Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 29 of 120
Found at i:7541721 original size:23 final size:25
Alignment explanation
Indices: 7541681--7541739 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 25
7541671 TGTTAATATA
*
7541681 TGATAAAAA-TGTATTTTAGTTTTT
1 TGATAAAAATTGTATTTTAATTTTT
7541705 TGATAAAAATTG-A-TTTAATTTTT
1 TGATAAAAATTGTATTTTAATTTTT
7541728 T--TAAAAATTGTA
1 TGATAAAAATTGTA
7541740 AAATCATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.28
22 1 0.03
23 10 0.31
24 10 0.31
25 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (25 bp):
TGATAAAAATTGTATTTTAATTTTT
Found at i:7551447 original size:90 final size:88
Alignment explanation
Indices: 7551305--7551476 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 88
7551295 TTTGGTACTG
* * **
7551305 AACTTAACACTTTTTCCTAATTTGGTATTTAAAATTTTTTTGTCCAATTTGGTACTCAAACTTGA
1 AACTTAACACTTTTT-CTAAGTTGGTAATTAAAATTTTTGGGTCCAATTTGGTACTCAAACTTGA
*
7551370 CATTTTTTTTCTTAATTTGTTATCTA
65 C--TTTTTTTCCTAATTTGTTATCTA
* * **
7551396 AACTTGACACTTTTT-TAAGTTGGTAATTAAACTTTTTGGGGTCCAATTTGGTACTTGAACTTGA
1 AACTTAACACTTTTTCTAAGTTGGTAATTAAAATTTTT-GGGTCCAATTTGGTACTCAAACTTGA
7551460 CTTTTTTTCCTAATTTG
65 CTTTTTTTCCTAATTTG
7551477 GTACCTAATT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
88 15 0.21
89 19 0.27
90 23 0.32
91 14 0.20
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (88 bp):
AACTTAACACTTTTTCTAAGTTGGTAATTAAAATTTTTGGGTCCAATTTGGTACTCAAACTTGAC
TTTTTTTCCTAATTTGTTATCTA
Found at i:7551716 original size:60 final size:59
Alignment explanation
Indices: 7551629--7551820 Score: 239
Period size: 60 Copynumber: 3.2 Consensus size: 59
7551619 ATTTAATAAA
** *
7551629 TTTAGGTACCAAATTGAAT-ATAGAAAAATCTTAGATACCAAATTAGAGAAAAA-TGTCAAG
1 TTTAGGTACCAAATTGGGTCA-A-AAAAAT-TTAGGTACCAAATTAGAGAAAAAGTGTCAAG
**
7551689 TTTAAATACCAAATTGGGTCCAAAAAAAGTTTAGGTACCAAATTAG-GAAAAAGTGTCAAG
1 TTTAGGTACCAAATTGGGT-CAAAAAAA-TTTAGGTACCAAATTAGAGAAAAAGTGTCAAG
* * *
7551749 TTCAGGTACCAAATTGGGTCAAAAAAAATTAGGTACCAAATTA-AGAAAAAGTGTGAAG
1 TTTAGGTACCAAATTGGGTCAAAAAAATTTAGGTACCAAATTAGAGAAAAAGTGTCAAG
7551807 TTTAGGTACCAAAT
1 TTTAGGTACCAAAT
7551821 GTTATATTAA
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
58 41 0.35
59 14 0.12
60 58 0.50
61 2 0.02
62 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (59 bp):
TTTAGGTACCAAATTGGGTCAAAAAAATTTAGGTACCAAATTAGAGAAAAAGTGTCAAG
Found at i:7551756 original size:31 final size:30
Alignment explanation
Indices: 7551715--7551820 Score: 105
Period size: 31 Copynumber: 3.6 Consensus size: 30
7551705 GGTCCAAAAA
7551715 AAGTTTAGGTACCAAATTAGGAAAAAGTGT
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGT
* *
7551745 CAAGTTCAGGTACCAAATTGGGTCAAAAA----
1 -AAGTTTAGGTACCAAATTAGG--AAAAAGTGT
* *
7551774 AA-ATTAGGTACCAAATTAAGAAAAAGTGT
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGT
7551803 GAAGTTTAGGTACCAAAT
1 -AAGTTTAGGTACCAAAT
7551821 GTTATATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
25 5 0.08
27 14 0.23
28 2 0.03
30 2 0.03
31 32 0.53
33 5 0.08
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAGGAAAAAGTGT
Found at i:7551801 original size:58 final size:60
Alignment explanation
Indices: 7551659--7551820 Score: 231
Period size: 58 Copynumber: 2.7 Consensus size: 60
7551649 TAGAAAAATC
* ** *
7551659 TTAGATACCAAATTAGAGAAAAA-TGTCAAGTTTAAATACCAAATTGGGTCCAAAAAAAGT
1 TTAGGTACCAAATTA-AGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGTCCAAAAAAAGA
* *
7551719 TTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGGGT-CAAAAAAA-A
1 TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGTCCAAAAAAAGA
*
7551777 TTAGGTACCAAATTAAGAAAAAGTGTGAAGTTTAGGTACCAAAT
1 TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAAT
7551821 GTTATATTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
58 41 0.45
59 14 0.15
60 37 0.40
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.25
Consensus pattern (60 bp):
TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGTCCAAAAAAAGA
Found at i:7561462 original size:21 final size:21
Alignment explanation
Indices: 7561430--7561487 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
7561420 CCTGTACTAG
*
7561430 TTCTACCAATACAAGTATGAT
1 TTCTACCGATACAAGTATGAT
* *
7561451 TTTTACCGATACAATTATGAT
1 TTCTACCGATACAAGTATGAT
7561472 TTCTACCGATACAAGT
1 TTCTACCGATACAAGT
7561488 CATGCAACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
TTCTACCGATACAAGTATGAT
Found at i:7563974 original size:33 final size:34
Alignment explanation
Indices: 7563914--7563989 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 34
7563904 TAATAATTGA
* * *
7563914 ATTAAAAACAAAAATAATTAATTAATTAACATTAT
1 ATTAAAAAC-AAAATAAATAATCAATTAACATAAT
7563949 ATTAAAAAC-AAATAAATAATCAATTAACATAAT
1 ATTAAAAACAAAATAAATAATCAATTAACATAAT
7563982 ATTAAAAA
1 ATTAAAAA
7563990 TTAATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 29 0.76
35 9 0.24
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (34 bp):
ATTAAAAACAAAATAAATAATCAATTAACATAAT
Found at i:7565858 original size:34 final size:33
Alignment explanation
Indices: 7565820--7565891 Score: 117
Period size: 34 Copynumber: 2.2 Consensus size: 33
7565810 AGTAAACAAC
* *
7565820 ATTTGGGTAAGGTAAAAGGTAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAA-TAAAAAT
7565854 ATTTGGGTAAGATAAAAGATAAAAAATAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAATAAAAAT
7565887 ATTTG
1 ATTTG
7565892 AGTTTAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 12 0.33
34 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (33 bp):
ATTTGGGTAAGATAAAAGATAAAAAATAAAAAT
Found at i:7571428 original size:67 final size:67
Alignment explanation
Indices: 7571317--7571448 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
7571307 ACACCACTAC
* * *
7571317 TGTCATTTTTTTCTCATGAACCGTGTATCTCCTCTCAATGTCATTGAGCTTCCAGCTTTCAAAGG
1 TGTCATTTCTTTCCCATGAACCGTGTATCTCCTCTCAATCTCATTGAGCTTCCAGCTTTCAAAGG
7571382 GT
66 GT
* * ** *
7571384 TGTCATTTCTTTCCCATGGACCGTGTATCTTCTCTCGGTCTCATTGAGCTTTCAGCTTTCAAAGG
1 TGTCATTTCTTTCCCATGAACCGTGTATCTCCTCTCAATCTCATTGAGCTTCCAGCTTTCAAAGG
7571449 TAATCGGATG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (67 bp):
TGTCATTTCTTTCCCATGAACCGTGTATCTCCTCTCAATCTCATTGAGCTTCCAGCTTTCAAAGG
GT
Found at i:7573001 original size:64 final size:64
Alignment explanation
Indices: 7572927--7573047 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
7572917 CATTAGTCCG
7572927 TTCTTCTTATGACCATTCTTAACCTCCATGGAGCTAATGATGGAGTTAAGCTTAAGACAGTCTC
1 TTCTTCTTATGACCATTCTTAACCTCCATGGAGCTAATGATGGAGTTAAGCTTAAGACAGTCTC
*
7572991 TTCTTCTTATGACCCTTCTTAACCTCCATGGAGCTAATGATGGAGTTAAGCTTAAGA
1 TTCTTCTTATGACCATTCTTAACCTCCATGGAGCTAATGATGGAGTTAAGCTTAAGA
7573048 GCCTCCTTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (64 bp):
TTCTTCTTATGACCATTCTTAACCTCCATGGAGCTAATGATGGAGTTAAGCTTAAGACAGTCTC
Found at i:7578711 original size:31 final size:29
Alignment explanation
Indices: 7578645--7578712 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7578635 GGGGTTACTC
* *
7578645 ATATAAGGGCCAAACCTTTCAAAATGCTA
1 ATATAAGGGCCAAACCTTTAAAAATGATA
*
7578674 ATATAAGGGCCTAACCTTTATAAAAATGATCA
1 ATATAAGGGCCAAACC-TT-TAAAAATGAT-A
7578706 A-ATAAGG
1 ATATAAGG
7578713 ACTTTTGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.45
30 2 0.06
31 14 0.42
32 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (29 bp):
ATATAAGGGCCAAACCTTTAAAAATGATA
Found at i:7578960 original size:25 final size:25
Alignment explanation
Indices: 7578932--7578981 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7578922 TAATTTAAAC
7578932 CATATATAAATTATTAATATATACT
1 CATATATAAATTATTAATATATACT
7578957 CATATATAAATTATTAATATATACT
1 CATATATAAATTATTAATATATACT
7578982 TTACCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
CATATATAAATTATTAATATATACT
Found at i:7581406 original size:15 final size:17
Alignment explanation
Indices: 7581378--7581409 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
7581368 GATCAAAGTG
7581378 TAATAAATCAATATCAT
1 TAATAAATCAATATCAT
7581395 TAAT-AATC-ATATCAT
1 TAATAAATCAATATCAT
7581410 ATATGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAAATCAATATCAT
Found at i:7583690 original size:21 final size:21
Alignment explanation
Indices: 7583657--7583697 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7583647 CGTGTGATAA
* * *
7583657 GTCATTTGGTAGACCGTGTGG
1 GTCATGTGATAGACCATGTGG
7583678 GTCATGTGATAGACCATGTG
1 GTCATGTGATAGACCATGTG
7583698 ATATGCCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.32
Consensus pattern (21 bp):
GTCATGTGATAGACCATGTGG
Found at i:7585205 original size:10 final size:10
Alignment explanation
Indices: 7585186--7585219 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
7585176 ATTTAACCTT
7585186 AATTTTAAAA
1 AATTTTAAAA
7585196 AA-TTTAAAA
1 AATTTTAAAA
7585205 ATATTTTAAAA
1 A-ATTTTAAAA
7585216 AATT
1 AATT
7585220 ATTTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.36
10 6 0.27
11 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:7585619 original size:13 final size:13
Alignment explanation
Indices: 7585584--7585619 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7585574 TTATATGTGG
*
7585584 TTTAAATTTGGGA
1 TTTAAATTTTGGA
*
7585597 TTTAAATTTTGTA
1 TTTAAATTTTGGA
7585610 TTTAAATTTT
1 TTTAAATTTT
7585620 AAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (13 bp):
TTTAAATTTTGGA
Found at i:7595228 original size:26 final size:26
Alignment explanation
Indices: 7595189--7595249 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
7595179 ATTACATAGT
* * * *
7595189 CAACAGATACAGTTCAGTTGTGTAGA
1 CAACAGTTAAAGTTCAATGGTGTAGA
* *
7595215 CAACAGTTAAAGTTCAATGGTTTAGT
1 CAACAGTTAAAGTTCAATGGTGTAGA
7595241 CAACAGTTA
1 CAACAGTTA
7595250 CAATTCGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (26 bp):
CAACAGTTAAAGTTCAATGGTGTAGA
Found at i:7600371 original size:22 final size:19
Alignment explanation
Indices: 7600341--7600384 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
7600331 TAAATAATAA
7600341 AATTAACCCAATTTAATTATTT
1 AATTAACCCAA---AATTATTT
*
7600363 AATTCACCCAAAATTATTT
1 AATTAACCCAAAATTATTT
7600382 AAT
1 AAT
7600385 GAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
22 10 0.48
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAACCCAAAATTATTT
Found at i:7608102 original size:2 final size:2
Alignment explanation
Indices: 7608097--7608157 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
7608087 ACTAAATTGG
7608097 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7608139 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
7608158 ATGTTTAATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7621568 original size:6 final size:6
Alignment explanation
Indices: 7621557--7621592 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
7621547 TGTAATATCA
* *
7621557 TGAGAT TGAGAT TGAGAC TGAGAT TGAGAC TGAGAT
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT
7621593 ATACATGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.28
Consensus pattern (6 bp):
TGAGAT
Found at i:7621578 original size:12 final size:12
Alignment explanation
Indices: 7621557--7621592 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7621547 TGTAATATCA
*
7621557 TGAGATTGAGAT
1 TGAGACTGAGAT
7621569 TGAGACTGAGAT
1 TGAGACTGAGAT
7621581 TGAGACTGAGAT
1 TGAGACTGAGAT
7621593 ATACATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.28
Consensus pattern (12 bp):
TGAGACTGAGAT
Found at i:7621580 original size:18 final size:18
Alignment explanation
Indices: 7621557--7621591 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7621547 TGTAATATCA
*
7621557 TGAGATTGAGATTGAGAC
1 TGAGATTGAGACTGAGAC
7621575 TGAGATTGAGACTGAGA
1 TGAGATTGAGACTGAGA
7621592 TATACATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (18 bp):
TGAGATTGAGACTGAGAC
Found at i:7627967 original size:7 final size:7
Alignment explanation
Indices: 7627937--7627991 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
7627927 CGAACAGACT
7627937 GTTGACC
1 GTTGACC
* *
7627944 GTTAAAC
1 GTTGACC
*
7627951 ATTGACC
1 GTTGACC
*
7627958 GTTGATC
1 GTTGACC
*
7627965 GTTGAAC
1 GTTGACC
7627972 GTTGACC
1 GTTGACC
7627979 GTTGACC
1 GTTGACC
7627986 GTTGAC
1 GTTGAC
7627992 TTTTTCGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (7 bp):
GTTGACC
Found at i:7627989 original size:21 final size:21
Alignment explanation
Indices: 7627937--7627990 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
7627927 CGAACAGACT
*
7627937 GTTGACCGTTAAACATTGACC
1 GTTGACCGTTGAACATTGACC
* *
7627958 GTTGATCGTTGAACGTTGACC
1 GTTGACCGTTGAACATTGACC
7627979 GTTGACCGTTGA
1 GTTGACCGTTGA
7627991 CTTTTTCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (21 bp):
GTTGACCGTTGAACATTGACC
Found at i:7630451 original size:3 final size:3
Alignment explanation
Indices: 7630443--7630490 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
7630433 AAGGGCCCAA
* * *
7630443 ATT ATT ATT ATT ATC ATT ACT GTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7630491 TTGGGTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7630963 original size:51 final size:49
Alignment explanation
Indices: 7630908--7631242 Score: 146
Period size: 51 Copynumber: 6.8 Consensus size: 49
7630898 AGAAAAGTGT
7630908 TGATTTTTTTAACAATTTCGAAATAAAAGATTT-GATTTTTAAGAAAAATAA
1 TGATTTTTTTAACAATTT-GAAATAAAA-ATTTAGATTTTTAA-AAAAATAA
* *
7630959 TGATTTTCTTAA-AA----AAA-AAGAAAGTTTAGATTTTTAAAAATAAAAA
1 TGATTTTTTTAACAATTTGAAATAA-AAA-TTTAGATTTTTAAAAA-AATAA
* * * * * * * **
7631005 T-CTGTTTTTTAGCCATTTAAAAGAAAAATTTTAAATTTTTAAACAAAGTTT
1 TGAT-TTTTTTAACAATTTGAAATAAAAA-TTTAGATTTTTAAA-AAAATAA
* * *
7631056 TGATTTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAAGAAAAATAG
1 TGATTTTTTTAACAATTT-GAAATAAAAATTTAGATTTTTAA-AAAAATAA
* * *
7631107 TGATTTTCTTTAA-AA----AAA-AGAAATTTTAAATTTTTAAAAATAAAAA
1 TGATTTT-TTTAACAATTTGAAATA-AAAATTTAGATTTTTAAAAA-AATAA
* * * * * **
7631153 T-ATGTTTTTTAATC-ATTTTAAAGAAAAAGTTCAAATTTTTAAATAAATTTT
1 TGAT-TTTTTTAA-CAATTTGAAATAAAAA-TTTAGATTTTTAAA-AAAATAA
*
7631204 TAATTTTTTTTAA-AATTTCGAAATAAAAATTTAGATTTT
1 TGA-TTTTTTTAACAATTT-GAAATAAAAATTTAGATTTT
7631243 CAAGTAAAGT
Statistics
Matches: 214, Mismatches: 38, Indels: 64
0.68 0.12 0.20
Matches are distributed among these distances:
44 3 0.01
45 23 0.11
46 45 0.21
47 1 0.00
50 8 0.04
51 95 0.44
52 38 0.18
53 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (49 bp):
TGATTTTTTTAACAATTTGAAATAAAAATTTAGATTTTTAAAAAAATAA
Found at i:7631140 original size:148 final size:147
Alignment explanation
Indices: 7630901--7631407 Score: 630
Period size: 148 Copynumber: 3.4 Consensus size: 147
7630891 GATCTTGAGA
* * *
7630901 AAAGTGTTGATTTTTTTAACAATTTCGAAATAAAAGATTTGATTTTTAAGAAAAATAATGATTTT
1 AAAGTTTTAATTTTTTTAACAATTTCGAAATAAAA-ATTTGATTTTTAAGAAAAATAGTGATTTT
* * *
7630966 CTTAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGCCATTTAAAAGAAA
65 CTTTAAAAAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAGCCATTTAAAAGAAA
*
7631031 AATTTTAAATTTTTAAAC
130 AAGTTTAAATTTTTAAAC
* *
7631049 AAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAAGAAAAATAGTGATTTT
1 AAAGTTTTAATTTTTTTAACAATTTCGAAATAAAAATTT-GATTTTTAAGAAAAATAGTGATTTT
* ** *
7631114 CTTTAAAAAAAAGAAATTTTAAATTTTTAAAAATAAAAATATGTTTTTTAATCATTTTAAAGAAA
65 CTTTAAAAAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAGCCATTTAAAAGAAA
* *
7631179 AAGTTCAAATTTTTAAAT
130 AAGTTTAAATTTTTAAAC
* * * *
7631197 AAATTTTTAATTTTTTTTAA-AATTTCGAAATAAAAATTTAGATTTTCAAGTAAAGTAGTGATTT
1 AAAGTTTTAA-TTTTTTTAACAATTTCGAAATAAAAATTT-GATTTTTAAGAAAAATAGTGA-TT
* ** ** * * *
7631261 TTTTTTTTAAAAGGGAAAGTTTAAATTTTTAAAAATAAAAAAAATGTTTTTTAGGCATTTCAAAC
63 TTCTTTAAAAAAAAGAAAGTTTAAATTTTTAAAAAT-AAAAATATGTTTTTTAGCCATTT-AAAA
7631326 GAAAAAGTTT-AATTTTTAAAC
126 GAAAAAGTTTAAATTTTTAAAC
* * *
7631347 AAAG-TTTAATTTTTTTAA-ATATTTCGAAAT-AATA-TTGATTTTTAAGTAAAATAGAGATTTT
1 AAAGTTTTAATTTTTTTAACA-ATTTCGAAATAAAAATTTGATTTTTAAGAAAAATAGTGATTTT
7631408 GTTTTGAAAA
Statistics
Matches: 315, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
145 4 0.01
146 18 0.06
147 6 0.02
148 187 0.59
149 56 0.18
150 33 0.10
151 11 0.03
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (147 bp):
AAAGTTTTAATTTTTTTAACAATTTCGAAATAAAAATTTGATTTTTAAGAAAAATAGTGATTTTC
TTTAAAAAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAGCCATTTAAAAGAAAA
AGTTTAAATTTTTAAAC
Found at i:7632243 original size:58 final size:58
Alignment explanation
Indices: 7632157--7632276 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 58
7632147 AAAAGGAGTT
* *
7632157 GTTTGTGAGTGTTATTTAGGAATAAAATTATATTT-GAGTTTAAAAATATTTGGATTTA
1 GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGGA-TTTAAAAATATTTGGATTTA
* *
7632215 GTTTATGAGTGTT-TTTGAAGAATGAAATTATATTTGGATTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTTATTT-AAGAATAAAATTATATTTGGATTTAAAAATATTTGGATTTA
7632273 GTTT
1 GTTT
7632277 GTTGATGGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 3 0.05
58 51 0.91
59 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (58 bp):
GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGGATTTAAAAATATTTGGATTTA
Found at i:7632541 original size:23 final size:23
Alignment explanation
Indices: 7632497--7632542 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7632487 AAAAAAAATT
***
7632497 TAACTCGATTCGTTTAACTCGAA
1 TAACTCGATTCGAAGAACTCGAA
*
7632520 TAACTCGATTCGAAGAATTCGAA
1 TAACTCGATTCGAAGAACTCGAA
7632543 ATTCGAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (23 bp):
TAACTCGATTCGAAGAACTCGAA
Found at i:7633140 original size:16 final size:16
Alignment explanation
Indices: 7633109--7633151 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7633099 TTGTATAATT
7633109 TTTATTTATTTTTTCATC
1 TTTATTTA--TTTTCATC
*
7633127 TTTATTTATTTTCATG
1 TTTATTTATTTTCATC
*
7633143 TCTATTTAT
1 TTTATTTAT
7633152 ATTTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 15 0.65
18 8 0.35
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTATTTATTTTCATC
Found at i:7638871 original size:37 final size:37
Alignment explanation
Indices: 7638825--7638926 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
7638815 ATGATTGAGG
****
7638825 GTTAGTTGAGTTAAGCTCACAACCTTTGGTTATTTGA
1 GTTAGTTGAGTTAAGCTCACAACCTCCAATTATTTGA
* * **
7638862 GTTAATTGAGTTAAACTTGCAACCTCCAATTATTTGA
1 GTTAGTTGAGTTAAGCTCACAACCTCCAATTATTTGA
*
7638899 GTTAGCTGAGTTAAGCTCACAA-CTCCAA
1 GTTAGTTGAGTTAAGCTCACAACCTCCAA
7638927 AACAACTCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
36 6 0.12
37 46 0.88
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (37 bp):
GTTAGTTGAGTTAAGCTCACAACCTCCAATTATTTGA
Found at i:7639227 original size:103 final size:103
Alignment explanation
Indices: 7638868--7639227 Score: 342
Period size: 98 Copynumber: 3.5 Consensus size: 103
7638858 TTGAGTTAAT
* * * * * * * *
7638868 TGAGTTAAACTTGCAACCTCCAATTATTTGAGTTAGCTGAGTTAAGCTCACAACTCCAAAACAAC
1 TGAGTTAAGCTTACAAACTCTAGTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAAACAGC
* * * *
7638933 TCATGAATCTACGTTCCCAATTGATGATTAAAGGTTAGT
66 TCACGGA-CTACGTTCCCAACTGATGATTAAAGGTTAGC
* * * * * * *
7638972 TGAGTTAAGCTTGCAATCTCCAATTATTCGAGTTAGCTAAGTTAACCTCGCAACACCAAAACAG-
1 TGAGTTAAGCTTACAAACTCTAGTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAAACAGC
* *
7639036 T-TC-GA--ACGTTCCCAACTGATGATTAAAGGCTAGC
66 TCACGGACTACGTTCCCAACTGATGATTAAAGGTTAGC
* *
7639070 TGAGTTAAGCTTACAACCTCTAGTT-TTCTGAGTTAGCTGA-TCTAAGCT-GTAACTCCAAAACA
1 TGAGTTAAGCTTACAAACTCTAGTTATTC-GAGTTAGCTGAGT-TAAGCTCGCAACTCCAAAACA
* * * * *
7639132 GCTCGCGGACCTACATTCTCAACTGATTATTAAGGGTTAGC
64 GCTCACGGA-CTACGTTCCCAACTGATGATTAAAGGTTAGC
* * *
7639173 TGAG-TAAGCTCACAAACTTTGGTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTC
1 TGAGTTAAGCTTACAAACTCTAGTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTC
7639228 TGACACAACT
Statistics
Matches: 212, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
97 17 0.08
98 63 0.30
99 1 0.00
100 2 0.01
101 1 0.00
102 33 0.16
103 39 0.18
104 56 0.26
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (103 bp):
TGAGTTAAGCTTACAAACTCTAGTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAAACAGC
TCACGGACTACGTTCCCAACTGATGATTAAAGGTTAGC
Found at i:7639787 original size:26 final size:26
Alignment explanation
Indices: 7639727--7639778 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7639717 AGTTTTAATA
* * *
7639727 GATAATAATTATAAATATTTAGTTAT
1 GATATTAATAATAAATATTAAGTTAT
7639753 GATATTAATAATAAATATTAAGTTAT
1 GATATTAATAATAAATATTAAGTTAT
7639779 ACTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
GATATTAATAATAAATATTAAGTTAT
Found at i:7643550 original size:10 final size:10
Alignment explanation
Indices: 7643535--7643566 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
7643525 ATGTAAGAAA
7643535 TATTTTCTTT
1 TATTTTCTTT
7643545 TATTTTCTTT
1 TATTTTCTTT
*
7643555 TATTTTTTTT
1 TATTTTCTTT
7643565 TA
1 TA
7643567 AAAAAGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (10 bp):
TATTTTCTTT
Found at i:7649657 original size:17 final size:15
Alignment explanation
Indices: 7649632--7649674 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
7649622 CGCAACAAAG
*
7649632 TTTTCTTCTTTCTCATC
1 TTTTTTTCTTTCT--TC
7649649 TTTTTTTCTTTCTTC
1 TTTTTTTCTTTCTTC
7649664 TTCTTTTTCTT
1 TT-TTTTTCTT
7649675 CAACCTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 8 0.33
17 12 0.50
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTTCTTTCTTC
Found at i:7663024 original size:28 final size:28
Alignment explanation
Indices: 7662979--7663038 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
7662969 GAGAGTTCGA
*
7662979 ACTTCGCAAGTTCGCTGTGACAACTT-AC
1 ACTTCGCAAGTTCACTGT-ACAACTTCAC
*
7663007 ACTTCGC-AGCTTCACTGTACAAGTTCAC
1 ACTTCGCAAG-TTCACTGTACAACTTCAC
7663035 ACTT
1 ACTT
7663039 GTTTTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
ACTTCGCAAGTTCACTGTACAACTTCAC
Found at i:7663141 original size:15 final size:16
Alignment explanation
Indices: 7663121--7663168 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
7663111 CCTCTTGTTG
7663121 TGAGCTCGCCAAAT-A
1 TGAGCTCGCCAAATGA
* *
7663136 TGAGCTTGCCAATCTGGA
1 TGAGCTCGCCAA-AT-GA
7663154 TGAGCTCGCCAAATG
1 TGAGCTCGCCAAATG
7663169 TGTTCGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 1 0.04
18 12 0.46
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (16 bp):
TGAGCTCGCCAAATGA
Found at i:7665276 original size:16 final size:17
Alignment explanation
Indices: 7665253--7665290 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
7665243 CACAAATCCC
7665253 AAAT-ATTTG-ATAATA
1 AAATAATTTGAATAATA
7665268 AAATAATTTGAATAATA
1 AAATAATTTGAATAATA
7665285 AAATAA
1 AAATAA
7665291 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 5 0.24
17 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATAATTTGAATAATA
Found at i:7672024 original size:28 final size:28
Alignment explanation
Indices: 7671993--7672073 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
7671983 TTACTTCACG
* *
7671993 GGTTCACTTTGAGAGTTCGCACTTTGCA
1 GGTTCACTGTGAGAGTTCGCACTTCGCA
* *
7672021 GGTTCACTGTGACAGCTCGCACTTCGCA
1 GGTTCACTGTGAGAGTTCGCACTTCGCA
*
7672049 GCTTCACTGT-AGAAGTTCGCACTTC
1 GGTTCACTGTGAG-AGTTCGCACTTC
7672074 TTTTGTGTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (28 bp):
GGTTCACTGTGAGAGTTCGCACTTCGCA
Found at i:7682717 original size:21 final size:21
Alignment explanation
Indices: 7682691--7682740 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
7682681 ACTATCTGTC
7682691 CATTGACTGTAAAATATTTCA
1 CATTGACTGTAAAATATTTCA
7682712 CATTGACTGTAAAATATTTCA
1 CATTGACTGTAAAATATTTCA
7682733 CATTGACT
1 CATTGACT
7682741 TACTCCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (21 bp):
CATTGACTGTAAAATATTTCA
Found at i:7683031 original size:13 final size:13
Alignment explanation
Indices: 7683013--7683037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7683003 GTATAATAAA
7683013 ATATTTATAAAAT
1 ATATTTATAAAAT
7683026 ATATTTATAAAA
1 ATATTTATAAAA
7683038 AATTATTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTATAAAAT
Found at i:7686177 original size:23 final size:23
Alignment explanation
Indices: 7686164--7686218 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 23
7686154 TTATCTGCTT
7686164 TTGTGGCACGTTTTTTCTCTGTC
1 TTGTGGCACGTTTTTTCTCTGTC
*
7686187 TTGTGGCACG----CT-TCTGTC
1 TTGTGGCACGTTTTTTCTCTGTC
7686205 TTGTGGCACGTTTT
1 TTGTGGCACGTTTT
7686219 CGTCTACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
18 16 0.59
19 1 0.04
23 10 0.37
ACGTcount: A:0.05, C:0.22, G:0.25, T:0.47
Consensus pattern (23 bp):
TTGTGGCACGTTTTTTCTCTGTC
Found at i:7686178 original size:24 final size:23
Alignment explanation
Indices: 7686151--7686218 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 23
7686141 TTTCTTCTAA
*
7686151 TTTTTATCTGCTTTTGTGGCACGT
1 TTTTTATCTG-TCTTGTGGCACGT
*
7686175 TTTTTCTCTGTCTTGTGGCACG-
1 TTTTTATCTGTCTTGTGGCACGT
*
7686197 ---CT-TCTGTCTTGTGGCACGT
1 TTTTTATCTGTCTTGTGGCACGT
7686216 TTT
1 TTT
7686219 CGTCTACCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 16 0.43
19 1 0.03
23 11 0.30
24 9 0.24
ACGTcount: A:0.06, C:0.21, G:0.22, T:0.51
Consensus pattern (23 bp):
TTTTTATCTGTCTTGTGGCACGT
Found at i:7701440 original size:28 final size:28
Alignment explanation
Indices: 7701408--7701488 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
7701398 CAAATATTTG
* *
7701408 GTATTTTGGCTCGTAAGAGTATTACTCT
1 GTATTCTGGCTCGTAAGAGCATTACTCT
* *
7701436 GTATTCTAGCTCGTAATAGCATTACTCT
1 GTATTCTGGCTCGTAAGAGCATTACTCT
* *
7701464 GTGTTCTGGCTCGTATGAGCATTAC
1 GTATTCTGGCTCGTAAGAGCATTAC
7701489 ATTGAATTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (28 bp):
GTATTCTGGCTCGTAAGAGCATTACTCT
Found at i:7701498 original size:28 final size:28
Alignment explanation
Indices: 7701416--7701503 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
7701406 TGGTATTTTG
* *
7701416 GCTCGTAAGAGTATTACTCTGTATTCTA
1 GCTCGTATGAGCATTACTCTGTATTCTA
* *
7701444 GCTCGTAAT-AGCATTACTCTGTGTTCTG
1 GCTCGT-ATGAGCATTACTCTGTATTCTA
*
7701472 GCTCGTATGAGCATTACAT-TGAATTCTA
1 GCTCGTATGAGCATTAC-TCTGTATTCTA
7701500 GCTC
1 GCTC
7701504 AAAAGAGAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.04
28 46 0.92
29 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (28 bp):
GCTCGTATGAGCATTACTCTGTATTCTA
Found at i:7701601 original size:28 final size:28
Alignment explanation
Indices: 7701529--7701595 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
7701519 TGTATTCTGT
7701529 CTCGAAAGAGCGATATTCTAAATTTTGG
1 CTCGAAAGAGCGATATTCTAAATTTTGG
7701557 CTCGAAAGAGCGATATTCTATAA-TTTGG
1 CTCGAAAGAGCGATATTCTA-AATTTTGG
*
7701585 TTCGAAAGAGC
1 CTCGAAAGAGC
7701596 ATTATTTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (28 bp):
CTCGAAAGAGCGATATTCTAAATTTTGG
Found at i:7708144 original size:978 final size:978
Alignment explanation
Indices: 7706248--7708204 Score: 3851
Period size: 978 Copynumber: 2.0 Consensus size: 978
7706238 ATTAATTGTG
*
7706248 AGAGGCTAAGATAACTGTGGTTGAAATTTTACATTAGTTTGCTTATATTAAAGTTTATTTAATTC
1 AGAGGCTAAGATAAATGTGGTTGAAATTTTACATTAGTTTGCTTATATTAAAGTTTATTTAATTC
7706313 GAAACACTATAAATTGATTTGGTAGATTAATTTAGTTCGAGTTATGTTTACATTAATTTGGATAT
66 GAAACACTATAAATTGATTTGGTAGATTAATTTAGTTCGAGTTATGTTTACATTAATTTGGATAT
7706378 ATTAAAGCTAATTTATCTGAGTCGATACATGTAGACGTGGTGTAGGTTAATTAGTGTTCGAATAA
131 ATTAAAGCTAATTTATCTGAGTCGATACATGTAGACGTGGTGTAGGTTAATTAGTGTTCGAATAA
7706443 TGATTATATTAAAAATATGTTAAAATTTGATATACAATCAAATTAATTTGACTTAGAATAATTAA
196 TGATTATATTAAAAATATGTTAAAATTTGATATACAATCAAATTAATTTGACTTAGAATAATTAA
7706508 ATTTTGTTTAAAAATTAAAACCACACTAATCACCATGAAATTGGTAACTCAATAATTGTTTTTAA
261 ATTTTGTTTAAAAATTAAAACCACACTAATCACCATGAAATTGGTAACTCAATAATTGTTTTTAA
7706573 TGAATTTGTATATTTTTCTATATTGAAGCAAAAGAGTTACGCTAATTGTTGAAAGTGAAAGTCGT
326 TGAATTTGTATATTTTTCTATATTGAAGCAAAAGAGTTACGCTAATTGTTGAAAGTGAAAGTCGT
7706638 TGAGGGTTCCTTTCATCTAAGCATTAAACATTCGAAAATTCAATATGTGGCATTTCAGTTTTTTT
391 TGAGGGTTCCTTTCATCTAAGCATTAAACATTCGAAAATTCAATATGTGGCATTTCAGTTTTTTT
7706703 TAATATACTGGTGTGATTACATGGTAGTATATGTTCATACTTTCTTAACCCTTTGACAACGCACA
456 TAATATACTGGTGTGATTACATGGTAGTATATGTTCATACTTTCTTAACCCTTTGACAACGCACA
7706768 CACACCTTGCACACACAGGTACTCAAACTTGGGTCTCCTAGGATAAACAACATCCACTTTTCCAC
521 CACACCTTGCACACACAGGTACTCAAACTTGGGTCTCCTAGGATAAACAACATCCACTTTTCCAC
*
7706833 TGAAACCACTTGATAGGTTCTATGGCCTTTCAGTTTTGATATCCTTATATTGTGGTTAATTTAAT
586 TGAAACCACTCGATAGGTTCTATGGCCTTTCAGTTTTGATATCCTTATATTGTGGTTAATTTAAT
*
7706898 AGCTTGATATTTTAAAATTATTTTGTGATTCTTTGCATTCTAAATTTATTTTGCAAAGTGATTAA
651 AGCTTGATATTTTAAAATTATTTTGTGATTCTTTGCATTCTAAATTTATTTTGCAAAGTAATTAA
7706963 TTTAATGCTATTTAAATTGCTATTTTCAATAAATGATAAAAATGTCTGATAAAACTAGTGAGAAA
716 TTTAATGCTATTTAAATTGCTATTTTCAATAAATGATAAAAATGTCTGATAAAACTAGTGAGAAA
7707028 TTCTTCGGATATAGTCGGCATGCCGAAGAGTGTGGGGGTTTCCATCATTGCTTATTTGTGCGTAT
781 TTCTTCGGATATAGTCGGCATGCCGAAGAGTGTGGGGGTTTCCATCATTGCTTATTTGTGCGTAT
7707093 TGCCTTAAGCATCCGGGGAGTATTGTCATTATCGTGCTTTGTGCATTTAATGTTAGGTTGGTCAT
846 TGCCTTAAGCATCCGGGGAGTATTGTCATTATCGTGCTTTGTGCATTTAATGTTAGGTTGGTCAT
7707158 TGATTAAGTCACATTTATCACGCATCGGTGTATTTTCATTATTGATGGTTGCACCATTTTCATCG
911 TGATTAAGTCACATTTATCACGCATCGGTGTATTTTCATTATTGATGGTTGCACCATTTTCATCG
7707223 ACT
976 ACT
7707226 AGAGGCTAAGATAAATGTGGTTGAAATTTTACATTAGTTTGCTTATATTAAAGTTTATTTAATTC
1 AGAGGCTAAGATAAATGTGGTTGAAATTTTACATTAGTTTGCTTATATTAAAGTTTATTTAATTC
7707291 GAAACACTATAAATTGATTTGGTAGATTAATTTAGTTCGAGTTATGTTTACATTAATTTGGATAT
66 GAAACACTATAAATTGATTTGGTAGATTAATTTAGTTCGAGTTATGTTTACATTAATTTGGATAT
7707356 ATTAAAGCTAATTTATCTGAGTCGATACATGTAGACGTGGTGTAGGTTAATTAGTGTTCGAATAA
131 ATTAAAGCTAATTTATCTGAGTCGATACATGTAGACGTGGTGTAGGTTAATTAGTGTTCGAATAA
7707421 TGATTATATTAAAAATATGTTAAAATTTGATATACAATCAAATTAATTTGACTTAGAATAATTAA
196 TGATTATATTAAAAATATGTTAAAATTTGATATACAATCAAATTAATTTGACTTAGAATAATTAA
*
7707486 ATTTTGTTTAAAAATTAAAACCACACTAATCACCATGGAATTGGTAACTCAATAATTGTTTTTAA
261 ATTTTGTTTAAAAATTAAAACCACACTAATCACCATGAAATTGGTAACTCAATAATTGTTTTTAA
7707551 TGAATTTGTATATTTTTCTATATTGAAGCAAAAGAGTTACGCTAATTGTTGAAAGTGAAAGTCGT
326 TGAATTTGTATATTTTTCTATATTGAAGCAAAAGAGTTACGCTAATTGTTGAAAGTGAAAGTCGT
*
7707616 TGAGGGTTCCTTTCATCTAAGCATTAAACATTCGAAAATTCAATATGTGGCCTTTCAGTTTTTTT
391 TGAGGGTTCCTTTCATCTAAGCATTAAACATTCGAAAATTCAATATGTGGCATTTCAGTTTTTTT
7707681 TAATATACTGGTGTGATTACATGGTAGTATATGTTCATACTTTCTTAACCCTTTGACAACGCACA
456 TAATATACTGGTGTGATTACATGGTAGTATATGTTCATACTTTCTTAACCCTTTGACAACGCACA
*
7707746 CACACCTTGCACACATAGGTACTCAAACTTGGGTCTCCTAGGATAAACAACATCCACTTTTCCAC
521 CACACCTTGCACACACAGGTACTCAAACTTGGGTCTCCTAGGATAAACAACATCCACTTTTCCAC
7707811 TGAAACCACTCGATAGGTTCTATGGCCTTTCAGTTTTGATATCCTTATATTGTGGTTAATTTAAT
586 TGAAACCACTCGATAGGTTCTATGGCCTTTCAGTTTTGATATCCTTATATTGTGGTTAATTTAAT
7707876 AGCTTGATATTTTAAAATTATTTTGTGATTCTTTGCATTCTAAATTTATTTTGCAAAGTAATTAA
651 AGCTTGATATTTTAAAATTATTTTGTGATTCTTTGCATTCTAAATTTATTTTGCAAAGTAATTAA
7707941 TTTAATGCTATTTAAATTGCTATTTTCAATAAATGATAAAAATGTCTGATAAAACTAGTGAGAAA
716 TTTAATGCTATTTAAATTGCTATTTTCAATAAATGATAAAAATGTCTGATAAAACTAGTGAGAAA
7708006 TTCTTCGGATATAGTCGGCATGCCGAAGAGTGTGGGGGTTTCCATCATTGCTTATTTGTGCGTAT
781 TTCTTCGGATATAGTCGGCATGCCGAAGAGTGTGGGGGTTTCCATCATTGCTTATTTGTGCGTAT
*
7708071 TGCCTTAAGCATCCGGGGAGTATTGTCATTATCGTGCTTTGTGCATTTAATGTTCGGTTGGTCAT
846 TGCCTTAAGCATCCGGGGAGTATTGTCATTATCGTGCTTTGTGCATTTAATGTTAGGTTGGTCAT
7708136 TGATTAAGTCACATTTATCACGCATCGGTGTATTTTCATTATTGATGGTTGCACCATTTTCATCG
911 TGATTAAGTCACATTTATCACGCATCGGTGTATTTTCATTATTGATGGTTGCACCATTTTCATCG
7708201 ACT
976 ACT
7708204 A
1 A
7708205 TTTAGAAATT
Statistics
Matches: 972, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
978 972 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (978 bp):
AGAGGCTAAGATAAATGTGGTTGAAATTTTACATTAGTTTGCTTATATTAAAGTTTATTTAATTC
GAAACACTATAAATTGATTTGGTAGATTAATTTAGTTCGAGTTATGTTTACATTAATTTGGATAT
ATTAAAGCTAATTTATCTGAGTCGATACATGTAGACGTGGTGTAGGTTAATTAGTGTTCGAATAA
TGATTATATTAAAAATATGTTAAAATTTGATATACAATCAAATTAATTTGACTTAGAATAATTAA
ATTTTGTTTAAAAATTAAAACCACACTAATCACCATGAAATTGGTAACTCAATAATTGTTTTTAA
TGAATTTGTATATTTTTCTATATTGAAGCAAAAGAGTTACGCTAATTGTTGAAAGTGAAAGTCGT
TGAGGGTTCCTTTCATCTAAGCATTAAACATTCGAAAATTCAATATGTGGCATTTCAGTTTTTTT
TAATATACTGGTGTGATTACATGGTAGTATATGTTCATACTTTCTTAACCCTTTGACAACGCACA
CACACCTTGCACACACAGGTACTCAAACTTGGGTCTCCTAGGATAAACAACATCCACTTTTCCAC
TGAAACCACTCGATAGGTTCTATGGCCTTTCAGTTTTGATATCCTTATATTGTGGTTAATTTAAT
AGCTTGATATTTTAAAATTATTTTGTGATTCTTTGCATTCTAAATTTATTTTGCAAAGTAATTAA
TTTAATGCTATTTAAATTGCTATTTTCAATAAATGATAAAAATGTCTGATAAAACTAGTGAGAAA
TTCTTCGGATATAGTCGGCATGCCGAAGAGTGTGGGGGTTTCCATCATTGCTTATTTGTGCGTAT
TGCCTTAAGCATCCGGGGAGTATTGTCATTATCGTGCTTTGTGCATTTAATGTTAGGTTGGTCAT
TGATTAAGTCACATTTATCACGCATCGGTGTATTTTCATTATTGATGGTTGCACCATTTTCATCG
ACT
Found at i:7710668 original size:64 final size:64
Alignment explanation
Indices: 7710564--7710684 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
7710554 AGAAATGATT
*
7710564 AAATTGAATATGATGTAGATGAAGATAACTTAATTTGAGTTAAATTTAGATTAATTACATAATC
1 AAATTGAATATGATGTAGATGAAGATAACTTAATTCGAGTTAAATTTAGATTAATTACATAATC
* * * * *
7710628 AAATTGAATTTGGTGTAGCTGAAGATAACTTGATTCGAGTTAAATTTAGATTCATTA
1 AAATTGAATATGATGTAGATGAAGATAACTTAATTCGAGTTAAATTTAGATTAATTA
7710685 ATTAATTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (64 bp):
AAATTGAATATGATGTAGATGAAGATAACTTAATTCGAGTTAAATTTAGATTAATTACATAATC
Found at i:7714160 original size:35 final size:35
Alignment explanation
Indices: 7714111--7714177 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
7714101 TTCAATCAAA
* *
7714111 TAAGATATTACTTGCAAGTCAAGTTAAACAAAATC
1 TAAGAGATTACTTGCAAGTAAAGTTAAACAAAATC
*
7714146 TAAGAGATTGCTTGCAAGTAAAGTTAAACAAA
1 TAAGAGATTACTTGCAAGTAAAGTTAAACAAA
7714178 TATATTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (35 bp):
TAAGAGATTACTTGCAAGTAAAGTTAAACAAAATC
Found at i:7716429 original size:17 final size:18
Alignment explanation
Indices: 7716381--7716429 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7716371 AATTTAACTC
* *
7716381 ATTTGTTTATTTTTCTTT
1 ATTTATTTATTTTTCGTT
*
7716399 ATTTATTTACTTTT-GTT
1 ATTTATTTATTTTTCGTT
7716416 ATTTATTTATTTTT
1 ATTTATTTATTTTT
7716430 ATTCTTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
ATTTATTTATTTTTCGTT
Found at i:7718440 original size:14 final size:14
Alignment explanation
Indices: 7718421--7718448 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7718411 CTCTAAGAAT
7718421 GATAACCATTGTAC
1 GATAACCATTGTAC
7718435 GATAACCATTGTAC
1 GATAACCATTGTAC
7718449 CTTATGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GATAACCATTGTAC
Found at i:7718637 original size:24 final size:24
Alignment explanation
Indices: 7718603--7718648 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7718593 TCGGCAATTG
7718603 CATAGTAAGTATCGATAGATCTATT
1 CATAGTAAGTATCGATAG-TCTATT
*
7718628 CATAG-AAGTATCGGTAGTCTA
1 CATAGTAAGTATCGATAGTCTA
7718649 GGTACTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (24 bp):
CATAGTAAGTATCGATAGTCTATT
Found at i:7719431 original size:16 final size:16
Alignment explanation
Indices: 7719412--7719456 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
7719402 TTTAAATTTT
*
7719412 AAATTTTTTATTTCTC
1 AAATTTTTTATTTCTA
*
7719428 AAATATTTTTATTTTTA
1 AAAT-TTTTTATTTCTA
*
7719445 AAATTATTTATT
1 AAATTTTTTATT
7719457 GACATGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
AAATTTTTTATTTCTA
Found at i:7719448 original size:17 final size:16
Alignment explanation
Indices: 7719408--7719456 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
7719398 TTTTTTTAAA
7719408 TTTTAAAT-TTTTTAT
1 TTTTAAATATTTTTAT
*
7719423 TTCTCAAATATTTTTAT
1 TT-TTAAATATTTTTAT
7719440 TTTTAAA-ATTATTTAT
1 TTTTAAATATT-TTTAT
7719456 T
1 T
7719457 GACATGACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 5 0.17
16 15 0.52
17 9 0.31
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATATTTTTAT
Found at i:7722273 original size:21 final size:23
Alignment explanation
Indices: 7722222--7722277 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
7722212 CTCTGGGAAT
*
7722222 GATGAAAATGATGGTGAAGACGAC
1 GATGAAAATGATGGTCAAGAC-AC
*
7722246 AATGAAAATGATGGTCAAGA-A-
1 GATGAAAATGATGGTCAAGACAC
7722267 GATGAAAATGA
1 GATGAAAATGA
7722278 AGATAGCGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
24 18 0.62
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.18
Consensus pattern (23 bp):
GATGAAAATGATGGTCAAGACAC
Found at i:7727974 original size:23 final size:23
Alignment explanation
Indices: 7727948--7728074 Score: 148
Period size: 23 Copynumber: 5.4 Consensus size: 23
7727938 AGTGCTGGGT
7727948 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
7727971 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTA
* * *
7727994 ATCAGAGAGCACACAAAATGCTA
1 AACAGAGAGCACACACAGTGCTA
*
7728017 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
*
7728041 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
7728065 AACAGAGAGC
1 AACAGAGAGC
7728075 GCGCTAGTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 69 0.77
24 2 0.02
25 16 0.18
26 3 0.03
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:7728023 original size:69 final size:68
Alignment explanation
Indices: 7727907--7728050 Score: 186
Period size: 69 Copynumber: 2.1 Consensus size: 68
7727897 GAACAAATAA
* *
7727907 AGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGTAACAGAGAGCACACACAGTGCT-A
1 AGAGTACCAAAGTACTAACAGAGAGCACAAAAATGC---GTAACAGAGAGCACACACAGTGCTAA
7727971 -AACAG
63 TAACAG
7727976 AGAGTACACAAAGTACTAATCAGAGAGCACACAAAATGC-TAATCAGAGAGCACACACAGTGCTA
1 AGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAATGCGTAA-CAGAGAGCACACACAGTGCTA
7728040 ATAACAG
62 ATAACAG
7728047 AGAG
1 AGAG
7728051 CACGAGACGT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
68 3 0.04
69 27 0.40
70 12 0.18
71 20 0.30
72 5 0.07
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (68 bp):
AGAGTACCAAAGTACTAACAGAGAGCACAAAAATGCGTAACAGAGAGCACACACAGTGCTAATAA
CAG
Found at i:7728064 original size:48 final size:46
Alignment explanation
Indices: 7727923--7728074 Score: 146
Period size: 48 Copynumber: 3.2 Consensus size: 46
7727913 CCAAAGTACT
* ** *
7727923 AACAGAGAGCACATAAGTGCTGGGTAACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAGTGCT-AATAACAGAGAGCACAAAC-GTGCTA
* * **
7727971 AACAGAGAGTACACAAAGTACTAAT--CAGAGAGCACACAAAATGCTA
1 AACAGAGAGCACAC-AAGTGCTAATAACAGAGAGCACA-AACGTGCTA
* *
7728017 ATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTA
1 AACAGAGAGCACACA-AGTGCTAATAACAGAGAGCAC-AAACGTGCTA
7728065 AACAGAGAGC
1 AACAGAGAGC
7728075 GCGCTAGTGT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 36 0.43
47 1 0.01
48 38 0.46
49 7 0.08
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (46 bp):
AACAGAGAGCACACAAGTGCTAATAACAGAGAGCACAAACGTGCTA
Found at i:7730634 original size:28 final size:29
Alignment explanation
Indices: 7730588--7730652 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
7730578 ATTTTGGACA
*
7730588 TTCGAGAGTAAAATGGTAATTTTTGATAGT
1 TTCGAG-GCAAAATGGTAATTTTTGATAGT
*
7730618 TTCGAGGCAAAAT-GTAATTTTTGGTAGT
1 TTCGAGGCAAAATGGTAATTTTTGATAGT
*
7730646 TTTGAGG
1 TTCGAGG
7730653 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 20 0.62
29 6 0.19
30 6 0.19
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (29 bp):
TTCGAGGCAAAATGGTAATTTTTGATAGT
Found at i:7730658 original size:29 final size:29
Alignment explanation
Indices: 7730597--7730974 Score: 203
Period size: 29 Copynumber: 12.8 Consensus size: 29
7730587 ATTCGAGAGT
* *
7730597 AAAATGGTAATTTTT-GATAGTTTCGAGG-C
1 AAAAT-GTAATTTTTGGA-AGTTTTGAGGTA
* *
7730626 AAAATGTAATTTTTGGTAGTTTTGAGGTT
1 AAAATGTAATTTTTGGAAGTTTTGAGGTA
*
7730655 AAAAT-TAAGATTTTTGGAAGTTTTGGGGTTA
1 AAAATGT-A-ATTTTTGGAAGTTTTGAGG-TA
* * * **
7730686 AAAATGGAATGTTTGAAAG-TTCAACGGTA
1 AAAATGTAATTTTTGGAAGTTTTGA-GGTA
* * ** *
7730715 AAAATGGAATTTTGGGAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTA
* *
7730744 AAAATGTAATTTTTGGATGTTTTGGGGTCAA
1 AAAATGTAATTTTTGGAAGTTTTGAGGT--A
* * *
7730775 AAAATGGAATTTTTAGAAGTTTAGAGGTA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTA
* * *
7730804 AAAATGTAATTTTTGGATGCTTTGTGGTCA
1 AAAATGTAATTTTTGGAAGTTTTGAGGT-A
* * **
7730834 AAAATAG-AATTTTTGAAAG-ATCAAGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTTGA-GGTA
* * * *
7730863 AAAGTGTAATTTTTGGATGTTTCGGGGTCA
1 AAAATGTAATTTTTGGAAGTTTTGAGGT-A
* **
7730893 AAAATAG-AATTTTTGAAAGTTTCAAGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTTGAGGT-A
* * * * ** *
7730923 AAAATGGAATTATAGAAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTA
7730952 AAAATGTAATTTTTGGACAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
7730975 AAGGACCTCC
Statistics
Matches: 267, Mismatches: 63, Indels: 37
0.73 0.17 0.10
Matches are distributed among these distances:
28 20 0.07
29 116 0.43
30 98 0.37
31 33 0.12
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTTGAGGTA
Found at i:7730777 original size:59 final size:59
Alignment explanation
Indices: 7730626--7730913 Score: 267
Period size: 59 Copynumber: 4.9 Consensus size: 59
7730616 GTTTCGAGGC
* * * **
7730626 AAAATGTAATTTTTGG-TAGTTTTGAGGTTAAAATTA-AGATTTTTGGAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGGAT-GTTTTGGGGTCAAAAATAGA-ATTTTTGGAAGTTCAGGGG-TA
* * * * **** * * *
7730686 AAAATGGAATGTTTGAAAGTTCAACGGT-AAAAATGGAATTTTGGGAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGATGTTTTGGGGTCAAAAATAGAATTTTTGGAAGTTCAGGGGTA
* * * *
7730744 AAAATGTAATTTTTGGATGTTTTGGGGTCAAAAAATGGAATTTTTAGAAGTTTAGAGGTA
1 AAAATGTAATTTTTGGATGTTTTGGGGTC-AAAAATAGAATTTTTGGAAGTTCAGGGGTA
* * * * *
7730804 AAAATGTAATTTTTGGATGCTTTGTGGTCAAAAATAGAATTTTTGAAAGATCAAGGGTA
1 AAAATGTAATTTTTGGATGTTTTGGGGTCAAAAATAGAATTTTTGGAAGTTCAGGGGTA
* * *
7730863 AAAGTGTAATTTTTGGATGTTTCGGGGTCAAAAATAGAATTTTTGAAAGTT
1 AAAATGTAATTTTTGGATGTTTTGGGGTCAAAAATAGAATTTTTGGAAGTT
7730914 TCAAGGTCAA
Statistics
Matches: 184, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
58 22 0.12
59 90 0.49
60 72 0.39
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
AAAATGTAATTTTTGGATGTTTTGGGGTCAAAAATAGAATTTTTGGAAGTTCAGGGGTA
Found at i:7730946 original size:59 final size:60
Alignment explanation
Indices: 7730829--7730966 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 60
7730819 GATGCTTTGT
* * * * * *
7730829 GGTCAAAAATAGAATTTTTGAAAGATCAAGGGTAAAAGTGTAATTTTTGGATGTTTC-GG
1 GGTCAAAAATAGAATTTTTGAAAGATCAAGGGTAAAAATGGAATTATAGAAAGTTTCGGG
*
7730888 GGTCAAAAATAGAATTTTTGAAAGTTTCAA-GGTCAAAAATGGAATTATAGAAAG-TTCGGG
1 GGTCAAAAATAGAATTTTTGAAAG-ATCAAGGGT-AAAAATGGAATTATAGAAAGTTTCGGG
7730948 GGT-AAAAAT-GTAATTTTTG
1 GGTCAAAAATAG-AATTTTTG
7730967 GACAGTTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 1 0.01
59 44 0.65
60 23 0.34
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
GGTCAAAAATAGAATTTTTGAAAGATCAAGGGTAAAAATGGAATTATAGAAAGTTTCGGG
Found at i:7732109 original size:10 final size:10
Alignment explanation
Indices: 7732080--7732140 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
7732070 AAAACGTTAC
* *
7732080 TTATTTATTC
1 TTATTAATTA
7732090 TTATTAATTA
1 TTATTAATTA
7732100 TTATTAATTA
1 TTATTAATTA
* **
7732110 TTAATGGTTA
1 TTATTAATTA
*
7732120 TGATTAATATTA
1 TTATT-A-ATTA
7732132 TTATTAATT
1 TTATTAATT
7732141 CAATTAATGC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
10 31 0.79
11 1 0.03
12 7 0.18
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (10 bp):
TTATTAATTA
Found at i:7732783 original size:17 final size:17
Alignment explanation
Indices: 7732763--7732836 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
7732753 TAATTTACAA
7732763 TAAATTTAAACTTAAAG
1 TAAATTTAAACTTAAAG
* *
7732780 TAAATTTAAACTCAAAAA
1 TAAATTTAAACT-TAAAG
* *
7732798 TGAATTTAAATTTAGAA-
1 TAAATTTAAACTTA-AAG
* *
7732815 CAAATTCAAACTTAAAG
1 TAAATTTAAACTTAAAG
7732832 TAAAT
1 TAAAT
7732837 AAAAAAATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
16 2 0.05
17 27 0.61
18 15 0.34
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (17 bp):
TAAATTTAAACTTAAAG
Found at i:7734174 original size:206 final size:201
Alignment explanation
Indices: 7733173--7734247 Score: 1355
Period size: 201 Copynumber: 5.3 Consensus size: 201
7733163 TCTGGTTTCA
* * * ** *
7733173 TTGACTTGGCCTTCTTCTCAGTATCTCATCAGGAATATGACCGCATCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * * *
7733238 CTCTGTGTTTCCTCAGGAAGACGGATTTGGTTCACTTCT-ACGTATCTCATCAGGAAGCTAACCA
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCA-GTATCTCATCAGGAAGCTAACCA
* * * * *
7733302 CTTTATTGTTTCGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGGGTTCGAAGATTTACTCAC
130 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCAC
7733367 ATCGAGCATGGGT
194 ATCGAGC-----T
*
7733380 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACATGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * **
7733445 CTTTGTATCTCATCAAGAAGGCGAATTTGGAGCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* *
7733510 TTTATTACTTCGACCTGTTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
*
7733575 TGAGCT
196 CGAGCT
* * * * * * *
7733581 TCGCA-TTGGTATACTTCTCTA-TATCTCATCAGGAAGATGACTGCCTCACTTGTTACAATTCGC
1 TTG-ATTTGGTCTTCTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGC
* * * * * *
7733644 TTCTATGTACCTCATTAGTAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACT
64 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC
* *
7733709 ATTTTATTGCTGCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
129 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
* * *
7733774 TTTGAGCC
194 ATCGAGCT
* * * * * *
7733782 TTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * *
7733847 CTCTGTATCTCATTAGAAAGACGAATTTGGTCCACTTTTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* *
7733912 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAG
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
7733977 CGAGCGTAGGT
196 CGAGC-----T
* *
7733988 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
*
7734053 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* ** * * *
7734118 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGTAAGCTGGGAATCAAAGATTTACTCTCAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
** *
7734183 TAAGCC
196 CGAGCT
* * * * * *
7734189 TTGAGTTGGTATACTTCTCTGTATCTCACCAGGAAGATGACCGCCTCACTTGTTTCAAT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
7734248 AATCACAATC
Statistics
Matches: 762, Mismatches: 96, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
200 1 0.00
201 406 0.53
202 2 0.00
206 204 0.27
207 148 0.19
208 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (201 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
CGAGCT
Found at i:7734216 original size:407 final size:400
Alignment explanation
Indices: 7733173--7734247 Score: 1436
Period size: 407 Copynumber: 2.6 Consensus size: 400
7733163 TCTGGTTTCA
* * ** *
7733173 TTGACTTGGCCTTCTTCTCAGTATCTCATCAGGAATATGACCGCATCACTTGTTTTGATCCACTT
1 TTGA-TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * * * *
7733238 CTCTGTGTTTCCTCAGGAAGACGGATTTGGTTCACTTCT-ACGTATCTCATCAGGAAGCTAACCA
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCA-GTATCTCATCAGGAAGCTAACTA
* * *
7733302 CTTTATTGTTTCGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGGGTTCGAAGATTTACTCAC
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC-AGAAGCT-GGGGTTCGAAGATTTACTCAC
* ** * * * * * *
7733367 ATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACATG
192 AT-TA--A--GCCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTG
* * *
7733432 TTTCAATCCGCTTCTTTGTATCTCATCAAGAAGGCGAATTTGGAGCACTTCTCAGTATCTCATCA
252 TTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGACCACTTCTCAGTATCTCATCA
*
7733497 GGAAGCTAACCATTTTATTACTTCGACCTGTTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAA
317 GGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAA
**
7733562 GATTTGCTCACATTGAGCT
382 GATTTGCTCACAGCGAGCT
* * * * * * *
7733581 TCGCATTGGTATACTTCTCTA-TATCTCATCAGGAAGATGACTGCCTCACTTGTTACAATTCGCT
1 TTG-ATTGGTCTTCTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCT
* * * * *
7733645 TCTATGTACCTCATTAGTAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACTA
64 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTA
* * * *
7733710 TTTTATTGCTGCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA-GAAGCTGGGGTTCGAAGATTTACTCACA
*
7733775 TTGAGCCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAA
193 TTAAGCCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAA
* * * *
7733840 TTCGCTTCTCTGTATCTCAT-TAGAAAGACGAATTTGGTCCACTTTTCAGTATCTCATCAGGAAG
258 TCCGCTTCTCTGTATCTCATCAAG-AAGACGAATTTGGACCACTTCTCAGTATCTCATCAGGAAG
7733904 CTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTT
322 CTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTT
7733969 GCTCACAGCGAGCGTAGGT
387 GCTCACAGCGAGC-----T
* *
7733988 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTT
1 TTGA-TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
7734053 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTAT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTAT
** * *
7734118 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGTAAGCTGGGAATCAAAGATTTACTCTCAT
130 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAG-AAGCTGGGGTTCGAAGATTTACTCACAT
*
7734183 TAAGCCTTGAGTTGGTATACTTCTCTGTATCTCACCAGGAAGATGACCGCCTCACTTGTTTCAAT
194 TAAGCCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAAT
7734248 AATCACAATC
Statistics
Matches: 580, Mismatches: 74, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
401 2 0.00
402 182 0.31
404 1 0.00
406 3 0.01
407 253 0.44
408 136 0.23
409 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (400 bp):
TTGATTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTC
TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTATT
TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGAAGCTGGGGTTCGAAGATTTACTCACATTA
AGCCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCC
GCTTCTCTGTATCTCATCAAGAAGACGAATTTGGACCACTTCTCAGTATCTCATCAGGAAGCTAA
CCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
ACAGCGAGCT
Found at i:7734413 original size:78 final size:78
Alignment explanation
Indices: 7734271--7734415 Score: 177
Period size: 78 Copynumber: 1.9 Consensus size: 78
7734261 CCCTTGATCA
* * * * **
7734271 GGGTAGGAGATTGGTTGATGATGATCTGCTCCAAGCTTAGAGTAAAAGGTCGGATGGTTGCAATC
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTGAGAGTAAAAGATCAAATGGTTGCAATC
7734336 TGCCCCAGGCTCG
66 TGCCCCAGGCTCG
* * *
7734349 GGGTAAGAGATTGGTTGATGATGATTTGCCCCAGGCTCGAG-GTAAAAGATTAAATGGCTT-CAA
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCT-GAGAGTAAAAGATCAAATGG-TTGCAA
7734412 TCTG
64 TCTG
7734416 TCCCTTACTC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 52 0.93
79 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (78 bp):
GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTGAGAGTAAAAGATCAAATGGTTGCAATC
TGCCCCAGGCTCG
Found at i:7734765 original size:49 final size:49
Alignment explanation
Indices: 7734699--7735015 Score: 363
Period size: 49 Copynumber: 6.5 Consensus size: 49
7734689 CGACTTAAAC
** *
7734699 CTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTCGCGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * * * *
7734748 TTTTCTCTTCATGTCTTCGTGGTACTGAATCCACCGTCGTGACTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * *
7734797 CTTTCCCTT-ATGTCTTCGCGGTACTGGATCCGCCATCGTGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
** *
7734845 CTTTCCCTTCATGTCTTCGTGGTACTGGATTTGCCG-CTGTGGTCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTC-GCGG-CTTAGAT
*
7734895 CTTTCCCTT-ATGTCTTC-TCGGTACTGGATCCGCCATCGCGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGT-GGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * *
7734943 CTTTCCCTTCATGTCTTCGTGGTACTGGATCTGCTGTTGCAGTCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGC-GGCTTAGAT
* * *
7734993 CTTTCTCGTCTTGTCTTCGTGGT
1 CTTTCCCTTCATGTCTTCGTGGT
7735016 GCTGAGACCT
Statistics
Matches: 230, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
48 61 0.27
49 123 0.53
50 46 0.20
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.39
Consensus pattern (49 bp):
CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
Found at i:7734909 original size:146 final size:147
Alignment explanation
Indices: 7734699--7734973 Score: 369
Period size: 146 Copynumber: 1.9 Consensus size: 147
7734689 CGACTTAAAC
* *
7734699 CTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTCGCGGCTTAGATTTTTCTCTTCATGTCT
1 CTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTCATGTCT
* *
7734764 TCGT-GGTACTGAATCCACCGTCGTGACTTAGATCTTTCCCTT-ATGTCTTCGCGGTACTGGATC
66 TC-TCGGTACTGAATCCACCATCGCGACTTAGATCTTTCCCTTCATGTCTTCGCGGTACTGGATC
7734827 CGCCATCGTGGCTTAGAT
130 CGCCATCGTGGCTTAGAT
** *** *
7734845 CTTTCCCTTCATGTCTTCGTGGTACTGGATTTGCCG-CTGTGGTCTTAGATCTTTCCCTT-ATGT
1 CTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTC-GCGG-CTTAGATCTTTCCCTTCATGT
* * * *
7734908 CTTCTCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGAT
64 CTTCTCGGTACTGAATCCACCATCGCGACTTAGATCTTTCCCTTCATGTCTTCGCGGTACTGGAT
7734973 C
129 C
7734974 TGCTGTTGCA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
145 2 0.02
146 75 0.68
147 34 0.31
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (147 bp):
CTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTCATGTCT
TCTCGGTACTGAATCCACCATCGCGACTTAGATCTTTCCCTTCATGTCTTCGCGGTACTGGATCC
GCCATCGTGGCTTAGAT
Found at i:7734924 original size:98 final size:96
Alignment explanation
Indices: 7734712--7734997 Score: 401
Period size: 98 Copynumber: 2.9 Consensus size: 96
7734702 TCCCTTCAAA
* * * * * *
7734712 TCTTCGTGGTACTGGATCCACCGTCGCGGCTTAGATTTTTCTCTTCATGTCTTCGTGGTACTGAA
1 TCTTCGCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
** *
7734777 TCCACCGTCGTGACTTAGATCTTTCCCTTATG
66 TCTGCCGT-GTGTCTTAGATCTTTCCCTTATG
*
7734809 TCTTCGCGGTACTGGATCCGCCATCGTGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
1 TCTTCGCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
*
7734874 TTTGCCGCTGTGGTCTTAGATCTTTCCCTTATG
66 TCTGCCG-TGT-GTCTTAGATCTTTCCCTTATG
*
7734907 TCTTCTCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
1 TCTTCGCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
* *
7734972 TCTGCTGTTGCAGTCTTAGATCTTTC
66 TCTGCCG-TG-TGTCTTAGATCTTTC
7734998 TCGTCTTGTC
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
97 64 0.38
98 105 0.62
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (96 bp):
TCTTCGCGGTACTGGATCCGCCATCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA
TCTGCCGTGTGTCTTAGATCTTTCCCTTATG
Found at i:7736292 original size:21 final size:20
Alignment explanation
Indices: 7736223--7736292 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 20
7736213 TCTATTTTTG
*
7736223 TTTTTC-TTCTTATTTTCCTCT
1 TTTTTCTTTCTT-TTTTTC-CT
7736244 TTTTTCTTTTCTTTTGCTTT-CT
1 TTTTTC-TTTCTTTT--TTTCCT
*
7736266 TATTTCTTTCTTCTTTTTCCT
1 TTTTTCTTTCTT-TTTTTCCT
7736287 TTTTTC
1 TTTTTC
7736293 ATTGAATCCG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
20 3 0.08
21 19 0.47
22 11 0.28
23 5 0.12
24 2 0.05
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.74
Consensus pattern (20 bp):
TTTTTCTTTCTTTTTTTCCT
Found at i:7737021 original size:15 final size:17
Alignment explanation
Indices: 7737003--7737041 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
7736993 TCATCTTTGA
7737003 CTTTTTTTTCC-TTTT-
1 CTTTTTTTTCCATTTTC
*
7737018 CTTTCTTTTCCATTTTC
1 CTTTTTTTTCCATTTTC
7737035 CTTTTTT
1 CTTTTTT
7737042 ATTGGGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 4 0.20
17 6 0.30
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTTTTTCCATTTTC
Found at i:7739371 original size:144 final size:144
Alignment explanation
Indices: 7739106--7739395 Score: 553
Period size: 144 Copynumber: 2.0 Consensus size: 144
7739096 ACCATATATG
*
7739106 CACGACCACGTTGACTTCTACCTTATCAAGGAATCTATTTTCTTATGACCAGTTCTCTATTTAGC
1 CACGACCACGTTGACTTCTACCTTATCAAGGAATCCATTTTCTTATGACCAGTTCTCTATTTAGC
*
7739171 AATAGAATAGGAATCAGCTCCTTTTGAATGAAGATGCAATATGAATAGATTAAAAATGAACAAGT
66 AATAGAATAGGAATCAGCACCTTTTGAATGAAGATGCAATATGAATAGATTAAAAATGAACAAGT
7739236 TAGTGTAATTAATA
131 TAGTGTAATTAATA
7739250 CACGACCACGTTGACTTCTACCTTATCAAGGAATCCATTTTCTTATGACCAGTTCTCTATTTAGC
1 CACGACCACGTTGACTTCTACCTTATCAAGGAATCCATTTTCTTATGACCAGTTCTCTATTTAGC
*
7739315 AATAGAATAGGAATCAGCACCTTTTGAATGAAGATGCAATATGAATAGATTCAAAATGAACAAGT
66 AATAGAATAGGAATCAGCACCTTTTGAATGAAGATGCAATATGAATAGATTAAAAATGAACAAGT
7739380 TAGTGTAATTAATA
131 TAGTGTAATTAATA
7739394 CA
1 CA
7739396 GGAATAAAAT
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (144 bp):
CACGACCACGTTGACTTCTACCTTATCAAGGAATCCATTTTCTTATGACCAGTTCTCTATTTAGC
AATAGAATAGGAATCAGCACCTTTTGAATGAAGATGCAATATGAATAGATTAAAAATGAACAAGT
TAGTGTAATTAATA
Found at i:7741743 original size:59 final size:57
Alignment explanation
Indices: 7741678--7741841 Score: 170
Period size: 58 Copynumber: 2.8 Consensus size: 57
7741668 ACCCGGAGGC
* * * * *
7741678 AAAATGATAATTTTGGAC-TCTCGAGGGTAAAATGGTAATTTTGGAAAATTTTGGGGTTA
1 AAAATGA-AATTTTGGACAT-TCGAGGGTAAAATGGTAATTTTAGAAAA-ATCGGGATCA
* *
7741737 AAAATGACA-TTTGGACATTCGAGGGGTAAAACGGTAATTTTTAGAAAAATCGGGATCA
1 AAAATGAAATTTTGGACATTCGA-GGGTAAAATGGTAA-TTTTAGAAAAATCGGGATCA
* * *
7741795 AAAATAAAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGAAA
1 AAAATGAAA-TTTTGGACATTCGAGGGTAAAATGGTAATTTTAGAAA
7741842 GTTTCGAGGC
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
57 11 0.12
58 36 0.41
59 29 0.33
60 12 0.14
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (57 bp):
AAAATGAAATTTTGGACATTCGAGGGTAAAATGGTAATTTTAGAAAAATCGGGATCA
Found at i:7741836 original size:28 final size:28
Alignment explanation
Indices: 7741678--7741836 Score: 69
Period size: 28 Copynumber: 5.5 Consensus size: 28
7741668 ACCCGGAGGC
* *
7741678 AAAATGATAATTTTGGAC-TCTCGAGGGT
1 AAAATGGTAATTTTGGACAT-TCGGGGGT
* * *
7741706 AAAATGGTAATTTTGGAAAATTTTGGGGTT
1 AAAATGGTAATTTTGG-ACA-TTCGGGGGT
7741736 AAAAAT-G-ACA-TTTGGACATTCGAGGGGT
1 -AAAATGGTA-ATTTTGGACATTCG-GGGGT
* * * * *
7741764 AAAACGGTAATTTTTAGAAAAATC-GGGAT
1 AAAATGGTAA-TTTT-GGACATTCGGGGGT
**
7741793 CAAAAAT-AAAATTTTTGGACATTCGGGGGT
1 --AAAATGGTAA-TTTTGGACATTCGGGGGT
7741823 AAAATGGTAATTTT
1 AAAATGGTAATTTT
7741837 TGAAAGTTTC
Statistics
Matches: 94, Mismatches: 22, Indels: 30
0.64 0.15 0.21
Matches are distributed among these distances:
27 7 0.07
28 32 0.34
29 19 0.20
30 21 0.22
31 15 0.16
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (28 bp):
AAAATGGTAATTTTGGACATTCGGGGGT
Found at i:7741874 original size:27 final size:29
Alignment explanation
Indices: 7741823--7741877 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
7741813 ATTCGGGGGT
*
7741823 AAAATGGTAATTTTTGAAAGTTTCGAGGC
1 AAAATGGTAATTTTTAAAAGTTTCGAGGC
7741852 AAAATGG-AATTTTTAAAAG-TTCGAGG
1 AAAATGGTAATTTTTAAAAGTTTCGAGG
7741878 GTAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTTAAAAGTTTCGAGGC
Found at i:7741884 original size:29 final size:29
Alignment explanation
Indices: 7741814--7742097 Score: 172
Period size: 29 Copynumber: 9.8 Consensus size: 29
7741804 TTTTTGGACA
*
7741814 TTCGGGGGT-AAAATGGTAATTTTTGAAAG
1 TTCGAGGGTAAAAATGG-AATTTTTGAAAG
* *
7741843 TTTCGA-GG-CAAAATGGAATTTTTAAAAG
1 -TTCGAGGGTAAAAATGGAATTTTTGAAAG
* *
7741871 TTCGAGGGTAAAAATGTAATTTTCT-ATAG
1 TTCGAGGGTAAAAATGGAATTTT-TGAAAG
** * * * *
7741900 TTTTAGGGTCAAATTGGGATTTTTGGAAG
1 TTCGAGGGTAAAAATGGAATTTTTGAAAG
* *
7741929 TTTTG-GGGTTAAAAATAGAATTTTTGAAAG
1 -TTCGAGGG-TAAAAATGGAATTTTTGAAAG
* *
7741959 TT-TAGGGGTAAAAAGGGAATTTTT-AGAAG
1 TTCGA-GGGTAAAAATGGAATTTTTGA-AAG
* * *
7741988 TT-TAAGGTCAAAAATGGAATTTTTGGAAG
1 TTCGAGGGT-AAAAATGGAATTTTTGAAAG
** * * *
7742017 TTTTAGGGTTAAAATAGAAATTTTGAAAG
1 TTCGAGGGTAAAAATGGAATTTTTGAAAG
** * *
7742046 TTTTAAGGTTAAAAATGGAATTTTAGAAAG
1 -TTCGAGGGTAAAAATGGAATTTTTGAAAG
7742076 TTC-AGGGGTAAAAATGGAATTT
1 TTCGA-GGGTAAAAATGGAATTT
7742098 CTGGATAGTT
Statistics
Matches: 201, Mismatches: 38, Indels: 31
0.74 0.14 0.11
Matches are distributed among these distances:
27 5 0.02
28 19 0.09
29 122 0.61
30 55 0.27
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
TTCGAGGGTAAAAATGGAATTTTTGAAAG
Found at i:7741954 original size:30 final size:30
Alignment explanation
Indices: 7741852--7742112 Score: 207
Period size: 29 Copynumber: 8.9 Consensus size: 30
7741842 GTTTCGAGGC
** **
7741852 AAAATGGAATTTTTAAAAGTTCGAGGG-TA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
* *
7741881 AAAATGTAATTTTCT--ATAGTTTTAGGG-TC
1 AAAATGGAATTTT-TGGA-AGTTTTAGGGTTA
* * *
7741910 AAATTGGGATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * *
7741940 AAAATAGAATTTTTGAAAG-TTTAGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * * *
7741969 AAAAGGGAATTTTTAGAAG-TTTAAGGTCA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
7741998 AAAATGGAATTTTTGGAAGTTTTAGGGTT-
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * * *
7742027 AAAATAGAAATTTTGAAAGTTTTAAGGTTA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * * *
7742057 AAAATGGAATTTTAGAAAG-TTCAGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
*
7742086 AAAATGGAATTTCTGGATAG-TTTAGGG
1 AAAATGGAATTTTTGGA-AGTTTTAGGG
7742113 ACCTCCAGGG
Statistics
Matches: 184, Mismatches: 40, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
28 2 0.01
29 133 0.72
30 49 0.27
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTTTTAGGGTTA
Found at i:7741961 original size:59 final size:58
Alignment explanation
Indices: 7741823--7742108 Score: 206
Period size: 59 Copynumber: 4.9 Consensus size: 58
7741813 ATTCGGGGGT
* * * ** ** *
7741823 AAAATGGTAATTTTTGAAAG-TTTCGAGGCAAAATGGAATTTTTAAAAG-TTCGAGGGTA
1 AAAATGG-AATTTTTGAAAGTTTTAG-GGTAAAATGGGATTTTTGGAAGTTTTAAGGTTA
* * * **
7741881 AAAATGTAATTTTCT-ATAGTTTTAGGGTCAAATTGGGATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTT-TGAAAGTTTTAGGGT-AAAATGGGATTTTTGGAAGTTTTAAGGTTA
* * * *
7741940 AAAATAGAATTTTTGAAAG-TTTAGGGGTAAAAAGGGAATTTTTAGAAG-TTTAAGGTCA
1 AAAATGGAATTTTTGAAAGTTTTA-GGGTAAAATGGG-ATTTTTGGAAGTTTTAAGGTTA
* * * * *
7741998 AAAATGGAATTTTTGGAAGTTTTAGGGTTAAAATAGAAATTTTGAAAGTTTTAAGGTTA
1 AAAATGGAATTTTTGAAAGTTTTAGGG-TAAAATGGGATTTTTGGAAGTTTTAAGGTTA
* * * *
7742057 AAAATGGAATTTTAGAAAG-TTCAGGGGTAAAAATGGAATTTCTGGATAGTTT
1 AAAATGGAATTTTTGAAAGTTTTA-GGGT-AAAATGGGATTTTTGGA-AGTTT
7742109 AGGGACCTCC
Statistics
Matches: 179, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
57 11 0.06
58 76 0.42
59 87 0.49
60 5 0.03
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (58 bp):
AAAATGGAATTTTTGAAAGTTTTAGGGTAAAATGGGATTTTTGGAAGTTTTAAGGTTA
Found at i:7741969 original size:88 final size:87
Alignment explanation
Indices: 7741852--7742112 Score: 264
Period size: 88 Copynumber: 3.0 Consensus size: 87
7741842 GTTTCGAGGC
* * * * * * *
7741852 AAAATGGAATTTTTAAAAG-TTCGAGGGTAAAAATGTAATTTTCTA-TAGTTTTAGGGTC-AAAT
1 AAAATAGAATTTTTGAAAGTTTAG-GGGTAAAAATGGAATTTT-TAGAAG-TTTAAGGTCAAAAA
* *
7741914 TGGGATTTTTGGAAGTTTTGGGGTT
63 TGGAATTTTTGGAAGTTTTAGGGTT
*
7741939 AAAAATAGAATTTTTGAAAGTTTAGGGGTAAAAAGGGAATTTTTAGAAGTTTAAGGTCAAAAATG
1 -AAAATAGAATTTTTGAAAGTTTAGGGGTAAAAATGGAATTTTTAGAAGTTTAAGGTCAAAAATG
7742004 GAATTTTTGGAAGTTTTAGGGTT
65 GAATTTTTGGAAGTTTTAGGGTT
* * * * *
7742027 AAAATAGAAATTTTGAAAGTTTTAAGGTTAAAAATGGAA-TTTTAGAAAGTTCAGGGGT-AAAAA
1 AAAATAGAATTTTTGAAAG-TTTAGGGGTAAAAATGGAATTTTTAG-AAGTTTA-AGGTCAAAAA
*
7742090 TGGAATTTCTGGATAG-TTTAGGG
63 TGGAATTTTTGGA-AGTTTTAGGG
7742113 ACCTCCAGGG
Statistics
Matches: 149, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
87 34 0.23
88 107 0.72
89 8 0.05
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (87 bp):
AAAATAGAATTTTTGAAAGTTTAGGGGTAAAAATGGAATTTTTAGAAGTTTAAGGTCAAAAATGG
AATTTTTGGAAGTTTTAGGGTT
Found at i:7743951 original size:17 final size:17
Alignment explanation
Indices: 7743925--7744013 Score: 79
Period size: 17 Copynumber: 5.2 Consensus size: 17
7743915 CTTTTTAATT
*
7743925 AATTTTAATTTAAAATA
1 AATTTAAATTTAAAATA
*
7743942 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
** *
7743959 AATTTAAACTCAAAAATG
1 AATTTAAA-TTTAAAATA
* *
7743977 AATTTAAATTTAGAACA
1 AATTTAAATTTAAAATA
* * *
7743994 AATTCAAACTTAAAGTA
1 AATTTAAATTTAAAATA
7744011 AAT
1 AAT
7744014 AAAAAAATTG
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
17 42 0.76
18 13 0.24
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:7743997 original size:35 final size:35
Alignment explanation
Indices: 7743936--7744003 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
7743926 ATTTTAATTT
* *
7743936 AAAATAAATTTAAATTTAAAGTAAATTTAAACTCA
1 AAAATAAATTTAAATTTAAAGCAAATTCAAACTCA
*
7743971 AAAATGAATTTAAATTTAGAA-CAAATTCAAACT
1 AAAATAAATTTAAATTTA-AAGCAAATTCAAACT
7744004 TAAAGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.32
Consensus pattern (35 bp):
AAAATAAATTTAAATTTAAAGCAAATTCAAACTCA
Found at i:7748863 original size:26 final size:24
Alignment explanation
Indices: 7748834--7748913 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 24
7748824 GATATATTTT
7748834 ATATATCATTATATTAAATTATTTAA
1 ATATAT-ATT-TATTAAATTATTTAA
*
7748860 ATAT-TATTTATT-ATTATATTTAA
1 ATATATATTTATTAAAT-TATTTAA
7748883 ATTATATATTTTATGTATAATTATATTAA
1 A-TATATA-TTTAT-TA-AATTAT-TTAA
7748912 AT
1 AT
7748914 TATTTAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
22 2 0.05
23 12 0.27
24 6 0.14
25 3 0.07
26 9 0.20
27 1 0.02
28 4 0.09
29 7 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATATATTTATTAAATTATTTAA
Found at i:7748864 original size:33 final size:32
Alignment explanation
Indices: 7748827--7748925 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 32
7748817 AACAGTTGAT
7748827 ATATTTTATATATCATTATATTAAATTATTTAA
1 ATATTTTATATAT-ATTATATTAAATTATTTAA
7748860 ATATTATT-TAT-TATTATATTTAAATTA--T--
1 ATATT-TTATATATATTATA-TTAAATTATTTAA
*
7748888 ATATTTTATGTATAATTATATTAAATTATTTAA
1 ATATTTTATATAT-ATTATATTAAATTATTTAA
7748921 ATATT
1 ATATT
7748926 ATTTAAATTA
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
27 2 0.04
28 7 0.12
29 9 0.16
30 7 0.12
31 7 0.12
32 9 0.16
33 13 0.23
34 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (32 bp):
ATATTTTATATATATTATATTAAATTATTTAA
Found at i:7748925 original size:8 final size:9
Alignment explanation
Indices: 7748841--7748941 Score: 58
Period size: 10 Copynumber: 10.0 Consensus size: 9
7748831 TTTATATATC
7748841 ATTATATTAA
1 ATTAT-TTAA
7748851 ATTATTTAAA
1 ATTATTT-AA
7748861 TATTATTTATTA
1 -ATTATTTA--A
*
7748873 TTATATTTAA
1 AT-TATTTAA
* *
7748883 ATTATATAT
1 ATTATTTAA
* *
7748892 TTTATGTATA
1 ATTATTTA-A
7748902 ATTATATTAA
1 ATTAT-TTAA
7748912 ATTATTTAAA
1 ATTATTT-AA
7748922 TATTATTTAA
1 -ATTATTTAA
7748932 ATTAATTTAA
1 ATT-ATTTAA
7748942 TTTTTAATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
9 18 0.25
10 30 0.42
11 17 0.24
12 7 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (9 bp):
ATTATTTAA
Found at i:7748939 original size:21 final size:19
Alignment explanation
Indices: 7748841--7748941 Score: 76
Period size: 21 Copynumber: 4.9 Consensus size: 19
7748831 TTTATATATC
7748841 ATTATATTAAATTATTTAAA
1 ATTAT-TTAAATTATTTAAA
* *
7748861 TATTATTTATTATTATATTTAA
1 -ATTATTTA-AATTAT-TTAAA
* ** * *
7748883 ATTATATATTTTATGTATA
1 ATTATTTAAATTATTTAAA
7748902 ATTATATTAAATTATTTAAA
1 ATTAT-TTAAATTATTTAAA
7748922 TATTATTTAAATTAATTTAA
1 -ATTATTTAAATT-ATTTAA
7748942 TTTTTAATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 7 0.11
20 24 0.38
21 28 0.44
22 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
ATTATTTAAATTATTTAAA
Found at i:7749360 original size:28 final size:27
Alignment explanation
Indices: 7749329--7749397 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
7749319 CAAAAGGTTT
7749329 AAATTGTAAACCCAA-ACATAAAATCTTA
1 AAATTGTAAACCCAACAC-T-AAATCTTA
*
7749357 AAATTGTAAGCCTCAACACTAAATCTTA
1 AAATTGTAAACC-CAACACTAAATCTTA
*
7749385 AAATTTTAAACCC
1 AAATTGTAAACCC
7749398 TATTCAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 29 0.81
29 4 0.11
30 2 0.06
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATTGTAAACCCAACACTAAATCTTA
Found at i:7756308 original size:273 final size:273
Alignment explanation
Indices: 7755815--7756367 Score: 1025
Period size: 273 Copynumber: 2.0 Consensus size: 273
7755805 GATCAAAAAG
*
7755815 TTCCAAATGAGACGTTTAAATCTCTATTTATGGGCTTTGAAATGAAGTTTAAAAAAGTGAAATGG
1 TTCCAAATGAGACGTTTAAATCTCTATTTATGGGCTTTGAAATGAAGTTTAAAAAAGTGAAACGG
7755880 TTATGAAGAGAAAATGGGTACGATTGTGTTAAAATGATGGATAGTGAGATTAAAAGTGATTACTT
66 TTATGAAGAGAAAATGGGTACGATTGTGTTAAAATGATGGATAGTGAGATTAAAAGTGATTACTT
* **
7755945 GAACAACAAAGAATGGAAGGTTATTTATATAGTTATATTGTGTATAATGGTGGTCGAATGAAAGT
131 GAACAACAAAGAATGGAAGGTTATTTATATAGATATATTGTGTATAATGACGGTCGAATGAAAGT
* *
7756010 TACTTTTCAAGTATTTTAACAAGGATTTTTAAATGTGAATACATTGTTTGCTCTTTAAAGAAATA
196 TACTCTTCAAGTATTTTAACAAGGATTTTTAAATGTGAATACATCGTTTGCTCTTTAAAGAAATA
7756075 AGGATCACTTATA
261 AGGATCACTTATA
7756088 TTCCAAATGAGACGTTTAAATCTCTATTTATGGGCTTTGAAATGAAGTTTAAAAAAGTGAAACGG
1 TTCCAAATGAGACGTTTAAATCTCTATTTATGGGCTTTGAAATGAAGTTTAAAAAAGTGAAACGG
7756153 TTATGAAGAGAAAATGGGTACGATTGTGTTAAAATGATGGATAGTGAGATTAAAAGTGATTACTT
66 TTATGAAGAGAAAATGGGTACGATTGTGTTAAAATGATGGATAGTGAGATTAAAAGTGATTACTT
**
7756218 GAACATGAAAGAATGGAAGGTTATTTATATAGATATATTGTGTATAATGACGGTCGAATGAAAGT
131 GAACAACAAAGAATGGAAGGTTATTTATATAGATATATTGTGTATAATGACGGTCGAATGAAAGT
*
7756283 TACTCTTCAAGTATTTTAGCAAGGATTTTTAAATGTGAATACATCGTTTGCTCTTTAAAGAAATA
196 TACTCTTCAAGTATTTTAACAAGGATTTTTAAATGTGAATACATCGTTTGCTCTTTAAAGAAATA
7756348 AGGATCACTTATA
261 AGGATCACTTATA
7756361 TTCCAAA
1 TTCCAAA
7756368 GAACGACTAA
Statistics
Matches: 271, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
273 271 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (273 bp):
TTCCAAATGAGACGTTTAAATCTCTATTTATGGGCTTTGAAATGAAGTTTAAAAAAGTGAAACGG
TTATGAAGAGAAAATGGGTACGATTGTGTTAAAATGATGGATAGTGAGATTAAAAGTGATTACTT
GAACAACAAAGAATGGAAGGTTATTTATATAGATATATTGTGTATAATGACGGTCGAATGAAAGT
TACTCTTCAAGTATTTTAACAAGGATTTTTAAATGTGAATACATCGTTTGCTCTTTAAAGAAATA
AGGATCACTTATA
Found at i:7757834 original size:28 final size:28
Alignment explanation
Indices: 7757780--7757835 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
7757770 ATAAAAAATT
* * **
7757780 AAATTAAAAACTAAAATAATTTTTTATA
1 AAATTAAAAAATAAAATAAATCATTATA
*
7757808 AAATTAAAAAATTAAATAAATCATTATA
1 AAATTAAAAAATAAAATAAATCATTATA
7757836 CCTAAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTAAAAAATAAAATAAATCATTATA
Found at i:7758413 original size:16 final size:16
Alignment explanation
Indices: 7758392--7758423 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7758382 GTTTTCTTTT
7758392 AAAAAAGAAAAGAAAA
1 AAAAAAGAAAAGAAAA
7758408 AAAAAAGAAAAGAAAA
1 AAAAAAGAAAAGAAAA
7758424 GGGCATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAA
Found at i:7759293 original size:23 final size:24
Alignment explanation
Indices: 7759267--7759315 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
7759257 GTTATTAGAT
*
7759267 TAATGATTTAATATAAATAA-TAA
1 TAATGATTTAACATAAATAATTAA
* *
7759290 TAATTATTTAACATATATAATTAA
1 TAATGATTTAACATAAATAATTAA
7759314 TA
1 TA
7759316 TAATTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TAATGATTTAACATAAATAATTAA
Found at i:7762935 original size:20 final size:20
Alignment explanation
Indices: 7762910--7762973 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
7762900 TTTGGTTTTT
7762910 TTTTTTTACTGTTTGGTAGC
1 TTTTTTTACTGTTTGGTAGC
* * *
7762930 TTTTTTTGCTGTTTTG-A-T
1 TTTTTTTACTGTTTGGTAGC
* *
7762948 TTTTTTTTCTTTTTGGTAGC
1 TTTTTTTACTGTTTGGTAGC
7762968 TGTTTT
1 T-TTTT
7762974 GGTGTTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 15 0.44
21 4 0.12
ACGTcount: A:0.06, C:0.08, G:0.17, T:0.69
Consensus pattern (20 bp):
TTTTTTTACTGTTTGGTAGC
Found at i:7763010 original size:36 final size:36
Alignment explanation
Indices: 7762957--7763051 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
7762947 TTTTTTTTTC
* * *
7762957 TTTTTGGTAGCTG-TTTTGGTGTTGTTTTTGTTGTTA
1 TTTTT-GTTGCTGTTTTTGTTGTTATTTTTGTTGTTA
*
7762993 TTTTTGTTGCTGTTTTTGTTGCTATTTTTGTTGTTA
1 TTTTTGTTGCTGTTTTTGTTGTTATTTTTGTTGTTA
* * *
7763029 TTTTTATTGTTATTTTTGTTGTT
1 TTTTTGTTGCTGTTTTTGTTGTT
7763052 TTGCTATTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
35 6 0.12
36 44 0.88
ACGTcount: A:0.06, C:0.03, G:0.21, T:0.69
Consensus pattern (36 bp):
TTTTTGTTGCTGTTTTTGTTGTTATTTTTGTTGTTA
Found at i:7763050 original size:12 final size:12
Alignment explanation
Indices: 7762970--7763051 Score: 110
Period size: 12 Copynumber: 6.8 Consensus size: 12
7762960 TTGGTAGCTG
* *
7762970 TTTTGGTGTTGT
1 TTTTGTTGTTAT
7762982 TTTTGTTGTTAT
1 TTTTGTTGTTAT
* *
7762994 TTTTGTTGCTGT
1 TTTTGTTGTTAT
*
7763006 TTTTGTTGCTAT
1 TTTTGTTGTTAT
7763018 TTTTGTTGTTAT
1 TTTTGTTGTTAT
*
7763030 TTTTATTGTTAT
1 TTTTGTTGTTAT
7763042 TTTTGTTGTT
1 TTTTGTTGTT
7763052 TTGCTATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 62 1.00
ACGTcount: A:0.06, C:0.02, G:0.20, T:0.72
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:7763236 original size:20 final size:20
Alignment explanation
Indices: 7763211--7763267 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7763201 TAATACAAAA
7763211 TTTTTTAATGTATTTTAAT-T
1 TTTTTTAATGT-TTTTAATGT
7763231 TTTTTTAAT-TTTTTAATGT
1 TTTTTTAATGTTTTTAATGT
*
7763250 TTGTTTTCATGTTTTTAA
1 TT-TTTTAATGTTTTTAA
7763268 GTGTATTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 7 0.21
19 4 0.12
20 15 0.45
21 7 0.21
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTAATGTTTTTAATGT
Found at i:7772338 original size:55 final size:55
Alignment explanation
Indices: 7772258--7772369 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
7772248 AAAAATTATG
7772258 TGAAAGTTAGAAAGGAAGGATAGAAAATTGAACATAAGAGTGGTTCGGTTTAAAT
1 TGAAAGTTAGAAAGGAAGGATAGAAAATTGAACATAAGAGTGGTTCGGTTTAAAT
*
7772313 TGAAAGTTAGAAAGGAAGGATAGAAAATTGAACATAAGAGTGGTTCGGTTTTAAT
1 TGAAAGTTAGAAAGGAAGGATAGAAAATTGAACATAAGAGTGGTTCGGTTTAAAT
7772368 TG
1 TG
7772370 TCTATTCTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.27
Consensus pattern (55 bp):
TGAAAGTTAGAAAGGAAGGATAGAAAATTGAACATAAGAGTGGTTCGGTTTAAAT
Found at i:7773317 original size:9 final size:9
Alignment explanation
Indices: 7773303--7773328 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7773293 TTATTTGTAC
7773303 TTAAAATTA
1 TTAAAATTA
7773312 TTAAAATTA
1 TTAAAATTA
7773321 TTAAAATT
1 TTAAAATT
7773329 CTATCAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATTA
Found at i:7775254 original size:28 final size:28
Alignment explanation
Indices: 7775223--7775276 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
7775213 CACTAGAATG
*
7775223 TGACGAGAAGCCCGAAGCAACAGTTGGT
1 TGACGAGAAGCCCAAAGCAACAGTTGGT
* *
7775251 TGACGAGAAGCCTAAAGCAATAGTTG
1 TGACGAGAAGCCCAAAGCAACAGTTG
7775277 ATGAAGCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.17
Consensus pattern (28 bp):
TGACGAGAAGCCCAAAGCAACAGTTGGT
Found at i:7775905 original size:176 final size:176
Alignment explanation
Indices: 7775611--7775962 Score: 668
Period size: 176 Copynumber: 2.0 Consensus size: 176
7775601 ATTCAAGTAG
7775611 TATTAACAATTAAGATAATACATTCAATAACTCAGTCAGATTGATAACATTTTTGCAGTTCGAAT
1 TATTAACAATTAAGATAATACATTCAATAACTCAGTCAGATTGATAACATTTTTGCAGTTCGAAT
* *
7775676 ATACAGTCAACAGATACAAAGATTGTTCCAAATTCATAATCAATTACAGATATAGATATAATTAT
66 ATACAGTCAACAAATACAAAGATTGTTCCAAATTCACAATCAATTACAGATATAGATATAATTAT
7775741 GCAAATCCCCTCAGTACACACCATCTCCGTCCAGCCCAACACACCA
131 GCAAATCCCCTCAGTACACACCATCTCCGTCCAGCCCAACACACCA
**
7775787 TATTAACAATTAAGATAATATGTTCAATAACTCAGTCAGATTGATAACATTTTTGCAGTTCGAAT
1 TATTAACAATTAAGATAATACATTCAATAACTCAGTCAGATTGATAACATTTTTGCAGTTCGAAT
7775852 ATACAGTCAACAAATACAAAGATTGTTCCAAATTCACAATCAATTACAGATATAGATATAATTAT
66 ATACAGTCAACAAATACAAAGATTGTTCCAAATTCACAATCAATTACAGATATAGATATAATTAT
7775917 GCAAATCCCCTCAGTACACACCATCTCCGTCCAGCCCAACACACCA
131 GCAAATCCCCTCAGTACACACCATCTCCGTCCAGCCCAACACACCA
7775963 ATATCCATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 172 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (176 bp):
TATTAACAATTAAGATAATACATTCAATAACTCAGTCAGATTGATAACATTTTTGCAGTTCGAAT
ATACAGTCAACAAATACAAAGATTGTTCCAAATTCACAATCAATTACAGATATAGATATAATTAT
GCAAATCCCCTCAGTACACACCATCTCCGTCCAGCCCAACACACCA
Found at i:7786568 original size:21 final size:21
Alignment explanation
Indices: 7786528--7786584 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
7786518 TTTTTATTAG
* *
7786528 TTACTTCTATGTTATTAATCAT
1 TTACTACTAT-TTATGAATCAT
7786550 TTACTACTATTTATGAATCAT
1 TTACTACTATTTATGAATCAT
*
7786571 TTACTATTATTTAT
1 TTACTACTATTTAT
7786585 TACTATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (21 bp):
TTACTACTATTTATGAATCAT
Found at i:7789490 original size:24 final size:24
Alignment explanation
Indices: 7789453--7789509 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
7789443 TTTTCAGAAA
* *
7789453 ATTTAGTAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTAGC
*
7789477 ATTTATTAGCATAATATATTTTGC
1 ATTTATTAGCATAATATATTTAGC
*
7789501 ATTGATTAG
1 ATTTATTAG
7789510 AATTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAGC
Found at i:7803364 original size:24 final size:24
Alignment explanation
Indices: 7803332--7803415 Score: 132
Period size: 24 Copynumber: 3.5 Consensus size: 24
7803322 AATAATCTTC
7803332 CAATTAAACTCTGTTTATTTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
*
7803356 CAATTAAACTCTATTTATTTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
* *
7803380 CAGTTAAACTCGGTTTATTTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
*
7803404 CAGTTAAACTCT
1 CAATTAAACTCT
7803416 TAATCTAGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (24 bp):
CAATTAAACTCTGTTTATTTGTTT
Found at i:7811719 original size:24 final size:25
Alignment explanation
Indices: 7811678--7811724 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7811668 TGATTTTTTA
* *
7811678 AAAAAATATTTTTTATTTAACATTT
1 AAAAAATATATTTGATTTAACATTT
7811703 AAAAAATA-ATTTGATTTAACAT
1 AAAAAATATATTTGATTTAACAT
7811725 AAAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAAAATATATTTGATTTAACATTT
Found at i:7821320 original size:2 final size:2
Alignment explanation
Indices: 7821313--7821337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7821303 AGATATCTTT
7821313 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7821338 CAACTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7822284 original size:30 final size:31
Alignment explanation
Indices: 7822218--7822284 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
7822208 TATTTCCTGA
* * *
7822218 ATTATTTGAAAGTTTTCATTTAAGTAACTTG
1 ATTATTCGAAAGTTTTCATTTAAGCAACTAG
*
7822249 ATTATTCGAAAGTTTT-ATTTAAGCCACTAG
1 ATTATTCGAAAGTTTTCATTTAAGCAACTAG
*
7822279 GTTATT
1 ATTATT
7822285 AAGTATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTATTCGAAAGTTTTCATTTAAGCAACTAG
Found at i:7823162 original size:24 final size:24
Alignment explanation
Indices: 7823131--7823179 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7823121 TTATAATAAT
7823131 ATAAATATAATATTATT-ATTTTA
1 ATAAATATAATATTATTAATTTTA
* *
7823154 ATAATATATATTTTTATTAATTTTA
1 ATAA-ATATAATATTATTAATTTTA
7823179 A
1 A
7823180 AGATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAAATATAATATTATTAATTTTA
Found at i:7823196 original size:12 final size:12
Alignment explanation
Indices: 7823179--7823203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7823169 ATTAATTTTA
7823179 AAGATTTTAATT
1 AAGATTTTAATT
7823191 AAGATTTTAATT
1 AAGATTTTAATT
7823203 A
1 A
7823204 TTTTTGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AAGATTTTAATT
Found at i:7823263 original size:17 final size:16
Alignment explanation
Indices: 7823234--7823284 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
7823224 AATTTTATCA
*
7823234 TTATTAATATAAAATT
1 TTATAAATATAAAATT
**
7823250 TTATAAATTATAAAAGA
1 TTATAAA-TATAAAATT
7823267 TT-TAAAT-TAAAATT
1 TTATAAATATAAAATT
7823281 TTAT
1 TTAT
7823285 CATTTTACAG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 10 0.36
17 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTATAAATATAAAATT
Found at i:7823307 original size:83 final size:83
Alignment explanation
Indices: 7823133--7823305 Score: 192
Period size: 84 Copynumber: 2.1 Consensus size: 83
7823123 ATAATAATAT
* * * * * * *
7823133 AAATATAATATTATTATT-TTAATAATATATATTTTTATTAATTTTAAAGATTTTAATTAAGATT
1 AAATATAATTTTATCATTATTAAT-ATA-A-AATTTTATAAATTTAAAAGATTTAAATTAAAATT
* *
7823197 TTAATTATTTTTGAGAGGTTA
63 TTAATCATTTTTGACAGGTTA
7823218 AAATATAATTTTATCATTATTAATATAAAATTTTATAAATTATAAAAGATTTAAATTAAAATTTT
1 AAATATAATTTTATCATTATTAATATAAAATTTTATAAATT-TAAAAGATTTAAATTAAAATTTT
7823283 -ATCA-TTTT-ACAGGTTA
65 AATCATTTTTGACAGGTTA
*
7823299 TAATATA
1 AAATATA
7823306 TATACAAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
81 13 0.17
82 4 0.05
83 14 0.18
84 21 0.28
85 19 0.25
86 5 0.07
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (83 bp):
AAATATAATTTTATCATTATTAATATAAAATTTTATAAATTTAAAAGATTTAAATTAAAATTTTA
ATCATTTTTGACAGGTTA
Found at i:7824009 original size:26 final size:25
Alignment explanation
Indices: 7823962--7824028 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
7823952 TTATAATTTC
* * * *
7823962 ATATATGATGAATCAATTATTTTGAA
1 ATATATTATAAATAAATAATTTT-AA
7823988 ATATATTATAAATAAATAATTTTAA
1 ATATATTATAAATAAATAATTTTAA
* *
7824013 AAATAATTAAAAATAA
1 ATAT-ATTATAAATAA
7824029 TCGATTGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATTATAAATAAATAATTTTAA
Found at i:7824547 original size:24 final size:23
Alignment explanation
Indices: 7824510--7824571 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
7824500 TGCATTAGTA
* *
7824510 AAATTTTAAATTTAACATTCTACT
1 AAATTTTTATTTTAACATTCTA-T
** *
7824534 AAATTTTTATTTTAATTTTTTAT
1 AAATTTTTATTTTAACATTCTAT
*
7824557 ATATTTTTATTTTAA
1 AAATTTTTATTTTAA
7824572 TATACACATC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (23 bp):
AAATTTTTATTTTAACATTCTAT
Found at i:7828126 original size:34 final size:33
Alignment explanation
Indices: 7828088--7828188 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 33
7828078 AAAAATTATA
7828088 TTGTTATTTTGGTGTTGTTTTTGCTGTTTTGTTG
1 TTGTTATTTTGGTGTT-TTTTTGCTGTTTTGTTG
* ** * *
7828122 TTGTTTTTTTACTATTTTTTTACTGTTTTG--G
1 TTGTTATTTTGGTGTTTTTTTGCTGTTTTGTTG
* * *
7828153 TTATTATTTTGGTGCTATTTTTGCTGTTTTTTTG
1 TTGTTATTTTGGTG-TTTTTTTGCTGTTTTGTTG
7828187 TT
1 TT
7828189 TTTGTTTTTG
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
31 10 0.20
32 13 0.25
33 13 0.25
34 15 0.29
ACGTcount: A:0.07, C:0.05, G:0.19, T:0.69
Consensus pattern (33 bp):
TTGTTATTTTGGTGTTTTTTTGCTGTTTTGTTG
Found at i:7828198 original size:35 final size:35
Alignment explanation
Indices: 7828159--7828264 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
7828149 TTGGTTATTA
* * * *
7828159 TTTTGGTGCTATTTTTGCTGTTTTTTTGTTTTTGT
1 TTTTGGTGCTATTTTTGCTGTTGTTTTGCTGTTAT
* *
7828194 TTTTGTTGCTATTTTTGTTGTTGTTTTGCTGTTAT
1 TTTTGGTGCTATTTTTGCTGTTGTTTTGCTGTTAT
* *
7828229 TTTTAGG-GCTA-TTTTG--GTTGTTTGGATGTTAT
1 TTTT-GGTGCTATTTTTGCTGTTGTTTTGCTGTTAT
7828261 TTTT
1 TTTT
7828265 ATGCGTTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
32 18 0.30
34 5 0.08
35 37 0.61
36 1 0.02
ACGTcount: A:0.07, C:0.05, G:0.22, T:0.67
Consensus pattern (35 bp):
TTTTGGTGCTATTTTTGCTGTTGTTTTGCTGTTAT
Found at i:7828232 original size:23 final size:24
Alignment explanation
Indices: 7828089--7828232 Score: 92
Period size: 23 Copynumber: 6.4 Consensus size: 24
7828079 AAAATTATAT
*
7828089 TGTTA-TTTTGGTGTTGTTTTTGC
1 TGTTATTTTTGTTGTTGTTTTTGC
* *
7828112 TGTT-TTGTTGTTGTT-TTTTTAC
1 TGTTATTTTTGTTGTTGTTTTTGC
** * *
7828134 ---TATTTTT-TTACTGTTTTGGT
1 TGTTATTTTTGTTGTTGTTTTTGC
* * * *
7828154 TATTA-TTTTGGTGCTATTTTTGC
1 TGTTATTTTTGTTGTTGTTTTTGC
* *
7828177 TGTT-TTTTTGTTTTTGTTTTTGT
1 TGTTATTTTTGTTGTTGTTTTTGC
*
7828200 TGCTATTTTTGTTGTTG-TTTTGC
1 TGTTATTTTTGTTGTTGTTTTTGC
7828223 TGTTATTTTT
1 TGTTATTTTT
7828233 AGGGCTATTT
Statistics
Matches: 88, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
19 4 0.05
20 8 0.09
22 10 0.11
23 55 0.62
24 11 0.12
ACGTcount: A:0.06, C:0.05, G:0.19, T:0.70
Consensus pattern (24 bp):
TGTTATTTTTGTTGTTGTTTTTGC
Found at i:7830129 original size:207 final size:207
Alignment explanation
Indices: 7829774--7830166 Score: 646
Period size: 207 Copynumber: 1.9 Consensus size: 207
7829764 AGTCCAATAG
* *
7829774 TAACATGTCTTGGTTTGTAACACATTGCCGAGTGCCAACCACTATTATGAACCACCTATTTTTCA
1 TAACATGTCTTAGTTTGTAACACATTGCCGAGTGCCAACCACTATTATGAACCACCTAATTTTCA
7829839 ATCATTTCAAAAGTACAACCTCTTACCCCCTTTATTTATTGATTTTGCACTTTTAATTTAAGGTT
66 ATCATTTCAAAAGTACAACCTCTTACCCCCTTTATTTATTGATTTTGCACTTTTAATTTAAGGTT
** * * * *
7829904 TTCATTATCGGGTTTGAACTCGTTTTTTAAGATGACAACAAAAGACTTCAATCACTGCTTCAGAA
131 TTCATTATCAAGTTTGAACTCGATCTTTAAGATGACAACAAAAGACTACAACCACTGCTTCAGAA
7829969 GGGTATCGATAA
196 GGGTATCGATAA
7829981 TAACATGTCTTAGTTTGTAACACATTGCCGAGTGCCAA-CACTATTATGAACCACCTAATTTTCA
1 TAACATGTCTTAGTTTGTAACACATTGCCGAGTGCCAACCACTATTATGAACCACCTAATTTTCA
* * * *
7830045 ATCATTTCAAAAGTACAATCC-CTTACCCCGTTTTCTTTCTTGATTTTGCACTTTTAATTTAGGG
66 ATCATTTCAAAAGTACAA-CCTCTTACCCC-CTTTATTTATTGATTTTGCACTTTTAATTTAAGG
7830109 TTTTCATTATCAAGTTTGAACTCGATCTTTAAGATGACAACAAAAGACTACAACCACT
129 TTTTCATTATCAAGTTTGAACTCGATCTTTAAGATGACAACAAAAGACTACAACCACT
7830167 ACTCCAAAAG
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
206 51 0.30
207 121 0.70
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (207 bp):
TAACATGTCTTAGTTTGTAACACATTGCCGAGTGCCAACCACTATTATGAACCACCTAATTTTCA
ATCATTTCAAAAGTACAACCTCTTACCCCCTTTATTTATTGATTTTGCACTTTTAATTTAAGGTT
TTCATTATCAAGTTTGAACTCGATCTTTAAGATGACAACAAAAGACTACAACCACTGCTTCAGAA
GGGTATCGATAA
Found at i:7834564 original size:23 final size:23
Alignment explanation
Indices: 7834538--7834597 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
7834528 TTATGATAAT
7834538 ATAAATATAATTTTATTATTTTA
1 ATAAATATAATTTTATTATTTTA
7834561 AT-AATATATATTTTATTATTTTA
1 ATAAATATA-ATTTTATTATTTTA
* *
7834584 A-AAATTTAAATTTA
1 ATAAATATAATTTTA
7834598 AATTTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAAATATAATTTTATTATTTTA
Found at i:7834626 original size:82 final size:83
Alignment explanation
Indices: 7834540--7834694 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 83
7834530 ATGATAATAT
* * *
7834540 AAATATAATTTTATTATT-TTAATAATATATA-TTTTAT-TATTTTAAAA-ATTTAAATTTAAAT
1 AAATATAATTTTATTATTATTAAT-ATA-A-AGTTTTATAAATTATAAAAGATTTAAATTAAAAT
7834601 TTTATTATTTTTGAGCGGTTA
63 TTTATTATTTTTGAGCGGTTA
* *
7834622 AAATATAATTTTATTATTATTAATGTAAAGTTTTATAAATTATAAAAGGTTTAAATTAAAATTTT
1 AAATATAATTTTATTATTATTAATATAAAGTTTTATAAATTATAAAAGATTTAAATTAAAATTTT
7834687 ATTATTTT
66 ATTATTTT
7834695 ACAAGCTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 1 0.02
81 7 0.11
82 28 0.44
83 28 0.44
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (83 bp):
AAATATAATTTTATTATTATTAATATAAAGTTTTATAAATTATAAAAGATTTAAATTAAAATTTT
ATTATTTTTGAGCGGTTA
Found at i:7834711 original size:83 final size:81
Alignment explanation
Indices: 7834537--7834711 Score: 180
Period size: 83 Copynumber: 2.1 Consensus size: 81
7834527 TTTATGATAA
* * *
7834537 TATAAATATAATTTTATTATTTTAATAATATATATTTTATTATTTTAAAAATTTAAATTTAAATT
1 TATAAATATAATTTTATTATTTTAATAATATATATTTTATAATTATAAAAATTTAAATTAAAATT
**
7834602 TTATTATTTTTGAGCGG
66 TTATTATTTTCAAGC-G
* *
7834619 T-TAAAATATAATTTTATTATTATTAAT-GTA-A-AGTTTTATAAATTATAAAAGGTTTAAATTA
1 TAT-AAATATAATTTTATTATT-TTAATAATATATA-TTTTAT-AATTATAAAA-ATTTAAATTA
7834680 AAATTTTATTATTTTACAAGC-
61 AAATTTTATTATTTT-CAAGCG
7834701 TATAATATATA
1 TATAA-ATATA
7834712 TACAAAAGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
80 1 0.01
81 8 0.10
82 32 0.41
83 34 0.44
84 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (81 bp):
TATAAATATAATTTTATTATTTTAATAATATATATTTTATAATTATAAAAATTTAAATTAAAATT
TTATTATTTTCAAGCG
Found at i:7835010 original size:26 final size:25
Alignment explanation
Indices: 7834963--7835029 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
7834953 TTATAATTTC
* * * *
7834963 ATATATGATGAATCAATTATTTTGAA
1 ATATATTATAAATAAATAATTTT-AA
7834989 ATATATTATAAATAAATAATTTTAA
1 ATATATTATAAATAAATAATTTTAA
* *
7835014 AAATAATTAAAAATAA
1 ATAT-ATTATAAATAA
7835030 TCGATTGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATTATAAATAAATAATTTTAA
Found at i:7835548 original size:24 final size:23
Alignment explanation
Indices: 7835511--7835572 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
7835501 TGTATTAGTA
* *
7835511 AAATTTTAAATTTAACATTCTACT
1 AAATTTTTATTTTAACATTCTA-T
** *
7835535 AAATTTTTATTTTAATTTTTTAT
1 AAATTTTTATTTTAACATTCTAT
*
7835558 ATATTTTTATTTTAA
1 AAATTTTTATTTTAA
7835573 TATACACATC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (23 bp):
AAATTTTTATTTTAACATTCTAT
Done.