984 CGATACTTCTATACTATGGTACCGATACCCCCTTCCGATATCGATACCAAATTTAGGTTCGATGT
1 CGATACTACAATACTATGGTACCGATACCCCCTTCCGATATCGATACCAAATTTAGATTCGATGT
* *
402049 TGTTTTTGTATCGATACCCTTACAATGGTAT
66 TG-CTTGGTATCGATACCCTTACAATGGTAT
*
402080 CGATACTACAATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAATTTAGATTCGATGT
1 CGATACTACAATACTATGGTACCGATACCCCCTTCCGATATCGATACCAAATTTAGATTCGATGT
*
402145 TGCTTGGTATCGATACCCTTACCATGGTAT
66 TGCTTGGTATCGATACCCTTACAATGGTAT
402175 CGATACTA
1 CGATACTA
402183 ATTGAATAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 33 0.34
96 63 0.66
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (95 bp):
CGATACTACAATACTATGGTACCGATACCCCCTTCCGATATCGATACCAAATTTAGATTCGATGT
TGCTTGGTATCGATACCCTTACAATGGTAT
Found at i:408517 original size:29 final size:29
Alignment explanation
Indices: 408474--408551 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
408464 TTGACCGGTG
408474 CTATTCTGGTAAATAATTCGGTTTTAGTGT
1 CTATTCTGGTAAATAATTCGGTTTTAGT-T
* *
408504 -TATTATGGTAAATAATTCGGTTTTGGTT
1 CTATTCTGGTAAATAATTCGGTTTTAGTT
*
408532 CTATTCTGGTAATTAATTCG
1 CTATTCTGGTAAATAATTCG
408552 AATTGAGTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 42 0.98
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.47
Consensus pattern (29 bp):
CTATTCTGGTAAATAATTCGGTTTTAGTT
Found at i:408564 original size:29 final size:29
Alignment explanation
Indices: 408471--408565 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
408461 CCGTTGACCG
* *
408471 GTGCTATTCTGGTAAATAATTCGGTTTTA
1 GTGCTATTCTGGTAAATAATTCGATTTGA
* * *
408500 GTGTTATTATGGTAAATAATTCGGTTTTG-
1 GTGCTATTCTGGTAAATAATTC-GATTTGA
* * *
408529 GTTCTATTCTGGTAATTAATTCGAATTGA
1 GTGCTATTCTGGTAAATAATTCGATTTGA
408558 GTGCTATT
1 GTGCTATT
408566 TTGATAATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 4 0.08
29 45 0.85
30 4 0.08
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.46
Consensus pattern (29 bp):
GTGCTATTCTGGTAAATAATTCGATTTGA
Found at i:415967 original size:17 final size:18
Alignment explanation
Indices: 415935--415969 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
415925 TGACCGGTCA
415935 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
415953 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
415970 GTTGACTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:416019 original size:29 final size:29
Alignment explanation
Indices: 415976--416058 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
415966 GACCGTTGAC
415976 TGGTGCTATTCTGGTAAATAATTCGGTTT
1 TGGTGCTATTCTGGTAAATAATTCGGTTT
* *
416005 TGGTGCTATTTTGGTAAATAATTCAGTTT
1 TGGTGCTATTCTGGTAAATAATTCGGTTT
* *
416034 TGGTGCTATTCTGGTGATTAATTCG
1 TGGTGCTATTCTGGTAAATAATTCG
416059 AAATGGGTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.20, C:0.10, G:0.24, T:0.46
Consensus pattern (29 bp):
TGGTGCTATTCTGGTAAATAATTCGGTTT
Found at i:419804 original size:65 final size:67
Alignment explanation
Indices: 419731--419870 Score: 185
Period size: 66 Copynumber: 2.1 Consensus size: 67
419721 TAATGAGTAT
* *
419731 AAGTTGAGCAAC-AAGTTTTTTAACGAGCACAAGTCGAACAAAATTTTAATGAGCTTAACAAGC-
1 AAGTTGAGCAACAAAATTTTTTAACAAGCACAAGTCGAACAAAATTTTAATGAGCTTAACAAGCA
419794 AC
66 AC
* * ** * *
419796 AAGTTGAGCAACAAAATTTTTTAATAAGCACGAGTCGAGTAAAATTTTACTGAGCTTAACGAGCA
1 AAGTTGAGCAACAAAATTTTTTAACAAGCACAAGTCGAACAAAATTTTAATGAGCTTAACAAGCA
419861 AC
66 AC
*
419863 GAGTTGAG
1 AAGTTGAG
419871 TTGAACAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 12 0.19
66 43 0.67
67 9 0.14
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (67 bp):
AAGTTGAGCAACAAAATTTTTTAACAAGCACAAGTCGAACAAAATTTTAATGAGCTTAACAAGCA
AC
Found at i:420005 original size:21 final size:20
Alignment explanation
Indices: 419956--420008 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
419946 AATTATTACT
419956 TTTATATTTTTATTTGTTTA
1 TTTATATTTTTATTTGTTTA
*
419976 ATTATTATTTTTATTAT-TTATA
1 TTTA-TATTTTTATT-TGTT-TA
419998 TTTATATTTTT
1 TTTATATTTTT
420009 GTTTTTGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 19 0.68
22 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATATTTTTATTTGTTTA
Found at i:432809 original size:133 final size:132
Alignment explanation
Indices: 432484--432839 Score: 410
Period size: 134 Copynumber: 2.7 Consensus size: 132
432474 GTTTGGGTCG
* * * * * * *
432484 TCTAAGGGTGACACAACTCCTACTTGATGAGGAGATTTAGTCAGGGGATGACACT-GCTCATACG
1 TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACA-TGGTTCCTACG
* * * * *
432548 TGATGAAGAGTTCTTGGCCATATTTAGGGGGGTGATAACTCGATTCCTATGCGATGAGGACGGCT
65 TGATGAGGAG-AC-TGGCCATCTTTAGGGGGGTGATAACTCGATTCCTACGCGATGAGGACGACT
432613 GGTTA
128 GGTTA
* * ** * *
432618 TCTAGGGGTGACGCAGCTCCTACGCGATGAAAAGATCTGGTCGGGGGATGACACGGTTCCTACGT
1 TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGGTTCCTACGT
* * *
432683 GATGAGGATGACTGGCCATCTTTAGGAGTGGTGATAACTCGGTTCCTACGTGATGAGGACGACTG
66 GATGAGGA-GACTGGCCATCTTTAGG-GGGGTGATAACTCGATTCCTACGCGATGAGGACGACTG
432748 GTTA
129 GTTA
* * *
432752 TCTA-TGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACATGGTTCCTACGT
1 TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGGTTCCTACGT
**
432816 GATGAGGACGGTTGGCCATCTTTA
66 GATGAGGA-GACTGGCCATCTTTA
432840 AGGGTAATGG
Statistics
Matches: 186, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
133 85 0.46
134 100 0.54
135 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (132 bp):
TCTAGGGGTGACACAGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGGTTCCTACGT
GATGAGGAGACTGGCCATCTTTAGGGGGGTGATAACTCGATTCCTACGCGATGAGGACGACTGGT
TA
Found at i:433254 original size:66 final size:62
Alignment explanation
Indices: 433172--433334 Score: 161
Period size: 67 Copynumber: 2.5 Consensus size: 62
433162 TGAGGAAAAT
** * * *
433172 TGTCTCAAGTGAGACAACACTTTGTTTC-AACTGAAACATACTCAAATAATTTTTTTCAAAAGAA
1 TGTCTCAAAAGAGACAA-A-TTTGTTTCTAA--GAAACAGACTCAAA-AAGTTTTCTCAAAAGAA
433236 AC
61 AC
433238 TGTCTCAAAAGAGACAAAATTTTTTGTTTTCTAAGAAACAGACTCAAAAAGTTTTCTCAAAAGAA
1 TGTCTCAAAAGAGAC-AAA---TTTG-TTTCTAAGAAACAGACTCAAAAAGTTTTCTCAAAAGAA
433303 AC
61 AC
433305 TGTCTCAATAA-AGACAAATTTGTTT-TAAGA
1 TGTCTCAA-AAGAGACAAATTTGTTTCTAAGA
433335 GAAAAGATTG
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
61 5 0.06
62 3 0.04
63 4 0.05
66 17 0.20
67 31 0.36
68 19 0.22
69 4 0.05
70 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (62 bp):
TGTCTCAAAAGAGACAAATTTGTTTCTAAGAAACAGACTCAAAAAGTTTTCTCAAAAGAAAC
Found at i:434785 original size:14 final size:14
Alignment explanation
Indices: 434768--434806 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
434758 TTTGCTCCTT
434768 TTTTCCTTTGTTTC
1 TTTTCCTTTGTTTC
* *
434782 TTTTTCTTTGTTTT
1 TTTTCCTTTGTTTC
434796 TTTTCTCTTTG
1 TTTTC-CTTTG
434807 CTCTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTCCTTTGTTTC
Found at i:434785 original size:45 final size:47
Alignment explanation
Indices: 434726--434870 Score: 167
Period size: 47 Copynumber: 3.1 Consensus size: 47
434716 TTGTCTGTGC
** *
434726 TCTTTGTCCTCTTTTTATTCTTTGTTTTTTCT-TTTGCTCCTT-TTTT
1 TCTTTGTTGTCTTTTT-TTCTTTGTTTTTTCTCTTTGCTCTTTGTTTT
*
434772 CCTTTGTT-TC--TTTTTCTTTGTTTTTTTTCTCTTTGCTCTTTGTTTT
1 TCTTTGTTGTCTTTTTTTCTTTG--TTTTTTCTCTTTGCTCTTTGTTTT
*
434818 TCTTTGTTGT-TTTTCTTTCTATGTTTTTTCTCTTTGCTCTTTGTTTT
1 TCTTTGTTGTCTTTT-TTTCTTTGTTTTTTCTCTTTGCTCTTTGTTTT
434865 TCTTTG
1 TCTTTG
434871 CTTATTTTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
42 7 0.08
43 3 0.03
44 8 0.09
45 11 0.13
46 17 0.20
47 31 0.36
48 2 0.02
49 7 0.08
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.72
Consensus pattern (47 bp):
TCTTTGTTGTCTTTTTTTCTTTGTTTTTTCTCTTTGCTCTTTGTTTT
Found at i:434823 original size:17 final size:17
Alignment explanation
Indices: 434744--434872 Score: 86
Period size: 17 Copynumber: 8.1 Consensus size: 17
434734 CTCTTTTTAT
434744 TCTTTGTTTTTTCTTTTGC
1 TCTTTG-TTTTTC-TTTGC
* *
434763 TCCTT-TTTTCCTTTG-
1 TCTTTGTTTTTCTTTGC
*
434778 --TTTCTTTTTCTTTG-
1 TCTTTGTTTTTCTTTGC
434792 T-TTT-TTTTCTCTTTGC
1 TCTTTGTTTT-TCTTTGC
434808 TCTTTGTTTTTCTTTG-
1 TCTTTGTTTTTCTTTGC
434824 ---TTGTTTTTCTTT-C
1 TCTTTGTTTTTCTTTGC
*
434837 TATGTT-TTTTCTCTTTGC
1 TCT-TTGTTTT-TCTTTGC
434855 TCTTTGTTTTTCTTTGC
1 TCTTTGTTTTTCTTTGC
434872 T
1 T
434873 TATTTTCTCT
Statistics
Matches: 91, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
13 14 0.15
14 13 0.14
15 9 0.10
16 9 0.10
17 31 0.34
18 11 0.12
19 4 0.04
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.73
Consensus pattern (17 bp):
TCTTTGTTTTTCTTTGC
Found at i:434842 original size:14 final size:13
Alignment explanation
Indices: 434811--434845 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
434801 TCTTTGCTCT
*
434811 TTGTTTTTCTTTG
1 TTGTTTTTCTTTC
434824 TTGTTTTTCTTTC
1 TTGTTTTTCTTTC
434837 TATGTTTTT
1 T-TGTTTTT
434846 TCTCTTTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.03, C:0.09, G:0.11, T:0.77
Consensus pattern (13 bp):
TTGTTTTTCTTTC
Found at i:434847 original size:47 final size:47
Alignment explanation
Indices: 434747--434884 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 47
434737 TTTTTATTCT
* * * * *
434747 TTGTTTTTTCT-TTTGCTCCTT-TTTTCCTTTGTTTCTTTTTCTTTG
1 TTGTTTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTATTTTTCTTTC
*
434792 TT-TTTTTTCTCTTTGCTCTTTGTTTTTCTTTG-TTGTTTTTCTTTC
1 TTGTTTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTATTTTTCTTTC
434837 TATGTTTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTATTTTCTCTTT
1 T-TGTTTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTATTTT-TCTTT
434885 GTTTTGATTT
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
44 8 0.10
45 23 0.28
46 10 0.12
47 30 0.37
48 6 0.07
49 5 0.06
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.73
Consensus pattern (47 bp):
TTGTTTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTATTTTTCTTTC
Found at i:434902 original size:32 final size:32
Alignment explanation
Indices: 434843--434903 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
434833 TTTCTATGTT
*
434843 TTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTA
1 TTTTCTCTTTGCTCTTTGTTTATCTTTGCTTA
434875 TTTTCTCTTTG-T-TTTGATTTGATCTTTGC
1 TTTTCTCTTTGCTCTTTG-TTT-ATCTTTGC
434904 ACTTGGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 4 0.15
32 18 0.69
ACGTcount: A:0.05, C:0.16, G:0.11, T:0.67
Consensus pattern (32 bp):
TTTTCTCTTTGCTCTTTGTTTATCTTTGCTTA
Found at i:437887 original size:23 final size:23
Alignment explanation
Indices: 437861--437916 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
437851 ATTTTTTTAT
* **
437861 AAAAATAATTAATTATTAATTTC
1 AAAAACAATTAAAAATTAATTTC
*
437884 -AAAACAATTAAAAATTATTTTC
1 AAAAACAATTAAAAATTAATTTC
437906 AAAAACAATTA
1 AAAAACAATTA
437917 TGACTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAACAATTAAAAATTAATTTC
Found at i:438773 original size:2 final size:2
Alignment explanation
Indices: 438766--438792 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
438756 TAAGTGCATA
438766 AT 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 AT A
438793 AGTATTCACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:440192 original size:21 final size:20
Alignment explanation
Indices: 440168--440215 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
440158 CATGCAACAA
*
440168 AAAATTATAAT-GTAATTAGAT
1 AAAATTATAATAATAA-TA-AT
*
440189 AAAATAATAATAATAATAAT
1 AAAATTATAATAATAATAAT
440209 AAAATTA
1 AAAATTA
440216 AATTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAATTATAATAATAATAAT
Found at i:441724 original size:32 final size:32
Alignment explanation
Indices: 441688--441753 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
441678 CCAACCTAAA
* ** *
441688 GGAGTACCTTTTGACCTTTGATCCTACCCAAG
1 GGAGTACCTTTGGACCTAAGAGCCTACCCAAG
*
441720 GGAGTACCTTTGGGCCTAAGAGCCTACCCAAG
1 GGAGTACCTTTGGACCTAAGAGCCTACCCAAG
441752 GG
1 GG
441754 TCACCTTAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (32 bp):
GGAGTACCTTTGGACCTAAGAGCCTACCCAAG
Found at i:459654 original size:221 final size:222
Alignment explanation
Indices: 459271--459685 Score: 505
Period size: 221 Copynumber: 1.9 Consensus size: 222
459261 TTCGGACAAA
* *
459271 ATGTTTTCATATGATATTTTTGAAAAATTGAGAAGTGATTTTCAAATTTTTCTCATTTAATATTT
1 ATGTTTTCATATGATATTTTTGAAAAATTGAGAAGCGATTTTCAAATGTTTCTCATTTAATATTT
* * ** *
459336 TTCAAAAAATAAATTTTTTGAAAAGTAAGAAAGAAATTTTAAAAGTTTTTTATCAAGTAATTTAT
66 TACAAAAAATAAATTTTTTGAAAAGTAAGAAAGAAATTTCAAAAGTTTCATATCAAGTAATATAT
459401 TTCCAAAAACGAGTAAGTCCTCCAAGCCATTAGTAAGTATTTCGAAAAAGATGA-TAAATCCTTT
131 TTCCAAAAACGAGTAAGTCCTCCAAGCCATTAGTAAGTATTTCGAAAAAGATGATTAAATCCTTT
459465 GGGCCATATATAAGGCCTTCGGGAAAG
196 GGGCCATATATAAGGCCTTCGGGAAAG
* * * * *
459492 ATGTTTTTATATGATGCTTTTTTAAAAA-TGAGAAAGCGATTTTCAAA-GTTTCTTATTTAATCT
1 ATGTTTTCATATGAT-ATTTTTGAAAAATTGAG-AAGCGATTTTCAAATGTTTCTCATTTAATAT
* * * ** *
459555 TTTACGAAAACTGAATTTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCATA-CATAGTAATA
64 TTTACAAAAAATAAATTTTTTGAAAAGTAAGAAAGAAATTTCAAAAGTTTCATATCA-AGTAATA
* * * **** * * ** *
459619 TATTTCTAAAAATGAGTATGTCCTTTGGGCCATTAGTAATTTTTTCGAGCACGATGATTAAATCC
128 TATTTCCAAAAACGAGTAAGTCCTCCAAGCCATTAGTAAGTATTTCGAAAAAGATGATTAAATCC
459684 TT
193 TT
459686 CATATCATCT
Statistics
Matches: 160, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
220 2 0.01
221 126 0.79
222 32 0.20
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (222 bp):
ATGTTTTCATATGATATTTTTGAAAAATTGAGAAGCGATTTTCAAATGTTTCTCATTTAATATTT
TACAAAAAATAAATTTTTTGAAAAGTAAGAAAGAAATTTCAAAAGTTTCATATCAAGTAATATAT
TTCCAAAAACGAGTAAGTCCTCCAAGCCATTAGTAAGTATTTCGAAAAAGATGATTAAATCCTTT
GGGCCATATATAAGGCCTTCGGGAAAG
Found at i:460445 original size:43 final size:42
Alignment explanation
Indices: 460391--460809 Score: 389
Period size: 43 Copynumber: 9.7 Consensus size: 42
460381 GGGCCTGCAA
* ** *
460391 AAACGGTAAGGTCTTACCCTTGCTTATAGCAAAAGAGA-TTGGG
1 AAACTGTAAGG-CTTACCCTTGCACATAGCAAAAGA-ACTGGGG
* * *
460434 AAACTGTAAGGTCTTATCCTTGCACATAG-AAAATGAGCCT-TGG
1 AAACTGTAAGG-CTTACCCTTGCACATAGCAAAA-GA-ACTGGGG
* * *
460477 AAACTGTAAGGACTTACCCTTGCACTTAGCAGAGGAACCTGGGG
1 AAACTGTAAGG-CTTACCCTTGCACATAGCAAAAGAA-CTGGGG
* *
460521 AAACTGTAAGGCTTACCCTTGCACACAGC-AAAGAAACCTAGGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAG-AA-CTGGGG
* * * *
460564 AAACTATAAGGCTTACCCTTGCACACAACAAAGGAACATGGGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAAC-TGGGG
* *
460607 AAACTGTAAGGCTTACCCTTGCACATAGTAAAAGAACCTAGGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAA-CTGGGG
**
460650 AAACTGTAAGGCTTACCCTTGCACATAGCAATGGAACATGGGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAAC-TGGGG
** *
460693 AAACTGTAAGGCTTACCCTTGCACGGAGCAAAATAACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAA-CTGGGG
* * * *
460736 AAACTGTAAGGCTTACCCTTGCGCACAGCAAAGGAACTTGTGG
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAAC-TGGGG
* * *
460779 TAA-TGGTAAGGACTTACCCTCGAACATAGCA
1 AAACT-GTAAGG-CTTACCCTTGCACATAGCA
460810 GAGGAGCCTA
Statistics
Matches: 314, Mismatches: 48, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
42 10 0.03
43 268 0.85
44 36 0.11
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAACTGGGG
Found at i:460507 original size:86 final size:86
Alignment explanation
Indices: 460391--460809 Score: 479
Period size: 86 Copynumber: 4.8 Consensus size: 86
460381 GGGCCTGCAA
* ** * * * *
460391 AAACGGTAAGGTCTTACCCTTGCTTATAGCAAAAG-AGATTGGGAAACTGTAAGGTCTTATCCTT
1 AAACTGTAAGG-CTTACCCTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGG-CTTACCCTT
* *
460455 GCACATAG-AAAATGAGCCT-TGG
64 GCACATAGCAAAA-GAACCTAGGG
* * *
460477 AAACTGTAAGGACTTACCCTTGCACTTAGCAGAGGAACCTGGGGAAACTGTAAGGCTTACCCTTG
1 AAACTGTAAGG-CTTACCCTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTG
*
460542 CACACAGC-AAAGAAACCTAGGG
65 CACATAGCAAAAG-AACCTAGGG
* * *
460564 AAACTATAAGGCTTACCCTTGCACACAACAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
*
460629 ACATAGTAAAAGAACCTAGGG
66 ACATAGCAAAAGAACCTAGGG
*
460650 AAACTGTAAGGCTTACCCTTGCACATAGCAATGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
** * *
460715 ACGGAGCAAAATAACCTGGGG
66 ACATAGCAAAAGAACCTAGGG
* * * * * *
460736 AAACTGTAAGGCTTACCCTTGCGCACAGCAAAGGAACTTGTGGTAA-TGGTAAGGACTTACCCTC
1 AAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACATGGGGAAACT-GTAAGG-CTTACCCTT
*
460800 GAACATAGCA
64 GCACATAGCA
460810 GAGGAGCCTA
Statistics
Matches: 285, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.01
86 236 0.83
87 47 0.16
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (86 bp):
AAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
ACATAGCAAAAGAACCTAGGG
Found at i:460584 original size:129 final size:129
Alignment explanation
Indices: 460391--460772 Score: 430
Period size: 129 Copynumber: 3.0 Consensus size: 129
460381 GGGCCTGCAA
* ** * * * * *
460391 AAACGGTAAGGTCTTACCCTTGCTTATAGCAAA-AGAGATTGGGAAACTGTAAGGTCTTATCCTT
1 AAACTGTAAGG-CTTACCCTTGCACACAGCAAAGAAACATAGGGAAACTGTAAGG-CTTACCCTT
* * * * * * *
460455 GCACATAGAAAATGAGCCT-TGGAAACTGTAAGGACTTACCCTTGCACTTAGCAGAGGAACCTGG
64 GCACACAGAAAATGAACCTGGGGAAACTGTAAGG-CTTACCCTTGCACATAGCAAAAGAACCTAG
460519 GG
128 GG
* *
460521 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGAAACCTAGGGAAACTATAAGGCTTACCCTTGC
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGAAACATAGGGAAACTGTAAGGCTTACCCTTGC
* * *
460586 ACACA-ACAAAGGAACATGGGGAAACTGTAAGGCTTACCCTTGCACATAGTAAAAGAACCTAGGG
66 ACACAGA-AAATGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAACCTAGGG
* * * *
460650 AAACTGTAAGGCTTACCCTTGCACATAGCAATGGAACATGGGGAAACTGTAAGGCTTACCCTTGC
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGAAACATAGGGAAACTGTAAGGCTTACCCTTGC
** * * *
460715 ACGGAGCAAAAT-AACCTGGGGAAACTGTAAGGCTTACCCTTGCGCACAGCAAAGGAAC
66 ACACAG-AAAATGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAAC
460773 TTGTGGTAAT
Statistics
Matches: 213, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.00
129 169 0.79
130 42 0.20
131 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (129 bp):
AAACTGTAAGGCTTACCCTTGCACACAGCAAAGAAACATAGGGAAACTGTAAGGCTTACCCTTGC
ACACAGAAAATGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAAGAACCTAGGG
Found at i:464422 original size:30 final size:30
Alignment explanation
Indices: 464386--464444 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
464376 AAAAATGAAA
*
464386 TTTTTGAAAAGTATGAAAACGATTTCCAAT
1 TTTTTGAAAAATATGAAAACGATTTCCAAT
**
464416 TTTTTGAAAAATATGAAAGTGATTTCCAA
1 TTTTTGAAAAATATGAAAACGATTTCCAA
464445 AGTTCCCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (30 bp):
TTTTTGAAAAATATGAAAACGATTTCCAAT
Found at i:464922 original size:28 final size:30
Alignment explanation
Indices: 464869--464924 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
464859 ACTGGATGTA
*
464869 TTTCAAATTTAGATCCTTAGTTTTGATTCT
1 TTTCAAATTTAGATCCTTAGTATTGATTCT
464899 TTTC-AATTTAG-TCC-TAGATATTGATT
1 TTTCAAATTTAGATCCTTAG-TATTGATT
464925 TTAGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 10 0.42
29 7 0.29
30 4 0.17
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (30 bp):
TTTCAAATTTAGATCCTTAGTATTGATTCT
Found at i:474472 original size:21 final size:20
Alignment explanation
Indices: 474429--474477 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
474419 ATTGAATGTT
474429 TATT-TTTTATATTTTGTAA
1 TATTATTTTATATTTTGTAA
*
474448 -ATTATTTTATATTATTTTAA
1 TATTATTTTATATT-TTGTAA
474468 TATTAATTTT
1 TATT-ATTTT
474478 TTGTAGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 9 0.36
20 5 0.20
21 3 0.12
22 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTATTTTATATTTTGTAA
Found at i:478303 original size:24 final size:24
Alignment explanation
Indices: 478276--478327 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
478266 AACGGATATA
*
478276 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
478300 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
478324 TCAA
1 TCAA
478328 GTAAAAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:478390 original size:24 final size:24
Alignment explanation
Indices: 478299--478390 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 24
478289 CATAAATCAG
* *
478299 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
**
478323 GTCAAGTAAAAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
478347 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
478371 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
478391 TCAAATCGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
23 5 0.09
24 50 0.88
25 2 0.04
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:483014 original size:24 final size:24
Alignment explanation
Indices: 482987--483062 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
482977 TATATCAAAA
* *
482987 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAAGTCAAGT
* *
483011 ATCATATCAGAAATCAAGTCAAGT
1 ATCAAAACAGAAATCAAGTCAAGT
* * *
483035 AACATATCAG-AATCCAAGTCAAGT
1 ATCAAAACAGAAAT-CAAGTCAAGT
483059 ATCA
1 ATCA
483063 GATCAGAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAAGTCAAGT
Found at i:483067 original size:24 final size:24
Alignment explanation
Indices: 483004--483119 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
482994 CATAAATCAG
*
483004 GTCAAGTATCATATCAGAAAT-CAA
1 GTCAAGTATCAGATCAG-AATCCAA
* *
483028 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
483052 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
*
483076 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAA
*
483100 GTCAAGTATTAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
483120 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 77 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:483135 original size:48 final size:48
Alignment explanation
Indices: 483004--483137 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 48
482994 CATAAATCAG
* * * *
483004 GTCAAGTATCATATCAGAAAT-CAAGTCAAGTAA-CATATCAGAATCCAA
1 GTCAAGTATCAGATCAG-AATCCAAATC-AGAAATCAGATCAGAATCCAA
** * *
483052 GTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
* *
483100 GTCAAGTATTAGATCAGAATTCAAATC-GAAAATCAGAT
1 GTCAAGTATCAGATCAGAATCCAAATCAG-AAATCAGAT
483138 AAAATATTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 7 0.10
48 65 0.90
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
Found at i:485590 original size:19 final size:19
Alignment explanation
Indices: 485566--485602 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
485556 TCAAAGTTTT
485566 GGTCAACAGTAGTCAACGC
1 GGTCAACAGTAGTCAACGC
* *
485585 GGTCAACGGTGGTCAACG
1 GGTCAACAGTAGTCAACG
485603 GTCAATGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.16
Consensus pattern (19 bp):
GGTCAACAGTAGTCAACGC
Found at i:485622 original size:8 final size:8
Alignment explanation
Indices: 485577--485637 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
485567 GTCAACAGTA
485577 GTCAACGCG
1 GTCAACG-G
485586 GTCAACGGTG
1 GTCAAC-G-G
485596 GTCAAC-G
1 GTCAACGG
* *
485603 GTCAATGA
1 GTCAACGG
485611 GTCAACGG
1 GTCAACGG
485619 GTCAACGG
1 GTCAACGG
*
485627 ATCAACGG
1 GTCAACGG
485635 GTC
1 GTC
485638 GGGTCAACAG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
7 6 0.14
8 23 0.53
9 6 0.14
10 8 0.19
ACGTcount: A:0.26, C:0.25, G:0.33, T:0.16
Consensus pattern (8 bp):
GTCAACGG
Found at i:490485 original size:41 final size:41
Alignment explanation
Indices: 490429--490510 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
490419 TACTTGTTTT
490429 TTTTTTCAAACATGACCGAAGTGATTTTAGATGAAATATAG
1 TTTTTTCAAACATGACCGAAGTGATTTTAGATGAAATATAG
490470 TTTTTTCAAACATGACCGAAGTGATTTTAGATGAAATATAG
1 TTTTTTCAAACATGACCGAAGTGATTTTAGATGAAATATAG
490511 AATCGAAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (41 bp):
TTTTTTCAAACATGACCGAAGTGATTTTAGATGAAATATAG
Found at i:491446 original size:18 final size:18
Alignment explanation
Indices: 491423--491457 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
491413 TTCCATCCGG
*
491423 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
491441 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
491458 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:492795 original size:18 final size:18
Alignment explanation
Indices: 492754--492810 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
492744 ACGGTCAACA
* *
492754 GGTCGAGTCAACGAGTCG
1 GGTCGGGTCAACGGGTCG
492772 GGTCGGGTCAACGGGTCG
1 GGTCGGGTCAACGGGTCG
* *
492790 GGTCGGGTAAACGGGTTG
1 GGTCGGGTCAACGGGTCG
492808 GGT
1 GGT
492811 TGTGACCGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCAACGGGTCG
Found at i:495915 original size:41 final size:39
Alignment explanation
Indices: 495837--495915 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
495827 TGGCCTGGCC
*
495837 TATTTAATAAAAAGGCCAGGTCAGGCCTTTTTAAAAGCT
1 TATTTAATAAAAAGGCCAGGTCAGGCCTTATTAAAAGCT
* *
495876 TATTTAATTAAACAGGCCAGGCTTAGGCC-TATTAGAAAGC
1 TATTTAA-TAAAAAGGCCAGG-TCAGGCCTTATTA-AAAGC
495916 CATATAAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 7 0.21
40 16 0.47
41 11 0.32
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (39 bp):
TATTTAATAAAAAGGCCAGGTCAGGCCTTATTAAAAGCT
Found at i:496071 original size:17 final size:17
Alignment explanation
Indices: 496049--496081 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
496039 TGTTAAACAG
*
496049 GCTTTTTAACAGGCCAA
1 GCTTTTAAACAGGCCAA
496066 GCTTTTAAACAGGCCA
1 GCTTTTAAACAGGCCA
496082 GGCCAAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (17 bp):
GCTTTTAAACAGGCCAA
Found at i:496219 original size:15 final size:15
Alignment explanation
Indices: 496199--496230 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
496189 AGTAGGGATT
496199 ACTTCCCATTTACAG
1 ACTTCCCATTTACAG
*
496214 ACTTCCTATTTACAG
1 ACTTCCCATTTACAG
496229 AC
1 AC
496231 GTGCATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.31, G:0.06, T:0.34
Consensus pattern (15 bp):
ACTTCCCATTTACAG
Found at i:497267 original size:2 final size:2
Alignment explanation
Indices: 497262--497298 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
497252 AAATATTATG
*
497262 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
497299 ACGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:497336 original size:16 final size:16
Alignment explanation
Indices: 497315--497352 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
497305 AAAAATAATT
497315 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
497331 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
497347 T-ATAAA
1 TAATAAA
497353 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:497551 original size:15 final size:16
Alignment explanation
Indices: 497527--497560 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
497517 TAATAGTGCA
497527 ATAATAATAAATAT-T
1 ATAATAATAAATATAT
*
497542 ATAATTATAAATATAT
1 ATAATAATAAATATAT
497558 ATA
1 ATA
497561 TATATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATAATAAATATAT
Found at i:498056 original size:36 final size:37
Alignment explanation
Indices: 497984--498084 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
497974 AGTGTTGTGG
* * * *
497984 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
498021 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
498057 ATCCTATTTTT-GAGAGTTTGAATCCTAG
1 ATCCTATTTTTAG-GAGTTTGAATCCTAG
498085 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.53
37 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:498733 original size:100 final size:103
Alignment explanation
Indices: 498545--499047 Score: 520
Period size: 106 Copynumber: 4.9 Consensus size: 103
498535 AATATTGTTC
* * * **
498545 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAC---GAAATTGCTTGTTGACA
* * *
498610 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
63 ATCAGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
* * * *
498651 CGAGTCTAATATCCTTCGTTGTGAAGATGAAATTGACTCTG-AACGAAA-T-CTTGTTGACAATC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGAAATTGCTTGTTGACAATC
* * *
498713 AGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 AGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
* * * *
498751 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA--CG-AAATTGCTTGTTGACA
* * *
498816 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
63 ATCAGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
* ** * * * *
498857 CGAGTCCAATATCCTTCACTGTGAAGTTGAGTTTGGCTC-----CGAAATTGCTTATCGACAGTT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGAAATTGCTTGTTGACAATC
* *
498917 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 AGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
* * * * *
498955 TGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAC---GAAATTGCTTGTTGACA
* *
499019 ACCAGCCGTCTCTTCGTTGTGAAGTTGAG
63 ATCAGCCGTCCCTTCGTTGTGAAGTTGAG
499048 ATTGGCTCCG
Statistics
Matches: 329, Mismatches: 54, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
98 78 0.24
99 1 0.00
100 80 0.24
101 3 0.01
102 4 0.01
103 2 0.01
104 3 0.01
105 34 0.10
106 124 0.38
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (103 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGAAATTGCTTGTTGACAATC
AGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
Found at i:499062 original size:160 final size:160
Alignment explanation
Indices: 498876--499206 Score: 581
Period size: 160 Copynumber: 2.1 Consensus size: 160
498866 TATCCTTCAC
* * *
498876 TGTGAAGTTGAGTTTGGCTCCGAAATTGCTTATCGACAGTTAGCCGCCCCTTCGCTGTGAAGTTG
1 TGTGAAGTTGAGATTGGCTCCGAAATTGCTTATCGACAGTCAGCCACCCCTTCGCTGTGAAGTTG
*
498941 AGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAA
66 AGCTTGTGCTATCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAA
*
499006 ATTATTGTTGACAACCAGCCGTCTCTTCGT
131 ATTATTGTTGACAACCAGCCGTCCCTTCGT
* * *
499036 TGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTTGACAGTCAGCCACCCCTTCGCTGTGAAGTTG
1 TGTGAAGTTGAGATTGGCTCCGAAATTGCTTATCGACAGTCAGCCACCCCTTCGCTGTGAAGTTG
*
499101 AGCTTGTGCTATCTTGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCCCTGAAACTGGGAA
66 AGCTTGTGCTATCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAA
499166 ATTATTGTTGACAACCAGCCGTCCCTTCGT
131 ATTATTGTTGACAACCAGCCGTCCCTTCGT
499196 TGTGAAGTTGA
1 TGTGAAGTTGA
499207 ACTTGTGTTG
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
160 162 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (160 bp):
TGTGAAGTTGAGATTGGCTCCGAAATTGCTTATCGACAGTCAGCCACCCCTTCGCTGTGAAGTTG
AGCTTGTGCTATCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAA
ATTATTGTTGACAACCAGCCGTCCCTTCGT
Found at i:499253 original size:105 final size:105
Alignment explanation
Indices: 499065--499254 Score: 263
Period size: 105 Copynumber: 1.8 Consensus size: 105
499055 CCGAAATTGT
** * * *
499065 TTGTTGACAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTATCTTGGGTCCAATATCCT
1 TTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCT
* *
499130 TCGTTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTA
66 TCGCTGTGAAGTCAAAATTGGCCCTGAAACTGGGAAATTA
** * * *
499170 TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCT
1 TTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCT
*
499235 TCGCTGTGAAGTCGAAATTG
66 TCGCTGTGAAGTCAAAATTG
499255 ACTCTAGCTA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (105 bp):
TTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCT
TCGCTGTGAAGTCAAAATTGGCCCTGAAACTGGGAAATTA
Found at i:499812 original size:65 final size:65
Alignment explanation
Indices: 499708--499873 Score: 296
Period size: 65 Copynumber: 2.6 Consensus size: 65
499698 GACAAAATTT
499708 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
499773 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
499838 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
499874 TTGTTTCGAG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 95 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:499879 original size:102 final size:102
Alignment explanation
Indices: 499773--500230 Score: 772
Period size: 102 Copynumber: 4.5 Consensus size: 102
499763 TCAATGTTTA
* **
499773 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
499838 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
499875 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
499940 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
499977 TGTTTCAAGGGAAACTAACTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
500042 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
500079 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
500144 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
500181 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
500231 CTGTCTCAAG
Statistics
Matches: 332, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 332 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:499889 original size:37 final size:37
Alignment explanation
Indices: 499838--500248 Score: 251
Period size: 37 Copynumber: 11.9 Consensus size: 37
499828 TCAATGTTTA
* *
499838 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
499875 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
499911 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
499939 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
**
499977 TGTTTCAAGGGAAACTAACTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * **
500013 CATTTCAAGGGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* **
500041 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
500079 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
500115 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
500143 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
500181 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
500217 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
500249 TGGTGAGCAC
Statistics
Matches: 278, Mismatches: 57, Indels: 78
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.01
28 5 0.02
29 39 0.14
30 11 0.04
32 2 0.01
33 2 0.01
34 2 0.01
35 7 0.03
36 82 0.29
37 115 0.41
38 10 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:500152 original size:50 final size:50
Alignment explanation
Indices: 499996--500155 Score: 124
Period size: 50 Copynumber: 3.2 Consensus size: 50
499986 GGAAACTAAC
* *
499996 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTT
1 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
* *** * ** * * * * *** * *
500046 TCAAGAGAAAC-TGTCTCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAACTCATTTCA-AGGGAAATGT-TTTCAATGTTTA-TGTT
500098 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
500148 TCAAGAGA
1 TCAAGAGA
500156 AACTGTCTCA
Statistics
Matches: 72, Mismatches: 34, Indels: 8
0.63 0.30 0.07
Matches are distributed among these distances:
49 5 0.07
50 27 0.38
51 15 0.21
52 19 0.26
53 6 0.08
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (50 bp):
TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:500226 original size:36 final size:36
Alignment explanation
Indices: 500144--500248 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
500134 TCAATGTTTA
* * * *
500144 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
500181 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
500217 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
500249 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 38 0.59
37 26 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Done.