Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 118 of 132
Found at i:35981466 original size:29 final size:30
Alignment explanation
Indices: 35981407--35981468 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
35981397 TGCAGAAGAT
* *
35981407 AAAATAGAAAAAAATGATAATTTAAGTATC
1 AAAATAGAAAAAAATGATAATCTAAATATC
*
35981437 AAAATAGACAAAAA-GA-AAGTCTAAATATC
1 AAAATAGAAAAAAATGATAA-TCTAAATATC
35981466 AAA
1 AAA
35981469 GTGTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 13 0.46
30 13 0.46
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAATAGAAAAAAATGATAATCTAAATATC
Found at i:35983813 original size:73 final size:73
Alignment explanation
Indices: 35983728--35983871 Score: 288
Period size: 73 Copynumber: 2.0 Consensus size: 73
35983718 CTAAGTGAAT
35983728 GGTTTCTTTTCCTTTTCCATTAAGCAATTAAATACCACACAACAACATACAAATAAGGAATGTAA
1 GGTTTCTTTTCCTTTTCCATTAAGCAATTAAATACCACACAACAACATACAAATAAGGAATGTAA
35983793 AGATTCGG
66 AGATTCGG
35983801 GGTTTCTTTTCCTTTTCCATTAAGCAATTAAATACCACACAACAACATACAAATAAGGAATGTAA
1 GGTTTCTTTTCCTTTTCCATTAAGCAATTAAATACCACACAACAACATACAAATAAGGAATGTAA
35983866 AGATTC
66 AGATTC
35983872 TTCCTTTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (73 bp):
GGTTTCTTTTCCTTTTCCATTAAGCAATTAAATACCACACAACAACATACAAATAAGGAATGTAA
AGATTCGG
Found at i:35987053 original size:31 final size:32
Alignment explanation
Indices: 35986966--35987054 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 32
35986956 TAAAAATATA
* * *
35986966 TAAAGTATTTTTTTAATAAGTTTAAATATTAAC
1 TAAA-TATTTTTTAAATAAGTTCAAATATCAAC
* * * * *
35986999 TAAATATTTTTTGAACAAATTCAAGTATCAAT
1 TAAATATTTTTTAAATAAGTTCAAATATCAAC
35987031 TAAATA-TTTTTAAATAAGTTCAAA
1 TAAATATTTTTTAAATAAGTTCAAA
35987055 GACAAATTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 14 0.31
32 27 0.60
33 4 0.09
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
TAAATATTTTTTAAATAAGTTCAAATATCAAC
Found at i:35988523 original size:16 final size:17
Alignment explanation
Indices: 35988491--35988525 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
35988481 AATTGATATG
*
35988491 ATGACACAAATAAAAAA
1 ATGACACAAACAAAAAA
35988508 ATGACAC-AACAAAAAA
1 ATGACACAAACAAAAAA
35988524 AT
1 AT
35988526 TCAGTACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (17 bp):
ATGACACAAACAAAAAA
Found at i:35988677 original size:17 final size:17
Alignment explanation
Indices: 35988657--35988712 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
35988647 AATTAATATA
35988657 ATATACAAAAATAAAAT
1 ATATACAAAAATAAAAT
* * **
35988674 ATATACATACATACTAT
1 ATATACAAAAATAAAAT
*
35988691 ATATA-AAGAAATAAATT
1 ATATACAA-AAATAAAAT
35988708 ATATA
1 ATATA
35988713 TATACATGTA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
ATATACAAAAATAAAAT
Found at i:35988807 original size:72 final size:72
Alignment explanation
Indices: 35988680--35988867 Score: 234
Period size: 72 Copynumber: 2.6 Consensus size: 72
35988670 AAATATATAC
* * ** *
35988680 ATACATACTATATATAAAGAAATAAATTATATATATACATGTAACTTAAGAAAACAGTGGGAATA
1 ATACATACTATATATAAAG-AATAAACTATATATAT--ATATAACTTAAGAAAACAACGAGAATA
35988745 TGGGAAATAT
63 TGGGAAATAT
* *
35988755 ATACATACTATATATAAAGAATAAACTATATATATATATAACTTAA-AGAAACAACGAGTATGTG
1 ATACATACTATATATAAAGAATAAACTATATATATATATAACTTAAGA-AAACAACGAGAATATG
*
35988819 GTAAATAT
65 GGAAATAT
**
35988827 ATACATACTATATATAAAGAATAAAGAATATATATTATATA
1 ATACATACTATATATAAAGAATAAACTATATATA-TATATA
35988868 TAAGGAAGCC
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
71 1 0.01
72 60 0.59
73 6 0.06
74 15 0.15
75 19 0.19
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (72 bp):
ATACATACTATATATAAAGAATAAACTATATATATATATAACTTAAGAAAACAACGAGAATATGG
GAAATAT
Found at i:35990655 original size:40 final size:40
Alignment explanation
Indices: 35990609--35991016 Score: 336
Period size: 40 Copynumber: 10.3 Consensus size: 40
35990599 ATTAGATTGT
* *
35990609 TTCAATCTGTCTCATGGTCGGGGTAAGAGATCGAATGGTC
1 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTC
* * *
35990649 TTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGATC
1 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTC
* * * * *
35990689 TTTAATCTGCCTC-TGGTCGAGGTAAAAGATCAGATGGCC
1 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTC
*
35990728 TTCAATCTGCCTCATGGTCCGGGTAAGAGATCGGATGGTC
1 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTC
* ** * * *
35990768 TTCAATCTGCCCTC-TAGTTAGGGTAACAGATTGGATTG-C
1 TTCAATCTG-CCTCATGGTCGGGGTAAGAGATCGGATGGTC
*
35990807 TTCAATCTGCCTTATGG-CAGGGAG-AAGAGATCGGATGGTC
1 TTCAATCTGCCTCATGGTC-GGG-GTAAGAGATCGGATGGTC
* ** * * *
35990847 TTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATTG-C
1 TTCAATCTG-CCTCATGGTCGGGGTAAGAGATCGGATGGTC
* * * *
35990886 TTCAATCTAGTC-CACGGTTGGGGTAAGAGATTGGATGGTC
1 TTCAATCT-GCCTCATGGTCGGGGTAAGAGATCGGATGGTC
* *
35990926 TTCAATCTGCCCTC-TAGGTTGGGGTAA-ATGATTGGATGGTC
1 TTCAATCTG-CCTCAT-GGTCGGGGTAAGA-GATCGGATGGTC
* * * * *
35990967 TTTAATCTTCCCCAAGGTCGTGGTAAGAGATCGGAT--TAC
1 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGT-C
35991006 TTCAATCTGCC
1 TTCAATCTGCC
35991017 CAATGGTTGA
Statistics
Matches: 295, Mismatches: 54, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
38 5 0.02
39 100 0.34
40 151 0.51
41 39 0.13
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTC
Found at i:35990713 original size:79 final size:78
Alignment explanation
Indices: 35990643--35991037 Score: 363
Period size: 79 Copynumber: 5.0 Consensus size: 78
35990633 AAGAGATCGA
* *
35990643 ATGGTCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGATCTTTAATCTG-CCTCTGGTC
1 ATGG-CTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGT-
**
35990707 GAGGTAAAAGATCAG
64 GAGGTAAAAGATTGG
* *
35990722 ATGGCCTTCAATCTGCCTCATGGTCCG-GGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGT
1 ATGG-CTTCAATCTGCCCCATGGT-CGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGT
* *
35990786 TAGGGTAACAGATTGG
64 GA-GGTAAAAGATTGG
* ** * *
35990802 ATTGCTTCAATCTGCCTTATGG-C-AGGGAGAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGT
1 ATGGCTTCAATCTGCCCCATGGTCGA-GG-TAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGT
*
35990865 TAGGGTAAAAGATTGG
64 GA-GGTAAAAGATTGG
* * * * * *
35990881 ATTGCTTCAATCTAG-TCCACGGTTGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGGT
1 ATGGCTTCAATCT-GCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCT-GG-
* *
35990945 TGGGGTAAATGATTGG
63 TGAGGTAAAAGATTGG
* * * * **
35990961 ATGGTCTTTAATCTTCCCCAAGGTCGTGGTAAGAGATCGGAT--TACTTCAATCTGCCCAATGGT
1 ATGG-CTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGT-CTTCAATCTGCCCTCTGG-
35991024 TGAGGTAAAAGATT
63 TGAGGTAAAAGATT
35991038 CGAGGTTGTA
Statistics
Matches: 265, Mismatches: 37, Indels: 28
0.80 0.11 0.08
Matches are distributed among these distances:
77 1 0.00
78 2 0.01
79 177 0.67
80 55 0.21
81 30 0.11
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (78 bp):
ATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTGA
GGTAAAAGATTGG
Found at i:35990838 original size:119 final size:117
Alignment explanation
Indices: 35990609--35990936 Score: 317
Period size: 119 Copynumber: 2.8 Consensus size: 117
35990599 ATTAGATTGT
* * * * *
35990609 TTCAATCTGTCTCATGGTCGGGGTAAGAGATCGAATGGTCTTCAATCTGCCCCATGGTCGAGGTA
1 TTCAATCTGCCTCATGGTCAGGGTAAGAGATCGGATGGTCTTCAATCTGCCCCA-GTTAG-GGTA
* * * *
35990674 AGAGATCGGA-TGATCTTTAATCTGCCTCTGGTCGAGGTAAAAGATCAGATGGCC
64 AGAGATTGGATTG-TCTTCAATCTGCCTATGGTCGAGGGAAAAGATCAGATGGCC
*
35990728 TTCAATCTGCCTCATGGTCCGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTA
1 TTCAATCTGCCTCATGGTCAGGGTAAGAGATCGGATGGTCTTCAATCTGCCC-C-AGTTAGGGTA
* * *
35990793 ACAGATTGGATTG-CTTCAATCTGCCTTATGG-C-AGGGAGAAGAGATCGGATGGTC
64 AGAGATTGGATTGTCTTCAATCTGCC-TATGGTCGAGGGA-AA-AGATCAGATGGCC
* * * * * * * *
35990847 TTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATTG-CTTCAATCTAGTCCACGGTTGGGGT
1 TTCAATCTG-CCTCATGGTCAGGGTAAGAGATCGGATGGTCTTCAATCT-G-CCCCAGTTAGGGT
*
35990910 AAGAGATTGGATGGTCTTCAATCTGCC
63 AAGAGATTGGATTGTCTTCAATCTGCC
35990937 CTCTAGGTTG
Statistics
Matches: 176, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
117 4 0.02
118 42 0.24
119 117 0.66
120 12 0.07
121 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (117 bp):
TTCAATCTGCCTCATGGTCAGGGTAAGAGATCGGATGGTCTTCAATCTGCCCCAGTTAGGGTAAG
AGATTGGATTGTCTTCAATCTGCCTATGGTCGAGGGAAAAGATCAGATGGCC
Found at i:35991147 original size:50 final size:50
Alignment explanation
Indices: 35991093--35991221 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
35991083 TGTCCTTGTG
* *
35991093 ACTTCAATCTGCCCCTCTACAACTTTAGGTGAATAAGATTCATCATTGCA
1 ACTTCAATCTGCCCCTCTACAACTTTAGGTGAATAAGATTCACCATCGCA
* * * * * **
35991143 ACTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTACCATCGTG
1 ACTTCAATCTGCCCCTCTACAACTTTAGGTGAATAAGATTCACCATCGCA
* * *
35991193 GCTTCAATCTGCACCTCCACAACTTTAGG
1 ACTTCAATCTGCCCCTCTACAACTTTAGG
35991222 GGTAAAAGAT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (50 bp):
ACTTCAATCTGCCCCTCTACAACTTTAGGTGAATAAGATTCACCATCGCA
Found at i:35997333 original size:34 final size:34
Alignment explanation
Indices: 35997294--35997364 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
35997284 TTCCCTCTCC
35997294 TCAAAGAACTCTAATTCTTTATTATCCATCAACT
1 TCAAAGAACTCTAATTCTTTATTATCCATCAACT
*
35997328 TCAAAGAACTCTAGTTCTTTATTATCCATCAACT
1 TCAAAGAACTCTAATTCTTTATTATCCATCAACT
35997362 TCA
1 TCA
35997365 GTACCAAGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (34 bp):
TCAAAGAACTCTAATTCTTTATTATCCATCAACT
Found at i:36004283 original size:14 final size:15
Alignment explanation
Indices: 36004242--36004277 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
36004232 TTATTTATTT
36004242 AAAAAATAATAATAAA
1 AAAAAATAA-AATAAA
36004258 AAAAAATAAAATAAA
1 AAAAAATAAAATAAA
36004273 AAAAA
1 AAAAA
36004278 CAAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAATAAA
Found at i:36010335 original size:3 final size:3
Alignment explanation
Indices: 36010327--36010361 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
36010317 CGGATCTCTA
36010327 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36010362 GTTTTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:36012644 original size:7 final size:8
Alignment explanation
Indices: 36012632--36012666 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
36012622 CAAGCAAGCC
36012632 TTTT-CTT
1 TTTTCCTT
*
36012639 TTTTCTTT
1 TTTTCCTT
36012647 TTTTCCTT
1 TTTTCCTT
36012655 TTTTCCTT
1 TTTTCCTT
36012663 TTTT
1 TTTT
36012667 TTTAATCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCCTT
Found at i:36012657 original size:16 final size:16
Alignment explanation
Indices: 36012632--36012667 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
36012622 CAAGCAAGCC
36012632 TTTTCTTTTTT-CTTT
1 TTTTCTTTTTTCCTTT
36012647 TTTTCCTTTTTTCCTTT
1 TTTT-CTTTTTTCCTTT
36012664 TTTT
1 TTTT
36012668 TTAATCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 8 0.42
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTCCTTT
Found at i:36014975 original size:3 final size:3
Alignment explanation
Indices: 36014967--36014991 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36014957 CAAGTGTTCA
36014967 TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG T
36014992 CATGCAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:36014994 original size:27 final size:27
Alignment explanation
Indices: 36014937--36015025 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
36014927 GTCATGATTT
** *** *
36014937 TCATGGTGGTGGTGGTCATGCAAGTGT
1 TCATGGTGGTGGTGGTGGTGGTGGTGG
36014964 TCATGGTGGTGGTGGTGGTGGTGGTGG
1 TCATGGTGGTGGTGGTGGTGGTGGTGG
*** **
36014991 TCATGCAAGTGGTCATGGTGGTGGTGG
1 TCATGGTGGTGGTGGTGGTGGTGGTGG
*
36015018 TGATGGTG
1 TCATGGTG
36015026 ATCATTCCCG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.11, C:0.08, G:0.48, T:0.33
Consensus pattern (27 bp):
TCATGGTGGTGGTGGTGGTGGTGGTGG
Found at i:36014994 original size:39 final size:39
Alignment explanation
Indices: 36014940--36015025 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
36014930 ATGATTTTCA
*
36014940 TGGTGGTGGTGGTCATGCAAGTGTTCATGGTGGTGGTGG
1 TGGTGGTGGTGGTCATGCAAGTGGTCATGGTGGTGGTGG
36014979 TGGTGGTGGTGGTCATGCAAGTGGTCATGGTGGTGGTGG
1 TGGTGGTGGTGGTCATGCAAGTGGTCATGGTGGTGGTGG
*
36015018 TGATGGTG
1 TGGTGGTG
36015026 ATCATTCCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.10, C:0.07, G:0.50, T:0.33
Consensus pattern (39 bp):
TGGTGGTGGTGGTCATGCAAGTGGTCATGGTGGTGGTGG
Found at i:36017870 original size:18 final size:18
Alignment explanation
Indices: 36017835--36017873 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36017825 AATAAAATAC
**
36017835 TAACCAAATTAATTGAAT
1 TAACCAAATTAACCGAAT
36017853 TAACCAAATTAACCGAAT
1 TAACCAAATTAACCGAAT
36017871 TAA
1 TAA
36017874 TTGAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (18 bp):
TAACCAAATTAACCGAAT
Found at i:36022458 original size:8 final size:8
Alignment explanation
Indices: 36022431--36022507 Score: 55
Period size: 8 Copynumber: 9.4 Consensus size: 8
36022421 GTTATTTTTT
*
36022431 AATAAATA
1 AATAATTA
* *
36022439 ATTAATTG
1 AATAATTA
36022447 AATAATTA
1 AATAATTA
36022455 AATAATTA
1 AATAATTA
*
36022463 AATATTTA
1 AATAATTA
** * *
36022471 GGTTATTTTT
1 -AATA-ATTA
36022481 AATAATTA
1 AATAATTA
*
36022489 ACTAATTA
1 AATAATTA
36022497 AATAATTA
1 AATAATTA
36022505 AAT
1 AAT
36022508 GTTTGGGTTC
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
8 45 0.87
9 4 0.08
10 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (8 bp):
AATAATTA
Found at i:36022495 original size:42 final size:41
Alignment explanation
Indices: 36022441--36022531 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 41
36022431 AATAAATAAT
36022441 TAATTGAATAATTAAATAATTAAATATTTAGGTT-ATTTTTAA
1 TAATT-AATAATTAAATAATTAAATATTTAGGTTCA-TTTTAA
* *
36022483 TAATTAACTAATTAAATAATTAAATGTTTGGGTTCATTTTAA
1 TAATTAA-TAATTAAATAATTAAATATTTAGGTTCATTTTAA
36022525 TAATTAA
1 TAATTAA
36022532 ATATTTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 2 0.04
42 42 0.93
43 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (41 bp):
TAATTAATAATTAAATAATTAAATATTTAGGTTCATTTTAA
Found at i:36022557 original size:30 final size:30
Alignment explanation
Indices: 36022523--36022751 Score: 123
Period size: 30 Copynumber: 7.5 Consensus size: 30
36022513 GGTTCATTTT
36022523 AATAATTAAATATTTAATTAAATATAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
* *
36022553 AATAATTAAATATTTTGAATTAAAGAT--TTG
1 AATAATTAAATA-TTT-AATTAAATATAATTA
** ** ** * *
36022583 GGTTGTT-TTTA-ATAATT-AA-CTAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
36022609 AATAATTAAATATCTTAAATTAAATATTTAATTAA
1 AATAATTAAATAT-TT-AATTAAATA--TAATT-A
* *
36022644 ATATAATTAAATATTTAAAT-AAT-TAAATA
1 A-ATAATTAAATATTTAATTAAATATAATTA
** * * * *
36022673 TTTTGAGTTAAATATTTAATTAACTAATACTGTT
1 -AAT-AATTAAATATTTAATTAAAT-ATAAT-TA
*
36022707 TATAATTAAATATTTAATTAAATATAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
36022737 AATAATTAAATATTT
1 AATAATTAAATATTT
36022752 GAATATATTT
Statistics
Matches: 144, Mismatches: 35, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
24 1 0.01
25 2 0.01
26 9 0.06
27 3 0.02
29 5 0.03
30 54 0.38
31 11 0.08
32 27 0.19
33 7 0.05
34 9 0.06
35 4 0.03
36 12 0.08
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (30 bp):
AATAATTAAATATTTAATTAAATATAATTA
Found at i:36022597 original size:112 final size:108
Alignment explanation
Indices: 36022458--36022690 Score: 308
Period size: 112 Copynumber: 2.1 Consensus size: 108
36022448 ATAATTAAAT
* *** * *
36022458 AATTAAATATTTAGGTTATTTTTAATAATTAACTAATTAAATAATTAAATGT-TTGGGTT-CATT
1 AATTAAATATTTAGGTTATTTTTAATAATTAACTAATTAAATAATTAAATATCTTAAATTAAATA
36022521 TTAATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTTTG
66 TT--TAATTAAATA--TAATTAAATAT--TTAAATAATTAAATATTTTG
* * *
36022570 AATTAAAGATTTGGGTTGTTTTTAATAATTAACTAATTAAATAATTAAATATCTTAAATTAAATA
1 AATTAAATATTTAGGTTATTTTTAATAATTAACTAATTAAATAATTAAATATCTTAAATTAAATA
36022635 TTTAATTAAATATAATTAAATATTTAAATAATTAAATATTTTG
66 TTTAATTAAATATAATTAAATATTTAAATAATTAAATATTTTG
*
36022678 AGTTAAATATTTA
1 AATTAAATATTTA
36022691 ATTAACTAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
108 30 0.28
110 11 0.10
112 58 0.54
113 4 0.04
114 4 0.04
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (108 bp):
AATTAAATATTTAGGTTATTTTTAATAATTAACTAATTAAATAATTAAATATCTTAAATTAAATA
TTTAATTAAATATAATTAAATATTTAAATAATTAAATATTTTG
Found at i:36022618 original size:8 final size:8
Alignment explanation
Indices: 36022593--36022672 Score: 70
Period size: 8 Copynumber: 9.5 Consensus size: 8
36022583 GGTTGTTTTT
36022593 AATAATTA
1 AATAATTA
*
36022601 ACTAATTA
1 AATAATTA
36022609 AATAATTA
1 AATAATTA
*
36022617 AATATCTTA
1 AATA-ATTA
*
36022626 AATTAAATA
1 AA-TAATTA
**
36022635 TTTAATTAA
1 AATAATT-A
36022644 ATATAATTA
1 A-ATAATTA
*
36022653 AATATTTA
1 AATAATTA
36022661 AATAATTA
1 AATAATTA
36022669 AATA
1 AATA
36022673 TTTTGAGTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
8 39 0.70
9 10 0.18
10 7 0.12
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
AATAATTA
Found at i:36022640 original size:26 final size:27
Alignment explanation
Indices: 36022611--36022739 Score: 102
Period size: 26 Copynumber: 4.7 Consensus size: 27
36022601 ACTAATTAAA
*
36022611 TAATTAAATAT-CTTAAATTAAATATT
1 TAATTAAATATATTTAAATTAAATATT
* ** **
36022637 TAATTAAATATAATTAAA-TATTTAAA
1 TAATTAAATATATTTAAATTAAATATT
* *
36022663 TAATTAAATAT-TTTGAGTTAAATATT
1 TAATTAAATATATTTAAATTAAATATT
*
36022689 TAATTAACTAATACTGTTTATAATTAAATATT
1 TAATT-A--AATA-TATTTA-AATTAAATATT
*
36022721 TAATTAAATATAATTAAAT
1 TAATTAAATATATTTAAAT
36022740 AATTAAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
25 3 0.04
26 35 0.44
27 9 0.11
28 4 0.05
29 8 0.10
30 1 0.01
31 4 0.05
32 15 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TAATTAAATATATTTAAATTAAATATT
Found at i:36022651 original size:22 final size:22
Alignment explanation
Indices: 36022626--36022745 Score: 78
Period size: 22 Copynumber: 5.6 Consensus size: 22
36022616 AAATATCTTA
36022626 AATTAAATATTTAATTAAATAT
1 AATTAAATATTTAATTAAATAT
36022648 AATTAAATA--T--TT-AA-AT
1 AATTAAATATTTAATTAAATAT
*
36022664 AATTAAATATTTTGAGTTAAATATTT
1 AATTAAATA-TTT-AATTAAATA--T
* * * *
36022690 AATTAACTA-ATACTGT--TTAT
1 AATTAAATATTTAAT-TAAATAT
36022710 AATTAAATATTTAATTAAATAT
1 AATTAAATATTTAATTAAATAT
*
36022732 AATTAAATAATTAA
1 AATTAAATATTTAA
36022746 ATATTTGAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
16 11 0.15
17 2 0.03
18 2 0.03
19 1 0.01
20 11 0.15
21 3 0.04
22 29 0.39
23 4 0.05
24 3 0.04
26 9 0.12
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
AATTAAATATTTAATTAAATAT
Found at i:36022816 original size:8 final size:8
Alignment explanation
Indices: 36022774--36022836 Score: 63
Period size: 8 Copynumber: 7.4 Consensus size: 8
36022764 GTTGTTTTTT
36022774 ATAATTAAA
1 ATAATT-AA
36022783 TATAATTAA
1 -ATAATTAA
*
36022792 GTAATTAA
1 ATAATTAA
*
36022800 GTAATTAA
1 ATAATTAA
36022808 ATAATTAAAA
1 ATAATT--AA
*
36022818 ACAATTAA
1 ATAATTAA
36022826 ATAATTAA
1 ATAATTAA
36022834 ATA
1 ATA
36022837 GTTTGAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
8 32 0.68
9 2 0.04
10 13 0.28
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (8 bp):
ATAATTAA
Found at i:36025736 original size:94 final size:94
Alignment explanation
Indices: 36025575--36025802 Score: 456
Period size: 94 Copynumber: 2.4 Consensus size: 94
36025565 TCCAACAAGG
36025575 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTAAGGCTTTCGTCAACATATCAGCACC
1 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTAAGGCTTTCGTCAACATATCAGCACC
36025640 ATTATCATCAGTATGAATCTTCTCAAGCT
66 ATTATCATCAGTATGAATCTTCTCAAGCT
36025669 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTAAGGCTTTCGTCAACATATCAGCACC
1 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTAAGGCTTTCGTCAACATATCAGCACC
36025734 ATTATCATCAGTATGAATCTTCTCAAGCT
66 ATTATCATCAGTATGAATCTTCTCAAGCT
36025763 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTA
1 CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTA
36025803 CCTCACATCA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 134 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (94 bp):
CTAACAACTTAGCTTCAAGAACATCTCGTATCCAATGGTAAGGCTTTCGTCAACATATCAGCACC
ATTATCATCAGTATGAATCTTCTCAAGCT
Found at i:36030215 original size:18 final size:19
Alignment explanation
Indices: 36030194--36030234 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
36030184 GAAATTAAGG
*
36030194 ATTTAGAAATG-ATTAGGA
1 ATTTAGAAATGAATGAGGA
36030212 ATTTAGAAATGAATGAGGA
1 ATTTAGAAATGAATGAGGA
36030231 ATTT
1 ATTT
36030235 TTTTTGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (19 bp):
ATTTAGAAATGAATGAGGA
Found at i:36030420 original size:41 final size:41
Alignment explanation
Indices: 36030362--36030448 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
36030352 TAATGCTTTA
* * * *
36030362 GACCTTTTGCGGTGTTTTTCCCATAAACGTCGTTATTGCTT
1 GACCTTTAGCGGCGTTTTTCCCATAAACGCCGTTATTACTT
36030403 GACCTTTAGCGGCGTTTTTCCCATAAACGCCGTTATTACTT
1 GACCTTTAGCGGCGTTTTTCCCATAAACGCCGTTATTACTT
36030444 GACCT
1 GACCT
36030449 CTAATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (41 bp):
GACCTTTAGCGGCGTTTTTCCCATAAACGCCGTTATTACTT
Found at i:36030528 original size:14 final size:16
Alignment explanation
Indices: 36030493--36030532 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
36030483 AAATTTTTAG
36030493 AAATTTTATAATATTT
1 AAATTTTATAATATTT
36030509 -AATTTTA-AAT-TTT
1 AAATTTTATAATATTT
36030522 AAATTTTATAA
1 AAATTTTATAA
36030533 AAGTCCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATTTTATAATATTT
Found at i:36031810 original size:19 final size:18
Alignment explanation
Indices: 36031769--36031824 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
36031759 AATATAATTT
36031769 ATCCAAAAGTATTAAATCA-A
1 ATCCAAAA--ATTAAAT-ATA
*
36031789 ATCCAAATATTCAAATATA
1 ATCCAAAAATT-AAATATA
*
36031808 ATCTAAAAATTAAATAT
1 ATCCAAAAATTAAATAT
36031825 GCAATTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.30
Consensus pattern (18 bp):
ATCCAAAAATTAAATATA
Found at i:36032418 original size:41 final size:41
Alignment explanation
Indices: 36032369--36032743 Score: 370
Period size: 41 Copynumber: 9.1 Consensus size: 41
36032359 GTTTATGGGA
*
36032369 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTGCAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
* *
36032410 AAATGTCGCTAATGCTCTGACCTTTAGCGGCTCTTTTCCAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
*
36032451 AAACGCCGCTAATGCAT-TGACCTTTAGCGGCGC-TTTCTCAT
1 AAACGTCGCTAATGC-TCTGACCTTTAGCGGCGCTTTTC-CAT
** *
36032492 AAACCCCGCTAATGCTCTGACTTTTAGCGGCGCTTTAT-CAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTT-TCCAT
* * * *
36032533 AAACGTCGCTATTGCTTTGACCTTTAGCGGTGCTTTCCCAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
* *
36032574 AAACGTCGCTAGTGCTCTGACCTTTAG-GGGGCCTTTTCCCAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCG-CTTTT-CCAT
* * **
36032616 AAACG-CTGTTAATGCTCTGACC-TTAGCGGGGCTTCCCCA-
1 AAACGTC-GCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
* ** * **
36032655 ATAACG-CTGTTAATGCTCCAACCTTTAACGGCGCTTCCCCAT
1 A-AACGTC-GCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
* * * *
36032697 AAACGCCGCTAATGCTCTAACCTTTAGCAGCGTTTTTCCTAT
1 AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCC-AT
36032739 AAACG
1 AAACG
36032744 CTGCTATTGC
Statistics
Matches: 285, Mismatches: 34, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.00
40 30 0.11
41 215 0.75
42 38 0.13
43 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGTCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCCAT
Found at i:36036859 original size:2 final size:2
Alignment explanation
Indices: 36036852--36036892 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
36036842 TTAGAAAGAA
36036852 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36036893 AACAAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36058596 original size:17 final size:19
Alignment explanation
Indices: 36058568--36058614 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
36058558 AATAATAAAA
36058568 TTAAATATTTAAA-CTAGT
1 TTAAATATTTAAATCTAGT
36058586 TTAAA-ATTTAAATCTAGT
1 TTAAATATTTAAATCTAGT
*
36058604 TCAAACTATTT
1 TTAAA-TATTT
36058615 TTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
20 4 0.16
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (19 bp):
TTAAATATTTAAATCTAGT
Found at i:36062946 original size:16 final size:14
Alignment explanation
Indices: 36062924--36062966 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
36062914 AAATAAATAA
36062924 AAAATATATAAATT
1 AAAATATATAAATT
36062938 ATTAAATAT-TAAATT
1 A--AAATATATAAATT
36062953 AAAATAATATAAAT
1 AAAAT-ATATAAAT
36062967 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 3 0.12
15 12 0.48
16 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATATAAATT
Found at i:36062987 original size:30 final size:29
Alignment explanation
Indices: 36062903--36062992 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
36062893 TAAGATGGCC
36062903 ATAAATATTTT-AAATAAATAAAAA-ATAT
1 ATAAATATTTTAAAATAAATAAAAATA-AT
* *
36062931 ATAAAT-TATTAAATATTAAATTAAAATAAT
1 ATAAATATTTTAAA-A-TAAATAAAAATAAT
*
36062961 ATAAATAATTTTAAAAAAAATAAAAATAAT
1 ATAAAT-ATTTTAAAATAAATAAAAATAAT
36062991 AT
1 AT
36062993 GGGTAGATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.06
28 8 0.16
29 1 0.02
30 31 0.61
31 2 0.04
32 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAAATATTTTAAAATAAATAAAAATAAT
Found at i:36063412 original size:29 final size:28
Alignment explanation
Indices: 36063365--36063419 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
36063355 AGAGGCGGAT
*
36063365 GATTTAATTAATTTCTTTAAAAATTTTGG
1 GATTTAATAAATTTCTTT-AAAATTTTGG
36063394 GATTTAATGAAATTT-TTTAAAATTTT
1 GATTTAAT-AAATTTCTTTAAAATTTT
36063420 AAAGGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 11 0.46
30 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (28 bp):
GATTTAATAAATTTCTTTAAAATTTTGG
Found at i:36070023 original size:2 final size:2
Alignment explanation
Indices: 36070016--36070044 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36070006 TTTAAATGCT
36070016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36070045 CCATGGCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36075045 original size:23 final size:22
Alignment explanation
Indices: 36075019--36075061 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36075009 AATGAAGTTG
36075019 CTGTCTTATTTTTATTTTTAACT
1 CTGT-TTATTTTTATTTTTAACT
* *
36075042 CTGTTTTTTTTTTTTTTTAA
1 CTGTTTATTTTTATTTTTAA
36075062 ATATCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (22 bp):
CTGTTTATTTTTATTTTTAACT
Found at i:36075070 original size:22 final size:22
Alignment explanation
Indices: 36075027--36075070 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36075017 TGCTGTCTTA
* * *
36075027 TTTTTATTTTTAACTCTGTTTT
1 TTTTTATTTTTAAATATCTTTT
*
36075049 TTTTTTTTTTTAAATATCTTTT
1 TTTTTATTTTTAAATATCTTTT
36075071 AACTCTCTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTATTTTTAAATATCTTTT
Found at i:36081280 original size:24 final size:26
Alignment explanation
Indices: 36081239--36081286 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
36081229 TTTTTATCTT
* *
36081239 TTATTTCTTTTCATAATTTTAAAACA
1 TTATTTCTTTTCAAAATTTCAAAACA
36081265 TTATTT-TTTT-AAAATTTCAAAA
1 TTATTTCTTTTCAAAATTTCAAAA
36081287 ATCATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 4 0.20
26 6 0.30
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (26 bp):
TTATTTCTTTTCAAAATTTCAAAACA
Found at i:36087287 original size:31 final size:31
Alignment explanation
Indices: 36087252--36087343 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
36087242 AATTTAAAAA
36087252 TTCAGTGATTTAAATAAAAACTTTTGAATAG
1 TTCAGTGATTTAAATAAAAACTTTTGAATAG
* **
36087283 TTCAGTGATTTATATAAATTCTTTTGAATAG
1 TTCAGTGATTTAAATAAAAACTTTTGAATAG
* * *
36087314 TTTAGAGACTTAAATGAAAAA-TTTTGAATA
1 TTCAGTGATTTAAAT-AAAAACTTTTGAATA
36087344 AATTAATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (31 bp):
TTCAGTGATTTAAATAAAAACTTTTGAATAG
Found at i:36095919 original size:20 final size:19
Alignment explanation
Indices: 36095891--36095944 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
36095881 TCACATCAAT
*
36095891 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTA-TA
36095911 AAATTATTTTTTAAAA-TATA
1 AAATTA--TTTTAAAATTATA
36095931 AAA-TATTTTAAAAT
1 AAATTATTTTAAAAT
36095945 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 8 0.27
19 2 0.07
20 10 0.33
21 2 0.07
22 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTATTTTAAAATTATA
Found at i:36095925 original size:22 final size:19
Alignment explanation
Indices: 36095897--36095939 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
36095887 CAATAAATAA
36095897 TTTTAAAATTATTAAAATTATT
1 TTTTAAAA-TA-TAAAA-TATT
36095919 TTTTAAAATATAAAATATT
1 TTTTAAAATATAAAATATT
36095938 TT
1 TT
36095940 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 2 0.10
22 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAAAATATAAAATATT
Found at i:36095947 original size:29 final size:28
Alignment explanation
Indices: 36095900--36095969 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
36095890 TAAATAATTT
36095900 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTT-AAATA
*
36095929 TAAAATATTTTAAAA-TATTTTTTAAATA
1 TAAAAT-TATTAAAATTATTTTTTAAATA
36095957 TAAAATTATTAAA
1 TAAAATTATTAAA
36095970 TAATTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 6 0.16
28 11 0.29
29 14 0.37
30 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAATTATTAAAATTATTTTTTAAATA
Found at i:36095950 original size:28 final size:27
Alignment explanation
Indices: 36095900--36095978 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 27
36095890 TAAATAATTT
36095900 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAA-TA-TTTTTAAAATA
* *
36095929 TAAAATATTTTAAAATATTTTTTAAATA
1 TAAAAT-TATTAAAATATTTTTAAAATA
*
36095957 TAAAATTATT-AAATAATTTTAA
1 TAAAATTATTAAAATATTTTTAA
36095979 TTTTCAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.23
27 3 0.07
28 16 0.36
29 8 0.18
30 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAAAATTATTAAAATATTTTTAAAATA
Found at i:36096729 original size:6 final size:6
Alignment explanation
Indices: 36096706--36096746 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
36096696 TTGGGAAAGA
*
36096706 GGAATGG GGAAGG AGAAGG GGAAGG GGAAGG GGAAGG GGAA
1 GGAA-GG GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAA
36096747 CAGAAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.61, T:0.02
Consensus pattern (6 bp):
GGAAGG
Found at i:36096842 original size:22 final size:20
Alignment explanation
Indices: 36096808--36096850 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
36096798 TATATTTTAA
36096808 AAAATAATATTAAATTAATTTT
1 AAAATAATATT-AA-TAATTTT
* *
36096830 AAAATGATTTTAATAATTTT
1 AAAATAATATTAATAATTTT
36096850 A
1 A
36096851 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAAATAATATTAATAATTTT
Found at i:36104334 original size:112 final size:112
Alignment explanation
Indices: 36104190--36104415 Score: 380
Period size: 112 Copynumber: 2.0 Consensus size: 112
36104180 ATGAATTAAT
*
36104190 TGTTGTAATTGTAATTGTCTTGAAATAGAACAAAATCTATTTTCATAAAAAATAGCATCTATTAA
1 TGTTGTAATTGTAATTGTCTTGAAATAGAACAAAATCTATTTTCATAAAAAATAGCATATATTAA
* *
36104255 TTCAATAACAATATTAATTGAAATTGAATCATTTACTTCAATTACCA
66 TTCAATAACAATATTAATTGAAATTGAAGCATTAACTTCAATTACCA
* *
36104302 TGTTGTGATTGTAATTGTCTTGAAATAGAACAAAATCTATTTTCATCAAAAATAGCATATATTAA
1 TGTTGTAATTGTAATTGTCTTGAAATAGAACAAAATCTATTTTCATAAAAAATAGCATATATTAA
* * *
36104367 TTCAATGACAATATTAATTGAAATTGACGCATTAAGTTCAATTACCA
66 TTCAATAACAATATTAATTGAAATTGAAGCATTAACTTCAATTACCA
36104414 TG
1 TG
36104416 AACCTATATA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (112 bp):
TGTTGTAATTGTAATTGTCTTGAAATAGAACAAAATCTATTTTCATAAAAAATAGCATATATTAA
TTCAATAACAATATTAATTGAAATTGAAGCATTAACTTCAATTACCA
Found at i:36129544 original size:2 final size:2
Alignment explanation
Indices: 36129532--36129563 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
36129522 TACCTGTAAT
*
36129532 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36129564 AAACCGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:36131725 original size:20 final size:21
Alignment explanation
Indices: 36131689--36131731 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
36131679 AGAAAAAAAT
36131689 TATTTAAATTTCAATATAATA
1 TATTTAAATTTCAATATAATA
*
36131710 TATTTAATTTTC-ATATAATA
1 TATTTAAATTTCAATATAATA
36131730 TA
1 TA
36131732 AATTATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTAAATTTCAATATAATA
Found at i:36135020 original size:12 final size:12
Alignment explanation
Indices: 36134997--36135043 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
36134987 TAAAATTTTG
*
36134997 AAAAATTCTAAA
1 AAAAATTATAAA
*
36135009 AATAATTATAAA
1 AAAAATTATAAA
*
36135021 AAAAATCAT-AA
1 AAAAATTATAAA
*
36135032 AACAATTATAAA
1 AAAAATTATAAA
36135044 TTATTATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:36139598 original size:19 final size:20
Alignment explanation
Indices: 36139560--36139599 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36139550 TATAACAATT
*
36139560 TTTATAAGTTTTTTTGAACA
1 TTTATAAGGTTTTTTGAACA
36139580 TTTATAAGGTTTTTT-AACA
1 TTTATAAGGTTTTTTGAACA
36139599 T
1 T
36139600 CTTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTATAAGGTTTTTTGAACA
Found at i:36166856 original size:41 final size:41
Alignment explanation
Indices: 36166799--36166877 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
36166789 CATAAAATAG
*
36166799 ACTTTTGTATAAACTAATACACAACTCATAATATCAATAAC
1 ACTTTTGTATAAACTAACACACAACTCATAATATCAATAAC
*
36166840 ACTTTTGTATAAACTAACACACAATTCATAATATCAAT
1 ACTTTTGTATAAACTAACACACAACTCATAATATCAAT
36166878 GACATAACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (41 bp):
ACTTTTGTATAAACTAACACACAACTCATAATATCAATAAC
Found at i:36167355 original size:2 final size:2
Alignment explanation
Indices: 36167348--36167375 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36167338 AAATCTAAGT
36167348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36167376 CAAGTACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36175527 original size:24 final size:25
Alignment explanation
Indices: 36175478--36175530 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
36175468 AAAAAAAATC
**
36175478 ATAAAAATATATAAATTATTTTAAAA
1 ATAAAAATATATAAA-TATTACAAAA
36175504 ATAAAAATATATAAA-ATTACAAAA
1 ATAAAAATATATAAATATTACAAAA
36175528 ATA
1 ATA
36175531 TTGAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.40
26 15 0.60
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAAAAATATATAAATATTACAAAA
Found at i:36175545 original size:18 final size:17
Alignment explanation
Indices: 36175479--36175546 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
36175469 AAAAAAATCA
*
36175479 TAAAAATATATAAATTATT
1 TAAAAATATA-AAAATA-T
*
36175498 TTAAAA-ATAAAAATAT
1 TAAAAATATAAAAATAT
* *
36175514 ATAAAATTACAAAAATAT
1 -TAAAAATATAAAAATAT
36175532 TGAAAAATATAAAAA
1 T-AAAAATATAAAAA
36175547 CTTAAAATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 10 0.26
18 23 0.59
19 5 0.13
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (17 bp):
TAAAAATATAAAAATAT
Found at i:36178305 original size:22 final size:22
Alignment explanation
Indices: 36178271--36178315 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36178261 AAAATCGCTT
** *
36178271 TTGTTTTTCCACTGTTTTATTG
1 TTGTTTTGACACTATTTTATTG
*
36178293 TTGTTTTGACACTATTTTGTTG
1 TTGTTTTGACACTATTTTATTG
36178315 T
1 T
36178316 CATTTTACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (22 bp):
TTGTTTTGACACTATTTTATTG
Found at i:36179124 original size:2 final size:2
Alignment explanation
Indices: 36179117--36179144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36179107 TCTTTACACC
36179117 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
36179145 TCTAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36184224 original size:16 final size:17
Alignment explanation
Indices: 36184203--36184246 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
36184193 TAAAAAGTTT
36184203 TATATTTTTTTA-TAAA
1 TATATTTTTTTATTAAA
*
36184219 TATATTATTTTTATTTAA
1 TATATT-TTTTTATTAAA
*
36184237 TTTATTTTTT
1 TATATTTTTT
36184247 AAAGTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATATTTTTTTATTAAA
Found at i:36184318 original size:17 final size:17
Alignment explanation
Indices: 36184296--36184328 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36184286 AAATAATATT
36184296 TAGTTAATGTTATTAAA
1 TAGTTAATGTTATTAAA
36184313 TAGTTAATGTTATTAA
1 TAGTTAATGTTATTAA
36184329 CTTTTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TAGTTAATGTTATTAAA
Found at i:36196518 original size:6 final size:6
Alignment explanation
Indices: 36196507--36196551 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
36196497 ATGAAGGTAC
* * *
36196507 ATACAT ATACAT ATACAT ATACCT ATACAT ATATAT ATATAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
36196552 GACATACTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (6 bp):
ATACAT
Found at i:36211888 original size:22 final size:22
Alignment explanation
Indices: 36211858--36212220 Score: 406
Period size: 22 Copynumber: 16.3 Consensus size: 22
36211848 AAAAGAAAGA
*
36211858 ACGGGAATTGTTACGTAACGGA
1 ACGGGAATTGTTACGTAACGGG
*
36211880 ACGGCAATTGTTACGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
**
36211902 ACGGGAATTGTTGTGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36211924 ACGGGAATTATTACGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36211946 ACGGGAATTGTTAAGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
* *
36211968 ACGGGAATTATTAAGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
* * *
36211990 ACGGGAACTATTACGGAACGGG
1 ACGGGAATTGTTACGTAACGGG
*** * *
36212012 ACGGGACGGGAATT--GTTACGGA
1 ACGGGAATTG--TTACGTAACGGG
*
36212034 ACGGGAATTGTTGCGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36212056 ACGGGAATTATTACGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36212078 ACGGGAATTGTTAAGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
* * *
36212100 ACGGGAACTATTACGGAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36212122 ACGGGAATTGTTAAGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
* * *
36212144 ACGGGAACTATTACGGAACGGG
1 ACGGGAATTGTTACGTAACGGG
*
36212166 ATGGGAATTGTTACGTAACGGGACGGG
1 ACGGGAATTGTTACGT-A----ACGGG
36212193 ACGGGAATTGTTACGTAACGGG
1 ACGGGAATTGTTACGTAACGGG
36212215 ACGGGA
1 ACGGGA
36212221 CGGAACGGGA
Statistics
Matches: 285, Mismatches: 47, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
20 2 0.01
22 259 0.91
23 1 0.00
24 2 0.01
26 1 0.00
27 20 0.07
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (22 bp):
ACGGGAATTGTTACGTAACGGG
Found at i:36212037 original size:17 final size:17
Alignment explanation
Indices: 36212012--36212056 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
36212002 ACGGAACGGG
*
36212012 ACGGGACGGGAATTGTT
1 ACGGAACGGGAATTGTT
36212029 ACGGAACGGGAATTGTT
1 ACGGAACGGGAATTGTT
* *
36212046 GCGTAACGGGA
1 ACGGAACGGGA
36212057 CGGGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (17 bp):
ACGGAACGGGAATTGTT
Found at i:36212215 original size:17 final size:17
Alignment explanation
Indices: 36212188--36212247 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
36212178 ACGTAACGGG
*
36212188 ACGGGACGGGAATTGTT
1 ACGGAACGGGAATTGTT
* * **
36212205 ACGTAACGGG-A-CGGG
1 ACGGAACGGGAATTGTT
36212220 ACGGAACGGGAATTGTT
1 ACGGAACGGGAATTGTT
36212237 ACGGAACGGGA
1 ACGGAACGGGA
36212248 CGGGACAGGA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
15 10 0.31
16 2 0.06
17 20 0.62
ACGTcount: A:0.28, C:0.15, G:0.42, T:0.15
Consensus pattern (17 bp):
ACGGAACGGGAATTGTT
Found at i:36212219 original size:32 final size:32
Alignment explanation
Indices: 36212156--36212316 Score: 198
Period size: 32 Copynumber: 5.3 Consensus size: 32
36212146 GGGAACTATT
* *
36212156 ACGGAACGGGATGGGAATTGTTACGT-A----
1 ACGGGACGGGACGGGAATTGTTACGTAACGGG
36212183 ACGGGACGGGACGGGAATTGTTACGTAACGGG
1 ACGGGACGGGACGGGAATTGTTACGTAACGGG
* *
36212215 ACGGGACGGAACGGGAATTGTTACGGAACGGG
1 ACGGGACGGGACGGGAATTGTTACGTAACGGG
*
36212247 ACGGGAC---A--GGAATTGTTACGGAACGGG
1 ACGGGACGGGACGGGAATTGTTACGTAACGGG
*
36212274 ACGGGACGGGACGGGAATTGTTACGTAACGGA
1 ACGGGACGGGACGGGAATTGTTACGTAACGGG
36212306 ACGGGACGGGA
1 ACGGGACGGGA
36212317 GTTGTTACGG
Statistics
Matches: 118, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
27 50 0.42
28 1 0.01
29 1 0.01
30 1 0.01
32 65 0.55
ACGTcount: A:0.28, C:0.15, G:0.42, T:0.15
Consensus pattern (32 bp):
ACGGGACGGGACGGGAATTGTTACGTAACGGG
Found at i:36212221 original size:27 final size:27
Alignment explanation
Indices: 36212156--36212459 Score: 339
Period size: 27 Copynumber: 11.1 Consensus size: 27
36212146 GGGAACTATT
*
36212156 ACGGAACGGGATGGGAATTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
*
36212183 ACGGGACGGGACGGGAATTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
* *
36212210 ACGGGACGGGACGGAACGGGAATTGTTACGGA
1 AC-GGA----ACGGGACGGGAATTGTTACGTA
* * *
36212242 ACGGGACGGGACAGGAATTGTTACGGA
1 ACGGAACGGGACGGGAATTGTTACGTA
36212269 ACGGGACGGGACGGGACGGGAATTGTTACGTA
1 AC-GGA----ACGGGACGGGAATTGTTACGTA
*
36212301 ACGGAACGGGACGGG-A--GTT--GTT
1 ACGGAACGGGACGGGAATTGTTACGTA
* * *
36212323 ACGGAACGGGATGGGAACTGTTATGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
* *
36212350 ATGGAACGGGACGGGAACTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
*
36212377 ACGGAACGGGACGGGAACTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
*
36212404 ACGGAACGGGACGGGAACTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
*
36212431 ACGGAGCGGGACGGGAATTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTA
36212458 AC
1 AC
36212460 AATAATGAGA
Statistics
Matches: 242, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
22 16 0.07
23 1 0.00
24 3 0.01
25 3 0.01
26 1 0.00
27 165 0.68
28 4 0.02
31 5 0.02
32 44 0.18
ACGTcount: A:0.28, C:0.15, G:0.40, T:0.17
Consensus pattern (27 bp):
ACGGAACGGGACGGGAATTGTTACGTA
Found at i:36212441 original size:49 final size:50
Alignment explanation
Indices: 36212279--36212441 Score: 206
Period size: 49 Copynumber: 3.2 Consensus size: 50
36212269 ACGGGACGGG
* ** *
36212279 ACGG-GACGGGAATTGTTACGTAACGGAACGGGACGGGAGTTGTTACGGA
1 ACGGAGACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
* * *
36212328 ACGG-GATGGGAACTGTTATGTAATGGAACGGGACGGGAACTGTTACGTA
1 ACGGAGACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
36212377 ACGGAACGGGACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
1 ACGG-A---GACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
36212431 ACGGAG-CGGGA
1 ACGGAGACGGGA
36212442 CGGGAATTGT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
49 51 0.52
50 1 0.01
53 1 0.01
54 46 0.46
ACGTcount: A:0.28, C:0.15, G:0.39, T:0.17
Consensus pattern (50 bp):
ACGGAGACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
Found at i:36212445 original size:54 final size:54
Alignment explanation
Indices: 36212112--36212459 Score: 339
Period size: 59 Copynumber: 6.5 Consensus size: 54
36212102 GGGAACTATT
* *
36212112 ACGGAACGGGACGGGAATTG-T---TAA-GTAACGGGACGGGAAC---TA--TT
1 ACGGAACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
* * *
36212156 ACGGAACGGGATGGGAATTGTTACGTAACGGGACGGGACGGGAATTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
* * * * * *
36212210 ACGGGACGGGACGGAACGGGAATTGTTACGGAACGGGACGGGACAGGAATTGTTACGGA
1 AC-GGA----ACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
*
36212269 ACGGGACGGGACGGGACGGGAATTGTTACGTAACGGAACGGGACGGG-A--GTT--GTT
1 AC-GGA----ACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
* * * *
36212323 ACGGAACGGGATGGGAACTGTTATGTAATGGAACGGGACGGGAACTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
*
36212377 ACGGAACGGGACGGGAACTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
1 ACGGAACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
*
36212431 ACGGAGCGGGACGGGAATTGTTACGTAAC
1 ACGGAACGGGACGGGAATTGTTACGTAAC
36212460 AATAATGAGA
Statistics
Matches: 258, Mismatches: 26, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
44 19 0.07
45 1 0.00
48 3 0.01
49 46 0.18
50 1 0.00
52 5 0.02
53 3 0.01
54 86 0.33
55 3 0.01
56 3 0.01
58 1 0.00
59 87 0.34
ACGTcount: A:0.28, C:0.15, G:0.39, T:0.17
Consensus pattern (54 bp):
ACGGAACGGGACGGGAATTGTTACGTAACGGAACGGGACGGGAACTGTTACGTA
Found at i:36219850 original size:15 final size:17
Alignment explanation
Indices: 36219830--36219861 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
36219820 GATATATATT
36219830 TTTATT-TATTT-TAAA
1 TTTATTGTATTTGTAAA
36219845 TTTATTGTATTTGTAAA
1 TTTATTGTATTTGTAAA
36219862 GTTTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTATTGTATTTGTAAA
Found at i:36219976 original size:20 final size:20
Alignment explanation
Indices: 36219937--36219977 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
36219927 AAAGTGATTT
36219937 ATCAAAATAATTTCATACCAA
1 ATCAAAATAA-TTCATACCAA
36219958 ATCAAAATAA-TCGATACCAA
1 ATCAAAATAATTC-ATACCAA
36219978 TACATATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.37
21 10 0.53
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (20 bp):
ATCAAAATAATTCATACCAA
Found at i:36228092 original size:15 final size:15
Alignment explanation
Indices: 36228055--36228097 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
36228045 TGTTTGATAA
*
36228055 ATTAAAAAATTAAGT
1 ATTAAAAAATTAAAT
* *
36228070 GTTGAAAAATTAAAT
1 ATTAAAAAATTAAAT
*
36228085 ATTAAAAATTTAA
1 ATTAAAAAATTAA
36228098 GTACTGAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
ATTAAAAAATTAAAT
Found at i:36249010 original size:38 final size:39
Alignment explanation
Indices: 36248959--36249037 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 39
36248949 ATGCACTAGG
36248959 CGAAGAATGGCAGAGAG-GAGTTAGTTTAATGACGAAAT
1 CGAAGAATGGCAGAGAGAGAGTTAGTTTAATGACGAAAT
36248997 CGAAGAATGGCAGAGAGAAGAGTTAGTTTAATGACGAAAT
1 CGAAGAATGGCAGAGAG-AGAGTTAGTTTAATGACGAAAT
36249037 C
1 C
36249038 TGGACCGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 17 0.44
40 22 0.56
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (39 bp):
CGAAGAATGGCAGAGAGAGAGTTAGTTTAATGACGAAAT
Found at i:36253162 original size:19 final size:19
Alignment explanation
Indices: 36253138--36253187 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
36253128 AAAGAGGGAG
36253138 GAAGAAGAAGGACCAAATT
1 GAAGAAGAAGGACCAAATT
36253157 GAAGAAGAAGGACCAAATT
1 GAAGAAGAAGGACCAAATT
*
36253176 GAAGAAAAAGGA
1 GAAGAAGAAGGA
36253188 AAGGAGAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (19 bp):
GAAGAAGAAGGACCAAATT
Found at i:36262794 original size:20 final size:20
Alignment explanation
Indices: 36262750--36262795 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36262740 ATAATTCTGA
* * *
36262750 AAAAATATTAAAAAATATCT
1 AAAAATATAAAAAAAAAACT
36262770 AAAAATATAAAAAAAAAACTT
1 AAAAATATAAAAAAAAAAC-T
36262791 AAAAA
1 AAAAA
36262796 GTTATGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATATAAAAAAAAAACT
Found at i:36263075 original size:4 final size:4
Alignment explanation
Indices: 36263066--36263103 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
36263056 CTTTCAACTA
*
36263066 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AAAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
36263104 GCAATGCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:36265798 original size:23 final size:23
Alignment explanation
Indices: 36265768--36265815 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
36265758 AATGAATCAC
36265768 TTTTTAATTATTTCCCAACGAAA
1 TTTTTAATTATTTCCCAACGAAA
*
36265791 TTTTTAATTATTTCCCAACTAAA
1 TTTTTAATTATTTCCCAACGAAA
36265814 TT
1 TT
36265816 AATAAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTTAATTATTTCCCAACGAAA
Found at i:36269836 original size:18 final size:17
Alignment explanation
Indices: 36269804--36269837 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36269794 TGATGTGGTG
36269804 TTCTTATGAATTTCTTT
1 TTCTTATGAATTTCTTT
*
36269821 TTCTTCTGAGATTTCTT
1 TTCTTATGA-ATTTCTT
36269838 GGGATTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.62
Consensus pattern (17 bp):
TTCTTATGAATTTCTTT
Found at i:36270712 original size:10 final size:10
Alignment explanation
Indices: 36270678--36270737 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
36270668 GTTATTTTGG
36270678 TGCT-TTTTT
1 TGCTGTTTTT
* *
36270687 TACTGTTTGAT
1 TGCTGTTT-TT
36270698 TGCTGTTTTT
1 TGCTGTTTTT
*
36270708 TGCTGTTTTGA
1 TGCTGTTTT-T
*
36270719 TGTTGTTTTT
1 TGCTGTTTTT
*
36270729 TACTGTTTT
1 TGCTGTTTT
36270738 GGTGCTATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
9 3 0.08
10 20 0.51
11 16 0.41
ACGTcount: A:0.07, C:0.08, G:0.18, T:0.67
Consensus pattern (10 bp):
TGCTGTTTTT
Found at i:36270748 original size:21 final size:21
Alignment explanation
Indices: 36270672--36270748 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
36270662 TATATTGTTA
36270672 TTTTGGTGCT-TTTTTTACTG
1 TTTTGGTGCTGTTTTTTACTG
* *
36270692 -TTTGATTGCTGTTTTTTGCTG
1 TTTTG-GTGCTGTTTTTTACTG
* *
36270713 TTTTGATGTTGTTTTTTACTG
1 TTTTGGTGCTGTTTTTTACTG
*
36270734 TTTTGGTGCTATTTT
1 TTTTGGTGCTGTTTT
36270749 GGTTCCTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.09
20 4 0.09
21 34 0.74
22 4 0.09
ACGTcount: A:0.06, C:0.08, G:0.21, T:0.65
Consensus pattern (21 bp):
TTTTGGTGCTGTTTTTTACTG
Found at i:36270806 original size:12 final size:12
Alignment explanation
Indices: 36270774--36270836 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
36270764 GTTTTGATGC
36270774 TGTTATTTTTGT
1 TGTTATTTTTGT
*
36270786 TGATATTTTTGT
1 TGTTATTTTTGT
* *
36270798 TGTT-GTTTTGC
1 TGTTATTTTTGT
**
36270809 TGTTATTTTTAC
1 TGTTATTTTTGT
*
36270821 TGTTATTTTGGT
1 TGTTATTTTTGT
36270833 TGTT
1 TGTT
36270837 TGGATGTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 9 0.22
12 32 0.78
ACGTcount: A:0.10, C:0.03, G:0.19, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:36270824 original size:23 final size:23
Alignment explanation
Indices: 36270773--36270830 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
36270763 TGTTTTGATG
* *
36270773 CTGTTATTTTTGTTGATATTTTTG
1 CTGTTA-TTTTGCTGATATTTTTA
* * *
36270797 TTGTTGTTTTGCTGTTATTTTTA
1 CTGTTATTTTGCTGATATTTTTA
36270820 CTGTTATTTTG
1 CTGTTATTTTG
36270831 GTTGTTTGGA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.10, C:0.05, G:0.17, T:0.67
Consensus pattern (23 bp):
CTGTTATTTTGCTGATATTTTTA
Found at i:36270828 original size:35 final size:32
Alignment explanation
Indices: 36270771--36270851 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 32
36270761 ACTGTTTTGA
**
36270771 TGCTGTTATTTTTGTTGATATTTTTGTTGTTGTTT
1 TGCTGTTATTTTTACTGATA-TTTTG--GTTGTTT
*
36270806 TGCTGTTATTTTTACTGTTATTTTGGTTGTTT
1 TGCTGTTATTTTTACTGATATTTTGGTTGTTT
* *
36270838 GGATGTTATTTTTA
1 TGCTGTTATTTTTA
36270852 TGCTTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 19 0.46
34 5 0.12
35 17 0.41
ACGTcount: A:0.11, C:0.04, G:0.20, T:0.65
Consensus pattern (32 bp):
TGCTGTTATTTTTACTGATATTTTGGTTGTTT
Found at i:36271047 original size:39 final size:39
Alignment explanation
Indices: 36270964--36271048 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
36270954 ATATAAAGAA
* *
36270964 TTTTTAATGTATTTTAAATTTATTTATTTTTTAATGTTT
1 TTTTTAATGTATTTTAAATTTATTTATATATTAATGTTT
*
36271003 GTTTTAATGT-TTTTAAATTTATTTGATATATTATAT-TTT
1 TTTTTAATGTATTTTAAATTTATTT-ATATATTA-ATGTTT
36271042 TTTTTAA
1 TTTTTAA
36271049 ATTTGTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 14 0.35
39 24 0.60
40 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (39 bp):
TTTTTAATGTATTTTAAATTTATTTATATATTAATGTTT
Found at i:36278782 original size:2 final size:2
Alignment explanation
Indices: 36278775--36278804 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36278765 AACCGTTAAA
36278775 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
36278805 CAATATAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36282191 original size:21 final size:22
Alignment explanation
Indices: 36282165--36282217 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
36282155 AAATAAAACT
* *
36282165 ATAATAAAATATTATTTTAA-G
1 ATAATAAAATATAATTATAATG
36282186 ATAATAAAATATAATTATAATG
1 ATAATAAAATATAATTATAATG
36282208 A-AATAAAATA
1 ATAATAAAATA
36282218 AGCATAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAATAAAATATAATTATAATG
Found at i:36283066 original size:10 final size:10
Alignment explanation
Indices: 36283053--36283087 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
36283043 ATAAAATTTT
36283053 ATTTTTAAAA
1 ATTTTTAAAA
* *
36283063 ATTTTCAAAT
1 ATTTTTAAAA
36283073 ATTTTTAAAA
1 ATTTTTAAAA
36283083 ATTTT
1 ATTTT
36283088 AATTTTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:36284177 original size:29 final size:27
Alignment explanation
Indices: 36284135--36284197 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
36284125 TAAAAATATA
*
36284135 ATTTTTAAAAAATTAAATTAAAATTTAT
1 ATTTTTAAAAAATTAAAGTAAAATTT-T
** *
36284163 CATTTTTAAGGAATTAAAGTATAATTTT
1 -ATTTTTAAAAAATTAAAGTAAAATTTT
36284191 ATTTTTA
1 ATTTTTA
36284198 TTAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.23
28 1 0.03
29 22 0.73
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (27 bp):
ATTTTTAAAAAATTAAAGTAAAATTTT
Found at i:36293951 original size:14 final size:14
Alignment explanation
Indices: 36293932--36293963 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
36293922 AGAAGAACGA
36293932 CGAACAGGTATGAT
1 CGAACAGGTATGAT
36293946 CGAACAGGTATGAT
1 CGAACAGGTATGAT
36293960 CGAA
1 CGAA
36293964 ACCTCCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (14 bp):
CGAACAGGTATGAT
Found at i:36294713 original size:20 final size:19
Alignment explanation
Indices: 36294671--36294726 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
36294661 TAATTTAACA
* *
36294671 TTTTTATATA-ATTTTTAT
1 TTTTTATAGATATTTTAAT
36294689 TTTTTATAGATATTTTAAT
1 TTTTTATAGATATTTTAAT
36294708 TTTTT-TAAGATTATTTTAA
1 TTTTTAT-AGA-TATTTTAA
36294727 ATTTGTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.30
19 15 0.45
20 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTATAGATATTTTAAT
Found at i:36294718 original size:19 final size:21
Alignment explanation
Indices: 36294688--36294726 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
36294678 ATAATTTTTA
36294688 TTTTTTATAGA-TATTTTAAT
1 TTTTTTATAGATTATTTTAAT
36294708 TTTTTTA-AGATTATTTTAA
1 TTTTTTATAGATTATTTTAA
36294727 ATTTGTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTTTATAGATTATTTTAAT
Found at i:36298685 original size:27 final size:28
Alignment explanation
Indices: 36298626--36298686 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
36298616 AAAATTTATC
*
36298626 ATTTTGAATTTTTAAATATTTTTAGT-A
1 ATTTTGAATTTTTAAATATATTTAGTAA
* *
36298653 ATTTTTAATTTTTGAATATATTTA-TAAA
1 ATTTTGAATTTTTAAATATATTTAGT-AA
36298681 ATTTTG
1 ATTTTG
36298687 GAAAAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 21 0.75
28 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTTTGAATTTTTAAATATATTTAGTAA
Found at i:36303106 original size:26 final size:25
Alignment explanation
Indices: 36303077--36303126 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
36303067 TTTTAACGAA
36303077 TCGAATCGAGTGAAATAAGATTTATG
1 TCGAATCGAGTGAAATAA-ATTTATG
* * *
36303103 TCGAGTTGAGTTAAATAAATTTAT
1 TCGAATCGAGTGAAATAAATTTAT
36303127 TTGAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (25 bp):
TCGAATCGAGTGAAATAAATTTATG
Found at i:36305823 original size:14 final size:14
Alignment explanation
Indices: 36305804--36305832 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36305794 AAAAATAAAG
36305804 AAAAATCTCAAAAA
1 AAAAATCTCAAAAA
36305818 AAAAATCTCAAAAA
1 AAAAATCTCAAAAA
36305832 A
1 A
36305833 TTAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAATCTCAAAAA
Found at i:36306241 original size:26 final size:26
Alignment explanation
Indices: 36306212--36306264 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36306202 ATAAAAATTT
***
36306212 GCATTTGTAATGTTGAACATATGTTC
1 GCATTTGTAATGACAAACATATGTTC
*
36306238 GCATTTGTTATGACAAACATATGTTC
1 GCATTTGTAATGACAAACATATGTTC
36306264 G
1 G
36306265 TATATGCGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (26 bp):
GCATTTGTAATGACAAACATATGTTC
Found at i:36312562 original size:38 final size:38
Alignment explanation
Indices: 36312504--36312617 Score: 192
Period size: 38 Copynumber: 3.0 Consensus size: 38
36312494 TGTGAACGCT
* *
36312504 TTGTGATAATCTGTCTGCGAACCTTGTTATGCAAACAC
1 TTGTGATATTCTGACTGCGAACCTTGTTATGCAAACAC
* *
36312542 TTGTGATATTCTGACCGCGAACATTGTTATGCAAACAC
1 TTGTGATATTCTGACTGCGAACCTTGTTATGCAAACAC
36312580 TTGTGATATTCTGACTGCGAACCTTGTTATGCAAACAC
1 TTGTGATATTCTGACTGCGAACCTTGTTATGCAAACAC
36312618 CCTATGCGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (38 bp):
TTGTGATATTCTGACTGCGAACCTTGTTATGCAAACAC
Found at i:36312634 original size:51 final size:50
Alignment explanation
Indices: 36312569--36312676 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 50
36312559 CGAACATTGT
*
36312569 TATGCAAACACTTGTGATATTCTGACTGCGAACCTTGTTATGCAAACACCC
1 TATGCAAACACTTGTGATAATCTGACTGCGAACCTTGTTATGCAAACA-CC
* * * * *
36312620 TATGCGAACCCTTGTGATAATCTGTCTGTGAACCTTGTTATGCGAACACC
1 TATGCAAACACTTGTGATAATCTGACTGCGAACCTTGTTATGCAAACACC
36312670 TATGCAA
1 TATGCAA
36312677 CTGATATAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 8 0.16
51 42 0.84
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (50 bp):
TATGCAAACACTTGTGATAATCTGACTGCGAACCTTGTTATGCAAACACC
Found at i:36314771 original size:21 final size:22
Alignment explanation
Indices: 36314731--36314776 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
36314721 TTAATTTTGA
36314731 TAACTATTGAAACTTTTAAA-T
1 TAACTATTGAAACTTTTAAAGT
36314752 TAACT-TTG-AACGTTTATAAAGT
1 TAACTATTGAAAC-TTT-TAAAGT
36314774 TAA
1 TAA
36314777 GATTTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.14
20 6 0.27
21 9 0.41
22 4 0.18
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
TAACTATTGAAACTTTTAAAGT
Found at i:36324211 original size:62 final size:60
Alignment explanation
Indices: 36323995--36324647 Score: 585
Period size: 62 Copynumber: 10.9 Consensus size: 60
36323985 AACACCCTTT
* *
36323995 TTTTGTCAGATAAAAAAA-TT--A-TTTTTTGGTGTTGGCCATGCAATAGCCGACACCCC
1 TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
* * * * *
36324051 TATTTATCTA-ATAAAAAAA-TCAAA-ATTTTGGGTGTTGGTCATGCAATGGCCAACACCCCC
1 T-TTTATC-AGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACA-CCCC
* * * * *
36324111 TTTTTTCAGAT-AAAAAATTTTAATTTTTTTTGTGTTGGCCATGGAATGACCGACACCCC
1 TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
** * *
36324170 TATTTATTTGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATGCAATGGACTACACCTCC
1 T-TTTATCAGATAAAAAAATTT-AAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CC
** *
36324233 TTTT-TGCAGATAAAAAAATTTTAAATTTTTTTTATGTT-GCTCATGCAATAGCCGACACCCCC
1 TTTTAT-CAGATAAAAAAA-TTTAAATTTTTTTGGTGTTGGC-CATGCAATGGCCGACA-CCCC
* * **
36324295 TTTT-TACAGATAAAAAAATTTAAATTTTTCT-GTGTTGGTCATGCAATGGCAAACACCTCC
1 TTTTAT-CAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CC
* * *
36324355 TTTTTATCTGATAAAAAAA-TTAAA-TTTTTGGGTGTTGGTCATGCAATGGCCGACACCTCC
1 -TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CC
* * * * * *
36324415 TTTTCTCAAATAAAAAAATTCCACATTTTTTTGGTGTTGGCTATGCAATGGCCGACACCCT
1 TTTTATCAGATAAAAAAATT-TAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
* * * *
36324476 TTTTTTGCAGAT-AAAAAATTTCAAATTTTTTTTGTGTTGGCCATACAATGGTCGACACCCC
1 TTTTAT-CAGATAAAAAAATTT-AAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
* *
36324537 TTTT-TCAGATAAAAAAATTT-AA-TTTTTT-GTGTTGGTCATGCCATGGCCGACACCCC
1 TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
** * * * *
36324593 GTTTTTATTTGGT-AAAAAA-TTAAA-TTTTTTGGTGTTAGCCATGTAATGGTCGACA
1 --TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACA
36324648 TCAACTTCCC
Statistics
Matches: 490, Mismatches: 75, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
56 25 0.05
57 23 0.05
58 28 0.06
59 90 0.18
60 98 0.20
61 93 0.19
62 125 0.26
63 8 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (60 bp):
TTTTATCAGATAAAAAAATTTAAATTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC
Found at i:36324430 original size:244 final size:240
Alignment explanation
Indices: 36323986--36324647 Score: 763
Period size: 244 Copynumber: 2.8 Consensus size: 240
36323976 TGCAAGGCCA
* * **
36323986 ACACCCTTTTTTTGTCAGATAAAAAAATT---A-TTTTTTGGTGTTGGCCATGCAATAGCCGACA
1 ACACCCTCTTTTTG-CAGATAAAAAATTTCAAATTTTTTTTATGTTGGCCATGCAATAGCCGACA
* ** **
36324047 CCCCTATTTATCTA-ATAAAAAAATCAAAATTTTGGGTGTTGGTCATGCAATGGCCAACACCCCC
65 CCCCTTTTTA-C-AGATAAAAAAATTTAAATTTTTTGTGTTGGTCATGCAATGGCCAACA-CCCC
* * * * * *
36324111 TTTTT-TCAGATAAAAAATTTTAATTTTTTTTGTGTTGGCCATGGAATGACCGACACCCCTATTT
127 TTTTTATCTGATAAAAAA-ATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTATTT
*** * *
36324175 ATTTGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATGCAATGGACT
191 ATCAAATAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATGCAATGGACG
*
36324225 ACA-CCTCCTTTTTGCAGATAAAAAAATTTTAAATTTTTTTTATGTT-GCTCATGCAATAGCCGA
1 ACACCCT-CTTTTTGCAGAT-AAAAAATTTCAAATTTTTTTTATGTTGGC-CATGCAATAGCCGA
*
36324288 CACCCCCTTTTTACAGATAAAAAAATTTAAATTTTTCTGTGTTGGTCATGCAATGGCAAACACCT
63 CA-CCCCTTTTTACAGATAAAAAAATTTAAATTTTT-TGTGTTGGTCATGCAATGGCCAACACC-
* *
36324353 CCTTTTTATCTGATAAAAAAATTAAATTTTTGGGTGTTGGTCATGCAATGGCCGACACCTCCT-T
125 CCTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CCTAT
* * * *
36324417 TTCTCAAATAAAAAAATTCCACATTTTTTTGGTGTTGGCTATGCAATGGCCG
189 TTATCAAATAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATGCAATGGACG
* * * * *
36324469 ACACCCTTTTTTTGCAGATAAAAAATTTCAAATTTTTTTTGTGTTGGCCATACAATGGTCGACAC
1 ACACCCTCTTTTTGCAGATAAAAAATTTCAAATTTTTTTTATGTTGGCCATGCAATAGCCGACAC
* *
36324534 CCCTTTTT-CAGATAAAAAAATTT-AATTTTTTGTGTTGGTCATGCCATGGCCGACACCCCGTTT
66 CCCTTTTTACAGATAAAAAAATTTAAATTTTTTGTGTTGGTCATGCAATGGCCAACACCCC-TTT
* * * * *
36324597 TTATTTGGT-AAAAAATTAAATTTTTTGGTGTTAGCCATGTAATGGTCGACA
130 TTATCTGATAAAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACA
36324648 TCAACTTCCC
Statistics
Matches: 364, Mismatches: 43, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
238 47 0.13
239 51 0.14
240 7 0.02
241 15 0.04
242 13 0.04
243 83 0.23
244 131 0.36
245 17 0.05
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (240 bp):
ACACCCTCTTTTTGCAGATAAAAAATTTCAAATTTTTTTTATGTTGGCCATGCAATAGCCGACAC
CCCTTTTTACAGATAAAAAAATTTAAATTTTTTGTGTTGGTCATGCAATGGCCAACACCCCTTTT
TATCTGATAAAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTATTTATCAA
ATAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATGCAATGGACG
Found at i:36324647 original size:59 final size:58
Alignment explanation
Indices: 36324007--36324647 Score: 378
Period size: 60 Copynumber: 10.7 Consensus size: 58
36323997 TTGTCAGATA
* * * **
36324007 AAAAAATT--ATTTTTTGGTGTTGGCCATGCAATAGCCGACACCCCTATTTATCTAAT
1 AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATTTGGT
* * * * * ** *
36324063 AAAAAAATCAAAATTTTGGGTGTTGGTCATGCAATGGCCAACACCCCCTTTTT-TCAGAT
1 -AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACA-CCCCTTTTTATTTGGT
* * * * * *
36324122 AAAAAATTTTAATTTTTTTTGTGTTGGCCATGGAATGACCGACACCCCTATTTATTTGAT
1 AAAAAA--TTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATTTGGT
* * *** *
36324182 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATGCAATGGACTACACCTCCTTTTT-GCAGAT
1 -AAAAAA-TT-AAA-TTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTTATTTGGT
** * ** *
36324244 AAAAAAATTTTAAATTTTTTTTATGTT-GCTCATGCAATAGCCGACACCCCCTTTTTA-CAGAT
1 -AAAAAA--TTAAA-TTTTTTGGTGTTGGC-CATGCAATGGCCGACA-CCCCTTTTTATTTGGT
* ** * *
36324306 AAAAAAATTTAAATTTTTCT-GTGTTGGTCATGCAATGGCAAACACCTCCTTTTTATCTGAT
1 -AAAAAA-TTAAATTTTT-TGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTTATTTGGT
* * ** *
36324367 AAAAAAATTAAATTTTTGGGTGTTGGTCATGCAATGGCCGACACCTCCTTTTCTCAAAT--A
1 -AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTT-T-ATTTGGT
* *
36324427 AAAAAATTCCACATTTTTTTGGTGTTGGCTATGCAATGGCCGACA-CCC-TTTT-TTTGCAGAT
1 AAAAAATT--A-AATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATTTG--G-T
* * * *
36324488 AAAAAATTTCAAATTTTTTTTGTGTTGGCCATACAATGGTCGACACCCCTTTTTCA---GAT
1 AAAAAA-TT-AAA-TTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTT-ATTTGGT
* * *
36324547 AAAAAAATTTAATTTTTT-GTGTTGGTCATGCCATGGCCGACACCCCGTTTTTATTTGGT
1 -AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC-TTTTTATTTGGT
* * *
36324606 AAAAAATTAAATTTTTTGGTGTTAGCCATGTAATGGTCGACA
1 AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACA
36324648 TCAACTTCCC
Statistics
Matches: 470, Mismatches: 73, Indels: 80
0.75 0.12 0.13
Matches are distributed among these distances:
56 26 0.06
57 18 0.04
58 25 0.05
59 76 0.16
60 122 0.26
61 67 0.14
62 121 0.26
63 15 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (58 bp):
AAAAAATTAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATTTGGT
Found at i:36325496 original size:30 final size:30
Alignment explanation
Indices: 36325451--36325558 Score: 108
Period size: 30 Copynumber: 3.5 Consensus size: 30
36325441 ATAAATTTTA
*
36325451 AAAATAATAATAATTAGAATATACAGGAAATT
1 AAAA-AATAA-AATTAAAATATACAGGAAATT
36325483 AAAAAATAAAATTAAAATATACAGGAAATT
1 AAAAAATAAAATTAAAATATACAGGAAATT
* * * * * *
36325513 AGAAATTAAATTTAAAATAAAAACGAAATT
1 AAAAAATAAAATTAAAATATACAGGAAATT
* * *
36325543 ACAAATTAAATTTAAA
1 AAAAAATAAAATTAAA
36325559 TAGTAAACGA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 59 0.87
31 5 0.07
32 4 0.06
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAAAATAAAATTAAAATATACAGGAAATT
Found at i:36325513 original size:17 final size:17
Alignment explanation
Indices: 36325462--36325518 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
36325452 AAATAATAAT
*
36325462 AATTAGAATATACAGGA
1 AATTAAAATATACAGGA
*
36325479 AATTAAAA-A-ATA--A
1 AATTAAAATATACAGGA
36325492 AATTAAAATATACAGGA
1 AATTAAAATATACAGGA
36325509 AATTAGAAAT
1 AATTA-AAAT
36325519 TAAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
15 4 0.12
16 1 0.03
17 13 0.41
18 4 0.12
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.25
Consensus pattern (17 bp):
AATTAAAATATACAGGA
Found at i:36327309 original size:15 final size:15
Alignment explanation
Indices: 36327289--36327317 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36327279 GCATGGTAGA
36327289 TAATGTGCAGCTGCG
1 TAATGTGCAGCTGCG
36327304 TAATGTGCAGCTGC
1 TAATGTGCAGCTGC
36327318 ATTGGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (15 bp):
TAATGTGCAGCTGCG
Found at i:36327931 original size:22 final size:22
Alignment explanation
Indices: 36327874--36327932 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
36327864 TTGAGGTGTT
*
36327874 GGTGAGCTGGAATTTCAATTTT
1 GGTGAGCTGGAATTTCAATTTA
* * * **
36327896 GCTGAACTGAAATTTCGGTTTA
1 GGTGAGCTGGAATTTCAATTTA
36327918 GGTGAGCTGGAATTT
1 GGTGAGCTGGAATTT
36327933 GGGTGGTCCA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (22 bp):
GGTGAGCTGGAATTTCAATTTA
Found at i:36328116 original size:84 final size:84
Alignment explanation
Indices: 36328025--36328673 Score: 921
Period size: 84 Copynumber: 7.7 Consensus size: 84
36328015 TAAATTTAAA
* *
36328025 ATTTGATAAAAACTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATAT
1 ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
*
36328090 ATTGTCAAATAAACACATT
66 ATTGTCAAATCAACACATT
* *
36328109 ATTTGATAAAAGTTATAATATAATAATA-TTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
*
36328173 CTTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* * *
36328192 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
* *
36328257 ATTGTAAAATTAACACATT
66 ATTGTCAAATCAACACATT
* *
36328276 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
36328341 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
36328360 ATTTGATAAAAATTATAATATAATAATAGTTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
36328425 ATTGTTC-AATCAACACATT
66 ATTG-TCAAATCAACACATT
* * * * * *
36328444 ATTTGATAAAAATTGTAATATCATAATAATCTTTTTTCTTTACATA-TGAAAATTTGATAAATAA
1 ATTTGATAAAAATTATAATATAATAAT-AT-TTTTTTATTTAAATATTTAAAA-TTAATAAATAA
*
36328508 TGTATTATCAAATCAACACATT
63 TGTATTGTCAAATCAACACATT
* * * *
36328530 ATTTGATAAAAATTGTAATATAATAATAATCTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAAT-ATTTTTTTATTTAAATATTTAAAA-TTAATAAATAAT
*
36328594 GTATTATCAAATCAACACATT
64 GTATTGTCAAATCAACACATT
*
36328615 ATTTGATAAAAATTGTAATATAATAATAATATTTTTTATTTAAATAATGTT-AAATTAAT
1 ATTTGATAAAAATTATAATATAATAAT-AT-TTTTTTATTTAAAT-AT-TTAAAATTAAT
36328674 TTTAAAAGTA
Statistics
Matches: 524, Mismatches: 31, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
83 77 0.15
84 264 0.50
85 92 0.18
86 82 0.16
87 5 0.01
88 3 0.01
89 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATGT
ATTGTCAAATCAACACATT
Found at i:36328299 original size:45 final size:45
Alignment explanation
Indices: 36328239--36328461 Score: 124
Period size: 45 Copynumber: 5.2 Consensus size: 45
36328229 TTAAATATTT
36328239 AAAATTAGTAAATAATGTATTGTAAAATTAACACATTATTTGATA
1 AAAATTAGTAAATAATGTATTGTAAAATTAACACATTATTTGATA
* *** *
36328284 AAAATTA-TAATATAATAATAATT-TTTTATTTA-A-A-TA-TT--T-
1 AAAATTAGTAA-ATAAT-GT-ATTGTAAAATTAACACATTATTTGATA
* *
36328323 AAAATTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATA
1 AAAATTAGTAAATAATGTATTGTAAAATTAACACATTATTTGATA
* *** *
36328368 AAAATTA-TAATATAATAATAGTT-TTTTATTTA-A-A-TA-TT--T-
1 AAAATTAGTAA-ATAAT-GTA-TTGTAAAATTAACACATTATTTGATA
** *
36328407 AAAATTAGTAAATAATGTATTGTTCAATCAACACATTATTTGATA
1 AAAATTAGTAAATAATGTATTGTAAAATTAACACATTATTTGATA
36328452 AAAATT-GTAA
1 AAAATTAGTAA
36328462 TATCATAATA
Statistics
Matches: 132, Mismatches: 22, Indels: 49
0.65 0.11 0.24
Matches are distributed among these distances:
37 5 0.04
38 12 0.09
39 26 0.20
40 10 0.08
41 4 0.03
42 8 0.06
43 4 0.03
44 14 0.11
45 32 0.24
46 12 0.09
47 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (45 bp):
AAAATTAGTAAATAATGTATTGTAAAATTAACACATTATTTGATA
Found at i:36328555 original size:251 final size:251
Alignment explanation
Indices: 36328025--36328660 Score: 981
Period size: 251 Copynumber: 2.5 Consensus size: 251
36328015 TAAATTTAAA
* * * *
36328025 ATTTGATAAAAACTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATAT
1 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
* *
36328090 ATTGTCAAATAAACACATTATTTGATAAAAGTTATAATATAATAATATTTTTTATTTAAATATTT
66 ATTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATATTTTTTATTTAAATATTT
*
36328155 AAAATTAGTAAATAATGTCTTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
131 AAAATTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
* * *
36328220 ATTTTTTATTTAAATATTTAAAATTAGTAAATAATGTATTGTAAAATTAACACATT
196 ATTTTTTATTTAAATATTGAAAATTAGTAAATAATGTATTATAAAATCAACACATT
36328276 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
36328341 ATTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAGTTTTTTATTTAAATATT
66 ATTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATA-TTTTTTATTTAAATATT
*
36328406 TAAAATTAGTAAATAATGTATTGTTC-AATCAACACATTATTTGATAAAAATTGTAATATCATAA
130 TAAAATTAGTAAATAATGTATTG-TCAAATCAACACATTATTTGATAAAAATTGTAATATAATAA
* * * *
36328470 TAATCTTTTTTCTTTACATA-TGAAAATTTGATAAATAATGTATTATCAAATCAACACATT
194 TAA--TTTTTTATTTAAATATTGAAAATTAG-TAAATAATGTATTATAAAATCAACACATT
* * *
36328530 ATTTGATAAAAATTGTAATATAATAATAATCTTTTTATTTAAATA-TGAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAAT-TTTTTATTTAAATATTTAAAATTAG-TAAATAAT
* *
36328594 GTATTATCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATATTTTTTATTTAAA
64 GTATTGTCAAATCAACACATTATTTGATAAAAATTAT-A-AT-ATAATAATATTTTTTATTTAAA
36328659 TA
126 TA
36328661 ATGTTAAATT
Statistics
Matches: 355, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
251 106 0.30
252 79 0.22
253 10 0.03
254 76 0.21
255 57 0.16
256 1 0.00
257 17 0.05
258 9 0.03
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (251 bp):
ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
ATTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATATTTTTTATTTAAATATTT
AAAATTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
ATTTTTTATTTAAATATTGAAAATTAGTAAATAATGTATTATAAAATCAACACATT
Found at i:36328796 original size:11 final size:12
Alignment explanation
Indices: 36328774--36328822 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
36328764 AAGCATGTTC
36328774 ATTAATTTTCAA
1 ATTAATTTTCAA
*
36328786 ATTAATTTCAACTTAA
1 ATTAATTT----TCAA
36328802 ATTAATTTTCAA
1 ATTAATTTTCAA
36328814 ATTAATTTT
1 ATTAATTTT
36328823 TACACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 20 0.65
16 11 0.35
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAATTTTCAA
Found at i:36328820 original size:16 final size:16
Alignment explanation
Indices: 36328784--36328818 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
36328774 ATTAATTTTC
*
36328784 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
36328800 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
36328817 AA
1 AA
36328819 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:36328831 original size:28 final size:28
Alignment explanation
Indices: 36328774--36328831 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
36328764 AAGCATGTTC
**
36328774 ATTAATTTTCAAATTAATTTCAACTTAA
1 ATTAATTTTCAAATTAATTTCAACACAA
**
36328802 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTTCAAATTAATTTCAACACAA
36328830 AT
1 AT
36328832 ATTCTTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAATTTTCAAATTAATTTCAACACAA
Found at i:36332719 original size:62 final size:59
Alignment explanation
Indices: 36332625--36332847 Score: 232
Period size: 62 Copynumber: 3.6 Consensus size: 59
36332615 AGCGTCGGCT
** **
36332625 ATTGCATGGCCAACACAAAAAAAAATCGAATTTTTTATCTGACAAAAAAGGGGTGTCGACC
1 ATTGCATGGCCAACACAAAAAAATTTAAAATTTTTTATCTG--AAAAAAGGGGTGTCGACC
* * * * * * *
36332686 ATGGAAAGGCTAACACCAAAAAAATTTAAAATTTTTTTATTTGAAAAAAGAGGGTGT-TAGTC
1 ATTGCATGGCCAACA-CAAAAAAATTTAAAA-TTTTTTATCTGAAAAAAG-GGGTGTCGA-CC
* * *
36332748 ATTGCATGGCCAACATCAAAAAAATTTGAAACTTTTTTATCTGTAAAAAAGGGATGTCGGCC
1 ATTGCATGGCCAACA-CAAAAAAATTT-AAAATTTTTTATCTG-AAAAAAGGGGTGTCGACC
36332810 ATTGCATGGCCAACACAAAAAAATTTAAAATTTTTTAT
1 ATTGCATGGCCAACACAAAAAAATTTAAAATTTTTTAT
36332848 AAAAAAATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
60 11 0.08
61 30 0.23
62 71 0.54
63 20 0.15
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (59 bp):
ATTGCATGGCCAACACAAAAAAATTTAAAATTTTTTATCTGAAAAAAGGGGTGTCGACC
Found at i:36332860 original size:20 final size:22
Alignment explanation
Indices: 36332826--36332867 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
36332816 TGGCCAACAC
36332826 AAAAAAATTTAAAATTTTTTAT
1 AAAAAAATTTAAAATTTTTTAT
36332848 AAAAAAA-TT-AAATTTTTTAT
1 AAAAAAATTTAAAATTTTTTAT
36332868 CTGACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAAAATTTAAAATTTTTTAT
Found at i:36332865 original size:81 final size:82
Alignment explanation
Indices: 36332765--36332928 Score: 210
Period size: 83 Copynumber: 2.0 Consensus size: 82
36332755 GGCCAACATC
*
36332765 AAAAAAATTTGAAACTTTTTTATCTG-TAAAAA-AGGGATGTCGGCCATTGCATGGCCAACACAA
1 AAAAAAATTTGAAA-TTTTTTATCTGAAAAAAAGAGGGATGTCGGCCATTGCATGGCCAACAC-A
36332828 AAAAATTTAAAATTTTTTAT
64 AAAAATTT-AAATTTTTTAT
* ** *
36332848 AAAAAAA-TT-AAATTTTTTATCTGACAAAAAAGAGGGGTGTCGGCCATTGCATGGTTAACACCA
1 AAAAAAATTTGAAATTTTTTATCTGA-AAAAAAGAGGGATGTCGGCCATTGCATGGCCAACACAA
*
36332911 AAAATTTGAATTTTTTAT
65 AAAATTTAAATTTTTTAT
36332929 CTGACAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
80 11 0.15
81 13 0.18
82 15 0.21
83 33 0.46
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAAAAATTTGAAATTTTTTATCTGAAAAAAAGAGGGATGTCGGCCATTGCATGGCCAACACAAA
AAATTTAAATTTTTTAT
Found at i:36332948 original size:61 final size:60
Alignment explanation
Indices: 36332848--36333047 Score: 294
Period size: 61 Copynumber: 3.3 Consensus size: 60
36332838 AATTTTTTAT
*
36332848 AAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGGTGTCGGCCATTGCATGGTTAACAC
1 AAAAAAATTAAATTTTTTATCTGACAAAAAAGA-GGGTGTCGGCCATTGCATGGTCAACAC
* * * *
36332909 CAAAAATTTGAATTTTTTATCTGACAAAAAAAAGAGGTGTCGGCCATTGCATGGTCAACAC
1 AAAAAAATTAAATTTTTTATCTGACAAAAAAGAG-GGTGTCGGCCATTGCATGGTCAACAC
**
36332970 AAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCGGCCATTGCATGACCAACATC
1 AAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCGGCCATTGCATGGTCAACA-C
*
36333031 -AAAAAATTTAATTTTTT
1 AAAAAAATTAAATTTTTT
36333048 CAAATTCTCG
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
60 40 0.32
61 85 0.68
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (60 bp):
AAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCGGCCATTGCATGGTCAACAC
Found at i:36333096 original size:16 final size:18
Alignment explanation
Indices: 36333063--36333096 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
36333053 TCTCGTATTT
36333063 TCGTATATAAATAAAATA
1 TCGTATATAAATAAAATA
36333081 TCGTAT-TAAA-AAAATA
1 TCGTATATAAATAAAATA
36333097 CATAGGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
TCGTATATAAATAAAATA
Found at i:36336669 original size:5 final size:5
Alignment explanation
Indices: 36336659--36336703 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
36336649 CACTATGATC
36336659 TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA
1 TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA TCCTA
36336704 GGTACAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TCCTA
Found at i:36350527 original size:30 final size:30
Alignment explanation
Indices: 36350491--36350549 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
36350481 TGAGAATTTA
*
36350491 ATTTTTA-TATTTATATTTATAAAATTTAAT
1 ATTTTTATTATTTAGATTT-TAAAATTTAAT
*
36350521 ATTTTTATTTTTTAGATTTTAAAATTTAA
1 ATTTTTATTATTTAGATTTTAAAATTTAA
36350550 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTTTTATTATTTAGATTTTAAAATTTAAT
Found at i:36351392 original size:13 final size:13
Alignment explanation
Indices: 36351364--36351400 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
36351354 TTAATCAAAA
36351364 TCTTCTTCTCTGTT
1 TCTTCTT-TCTGTT
*
36351378 TCTTCTTTTTGTT
1 TCTTCTTTCTGTT
36351391 TCTTCTTTCT
1 TCTTCTTTCT
36351401 TTGAAAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.70
Consensus pattern (13 bp):
TCTTCTTTCTGTT
Done.