Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 67 of 204
Found at i:19770664 original size:133 final size:130
Alignment explanation
Indices: 19770301--19770720 Score: 347
Period size: 133 Copynumber: 3.2 Consensus size: 130
19770291 AGATGGCAAA
* * * *
19770301 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-T-TA-AAACCAATAATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC-A-AATCTTATCTCCCTGAAGTT
* * ** ** * * * * * *
19770363 GTAGTGAAGCAGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAA
64 GTAGTGGAGCAAAAGAAAGCCAGAA-TCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-TAAAG-T
19770428 AACAAG
125 AACAAG
* ** *
19770434 TCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* ** * *
19770498 AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
66 AGTGGAGCAAAAGAAAGCC-AGAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-TAAAGTAAC
19770563 AAG
128 AAG
* **
19770566 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CTTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* * * * *
19770630 AGTGGGGCAAACAGAAGATGGC-GAATCTTGTCTCCCTGAAGTTGCAGTGGA--G--AAAGTGAC
66 AGTGGAGCAAA-AGAA-A-GCCAGAATCCTATCTCCCTGAAGTTGCAGTGGAGCGATAAAGTAAC
*
19770690 AAA
128 AAG
*
19770693 TCTTATCTCCCTGAAGTTGCAGTAGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
19770721 GGATTAAAAT
Statistics
Matches: 241, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
127 36 0.15
130 1 0.00
132 52 0.22
133 143 0.59
134 6 0.02
135 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAAAAGAAAGCCAGAATCCTATCTCCCTGAAGTTGCAGTGGAGCGATAAAGTAACAAG
Found at i:19770752 original size:127 final size:129
Alignment explanation
Indices: 19770527--19770767 Score: 294
Period size: 127 Copynumber: 1.9 Consensus size: 129
19770517 AATAATCCTA
* * *
19770527 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGA--GG--TAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGA
* * *
19770592 GCAGACTGAAGAAAGCAAGTCTTATCCTTTGAAGTTGTAGTGGGGCAAACAGAAGATGGCGAATC
62 GCAGACTGAAGAAAGCAAGTCTTATCCTCTGAAGTTGCAGTAGGGCAAACAGAAGATGGCGAATC
19770657 TTG
127 TTG
*
19770660 TCTCCCTGAAGTTGCAGTGGA-G-AAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCGG
1 TCTCCCTGAAGTTGCAGTGGAGGTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
* * *
19770723 A-TTAA-AATG-ATTGATCTTATCTCTCTGAAGTTGCAGTAGGGCAAA
66 ACTGAAGAAAGCA-AG-TCTTATC-CTCTGAAGTTGCAGTAGGGCAAA
19770768 TCGCATCAGA
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
124 1 0.01
125 4 0.04
126 10 0.11
127 58 0.61
130 1 0.01
133 21 0.22
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (129 bp):
TCTCCCTGAAGTTGCAGTGGAGGTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
ACTGAAGAAAGCAAGTCTTATCCTCTGAAGTTGCAGTAGGGCAAACAGAAGATGGCGAATCTTG
Found at i:19777708 original size:74 final size:74
Alignment explanation
Indices: 19777570--19777709 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 74
19777560 TTTAATAGTT
* * * *
19777570 TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAATGATT
1 TTAATATTAAATTAAATATAATACTTATCTTAATAATATTATATTAATTTAATATTAAAATGATT
19777635 ATCTTAATA
66 ATCTTAATA
* * *
19777644 TTAA-ATTAAATTAAATATAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATATAATACTTATCTTAAT-AATATTATATTAATTTAATATTAAAATGAT
19777708 TA
65 TA
19777710 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 25 0.43
74 33 0.57
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (74 bp):
TTAATATTAAATTAAATATAATACTTATCTTAATAATATTATATTAATTTAATATTAAAATGATT
ATCTTAATA
Found at i:19778148 original size:14 final size:16
Alignment explanation
Indices: 19778129--19778161 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
19778119 TTTCCGTTGA
19778129 ATTTTCCAA-ACTT-G
1 ATTTTCCAACACTTCG
19778143 ATTTTCCAACACTTCG
1 ATTTTCCAACACTTCG
19778159 ATT
1 ATT
19778162 CCAGTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTTCCAACACTTCG
Found at i:19780236 original size:25 final size:27
Alignment explanation
Indices: 19780164--19780242 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 27
19780154 ATAAATCTTA
19780164 AAATTATATATAATTTT-AGTTTAGTAGGT
1 AAATTATATATAATTTTGA-TTT-G-AGGT
*
19780193 AAATTATACATGAATTTTGATTTGA-GT
1 AAATTATATAT-AATTTTGATTTGAGGT
19780220 -AATTATATATAATTTTGATTTGA
1 AAATTATATATAATTTTGATTTGA
19780243 TTCAATTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.28
26 9 0.20
27 2 0.04
28 1 0.02
29 11 0.24
30 9 0.20
31 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
AAATTATATATAATTTTGATTTGAGGT
Found at i:19780321 original size:34 final size:35
Alignment explanation
Indices: 19780279--19780362 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 35
19780269 ATTATTAATA
19780279 TAAT-ATTATTTTATATTTATAT-ATTCCA-TACAC
1 TAATAATTATTTTAT-TTTATATAATTCCACTACAC
* **
19780312 TAATAATTATATT-TTTTATATAATTGTACTACAC
1 TAATAATTATTTTATTTTATATAATTCCACTACAC
*
19780346 AAATAATTATATTTATT
1 TAATAATTAT-TTTATT
19780363 CAGTATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
32 7 0.17
33 9 0.22
34 21 0.51
35 2 0.05
36 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (35 bp):
TAATAATTATTTTATTTTATATAATTCCACTACAC
Found at i:19782164 original size:12 final size:14
Alignment explanation
Indices: 19782147--19782179 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19782137 TGATGGTCAC
19782147 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
19782159 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
19782173 ATGTGTA
1 ATGTGTA
19782180 CCGGAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:19782176 original size:51 final size:50
Alignment explanation
Indices: 19782109--19782328 Score: 180
Period size: 51 Copynumber: 4.3 Consensus size: 50
19782099 GCACGGATTG
* **
19782109 TGTGTAGGCCACTATGTAAAAGTGAAAGTGAT-GGTCACATGTGTAGTACTA
1 TGTGTAGGCTACTATGT-ACCG-GAAAGTGATAGGTCACATGTGTAGTACTA
*
19782160 TGTGTAGGCTACTATGTGTACCGG-AA-TGATAGGTCGCATGTGTAGTACTA
1 TGTGTAGGCTACTA--TGTACCGGAAAGTGATAGGTCACATGTGTAGTACTA
* * * * * **
19782210 TGTGTAAGCTACTATGCGTACCGGATAGT-TTCGATCATGTGTGTAGTACTA
1 TGTGTAGGCTACTAT--GTACCGGAAAGTGATAGGTCACATGTGTAGTACTA
* * * *
19782261 TGTGCAGGCTACTACATGTATCGGATAGTAAT-GGTCACATGTGTAGTACTA
1 TGTGTAGGCTACT--ATGTACCGGAAAGTGATAGGTCACATGTGTAGTACTA
* *
19782312 TGTGCAGGCTATTATGT
1 TGTGTAGGCTACTATGT
19782329 GAACCGAACA
Statistics
Matches: 139, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
48 1 0.01
49 8 0.06
50 40 0.29
51 81 0.58
52 4 0.03
53 5 0.04
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (50 bp):
TGTGTAGGCTACTATGTACCGGAAAGTGATAGGTCACATGTGTAGTACTA
Found at i:19782385 original size:45 final size:45
Alignment explanation
Indices: 19782331--19782422 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
19782321 TATTATGTGA
* *
19782331 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
19782376 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
19782421 AC
1 AC
19782423 TGAGTATTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:19791167 original size:3 final size:3
Alignment explanation
Indices: 19791159--19791185 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19791149 CGAGTATATG
19791159 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
19791186 GTTTATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19791279 original size:11 final size:11
Alignment explanation
Indices: 19791265--19791317 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
19791255 ATTCAATGGT
19791265 TATTTTAATTC
1 TATTTTAATTC
* *
19791276 TATTTTGAGTC
1 TATTTTAATTC
19791287 TATTTTGAATTC
1 TATTTT-AATTC
19791299 ATATATTTAATT-
1 -TAT-TTTAATTC
19791311 TATTTTA
1 TATTTTA
19791318 GAACTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTAATTC
Found at i:19795997 original size:15 final size:16
Alignment explanation
Indices: 19795967--19796003 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19795957 TTAGATCCTT
*
19795967 TCAAAAAACATTAAAA
1 TCAAAAAACATCAAAA
19795983 TCAAAAAA-ATCAAAA
1 TCAAAAAACATCAAAA
19795998 T-AAAAA
1 TCAAAAA
19796004 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 7 0.35
16 8 0.40
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (16 bp):
TCAAAAAACATCAAAA
Found at i:19796983 original size:14 final size:14
Alignment explanation
Indices: 19796944--19796985 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
19796934 TTTCTCAAAA
19796944 AAAAGGTGAAAAATG
1 AAAAGGT-AAAAATG
* *
19796959 AAAA-ATGAAAATG
1 AAAAGGTAAAAATG
19796972 AAAAGGTAAAAATG
1 AAAAGGTAAAAATG
19796986 GATAGGCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
AAAAGGTAAAAATG
Found at i:19798480 original size:98 final size:97
Alignment explanation
Indices: 19798301--19798487 Score: 225
Period size: 98 Copynumber: 1.9 Consensus size: 97
19798291 ATTTAAGCCA
* * ** * *
19798301 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATATT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAAT-AAGAATATT
*
19798366 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
** *
19798399 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCT-AGTAATCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATT-AAAATAAG-AATAT
*
19798463 TATCTCCCTG-AGATTACAGTGGAGT
64 TATCTCCCTGAAG-TTACAGTAGAGT
19798488 GGATTAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
97 4 0.05
98 68 0.91
99 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAATAAGAATATTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:19798644 original size:23 final size:23
Alignment explanation
Indices: 19798613--19798658 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
19798603 GGCGATGCAA
*
19798613 TGGAGCAGATTAAAGCCACATCG
1 TGGAACAGATTAAAGCCACATCG
19798636 TGGAACAGATTAAAGCCACATCG
1 TGGAACAGATTAAAGCCACATCG
19798659 GTGAATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
TGGAACAGATTAAAGCCACATCG
Found at i:19798725 original size:50 final size:49
Alignment explanation
Indices: 19798642--19798999 Score: 195
Period size: 50 Copynumber: 7.2 Consensus size: 49
19798632 ATCGTGGAAC
* * * * *
19798642 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACACTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * ** **
19798692 ATATTAAAGCTACAACAGCGAATCTTACCTCCCTGGCGATGCAGTGGAGC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGAC-ATGCAGTTAAAA
* * * * * *
19798742 AGATTAAAGCCACATCGGTGAA-CTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * ** *
19798791 AGATTAAAGCCACAGCAGCAAATCTTACCTT-CCTGACGATGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTA-CTTCCCTGAC-ATGCAGTTAAAA
*** * * * *
19798841 AGATTAAAGCCT-CATTGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAG-CTACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * * * ** *
19798891 GGATTAAAGCTACAACAGCAAATCTTACTT-CCTAGGCGGTGTAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GAC-ATGCAGTTAAAA
* * * *
19798941 AGATTGAAGCTACAACAGCGAATCTTGCTT-CCTCGACATCACAGTTAAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GACAT-GCAGTTAAAA
19798991 AGATTAAAG
1 AGATTAAAG
19799000 TTGCGAGTTA
Statistics
Matches: 223, Mismatches: 73, Indels: 24
0.70 0.23 0.08
Matches are distributed among these distances:
48 1 0.00
49 44 0.20
50 172 0.77
51 6 0.03
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATGCAGTTAAAA
Found at i:19798915 original size:100 final size:100
Alignment explanation
Indices: 19798635--19798999 Score: 491
Period size: 100 Copynumber: 3.7 Consensus size: 100
19798625 AAGCCACATC
* * * *
19798635 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACACTGCAGTTAAAAATATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* *
19798700 GCTACAACAGCGAATCTTACCTCCCTGGCGATGCA
66 GCTACAACAGCAAATCTTACCTTCCTGGCGATGCA
* *
19798735 GTGGAGCAGATTAAAGCCACATCGGTGAA-CTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* * *
19798799 GCCACAGCAGCAAATCTTACCTTCCTGACGATGCA
66 GCTACAACAGCAAATCTTACCTTCCTGGCGATGCA
* * *
19798834 GTGGAACAGATTAAAGCCTCATTGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAGGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* *
19798899 GCTACAACAGCAAATCTTA-CTTCCTAGGCGGTGTA
66 GCTACAACAGCAAATCTTACCTTCCT-GGCGATGCA
* * * * * * * *
19798934 GTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATCACAGTTAAACAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
19798999 G
66 G
19799000 TTGCGAGTTA
Statistics
Matches: 233, Mismatches: 30, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
99 94 0.40
100 139 0.60
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
GCTACAACAGCAAATCTTACCTTCCTGGCGATGCA
Found at i:19800621 original size:11 final size:11
Alignment explanation
Indices: 19800607--19800659 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
19800597 ATTCAATGGT
19800607 TATTTTAATTC
1 TATTTTAATTC
* *
19800618 TATTTTGAGTC
1 TATTTTAATTC
19800629 TATTTTGAATTC
1 TATTTT-AATTC
19800641 ATATATTTAATT-
1 -TAT-TTTAATTC
19800653 TATTTTA
1 TATTTTA
19800660 GAATATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTAATTC
Found at i:19805981 original size:43 final size:43
Alignment explanation
Indices: 19805929--19806084 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
19805919 ATGTGTTTTT
* *
19805929 GTGTAAGACCACGTCTGGAACGTTGGCATCGATTTGTGTTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTAC
* * * *
19805972 GTGTAAGACCATGTCTGGGACATTGGCATTG-TATT-TAATT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTAC
* *
19806013 GTGTAAGACC-CTGTCTGGGACAG-TGGTATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATTTGTGATTAC
* * *
19806056 ATGTAAGAACACATCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
19806085 TGTACGAGCC
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 27 0.30
42 10 0.11
43 51 0.57
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTAC
Found at i:19806073 original size:84 final size:84
Alignment explanation
Indices: 19805929--19806088 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 84
19805919 ATGTGTTTTT
* * * * **
19805929 GTGTAAGACCACGTCTGGAACGTTGGCATCGATTTGTGTTTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGAACGTTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGACA
19805994 TTGGCATTGTATTTAATTC
66 TTGGCATTGTATTTAATTC
* *
19806013 GTGTAAGACC-CTGTCTGGGACAG-TGGTATCGATATGTGATTACATGTAAGAACACATCTGGGA
1 GTGTAAGACCAC-GTCTGGAAC-GTTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGA
*
19806076 CGTTGGCATTGTA
64 CATTGGCATTGTA
19806089 CGAGCCTTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 63 0.97
85 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGAACGTTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGACA
TTGGCATTGTATTTAATTC
Found at i:19809585 original size:40 final size:40
Alignment explanation
Indices: 19809526--19809736 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
19809516 CATTTGAATG
* *
19809526 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
19809566 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT--TCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGAT-T
* * *
19809605 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
19809645 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
19809685 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
19809725 ATATCC-GGCTAA
1 ATATCCGGGCTAA
19809737 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 40 0.27
40 103 0.70
41 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:19809745 original size:79 final size:79
Alignment explanation
Indices: 19809526--19809736 Score: 334
Period size: 79 Copynumber: 2.7 Consensus size: 79
19809516 CATTTGAATG
*
19809526 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
19809591 TTTGTGCGAGTTCT
66 TTTGTGCGAGTTAT
* *
19809605 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
19809670 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTT-AT
* * * *
19809685 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
19809737 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
79 80 0.66
80 41 0.34
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTAT
Found at i:19813848 original size:20 final size:20
Alignment explanation
Indices: 19813825--19813903 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
19813815 TTATCTGTAA
19813825 TACTGGTAGCTTGTCTGCAT
1 TACTGGTAGCTTGTCTGCAT
* * *
19813845 TACTGGCAGTTTATCTGCAT
1 TACTGGTAGCTTGTCTGCAT
* * * ***
19813865 TATTGATGGCTTGTCCATAT
1 TACTGGTAGCTTGTCTGCAT
19813885 TACTGGTAGCTTGTCTGCA
1 TACTGGTAGCTTGTCTGCA
19813904 ATTTTGGTGG
Statistics
Matches: 41, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
TACTGGTAGCTTGTCTGCAT
Found at i:19813887 original size:40 final size:40
Alignment explanation
Indices: 19813768--19813925 Score: 126
Period size: 40 Copynumber: 4.0 Consensus size: 40
19813758 AAGGAGGAAG
* * *
19813768 TACTGGCAATTTATCTACATTACTGGTGGTTTGTCCACA-
1 TACTGGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAT
* * * **
19813807 T--TGGCAGTTTATCTGTAATACTGGTAGCTTGTCTGCAT
1 TACTGGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAT
* * *
19813845 TACTGGCAGTTTATCTGCATTATTGATGGCTTGTCCATAT
1 TACTGGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAT
* * * * *
19813885 TACTGGTAGCTTGTCTGCAATT-TTGGTGGTTTCGTCCACAT
1 TACTGGCAGTTTATCTGC-ATTACTGGTGGCTT-GTCCACAT
19813926 ATATTGGAGT
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
37 28 0.30
38 1 0.01
39 1 0.01
40 52 0.57
41 10 0.11
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (40 bp):
TACTGGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAT
Found at i:19818706 original size:22 final size:22
Alignment explanation
Indices: 19818667--19818708 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19818657 TGAATAAACC
* * *
19818667 AAATAAATTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
19818689 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
19818709 AACTGAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:19824399 original size:25 final size:25
Alignment explanation
Indices: 19824365--19824416 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
19824355 TGTACTTGTG
19824365 TTCTCGGCTTAGCAAACGTTCGTTA
1 TTCTCGGCTTAGCAAACGTTCGTTA
* * * *
19824390 TTCTTGGCTTAGCGAATGTTTGTTA
1 TTCTCGGCTTAGCAAACGTTCGTTA
19824415 TT
1 TT
19824417 ATCAGCTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (25 bp):
TTCTCGGCTTAGCAAACGTTCGTTA
Found at i:19836266 original size:79 final size:79
Alignment explanation
Indices: 19836135--19836292 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
19836125 GACAAGTTGA
19836135 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
1 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
19836200 TTTTACAGCATTCC
66 TTTTACAGCATTCC
*
19836214 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGGCAATAAGCATGCACAAAGGCGTGAAACTCAT
1 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
19836279 TTTTACAGCATTCC
66 TTTTACAGCATTCC
19836293 TTCGTTTATA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (79 bp):
AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
TTTTACAGCATTCC
Found at i:19842964 original size:16 final size:17
Alignment explanation
Indices: 19842935--19842966 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19842925 CAATTCAATC
19842935 CAAAATTCATACTTTTA
1 CAAAATTCATACTTTTA
19842952 CAAAATT-ATACTTTT
1 CAAAATTCATACTTTT
19842967 GCCCCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (17 bp):
CAAAATTCATACTTTTA
Found at i:19844274 original size:31 final size:30
Alignment explanation
Indices: 19844206--19844274 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
19844196 TGGTTTCAAT
19844206 TCAGTCACTTAACTTTCAAAAAATGAAAAA
1 TCAGTCACTTAACTTTCAAAAAATGAAAAA
* * * *
19844236 TCGGTCAC-TAACGTTATCGAAAAGTGACAAA
1 TCAGTCACTTAAC-TT-TCAAAAAATGAAAAA
19844267 TCAGTCAC
1 TCAGTCAC
19844275 CCACTAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 19 0.59
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (30 bp):
TCAGTCACTTAACTTTCAAAAAATGAAAAA
Found at i:19844412 original size:6 final size:6
Alignment explanation
Indices: 19844401--19844431 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
19844391 ACCTAATAAC
*
19844401 AAAAGA AAAAGA AGAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A
19844432 GAGAAGAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:19846114 original size:34 final size:34
Alignment explanation
Indices: 19846074--19846208 Score: 162
Period size: 35 Copynumber: 3.9 Consensus size: 34
19846064 TTTTAAAAAA
***
19846074 TAAATTAGGGTTTAATTTTTTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGGATTTTTAAAAAAATTAAT
* * * *
19846108 TGAATTAGGTTTTAGGAGTTTTAAGTAAAATTAAT
1 TAAATTAGGGTTTAGGATTTTTAA-AAAAATTAAT
19846143 TAAATTAGGGTTTAGGATTTTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGGATTTTTAAAAAAATTAAT
* * *
19846177 TAAATTAAGGTTTAGGTTTTTTTAAAATAATT
1 TAAATTAGGGTTTAGG-ATTTTTAAAAAAATT
19846209 GTGTTTAGCT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
34 42 0.49
35 43 0.51
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (34 bp):
TAAATTAGGGTTTAGGATTTTTAAAAAAATTAAT
Found at i:19846513 original size:124 final size:124
Alignment explanation
Indices: 19846288--19846610 Score: 418
Period size: 124 Copynumber: 2.6 Consensus size: 124
19846278 GAATTTTGTT
* * *
19846288 TTTTTCTATAGTAGTTCTTGAAAAATTAATTTTGAGAAGAC-AGTTCTGAAAAGATAATGTCAAA
1 TTTTTCTATAGTAGTTCTTG-AAAA-TAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTAAAA
*
19846352 AACGCTTTAAGCAGGATGCACTGTTAGCAAAAGTACTGAAAAAAAGCTCCCACGTGGACGCTA
63 AACGCTTCAAGCAGGATGCACTGTTAGCAAAAGTACTG-AAAAAAGCTCCCACGTGGACGCTA
*
19846415 TTTTTCTACAGTAGTTCTTGAAAA-AATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
1 TTTTTCTATAGTAGTTCTTGAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
* * * * * *
19846479 TCTTCAAGTAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
66 GCTTCAAGCAGGATGCACTGTTAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTA
* * * * *
19846538 TTTTTCTATAGTAGTTCTTGAGAAAATAAATTTGAGAAGACGGTTAC-GTAAAAATAGTGTCAAT
1 TTTTTCTATAGTAGTTCTT--GAAAATAATTTTGAGAAGACGATT-CTGAAAAAATAGTGTAAAA
19846602 AACGCTTCA
63 AACGCTTCA
19846611 CGGCATACTT
Statistics
Matches: 173, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
123 39 0.23
124 66 0.38
125 6 0.03
126 42 0.24
127 20 0.12
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (124 bp):
TTTTTCTATAGTAGTTCTTGAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
GCTTCAAGCAGGATGCACTGTTAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTA
Found at i:19848369 original size:24 final size:24
Alignment explanation
Indices: 19848319--19848369 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
19848309 AATAAAGAAT
* * *
19848319 GCGGAGGTGTTTGCATCACCCATG
1 GCGGAGGTGTTTGAATCACACAAG
* *
19848343 GCGGAGGTGTTTGAATCTCATAAG
1 GCGGAGGTGTTTGAATCACACAAG
19848367 GCG
1 GCG
19848370 ATGGAGACTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (24 bp):
GCGGAGGTGTTTGAATCACACAAG
Found at i:19852560 original size:28 final size:29
Alignment explanation
Indices: 19852479--19852574 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
19852469 AAGATATAAC
* * *
19852479 AATTTTTACTAT-TTTTAAATTTTTTAAAT
1 AATTTTTACAATATTTTAAAATTTCT-AAT
*
19852508 AATTTTTTACAATCTTTTAAAATTTCTAAT
1 AA-TTTTTACAATATTTTAAAATTTCTAAT
* *
19852538 AATTTTTACAGTATTTT-CAATTTCTAAT
1 AATTTTTACAATATTTTAAAATTTCTAAT
19852566 ATATTTTTA
1 A-ATTTTTA
19852575 AATTTGTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.19
29 22 0.38
30 14 0.24
31 11 0.19
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (29 bp):
AATTTTTACAATATTTTAAAATTTCTAAT
Found at i:19861510 original size:25 final size:27
Alignment explanation
Indices: 19861482--19861532 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
19861472 CCCGATATAT
*
19861482 GGCTC-TTC-GGAGCTTTCTGATTAAA
1 GGCTCTTTCAGGAGCTTCCTGATTAAA
*
19861507 GGCTCTTTCATGAGCTTCCTGATTAA
1 GGCTCTTTCAGGAGCTTCCTGATTAA
19861533 TTTTCTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 3 0.14
27 14 0.64
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GGCTCTTTCAGGAGCTTCCTGATTAAA
Found at i:19863313 original size:7 final size:7
Alignment explanation
Indices: 19863301--19863331 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
19863291 ATAGGTACAT
19863301 ATGTATA
1 ATGTATA
19863308 ATGTATA
1 ATGTATA
19863315 ATGTATA
1 ATGTATA
19863322 ATGTATA
1 ATGTATA
19863329 ATG
1 ATG
19863332 CTATTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (7 bp):
ATGTATA
Found at i:19868055 original size:31 final size:31
Alignment explanation
Indices: 19868011--19868070 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
19868001 CTTTTAACCA
* *
19868011 TATTATTTTTAAAATTTAAATTCTATTTTTT
1 TATTATTTCTAAAATTTAAATTCGATTTTTT
* *
19868042 TATTGTTTCTAAAATTTGAATTCGATTTT
1 TATTATTTCTAAAATTTAAATTCGATTTT
19868071 CCTTTTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (31 bp):
TATTATTTCTAAAATTTAAATTCGATTTTTT
Found at i:19869311 original size:24 final size:24
Alignment explanation
Indices: 19869296--19869347 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
19869286 AATCAATGTC
*
19869296 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
19869320 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
19869344 AAAT
1 AAAT
19869348 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:19869471 original size:29 final size:29
Alignment explanation
Indices: 19869438--19869496 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
19869428 TCCACATTAA
*
19869438 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTTCAC
*
19869467 CACGAACTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTTCAC
19869496 C
1 C
19869497 TTTTCCACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTTCAC
Found at i:19872964 original size:24 final size:24
Alignment explanation
Indices: 19872949--19873001 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
19872939 AATCAATGTC
19872949 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
19872973 AAATATATTAAACTAATAAAATACT
1 AAATATATTATGCTAAT-AAATGCT
19872998 AAAT
1 AAAT
19873002 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:19873340 original size:22 final size:23
Alignment explanation
Indices: 19873287--19873342 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
19873277 TTTAATTAAA
* * *
19873287 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
19873310 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
19873332 ATTAAAATTAA
1 ATTAAAATTAA
19873343 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:19873355 original size:16 final size:16
Alignment explanation
Indices: 19873318--19873357 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
19873308 TTAATAAAAT
* *
19873318 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
19873334 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
19873350 TAAAATTA
1 TAAAATTA
19873358 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:19873436 original size:59 final size:59
Alignment explanation
Indices: 19873368--19873507 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
19873358 TCAAATTATT
*
19873368 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
19873427 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAATATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
19873486 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
19873508 ATTAATTGTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:19873501 original size:9 final size:9
Alignment explanation
Indices: 19873489--19873525 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
19873479 TTTATCAAAT
19873489 TATTAATTG
1 TATTAATTG
19873498 TATTAATTG
1 TATTAATTG
19873507 TATTAATTG
1 TATTAATTG
19873516 TATTAATTG
1 TATTAATTG
19873525 T
1 T
19873526 TGTAACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:19873662 original size:22 final size:23
Alignment explanation
Indices: 19873620--19873665 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
19873610 GTAAATAAAC
19873620 TTAAAAAAAAAAACTATTATATT
1 TTAAAAAAAAAAACTATTATATT
19873643 TTAAAAATAAAAAA-TA-TATATT
1 TTAAAAA-AAAAAACTATTATATT
19873665 T
1 T
19873666 AATATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAAAAAAAAAACTATTATATT
Found at i:19874556 original size:17 final size:19
Alignment explanation
Indices: 19874523--19874557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19874513 TATGCTAATT
19874523 TTATTACTATAAAATAGAG
1 TTATTACTATAAAATAGAG
19874542 TTATTACT-T-AAATAGA
1 TTATTACTATAAAATAGA
19874558 ATTAATAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (19 bp):
TTATTACTATAAAATAGAG
Found at i:19876613 original size:25 final size:25
Alignment explanation
Indices: 19876577--19876629 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
19876567 GGGACTGGTT
19876577 ATTATTATTATTTAATATTAATA-TA
1 ATTATTATTATTTAAT-TTAATATTA
19876602 ATTATT-TATATTTAATTTAATATTA
1 ATTATTAT-TATTTAATTTAATATTA
19876627 ATT
1 ATT
19876630 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTATTATTATTTAATTTAATATTA
Found at i:19876624 original size:12 final size:12
Alignment explanation
Indices: 19876585--19876648 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 12
19876575 TTATTATTAT
19876585 TATTTAATATTAA
1 TATTTAAT-TTAA
19876598 TATAATT-ATTT-A
1 TAT--TTAATTTAA
19876610 TATTTAATTTAA
1 TATTTAATTTAA
19876622 TA-TTAATTTAA
1 TATTTAATTTAA
*
19876633 -ATTTAAATTTAT
1 TATTT-AATTTAA
19876645 TATT
1 TATT
19876649 ATGTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
10 3 0.07
11 15 0.35
12 13 0.30
13 8 0.19
14 2 0.05
15 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTAATTTAA
Found at i:19877330 original size:22 final size:21
Alignment explanation
Indices: 19877279--19877345 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
19877269 ATAAATATGA
* *
19877279 TTTTATAAAATTAAATATAATA
1 TTTTATAATATTAAA-ATAATT
* *
19877301 ATTAATAATATTAAAATCAATT
1 TTTTATAATATTAAAAT-AATT
*
19877323 TTTTATAATTAATAAAATTAATT
1 TTTTATAA-TATTAAAA-TAATT
19877346 GAGTGAGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.06
22 21 0.60
23 11 0.31
24 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTATAATATTAAAATAATT
Found at i:19886675 original size:19 final size:20
Alignment explanation
Indices: 19886651--19886700 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
19886641 TGATAAACTT
*
19886651 TCTTTATATATTTTT-AGAA
1 TCTTTATATATTTTTGAAAA
19886670 TCTTTA-ATATTTTTGAAAA
1 TCTTTATATATTTTTGAAAA
19886689 T-TTTATA-ATTTT
1 TCTTTATATATTTT
19886701 ACATATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TCTTTATATATTTTTGAAAA
Found at i:19889263 original size:21 final size:20
Alignment explanation
Indices: 19889249--19889304 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
19889239 TTGAGGATTG
19889249 AAAATTGGAAATTGAAAATT
1 AAAATTGGAAATTGAAAATT
*
19889269 AAAATTTGGAGATTGAAAATAT
1 AAAA-TTGGAAATTGAAAAT-T
*
19889291 AAAATTGAAAATTG
1 AAAATTGGAAATTG
19889305 GGGATTGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (20 bp):
AAAATTGGAAATTGAAAATT
Found at i:19889288 original size:28 final size:28
Alignment explanation
Indices: 19889252--19889324 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
19889242 AGGATTGAAA
*
19889252 ATTGGAAATTGAAAATT-AAAATTTGGAG
1 ATTGAAAATTGAAAATTGAAAA-TTGGAG
*
19889280 ATTGAAAATAT-AAAATTGAAAATTGGGG
1 ATTGAAAAT-TGAAAATTGAAAATTGGAG
* *
19889308 ATTGAAGATTGAGAATT
1 ATTGAAAATTGAAAATT
19889325 TAGGAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 32 0.84
29 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTGAAAATTGAAAATTGAAAATTGGAG
Found at i:19889319 original size:7 final size:7
Alignment explanation
Indices: 19889245--19889304 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
19889235 AGGATTGAGG
19889245 ATTGAAA
1 ATTGAAA
*
19889252 ATTGGAA
1 ATTGAAA
19889259 ATTGAAA
1 ATTGAAA
19889266 ATT-AAA
1 ATTGAAA
* *
19889272 ATTTGGAG
1 A-TTGAAA
19889280 ATTGAAA
1 ATTGAAA
19889287 ATAT-AAA
1 AT-TGAAA
19889294 ATTGAAA
1 ATTGAAA
19889301 ATTG
1 ATTG
19889305 GGGATTGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 5 0.12
7 35 0.81
8 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:19890035 original size:12 final size:12
Alignment explanation
Indices: 19890010--19890069 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
19890000 TTGAAAATTT
*
19890010 AAAATTATTCAAA
1 AAAATTA-TAAAA
*
19890023 AAAATCAT--AA
1 AAAATTATAAAA
*
19890033 AAAATTGTAAAA
1 AAAATTATAAAA
19890045 AAAATTATAAAA
1 AAAATTATAAAA
*
19890057 AAAGTTATAAAA
1 AAAATTATAAAA
19890069 A
1 A
19890070 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.20
12 26 0.65
13 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:19890068 original size:22 final size:23
Alignment explanation
Indices: 19890020--19890076 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
19890010 AAAATTATTC
* *
19890020 AAAAAAATCAT-AAAAAATTGTA
1 AAAAAAATTATAAAAAAAGTGTA
19890042 AAAAAAATTATAAAAAAAGT-T-
1 AAAAAAATTATAAAAAAAGTGTA
*
19890063 ATAAAAATT-TAAAA
1 AAAAAAATTATAAAA
19890077 TTATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 5 0.16
21 8 0.26
22 11 0.35
23 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAAAAATTATAAAAAAAGTGTA
Found at i:19890996 original size:30 final size:29
Alignment explanation
Indices: 19890962--19891018 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
19890952 GTCCTAAATA
19890962 ATATTATTTTAGAATTTTTAA-ATTTTTTAT
1 ATATTA-TTTA-AATTTTTAATATTTTTTAT
*
19890992 ATATTATTTACATTTTTAATATTTTTT
1 ATATTATTTAAATTTTTAATATTTTTT
19891019 TAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
ATATTATTTAAATTTTTAATATTTTTTAT
Found at i:19891976 original size:16 final size:18
Alignment explanation
Indices: 19891942--19891983 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
19891932 TATTTATTTG
*
19891942 TTTTAATTATAAATAAA-
1 TTTTATTTATAAATAAAT
*
19891959 TTTTATTTA-AAATTAAT
1 TTTTATTTATAAATAAAT
19891976 TTTTATTT
1 TTTTATTT
19891984 GATTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATTTATAAATAAAT
Found at i:19892687 original size:16 final size:17
Alignment explanation
Indices: 19892658--19892690 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19892648 AAATGTTTTT
19892658 TAAAAAATTATTTAATA
1 TAAAAAATTATTTAATA
*
19892675 TAAAATATT-TTTAATA
1 TAAAAAATTATTTAATA
19892691 CTATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAAATTATTTAATA
Found at i:19892740 original size:16 final size:17
Alignment explanation
Indices: 19892709--19892756 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19892699 ATCTATGTAA
19892709 AATAAATATATAAAATT
1 AATAAATATATAAAATT
*
19892726 AATAATTAT-TAAAATCT
1 AATAAATATATAAAAT-T
19892743 -ATAAA-AT-TAAAATT
1 AATAAATATATAAAATT
19892757 TAATGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 8 0.29
16 10 0.36
17 9 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAATATATAAAATT
Found at i:19892786 original size:15 final size:15
Alignment explanation
Indices: 19892766--19892795 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19892756 TTAATGATAA
19892766 TATAATAATATATAT
1 TATAATAATATATAT
19892781 TATAATAATATATAT
1 TATAATAATATATAT
19892796 AGTATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATATATAT
Found at i:19892964 original size:10 final size:10
Alignment explanation
Indices: 19892949--19892981 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19892939 TTAAACCAGT
19892949 ATAATAATAA
1 ATAATAATAA
19892959 ATAATAATAA
1 ATAATAATAA
*
19892969 ATAATAATTA
1 ATAATAATAA
19892979 ATA
1 ATA
19892982 TATTATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
ATAATAATAA
Found at i:19893000 original size:20 final size:20
Alignment explanation
Indices: 19892952--19893023 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 20
19892942 AACCAGTATA
*
19892952 ATAAT-AAATAATA-A-TAA
1 ATAATGAAATAATATATTAC
* *
19892969 ATAAT-AATTAATATATTAT
1 ATAATGAAATAATATATTAC
* *
19892988 GTAATGATAT-A-ATATTAC
1 ATAATGAAATAATATATTAC
19893006 ATAATGAAATAATATATT
1 ATAATGAAATAATATATT
19893024 TTATAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 12 0.29
18 15 0.36
19 8 0.19
20 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATGAAATAATATATTAC
Found at i:19902301 original size:30 final size:31
Alignment explanation
Indices: 19902267--19902334 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19902257 TTGCCCAAGA
** * **
19902267 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19902297 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19902328 GTAAATA
1 GTAAATA
19902335 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:19902589 original size:12 final size:11
Alignment explanation
Indices: 19902561--19902604 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
19902551 AGATAAATGT
*
19902561 TATTTAATTAA
1 TATTTTATTAA
19902572 TATTTTATTAA
1 TATTTTATTAA
* *
19902583 TATTTTTAGTAT
1 TA-TTTTATTAA
19902595 TATTTTATTA
1 TATTTTATTA
19902605 TTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19909689 original size:22 final size:21
Alignment explanation
Indices: 19909664--19909706 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19909654 TTTTACGAAT
19909664 AGAA-ATAGAAAAGGGAATGAGA
1 AGAATATA-AAAAGGG-ATGAGA
*
19909686 AGAATATAAAAATGGATGAGA
1 AGAATATAAAAAGGGATGAGA
19909707 GGAGAGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (21 bp):
AGAATATAAAAAGGGATGAGA
Found at i:19910851 original size:12 final size:12
Alignment explanation
Indices: 19910834--19910881 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
19910824 GTTCACGAAC
*
19910834 AAGCTCGTTTAA
1 AAGCTCGTTTAT
*
19910846 AAGCTCATTTAT
1 AAGCTCGTTTAT
** *
19910858 TGGCTTGTTTAT
1 AAGCTCGTTTAT
19910870 AAGCTCGTTTAT
1 AAGCTCGTTTAT
19910882 TGACTCGTTT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:19910873 original size:24 final size:24
Alignment explanation
Indices: 19910837--19910905 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
19910827 CACGAACAAG
* *
19910837 CTCGTTTAAAAGCTCATTTATTGG
1 CTCGTTTATAAGCTCATTTATTGA
* *
19910861 CTTGTTTATAAGCTCGTTTATTGA
1 CTCGTTTATAAGCTCATTTATTGA
*
19910885 CTCGTTTATGA-CTCATTTATT
1 CTCGTTTATAAGCTCATTTATT
19910906 TATTCATGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (24 bp):
CTCGTTTATAAGCTCATTTATTGA
Found at i:19910888 original size:12 final size:12
Alignment explanation
Indices: 19910873--19910905 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
19910863 TGTTTATAAG
19910873 CTCGTTTATTGA
1 CTCGTTTATTGA
19910885 CTCGTTTA-TGA
1 CTCGTTTATTGA
*
19910896 CTCATTTATT
1 CTCGTTTATT
19910906 TATTCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:19911105 original size:24 final size:24
Alignment explanation
Indices: 19911078--19911140 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
19911068 TTATTAACAT
*
19911078 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
19911102 TGTTCATGAACATGTTCAATTA-A
1 TGTTCATGAACATGTTCAATTATA
*
19911125 -GTTAAATGAACATGTT
1 TGTT-CATGAACATGTT
19911141 TGTGAACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 3 0.08
23 12 0.33
24 21 0.58
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:19915522 original size:133 final size:132
Alignment explanation
Indices: 19915320--19915766 Score: 506
Period size: 133 Copynumber: 3.3 Consensus size: 132
19915310 GGCTATAATG
** * * * * *
19915320 GGGTATAACATGTAAGATCATAACTTGACTATGATAACATAGAGAGTCCACCATGACGTTAAACA
1 GGGTATAATGTGTAAGA-CATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACA
19915385 TGTGGTATTATGTGTAAGACCATAGCTCATCTATGGAAACATAGAGAGTCTTCTAGGACATTAAA
65 TGTGGTATTATGTGTAAGACCATAGCTCA-CTATGGAAACATAGAGAGTCTTCTAGGACATTAAA
19915450 CATA
129 CATA
* * * *
19915454 GTGTATAATGTGTAAGACTATAGCT-GACTATGGCAACATAGAGAGTTCACCAGGACATTAAACA
1 GGGTATAATGTGTAAGAC-ATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACA
* * * * **
19915518 TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAAAGTCCACTAGGACATTAAA
65 TGTGGTATTATGTGTAAGACCATAGCTC-ACTATGGAAACATAGAGAGTCTTCTAGGACATTAAA
19915583 CATA
129 CATA
* * * * * *
19915587 GGGTATAATGTGTAAAAACATAGTTCG-CTATGACAACATAAAGAGCCCGCCAAGATATTAAACA
1 GGGTATAATGTGT-AAGACATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACA
* * *
19915651 TATGGTA-TATTGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGT-TTCCTAGGACATTA
65 TGTGGTATTA-TGTGTAAGACCATAGC-TCACTATGGAAACATAGAGAGTCTT-CTAGGACATTA
*
19915714 AACATG
127 AACATA
* * * *
19915720 GGGTATGATGTGTAAGACCACAGCTCGACTATGACAGCATATAGAGT
1 GGGTATAATGTGTAAGA-CATAGCTCGACTATGACAACATAGAGAGT
19915767 TTGTCGGGAT
Statistics
Matches: 263, Mismatches: 41, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
132 4 0.02
133 217 0.83
134 42 0.16
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (132 bp):
GGGTATAATGTGTAAGACATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACAT
GTGGTATTATGTGTAAGACCATAGCTCACTATGGAAACATAGAGAGTCTTCTAGGACATTAAACA
TA
Found at i:19915768 original size:67 final size:67
Alignment explanation
Indices: 19915317--19915767 Score: 428
Period size: 67 Copynumber: 6.8 Consensus size: 67
19915307 ATGGGCTATA
** * * * * * * * *
19915317 ATGGGGTATAACATGTAAGATCATAACTTGACTATGATAACATAGAGAGTCCACCATGACGTTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCACTAGGACATTAA
19915382 AC
66 AC
* * *
19915384 ATGTGGTATTATGTGTAAGACCATAGCTC-ATCTATGGA-AACATAGAGAG-TCTTCTAGGACAT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGA-CTAT-GACAACATAGAGAGTTC-ACTAGGACAT
19915446 TAAAC
63 TAAAC
* * * * *
19915451 ATAGTGTATAATGTGTAAGACTATAGCT-GACTATGGCAACATAGAGAGTTCACCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCACTAGGACATTAA
19915515 AC
66 AC
* ** * * *
19915517 ATGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAAAGTCCACTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCACTAGGACATTAA
19915582 AC
66 AC
* * * * * ** * * * *
19915584 ATAGGGTATAATGTGTAAAAACATAGTTCG-CTATGACAACATAAAGAGCCCGCCAAGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCACTAGGACATTAA
19915648 AC
66 AC
** * * *
19915650 ATATGGTATATTGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTC-CTAGGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAG-TTCACTAGGACATTA
19915714 AAC
65 AAC
* * * *
19915717 ATGGGGTATGATGTGTAAGACCACAGCTCGACTATGACAGCATATAGAGTT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTT
19915768 TGTCGGGATA
Statistics
Matches: 311, Mismatches: 64, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
65 1 0.00
66 108 0.35
67 199 0.64
68 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCACTAGGACATTAA
AC
Found at i:19930096 original size:21 final size:21
Alignment explanation
Indices: 19930056--19930113 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
19930046 CAAATACGTC
*
19930056 AACAGAAGCTTG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
19930075 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
19930096 AACAAAAGCTCATAAGAG
1 AACAGAAGCTCGTAAGAG
19930114 TTTATCCACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 11 0.32
20 2 0.06
21 21 0.62
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:19930658 original size:17 final size:18
Alignment explanation
Indices: 19930628--19930669 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
19930618 AGTTAATTCA
*
19930628 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
19930646 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
19930664 -CAAATA
1 TCAAATA
19930670 TTCTAAGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:19933118 original size:16 final size:16
Alignment explanation
Indices: 19933097--19933127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19933087 TGTTTCATTT
*
19933097 GTATTTGTATCAATTC
1 GTATTTGGATCAATTC
19933113 GTATTTGGATCAATT
1 GTATTTGGATCAATT
19933128 TGTAGTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (16 bp):
GTATTTGGATCAATTC
Found at i:19938442 original size:3 final size:3
Alignment explanation
Indices: 19938434--19938477 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19938424 AAGAATAGTG
19938434 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19938478 ACATCAACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19940244 original size:51 final size:51
Alignment explanation
Indices: 19940182--19940313 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
19940172 TGATAGGTCG
* ***
19940182 CATGTGTAGTACCATGTGCAGGCTACTATGCGTACCGGAT-AGCTTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCA
* * * * *
19940233 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
19940284 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
19940314 TGAACCGTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
51 67 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
Found at i:19940315 original size:26 final size:26
Alignment explanation
Indices: 19940235--19940315 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
19940225 TTCGATCACG
19940235 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
19940261 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
19940286 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
19940312 TGTG
1 TGTG
19940316 AACCGTGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:19946725 original size:124 final size:127
Alignment explanation
Indices: 19946504--19946802 Score: 435
Period size: 126 Copynumber: 2.4 Consensus size: 127
19946494 ACATGGACGC
* * * * * *
19946504 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGATTTTGCTAAAGT-TGGTCTTGGAAGAAATA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
*
19946568 ATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCTTTATGA
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
* * * * *
19946629 GAAGAATTTGTTAAATTGTGCCCACGTGGACGCGCTTTTGCTACAGTAT-GTCCT-AAAAAAATT
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
19946692 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCTACCAGGATGCTTTATGA
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCTACCAGGATGCTTTATGA
* *
19946755 GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTATAGTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTA
19946803 GCATGTTTGG
Statistics
Matches: 154, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
124 38 0.25
125 44 0.29
126 72 0.47
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (127 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
Found at i:19949993 original size:60 final size:60
Alignment explanation
Indices: 19949929--19950066 Score: 258
Period size: 60 Copynumber: 2.3 Consensus size: 60
19949919 AATAGAATTC
19949929 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
1 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
*
19949989 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTACGCTCATGTTATTACA
1 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
*
19950049 CCAAATAATATCAAAATA
1 TCAAATAATATCAAAATA
19950067 ACTCAAAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (60 bp):
TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
Found at i:19950107 original size:25 final size:25
Alignment explanation
Indices: 19950071--19950126 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
19950061 AAAATAACTC
* *
19950071 AAAA-AAATTTCTATTTTATTATAT
1 AAAATAAACTTCTATTTTATTACAT
19950095 AAAATAAACTTCTATTTTATTACAT
1 AAAATAAACTTCTATTTTATTACAT
*
19950120 TAAATAA
1 AAAATAA
19950127 TATCAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (25 bp):
AAAATAAACTTCTATTTTATTACAT
Found at i:19950115 original size:70 final size:70
Alignment explanation
Indices: 19950041--19950171 Score: 226
Period size: 70 Copynumber: 1.9 Consensus size: 70
19950031 TACGCTCATG
* *
19950041 TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTATATAAAATAAACTT
1 TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAAACTT
19950106 CTATT
66 CTATT
**
19950111 TTATTACATTAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAA
1 TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAA
19950172 TATCAAAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.37
Consensus pattern (70 bp):
TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAAACTT
CTATT
Found at i:19950322 original size:21 final size:21
Alignment explanation
Indices: 19950298--19950345 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
19950288 TTGTCTAGCT
*
19950298 TCCGGTGGCGG-TTCTTGTTCC
1 TCCGGTGG-GGATTCTGGTTCC
* *
19950319 TCCGGCGGGGATTCTGGTTCT
1 TCCGGTGGGGATTCTGGTTCC
19950340 TCCGGT
1 TCCGGT
19950346 ACGGCATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.02, C:0.27, G:0.35, T:0.35
Consensus pattern (21 bp):
TCCGGTGGGGATTCTGGTTCC
Found at i:19950623 original size:18 final size:18
Alignment explanation
Indices: 19950600--19950639 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19950590 GACTCGGAAA
*
19950600 AGGATACACATAAGGGTT
1 AGGATACACATAAGGGCT
*
19950618 AGGATACATATAAGGGCT
1 AGGATACACATAAGGGCT
19950636 AGGA
1 AGGA
19950640 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACACATAAGGGCT
Found at i:19952512 original size:51 final size:51
Alignment explanation
Indices: 19952457--19952554 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
19952447 AATTATTTAA
19952457 AAATAGGGATTTAAGAGAAAT-TT-AAGAAGAACTTGAGAGAAAATTGAAAGT
1 AAATAGGGATTTAAGAGAAATATTGAAG--GAACTTGAGAGAAAATTGAAAGT
* * * *
19952508 AAATATGGATTTGAGAGAAATATTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATATTGAAGGAACTTGAGAGAAAATTGA
19952555 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 36 0.88
52 2 0.05
53 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATATTGAAGGAACTTGAGAGAAAATTGAAAGT
Found at i:19952552 original size:12 final size:11
Alignment explanation
Indices: 19952516--19952570 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
19952506 GTAAATATGG
19952516 ATTTGAGAGAA
1 ATTTGAGAGAA
*
19952527 ATATTGA-AGGA
1 AT-TTGAGAGAA
19952538 ATTTGAGAGCAA
1 ATTTGAGAG-AA
19952550 A-TTGAGAGGAA
1 ATTTGAGA-GAA
19952561 ATTTGAGAGA
1 ATTTGAGAGA
19952571 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.11
11 20 0.54
12 13 0.35
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:19952563 original size:23 final size:22
Alignment explanation
Indices: 19952516--19952570 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
19952506 GTAAATATGG
19952516 ATTTGAGAGAAATATTGAAGGA
1 ATTTGAGAGAAATATTGAAGGA
*
19952538 ATTTGAGAGCAA-ATTGAGAGGAA
1 ATTTGAGAGAAATATTGA-AGG-A
19952561 ATTTGAGAGA
1 ATTTGAGAGA
19952571 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 14 0.48
23 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATATTGAAGGA
Found at i:19953370 original size:10 final size:10
Alignment explanation
Indices: 19953355--19953404 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
19953345 TAAATATTAT
19953355 AAAAATATAA
1 AAAAATATAA
*
19953365 AAAAATCTAA
1 AAAAATATAA
*
19953375 CAAAATATAA
1 AAAAATATAA
* *
19953385 TAAATTATAA
1 AAAAATATAA
19953395 AAAAATATAA
1 AAAAATATAA
19953405 CATTAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:19953513 original size:9 final size:10
Alignment explanation
Indices: 19953484--19953525 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
19953474 ATTGTAAAAC
19953484 AAATTATTAA
1 AAATTATTAA
*
19953494 AAAATATTAA
1 AAATTATTAA
*
19953504 AATTTA-TAA
1 AAATTATTAA
19953513 AAATTATTAA
1 AAATTATTAA
19953523 AAA
1 AAA
19953526 AATTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATTATTAA
Found at i:19953514 original size:32 final size:29
Alignment explanation
Indices: 19953452--19953535 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
19953442 AAAGTATTAG
* * *
19953452 AATTCTTAAAAAGATAATAAAAATTGTAAAACA
1 AATTATTAAAAA-ATATTAAAAA-T-TATAA-A
*
19953485 AATTATTAAAAAATATTAAAATTTATAAA
1 AATTATTAAAAAATATTAAAAATTATAAA
19953514 AATTATTAAAAAA-ATTATAAAA
1 AATTATTAAAAAATATTA-AAAA
19953536 ACTTGAACTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 4 0.09
31 1 0.02
32 8 0.18
33 11 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AATTATTAAAAAATATTAAAAATTATAAA
Found at i:19954068 original size:18 final size:18
Alignment explanation
Indices: 19954045--19954094 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19954035 AAAAATTATT
19954045 AATTTTATATTTTTATAA
1 AATTTTATATTTTTATAA
19954063 AATTTT-TATATTTTATAA
1 AATTTTATAT-TTTTATAA
**
19954081 AAAATTATATTTTT
1 AATTTTATATTTTT
19954095 CTTAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTATATTTTTATAA
Found at i:19954124 original size:21 final size:21
Alignment explanation
Indices: 19954100--19954148 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
19954090 TTTTTCTTAA
*
19954100 TTTATTAGAT-TTTTTTAGTTT
1 TTTATAAGATATTTTTTA-TTT
*
19954121 TTTATAATATATTTTTTA-TT
1 TTTATAAGATATTTTTTATTT
19954141 TTTATAAG
1 TTTATAAG
19954149 TTTATATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 7 0.29
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATAAGATATTTTTTATTT
Found at i:19954152 original size:28 final size:27
Alignment explanation
Indices: 19954121--19954199 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 27
19954111 TTTTTAGTTT
*
19954121 TTTATAATATATTTTTTATTTTTATAAG
1 TTTATAAT-TATTTTTTATTTTTATAAA
* *
19954149 TTTAT-ATCTATTTTCATATTTTTTAAAAA
1 TTTATAAT-TATTTT-TTA-TTTTTATAAA
19954178 TTTA-AATT-TTTTTTATTTTTAT
1 TTTATAATTATTTTTTATTTTTAT
19954200 GATTGCTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
25 6 0.14
26 2 0.05
27 12 0.29
28 8 0.19
29 14 0.33
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATAATTATTTTTTATTTTTATAAA
Found at i:19961264 original size:50 final size:51
Alignment explanation
Indices: 19961195--19961335 Score: 160
Period size: 51 Copynumber: 2.8 Consensus size: 51
19961185 AAAGTGATGG
* * * *
19961195 TCACGTGTGAAGTACTATGTGCAGGCTACTATGTGTACTGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-ATAGA
* * * * *
19961245 TCCCATGTGTAGTACTATGTGCAAGCTACTATGCGTACCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGA
* *
19961296 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
19961336 AACATCATTG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 36 0.48
51 38 0.51
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGA
Found at i:19961317 original size:51 final size:50
Alignment explanation
Indices: 19961195--19961328 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
19961185 AAAGTGATGG
* * * *
19961195 TCACGTGTGAAGTACTATGTGCAGGCTACTATGTGTACTGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
* * * * *
19961245 TCCCATGTGTAGTACTATGTGCAAGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGA
19961296 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
19961329 TGAACCGAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 36 0.51
51 32 0.46
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
Found at i:19961388 original size:45 final size:45
Alignment explanation
Indices: 19961332--19961426 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
19961322 TACTATGTGA
* *
19961332 ACCGAACATCATTGATTAGTAAGGTGGTTGATATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
* *
19961377 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
19961422 ACCGA
1 ACCGA
19961427 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
Found at i:19962975 original size:21 final size:20
Alignment explanation
Indices: 19962926--19962982 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
19962916 ATTAAATGGA
19962926 AATTGCAAATGATATTATTTG
1 AATTG-AAATGATATTATTTG
19962947 AATT-AAATGA-ATTATTGTGG
1 AATTGAAATGATATTATT-T-G
*
19962967 TATTGAAATGTATATT
1 AATTGAAATG-ATATT
19962983 GGATTGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 4 0.13
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTGAAATGATATTATTTG
Found at i:19965648 original size:40 final size:40
Alignment explanation
Indices: 19965589--19965800 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
19965579 CATTTGAATG
* *
19965589 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
19965629 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
19965669 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
19965709 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
19965749 AAATCCGGGCTAAGACCTGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
19965789 ATATCC-GGCTAA
1 ATATCCGGGCTAA
19965801 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 29, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
39 8 0.06
40 131 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:19965722 original size:80 final size:79
Alignment explanation
Indices: 19965589--19965800 Score: 316
Period size: 80 Copynumber: 2.7 Consensus size: 79
19965579 CATTTGAATG
*
19965589 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGACCCGAAGGCA
*
19965654 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTACT
* *
19965669 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGACCCGAAGGCA
19965734 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * * * *
19965749 AAATCCGGGCTAAGACCTGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAA
19965801 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.05
80 114 0.95
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:19972329 original size:25 final size:25
Alignment explanation
Indices: 19972295--19972389 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
19972285 CAGACCCATT
*
19972295 TTCATAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
19972320 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* * *
19972345 TTCATAGCTTGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
19972370 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
19972390 ACATGTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:19972359 original size:50 final size:50
Alignment explanation
Indices: 19972295--19972389 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
19972285 CAGACCCATT
19972295 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
1 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
* *
19972345 TTCATAGCTTGTGTGAGCATTTTGATTCACAGCTCGTGTGAGCAT
1 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCAT
19972390 ACATGTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (50 bp):
TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
Found at i:19977479 original size:2 final size:2
Alignment explanation
Indices: 19977474--19977504 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19977464 ATAAAAAAAA
*
19977474 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19977505 AAAAAGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19981908 original size:20 final size:20
Alignment explanation
Indices: 19981879--19981929 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19981869 ATTTTAAAAT
* * *
19981879 CAAGTGAAAATTATTTTAAC
1 CAAGTAAAAATGATTTCAAC
*
19981899 CAAGTAAAAATGATTTCAAT
1 CAAGTAAAAATGATTTCAAC
*
19981919 CAAGTTAAAAT
1 CAAGTAAAAAT
19981930 CATCTAACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
CAAGTAAAAATGATTTCAAC
Found at i:19996161 original size:23 final size:23
Alignment explanation
Indices: 19996130--19996178 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
19996120 ACCTACTTTC
* * *
19996130 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
19996153 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19996176 TTA
1 TTA
19996179 TAGTTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:20004988 original size:18 final size:20
Alignment explanation
Indices: 20004967--20005004 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20004957 GACCCTTAAG
20004967 GCAAAG-GAGA-AAAGAATT
1 GCAAAGAGAGAGAAAGAATT
*
20004985 GCAAAGAGATAGAAAGAATT
1 GCAAAGAGAGAGAAAGAATT
20005005 AAAAGCTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.13
Consensus pattern (20 bp):
GCAAAGAGAGAGAAAGAATT
Found at i:20013038 original size:43 final size:44
Alignment explanation
Indices: 20012910--20013040 Score: 176
Period size: 43 Copynumber: 3.0 Consensus size: 44
20012900 TTTTATCCTA
* *
20012910 GAAAAAAGAATTTAGAAAA-AGGAGAAGATAGTGTTGGGTTGTT
1 GAAAAAAGAATTTAGAAAAGAGGAGAAGATAATCTTGGGTTGTT
* * * *
20012953 GAAAAAAGATTTTATAAAAGAGGAGGAGATAATCTTGAGTTGTT
1 GAAAAAAGAATTTAGAAAAGAGGAGAAGATAATCTTGGGTTGTT
* *
20012997 GAAAAAAGAATTTA-AAAAGAGGAGAAGATAAACATGGGTTGTT
1 GAAAAAAGAATTTAGAAAAGAGGAGAAGATAATCTTGGGTTGTT
20013040 G
1 G
20013041 GTTTTACCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 43 0.57
44 33 0.43
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (44 bp):
GAAAAAAGAATTTAGAAAAGAGGAGAAGATAATCTTGGGTTGTT
Found at i:20017259 original size:30 final size:30
Alignment explanation
Indices: 20017214--20017481 Score: 97
Period size: 31 Copynumber: 8.5 Consensus size: 30
20017204 ATATGGATAT
* *
20017214 ATTGATTCATGTATGGTTATACATTGCCGA
1 ATTGATTCGTATATGGTTATACATTGCCGA
* * * ** *
20017244 ATTGTTTGGTATATGGATATAGGTTGCTGA
1 ATTGATTCGTATATGGTTATACATTGCCGA
* **
20017274 ATTGATTCGTATATGGTTGTACATTGTTGGA
1 ATTGATTCGTATATGGTTATACATTG-CCGA
* * * * *
20017305 ATTAATTTGTACATGGTTATATATTGTCGAA
1 ATTGATTCGTATATGGTTATACATTGCCG-A
* * ** *
20017336 ATTTAATT-GTTTATGAATATAGGAATATAGGAAGCCGA
1 A-TTGATTCGTATATGGTTATA--CAT-T-----GCCGA
* * *
20017374 ATTTGATTTGTATATGATTATACATTACCGA
1 A-TTGATTCGTATATGGTTATACATTGCCGA
* * *
20017405 ACTTGATACATGTATGGTTATACATTGCCGA
1 A-TTGATTCGTATATGGTTATACATTGCCGA
* * * * * *
20017436 ATTGTTTGGTATATTGATATTCATTGCTGA
1 ATTGATTCGTATATGGTTATACATTGCCGA
*
20017466 ATTGGATTCGTTTATG
1 ATT-GATTCGTATATG
20017482 AATATATATA
Statistics
Matches: 172, Mismatches: 53, Indels: 25
0.69 0.21 0.10
Matches are distributed among these distances:
30 67 0.39
31 71 0.41
32 6 0.03
33 2 0.01
34 1 0.01
36 1 0.01
37 2 0.01
38 8 0.05
39 14 0.08
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (30 bp):
ATTGATTCGTATATGGTTATACATTGCCGA
Found at i:20019011 original size:39 final size:39
Alignment explanation
Indices: 20018968--20019063 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
20018958 ACTCAATTTT
* *
20018968 AAGCATATATC-CTATTACACATATAATCACCTAACGTTC
1 AAGCATATATCAC-AATACACATATAATCACCTAACATTC
* * *
20019007 AAGCATATATCACAATACACATATAATCTCGTAACATTT
1 AAGCATATATCACAATACACATATAATCACCTAACATTC
*
20019046 AAGCATATATCTCAATAC
1 AAGCATATATCACAATAC
20019064 TCAAAATCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 49 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACCTAACATTC
Found at i:20020831 original size:50 final size:50
Alignment explanation
Indices: 20020760--20021045 Score: 295
Period size: 50 Copynumber: 5.6 Consensus size: 50
20020750 TTGTACTGCT
* * * * * ** *
20020760 AATGCCATATCCAAGATATGGTCTTACAAGAGAGTTCTCATATAGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
* ** *
20020810 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
* * * * *
20020860 AACGTCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTTGTTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
** * *
20020910 AACACCATGTCCCAGACATGGTCTT-CAATGGGACCCCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTAGGTGCC
* *
20020960 AATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GGTGCC
20021016 AATGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
20021046 AGATCTCTTT
Statistics
Matches: 197, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 157 0.80
51 1 0.01
53 4 0.02
56 34 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
Found at i:20027666 original size:50 final size:50
Alignment explanation
Indices: 20027607--20027891 Score: 444
Period size: 50 Copynumber: 5.6 Consensus size: 50
20027597 TAATGCTATA
*
20027607 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
20027657 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
20027707 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGTCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
20027757 TCCCAGACATGGTCTTACATTGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
20027807 TCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATG
* *
20027863 TCCCAGACAAGGTCTTACATGGGATCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
20027892 TTACCTAAAT
Statistics
Matches: 217, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
50 172 0.79
53 5 0.02
56 40 0.18
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:20034420 original size:43 final size:44
Alignment explanation
Indices: 20034271--20034444 Score: 246
Period size: 44 Copynumber: 4.0 Consensus size: 44
20034261 TTTTATACTA
* *
20034271 GAAAAAAGAATTT--AAAAGAGGAGAAGATAATATTGGATTGTT
1 GAAAAAAGAATTTCAAAAAGAGGAGAAGATAATCTTGGGTTGTT
* * *
20034313 GAAAAAATAATTTCAAAAAGAGGAAAAGATAATCTTAGGTTGTT
1 GAAAAAAGAATTTCAAAAAGAGGAGAAGATAATCTTGGGTTGTT
**
20034357 GAAAAAAGAATTTCAAAAAGAGGAGAAGATCTTCTTGGGTTGTT
1 GAAAAAAGAATTTCAAAAAGAGGAGAAGATAATCTTGGGTTGTT
* *
20034401 GAAAAAAGAATTT-AAAAAGAGGAGAAGATAAACATGGGTTGTT
1 GAAAAAAGAATTTCAAAAAGAGGAGAAGATAATCTTGGGTTGTT
20034444 G
1 G
20034445 GGTTGTTTGT
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 12 0.10
43 27 0.23
44 77 0.66
ACGTcount: A:0.48, C:0.03, G:0.24, T:0.25
Consensus pattern (44 bp):
GAAAAAAGAATTTCAAAAAGAGGAGAAGATAATCTTGGGTTGTT
Found at i:20048704 original size:48 final size:48
Alignment explanation
Indices: 20048624--20048781 Score: 228
Period size: 48 Copynumber: 3.3 Consensus size: 48
20048614 GGGAAGGATA
* *
20048624 TGAAAAGAGTAAGTTAATATGACTCT-CTATGTGATATATGTTACGTAT
1 TGAAATGAGTAAGTTAATATGACTCTGC-ATGTGATATATGTTATGTAT
* *
20048672 TGAAATGAGTAAGTTAATATGACCCTGCATGTGATATTTGTTATGTAT
1 TGAAATGAGTAAGTTAATATGACTCTGCATGTGATATATGTTATGTAT
* * *
20048720 TGAAATGAGTAAGTTAAAATGACTTTGTATGTGATATATGTTATGTAT
1 TGAAATGAGTAAGTTAATATGACTCTGCATGTGATATATGTTATGTAT
*
20048768 TGAAATAAGTAAGT
1 TGAAATGAGTAAGT
20048782 GATAACTCTT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 98 0.99
49 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (48 bp):
TGAAATGAGTAAGTTAATATGACTCTGCATGTGATATATGTTATGTAT
Found at i:20049257 original size:14 final size:14
Alignment explanation
Indices: 20049238--20049264 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20049228 TTAAAGATGA
20049238 TTAAAAACTAAGGG
1 TTAAAAACTAAGGG
20049252 TTAAAAACTAAGG
1 TTAAAAACTAAGG
20049265 AAAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TTAAAAACTAAGGG
Found at i:20050739 original size:12 final size:11
Alignment explanation
Indices: 20050712--20050749 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
20050702 AAAAATAGTC
20050712 AAAATTAATA-
1 AAAATTAATAT
20050722 AAAATTAACTAT
1 AAAATTAA-TAT
20050734 AAAATTAAT-T
1 AAAATTAATAT
20050744 AAAATT
1 AAAATT
20050750 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:20059690 original size:19 final size:20
Alignment explanation
Indices: 20059642--20059690 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
20059632 ATTCATCATG
20059642 TTAA-TATTTTTAACATGAT
1 TTAATTATTTTTAACATGAT
20059661 TTAATTA-TTTTATA-AT-AT
1 TTAATTATTTTTA-ACATGAT
20059679 TTAATTATTTTT
1 TTAATTATTTTT
20059691 TGACAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
19 15 0.56
20 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTAATTATTTTTAACATGAT
Found at i:20065547 original size:27 final size:27
Alignment explanation
Indices: 20065500--20065569 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
20065490 CATTTGACAC
*
20065500 ATTTTACATCAGATTATAGAGCTTCAA
1 ATTTTACATCAGATTAGAGAGCTTCAA
** *
20065527 ATTTTACATCATTTTAGAGAGCTTTAA
1 ATTTTACATCAGATTAGAGAGCTTCAA
20065554 ATTTTACATCAAGATT
1 ATTTTACATC-AGATT
20065570 TTCAATCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTTTACATCAGATTAGAGAGCTTCAA
Found at i:20072704 original size:14 final size:15
Alignment explanation
Indices: 20072671--20072708 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
20072661 TAATCTAGAA
20072671 AATTTT-AAAAATAT
1 AATTTTAAAAAATAT
20072685 ATATTTTAAAAAAT-T
1 A-ATTTTAAAAAATAT
20072700 AATTTTAAA
1 AATTTTAAA
20072709 TATTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTAAAAAATAT
Found at i:20073231 original size:12 final size:12
Alignment explanation
Indices: 20073210--20073246 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
20073200 TTTTTTAATA
20073210 TTTC-TTCATTT
1 TTTCATTCATTT
20073221 TTTCATTCATTT
1 TTTCATTCATTT
20073233 TTTCATTCATTT
1 TTTCATTCATTT
20073245 TT
1 TT
20073247 CCATGACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTCATTCATTT
Found at i:20090587 original size:106 final size:104
Alignment explanation
Indices: 20090395--20090602 Score: 296
Period size: 106 Copynumber: 2.0 Consensus size: 104
20090385 GTTACTCCAT
* *
20090395 CCCCTACCCTCAATATTGTATTAAAAAATTAAAAATATTATTAATGAGATCATTACTTATGGAAG
1 CCCCTACCCTCAATATTGTATTAAAAAATTAAAAATATTATTAATGAGATCATTACTAATAGAAG
*
20090460 ATATTATTAACTATTTCAACAAACTTTTATATACCAACA
66 ATATTATTAACTATTTCAACAAACTTTTACATACCAACA
* *
20090499 CCCCTACCC-CAATATTTTA-TAAAAAATGTTACAAATTTATTATTAATGAGATCATTA-TAAAT
1 CCCCTACCCTCAATATTGTATTAAAAAA--TTA-AAA-ATATTATTAATGAGATCATTACT-AAT
*
20090561 ATAAGATATTATTAACTATTTCAACAAACTTTTACATACCAA
61 AGAAGATATTATTAACTATTTCAACAAACTTTTACATACCAA
20090603 TAGGTGTTGG
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
102 7 0.08
103 9 0.10
104 12 0.13
105 4 0.04
106 61 0.66
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (104 bp):
CCCCTACCCTCAATATTGTATTAAAAAATTAAAAATATTATTAATGAGATCATTACTAATAGAAG
ATATTATTAACTATTTCAACAAACTTTTACATACCAACA
Found at i:20095857 original size:41 final size:41
Alignment explanation
Indices: 20095778--20095915 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
20095768 GGCTCTGTGG
* * *** * *
20095778 CTAGAAGGCTTTATGCCGGTGAATTGTATTTGGATTTATGC
1 CTAGCAGGCTTCATGCCGGTGAACCATATCTGGCTTTATGC
*
20095819 CTAGCAGGCTTCATGCCGGTGTACCATAT-TAGGCTTTATGC
1 CTAGCAGGCTTCATGCCGGTGAACCATATCT-GGCTTTATGC
* * * *
20095860 CTAGCAGGGTTCGTGCCGGTGAATCATATCTGGCTTTGTGC
1 CTAGCAGGCTTCATGCCGGTGAACCATATCTGGCTTTATGC
* *
20095901 CAAGAAGGCTTCATG
1 CTAGCAGGCTTCATG
20095916 TTGGTGTATT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 77 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTCATGCCGGTGAACCATATCTGGCTTTATGC
Found at i:20099948 original size:41 final size:41
Alignment explanation
Indices: 20099889--20100001 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
20099879 TAGATAGAGG
*
20099889 TTTATGCCTAGCAAGCTTCATGCCGGTGTA-CAATATCAGGC
1 TTTATGCCTAGCAGGCTTCATGCCGGTGTATC-ATATCAGGC
* * *
20099930 TTTATGCCTAGCAGGCTTCGTGCCGATGTATCATATCTGGC
1 TTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGC
* *
20099971 TTTGTGCCTA-CAAGGCTTCATGCTGGTGTAT
1 TTTATGCCTAGC-AGGCTTCATGCCGGTGTAT
20100002 TTTAATAAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 60 0.97
42 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGC
Done.