Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014761.1 Kokia drynarioides strain JFW-HI SEQ_129800, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 255316
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 64 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:125 original size:3 final size:3
Alignment explanation
Indices: 111--196 Score: 93
Period size: 3 Copynumber: 28.3 Consensus size: 3
101 AATTAATGCC
* * * *
111 ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTC ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
159 ATT AATG A-T ATT AGTT AAT ATT ATT ATT ATT ATT ATT A
1 ATT -ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A
197 CCATAATAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
2 1 0.01
3 62 0.91
4 5 0.07
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:890 original size:6 final size:6
Alignment explanation
Indices: 881--948 Score: 72
Period size: 6 Copynumber: 11.7 Consensus size: 6
871 AATTTTGGAA
881 TTAAAT TTAAAT TTAAA- TTAAAT TTAAATT TTAAGA- TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAA-AT TTAAAT TTAAAT
* *
928 TTAAA- ATAAAT CTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
949 TTCCAAAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 1 0.02
5 12 0.23
6 34 0.64
7 5 0.09
8 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:901 original size:11 final size:11
Alignment explanation
Indices: 881--950 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
871 AATTTTGGAA
881 TTAAATTTAAAT
1 TTAAA-TTAAAT
893 TTAAATTAAAT
1 TTAAATTAAAT
904 TTAAATTTTAAGA-
1 TTAAA--TTAA-AT
*
917 TTAATTTAAAT
1 TTAAATTAAAT
*
928 TTAAAATAAAT
1 TTAAATTAAAT
* *
939 CTAAATTTAAT
1 TTAAATTAAAT
950 T
1 T
951 CCAAAATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 1 0.02
11 32 0.68
12 5 0.11
13 8 0.17
14 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:901 original size:17 final size:17
Alignment explanation
Indices: 879--948 Score: 97
Period size: 17 Copynumber: 4.1 Consensus size: 17
869 TTAATTTTGG
879 AATTAAATTTAAATTTA
1 AATTAAATTTAAATTTA
896 AATTAAATTTAAATTTTA
1 AATTAAATTTAAA-TTTA
914 AGATT-AATTTAAATTTA
1 A-ATTAAATTTAAATTTA
* *
931 AAATAAATCTAAATTTA
1 AATTAAATTTAAATTTA
948 A
1 A
949 TTCCAAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.04
17 30 0.62
18 13 0.27
19 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
AATTAAATTTAAATTTA
Found at i:3407 original size:44 final size:44
Alignment explanation
Indices: 3344--4091 Score: 471
Period size: 44 Copynumber: 16.8 Consensus size: 44
3334 TTAACAATAT
* * * *
3344 AAGATTGGAT-ATGGTCTTCAACCTACACCTCTAGATGGGGGTAA
1 AAGATTGGATGGTGG-CTTCAATCTGCCCCTCTAGATGGGGGTAA
3388 AAGATT-GAGTGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
1 AAGATTGGA-TGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * *
3432 AAGATTGGTTGGTGGCTTCAATCTGCCCCTCTGGATAGGGGTAA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * * *
3476 AAGATTGGATTGTGGCTTCAATCTTCCCTTCTGGAT-GGGGTAA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
*** * * * *
3519 AAGATTGGACAATGGCTTCAATCTGGCCCTCTGGATGAGGGTGA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * * * *
3563 AAGATTGGACGGTGGCTTCAATCTGGCCCTCTGGATGAGGGTGA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * * **
3607 AAGATTGGACGGTGGCTTCAATCTGGCCCTCTGGATGAAGGTAA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * * * * * ** *
3651 AAGATTGGACGATGACTTCATTCTGCCCCTCTAGGTTTAGTAGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTA-G-ATGGGGGTAA
** * * * * * * *
3697 AAGATTGGACAGTGACTTCAATCTGTCGCTTTGGATTTAGGGGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
* *
3743 AAGATTGGACGGTGGCTTCAATTTGCCCCTCTAGATGGGGGTAA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * ** * *
3787 AAGATTGGATAGTGGTTTTTATCTGCCCCTCTGGATGGGGATAA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
* * * *
3831 AAGATTAGATGGTTGCTTCAATCTGCCCCTCTAGATTTAGGGGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
* * * * * * * * * * *
3877 ACGATTGAATTGTGACTTTAATCTGTCCTTTTGGATTTAGGGGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
* * * * * ** * * * **
3923 AA-ATTGGACGATGGCTTTAATATGTCTTTTTGGATTTAGGGGTGT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
* * * * * * *
3968 AAGATTGGACGATGACTTCAATCTACCCCTTTAGATTTAGGGGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
* * * * *
4014 AAGATTGGATAGTGGCTTCAATCTACCCCTTTAGATTTAGGGGTAT
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAA
*
4060 AAGATTGGATGGTGGCTTCAATCT-TCCCTCTA
1 AAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
4092 AATTTAGGGG
Statistics
Matches: 586, Mismatches: 107, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
43 39 0.07
44 292 0.50
45 49 0.08
46 206 0.35
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (44 bp):
AAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAA
Found at i:3452 original size:88 final size:88
Alignment explanation
Indices: 3371--3866 Score: 519
Period size: 88 Copynumber: 5.6 Consensus size: 88
3361 TCAACCTACA
* *
3371 CCTCTAGATGGGGGTAAAAGATT-GAGTGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAG
1 CCTCTGGATGGGGGTAAAAGATTGGA-CGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAG
*** *
3435 ATTGGTTGGTGGCTTCAATCTGCC
65 ATTGGACAGTGGCTTCAATCTGGC
* ** * * *
3459 CCTCTGGATAGGGGTAAAAGATTGGATTGTGGCTTCAATCTTCCCTTCTGGAT-GGGGTAAAAGA
1 CCTCTGGATGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGA
*
3523 TTGGACAATGGCTTCAATCTGGC
66 TTGGACAGTGGCTTCAATCTGGC
* * * * * *
3546 CCTCTGGATGAGGGTGAAAGATTGGACGGTGGCTTCAATCTGGCCCTCTGGATGAGGGTGAAAGA
1 CCTCTGGATGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGA
*
3611 TTGGACGGTGGCTTCAATCTGGC
66 TTGGACAGTGGCTTCAATCTGGC
** * * * * * ** *
3634 CCTCTGGATGAAGGTAAAAGATTGGACGATGACTTCATTCTGCCCCTCTAGGTTTAGTAGTATAA
1 CCTCTGGATGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTA-G-ATGGGGGTAAAA
* *
3699 GATTGGACAGTGACTTCAATCTGTC
64 GATTGGACAGTGGCTTCAATCTGGC
* * * * *
3724 GCTTTGGATTTAGGGGTATAAGATTGGACGGTGGCTTCAATTTGCCCCTCTAGATGGGGGTAAAA
1 CCTCTGGA--TGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAA
* * ** *
3789 GATTGGATAGTGGTTTTTATCTGCC
64 GATTGGACAGTGGCTTCAATCTGGC
* * * *
3814 CCTCTGGATGGGGATAAAAGATTAGATGGTTGCTTCAATCTGCCCCTCTAGAT
1 CCTCTGGATGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGAT
3867 TTAGGGGTAT
Statistics
Matches: 332, Mismatches: 70, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
87 74 0.22
88 155 0.47
89 3 0.01
90 65 0.20
91 1 0.00
92 34 0.10
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (88 bp):
CCTCTGGATGGGGGTAAAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGA
TTGGACAGTGGCTTCAATCTGGC
Found at i:3713 original size:46 final size:46
Alignment explanation
Indices: 3563--4110 Score: 176
Period size: 46 Copynumber: 12.1 Consensus size: 46
3553 ATGAGGGTGA
* * * *
3563 AAGATTGGACGGTGGCTTCAATCTGGCCCTCT-GGA-TGAGG-GTGA-
1 AAGATTGGAC-GTGACTTCATTCTGCCCCTCTAGGATTTAGGAGT-AT
* * * * * *
3607 AAGATTGGACGGTGGCTTCAATCTGGCCCTCT-GGA-TGAAG-GTAA
1 AAGATTGGAC-GTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
*
3651 AAGATTGGACGATGACTTCATTCTGCCCCTCTAGG-TTTAGTAGTAT
1 AAGATTGGACG-TGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * * *
3697 AAGATTGGACAGTGACTTCAATCTGTCGCT-TTGGATTTAGGGGTAT
1 AAGATTGGAC-GTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * *
3743 AAGATTGGACGGTGGCTTCAATT-TGCCCCTCTA-GA--TGGGGGTAA
1 AAGATTGGAC-GTGACTTC-ATTCTGCCCCTCTAGGATTTAGGAGTAT
* * ** ** *
3787 AAGATTGGATAGTG-GTTTTTATCTGCCCCTCT-GGA-TGGGGA-TAA
1 AAGATTGGA-CGTGACTTCAT-TCTGCCCCTCTAGGATTTAGGAGTAT
* * * *
3831 AAGATTAGATGGTTG-CTTCAATCTGCCCCTCTA-GATTTAGGGGTAT
1 AAGATTGGA-CG-TGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * * * * * * *
3877 ACGATTGAATTGTGACTTTAATCTG-TCCTTTTGGATTTAGGGGTAT
1 AAGATTGGA-CGTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * * * * * * * *
3923 AA-ATTGGACGATGGCTTTAATATG-TCTTTTTGGATTTAGGGGTGT
1 AAGATTGGACG-TGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * *
3968 AAGATTGGACGATGACTTCAATCTACCCCTTTA-GATTTAGGGGTAT
1 AAGATTGGACG-TGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * * * *
4014 AAGATTGGATAGTGGCTTCAATCTACCCCTTTA-GATTTAGGGGTAT
1 AAGATTGGA-CGTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
* * * * * *
4060 AAGATTGGATGGTGGCTTCAATCT-TCCCTCTA-AATTTAGGGGTAT
1 AAGATTGGA-CGTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
4105 AAGATT
1 AAGATT
4111 AGATGATGAT
Statistics
Matches: 413, Mismatches: 67, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.00
43 5 0.01
44 125 0.30
45 84 0.20
46 189 0.46
47 9 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (46 bp):
AAGATTGGACGTGACTTCATTCTGCCCCTCTAGGATTTAGGAGTAT
Found at i:3819 original size:180 final size:178
Alignment explanation
Indices: 3381--4110 Score: 638
Period size: 180 Copynumber: 4.1 Consensus size: 178
3371 CCTCTAGATG
* * *
3381 GGGGTAAAAGATT-GAGTGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGATTGGTTGGT
1 GGGGTATAAGATTGGA-CGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGATTGGATGGT
* * *
3445 GGCTTCAATCTGCCCCTCTGGAT-AGGGGTAAAAGATTGGATTGTGGCTTCAATCTTCCCTTCT-
65 GGCTTCAATCTGCCCCTCTGGATGA-GGGTAAAAGATTGGATCGT-GCTTCAATCTGCCCCTCTA
* * * * * * *
3508 GG-AT-GGGGTAAAAGATTGGACAATGGCTTCAATCTGGCCCTCTGGA-TGA
128 GGTTTAGGGGTATAAGATTGGACAGTGACTTCAATCT-GTCCTTTGGATTTA
* * * * *
3557 -GGGTGA-AAGATTGGACGGTGGCTTCAATCTGGCCCTCTGGATGAGGGTGAAAGATTGGACGGT
1 GGGGT-ATAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGATTGGATGGT
* * *
3620 GGCTTCAATCTGGCCCTCTGGATGAAGGTAAAAGATTGGA-CGATGACTTCATTCTGCCCCTCTA
65 GGCTTCAATCTGCCCCTCTGGATGAGGGTAAAAGATTGGATCG-TG-CTTCAATCTGCCCCTCTA
**
3684 GGTTTAGTAGTATAAGATTGGACAGTGACTTCAATCTGTCGCTTTGGATTTA
128 GGTTTAGGGGTATAAGATTGGACAGTGACTTCAATCTGTC-CTTTGGATTTA
* *
3736 GGGGTATAAGATTGGACGGTGGCTTCAATTTGCCCCTCTAGATGGGGGTAAAAGATTGGATAGTG
1 GGGGTATAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGATTGGATGGTG
* ** * *
3801 GTTTTTATCTGCCCCTCTGGATG-GGGATAAAAGATTAGATGGTTGCTTCAATCTGCCCCTCTAG
66 GCTTCAATCTGCCCCTCTGGATGAGGG-TAAAAGATTGGATCG-TGCTTCAATCTGCCCCTCTAG
* * * ** *
3865 ATTTAGGGGTATACGATTGAATTGTGACTTTAATCTGTCCTTTTGGATTTA
129 GTTTAGGGGTATAAGATTGGACAGTGACTTCAATCTGTCC-TTTGGATTTA
* * * * ** * * * ** * *
3916 GGGGTATAA-ATTGGACGATGGCTTTAATATGTCTTTTTGGATTTAGGGGTGTAAGATTGGACGA
1 GGGGTATAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGA--TGGGGGTAAAAGATTGGATGG
* * * * * * * * *
3980 TGACTTCAATCTACCCCTTTAGATTTAGGGGTATAAGATTGGATAGTGGCTTCAATCTACCCCTT
64 TGGCTTCAATCTGCCCCTCTGGA-TGA-GGGTAAAAGATTGGATCGT-GCTTCAATCTGCCCCTC
* ** * * **
4045 TAGATTTAGGGGTATAAGATTGGATGGTGGCTTCAATCT-TCCCTCTAAATTTA
126 TAGGTTTAGGGGTATAAGATTGGACAGTGACTTCAATCTGT-CCTTTGGATTTA
4098 GGGGTATAAGATT
1 GGGGTATAAGATT
4111 AGATGATGAT
Statistics
Matches: 450, Mismatches: 81, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
174 2 0.00
175 102 0.23
176 6 0.01
177 3 0.01
178 32 0.07
179 30 0.07
180 153 0.34
181 34 0.08
182 19 0.04
183 66 0.15
184 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (178 bp):
GGGGTATAAGATTGGACGGTGGCTTCAATCTGCCCCTCTAGATGGGGGTAAAAGATTGGATGGTG
GCTTCAATCTGCCCCTCTGGATGAGGGTAAAAGATTGGATCGTGCTTCAATCTGCCCCTCTAGGT
TTAGGGGTATAAGATTGGACAGTGACTTCAATCTGTCCTTTGGATTTA
Found at i:3956 original size:45 final size:46
Alignment explanation
Indices: 3864--4119 Score: 205
Period size: 46 Copynumber: 5.6 Consensus size: 46
3854 TGCCCCTCTA
* * *
3864 GATTTAGGGGTATACGATTGAATTG-TGACTTTAATCTGTCCTTTTG
1 GATTTAGGGGTATAAGATTGGA-CGATGACTTTAATCTGTCCTTTTG
* * *
3910 GATTTAGGGGTATAA-ATTGGACGATGGCTTTAATATGTCTTTTTG
1 GATTTAGGGGTATAAGATTGGACGATGACTTTAATCTGTCCTTTTG
* * ** * *
3955 GATTTAGGGGTGTAAGATTGGACGATGACTTCAATCTACCCCTTTA
1 GATTTAGGGGTATAAGATTGGACGATGACTTTAATCTGTCCTTTTG
* * * ** * *
4001 GATTTAGGGGTATAAGATTGGA-TAGTGGCTTCAATCTACCCCTTTA
1 GATTTAGGGGTATAAGATTGGACGA-TGACTTTAATCTGTCCTTTTG
* * * * * * *
4047 GATTTAGGGGTATAAGATTGGATGGTGGCTTCAATCT-TCCCTCTA
1 GATTTAGGGGTATAAGATTGGACGATGACTTTAATCTGTCCTTTTG
* * *
4092 AATTTAGGGGTATAAGATTAGATGATGA
1 GATTTAGGGGTATAAGATTGGACGATGA
4120 TGTAACTTCA
Statistics
Matches: 180, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 68 0.38
46 111 0.62
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (46 bp):
GATTTAGGGGTATAAGATTGGACGATGACTTTAATCTGTCCTTTTG
Found at i:4299 original size:100 final size:99
Alignment explanation
Indices: 4194--4391 Score: 215
Period size: 100 Copynumber: 2.0 Consensus size: 99
4184 GCTTCACTAC
* *
4194 AACTTCAGGAAG-ATAAGATTTGGT-TT-TAAAGTTTCACTCCATTCCACTGTTACCTTAAG-GA
1 AACTTCA-GAAGTATAAGATTTGGTGTTGT-AA-CTTCACTCCATTCCACTGTAACC-TAAGAGA
* * ** *
4255 CATTGAGATCTGCTTTGTTGTTTTAATCTGACCCACTGT
62 CATTAAGATCCG-TTACTTATTTTAATCTGACCCACTGT
* * * *
4294 AACTTCAGAGGTGTAGGATTTGGTGTTGTAACTTCACTCCATTCCACTGTAACCTCAGAGACATT
1 AACTTCAGAAGTATAAGATTTGGTGTTGTAACTTCACTCCATTCCACTGTAACCTAAGAGACATT
*
4359 AAGATCCGTTACTTATTTTAATCTGATCCACTG
66 AAGATCCGTTACTTATTTTAATCTGACCCACTG
4392 CAACCTTGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
99 27 0.33
100 50 0.61
101 4 0.05
102 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (99 bp):
AACTTCAGAAGTATAAGATTTGGTGTTGTAACTTCACTCCATTCCACTGTAACCTAAGAGACATT
AAGATCCGTTACTTATTTTAATCTGACCCACTGT
Found at i:4428 original size:99 final size:101
Alignment explanation
Indices: 4226--4499 Score: 267
Period size: 99 Copynumber: 2.8 Consensus size: 101
4216 GTTTTAAAGT
* * * * ** *
4226 TTCACTCCATTCCACTGTTACCTTA-AGGACATTGAGATCTGCTTTGTTGTTTTAATCTGACCCA
1 TTCACTCCATTCCACTGTAACCTCAGAGGACATTAAGATCCGCTTACTTATTTTAATCTGACCCA
* * * **
4290 CTGTAACTTCAGAGGTGTAGGATTTGGTGTTGTAAC
66 CTGCAACTTCAGAGATATAGGATTTGAAGTTGTAAC
*
4326 TTCACTCCATTCCACTGTAACCTCAGA-GACATTAAGATCCG-TTACTTATTTTAATCTGATCCA
1 TTCACTCCATTCCACTGTAACCTCAGAGGACATTAAGATCCGCTTACTTATTTTAATCTGACCCA
*
4389 CTGCAACCTT-GGAGATATAGGATTTGAAGTTG-AAGC
66 CTGCAA-CTTCAGAGATATAGGATTTGAAGTTGTAA-C
** * * * * *
4425 TTCACTCCATTTTACTATAACCTCAG-GGAGATTGAGATTCGCTT-C-TAGCTTTAATCTGACCC
1 TTCACTCCATTCCACTGTAACCTCAGAGGACATTAAGATCCGCTTACTTA-TTTTAATCTGACCC
*
4487 ATTGCAACTTCAG
65 ACTGCAACTTCAG
4500 GGGTATAAGA
Statistics
Matches: 143, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
98 7 0.05
99 95 0.66
100 40 0.28
101 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (101 bp):
TTCACTCCATTCCACTGTAACCTCAGAGGACATTAAGATCCGCTTACTTATTTTAATCTGACCCA
CTGCAACTTCAGAGATATAGGATTTGAAGTTGTAAC
Found at i:10640 original size:12 final size:12
Alignment explanation
Indices: 10620--10674 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
10610 ACAATAATTG
10620 TTCTTTGTTTTT
1 TTCTTTGTTTTT
* *
10632 TTTTTTGTTTGT
1 TTCTTTGTTTTT
10644 TTCTTTGCTTTTT
1 TTCTTTG-TTTTT
* *
10657 GTCTTTGTTTTC
1 TTCTTTGTTTTT
10669 TTCTTT
1 TTCTTT
10675 ATTGTGCAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
12 25 0.71
13 10 0.29
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (12 bp):
TTCTTTGTTTTT
Found at i:10663 original size:25 final size:24
Alignment explanation
Indices: 10620--10674 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
10610 ACAATAATTG
* *
10620 TTCTTTGTTTTTTTTTTTGTTTGT-
1 TTCTTTGTTTTTGTCTTTGTTT-TC
10644 TTCTTTGCTTTTTGTCTTTGTTTTC
1 TTCTTTG-TTTTTGTCTTTGTTTTC
10669 TTCTTT
1 TTCTTT
10675 ATTGTGCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (24 bp):
TTCTTTGTTTTTGTCTTTGTTTTC
Found at i:12198 original size:52 final size:52
Alignment explanation
Indices: 12092--12287 Score: 234
Period size: 52 Copynumber: 3.8 Consensus size: 52
12082 ATTTCACTTC
* * * * * * *
12092 ATTCATATATTCACGATGACACATAGCCA-CTAGACCAT-ATAATTCGTAAGGG
1 ATTCATATACTCACGATGACACAGAGTCATC-GGACC-TCTTAATCCGTAAAGG
* *
12144 ATTCACATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCTTAAAGG
1 ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
* *
12196 ATTCATATACTCACGATGACACAGAGGCATCGGACCTCTTAATTCGTAAAGG
1 ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
* * *
12248 ATTCATATACTCACGATAACAAATAGTCATCGGACCTCTT
1 ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTT
12288 CCATTTACGG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
51 1 0.01
52 123 0.98
53 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
Found at i:12276 original size:104 final size:104
Alignment explanation
Indices: 12092--12287 Score: 270
Period size: 104 Copynumber: 1.9 Consensus size: 104
12082 ATTTCACTTC
* * *
12092 ATTCATATATTCACGATGACACATAGCCACTAGACCATATAATTCGTAAGGGATTCACATACTCA
1 ATTCATATACTCACGATGACACAGAGCCACTAGACCATATAATTCGTAAAGGATTCACATACTCA
* *
12157 CGATGACACAGAGTCATCGGACCTCTTAATCCTTAAAGG
66 CGATAACAAAGAGTCATCGGACCTCTTAATCCTTAAAGG
* * * *
12196 ATTCATATACTCACGATGACACAGAGGCA-TCGGACC-TCTTAATTCGTAAAGGATTCATATACT
1 ATTCATATACTCACGATGACACAGAGCCACT-AGACCAT-ATAATTCGTAAAGGATTCACATACT
*
12259 CACGATAACAAATAGTCATCGGACCTCTT
64 CACGATAACAAAGAGTCATCGGACCTCTT
12288 CCATTTACGG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
103 2 0.03
104 78 0.98
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (104 bp):
ATTCATATACTCACGATGACACAGAGCCACTAGACCATATAATTCGTAAAGGATTCACATACTCA
CGATAACAAAGAGTCATCGGACCTCTTAATCCTTAAAGG
Found at i:17970 original size:3 final size:3
Alignment explanation
Indices: 17964--18005 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17954 TATATACATA
17964 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18006 GTGACTGAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18576 original size:17 final size:17
Alignment explanation
Indices: 18551--18584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18541 CACTAACACT
18551 AAAAAGCAATGAAAATG
1 AAAAAGCAATGAAAATG
* *
18568 AAAATGCAATGACAATG
1 AAAAAGCAATGAAAATG
18585 CTTACTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.18, T:0.15
Consensus pattern (17 bp):
AAAAAGCAATGAAAATG
Found at i:20710 original size:2 final size:2
Alignment explanation
Indices: 20703--20733 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20693 GAGACTAAAG
20703 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
20734 CTTTTCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20749 original size:12 final size:12
Alignment explanation
Indices: 20734--20760 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20724 AGAGAGAGAG
20734 CTTTTCTCTTTC
1 CTTTTCTCTTTC
20746 CTTTTCTCTTTC
1 CTTTTCTCTTTC
20758 CTT
1 CTT
20761 GTGAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
CTTTTCTCTTTC
Found at i:25901 original size:24 final size:24
Alignment explanation
Indices: 25857--25903 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25847 ATGATGCCAT
* *
25857 TATTTTTATTTTCTTTCATTTTTC
1 TATTTCTATTTTCTTCCATTTTTC
25881 TATTTCTA-TTTCTTCCTATTTTT
1 TATTTCTATTTTCTTCC-ATTTTT
25904 ACCCTTTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTCTATTTTCTTCCATTTTTC
Found at i:26483 original size:200 final size:199
Alignment explanation
Indices: 26108--26561 Score: 644
Period size: 200 Copynumber: 2.3 Consensus size: 199
26098 TTCAAACAAG
* * * *
26108 TTTGAGTTTCCTTGAAAGGAAGAGTATTTCTTTGAATTT-GTTTTTTTTTTTTTTACAATTACAA
1 TTTGGGTTTCCTTGAAAAGAAGAGTATTTCTTTGAATTTAG----GTATTTTTTTACAATTACAA
* * * * * *
26172 TCTGTATTACTCCAAATTTTAAAAAGAAATCAAAATATTGTAGTGACTTTGGTGATGAAGATGAG
62 TCTGTATTAATACAAATTTCAAAAAGAAATCAAAATATTGTAATGACTTTGATGATGAACATGAG
*
26237 AAGTTTTTTTATTTGGGTTTGCTTAAATTTTTAAATGCTCAACTTGATTTAATGATGAAGAATAG
127 AAGTTTTTTTATTTGGGTTTGCTTAAATTTTTAAATGCTCAACTTGATTTAATGATGAAAAATAG
26302 AAAGAAGA
192 AAAGAAGA
* *
26310 TTTGGGTTTTCTTGAACAA-ATGAGTATTTCTTTGAATTTAGGTATTTTTTTACAATTACAATCT
1 TTTGGGTTTCCTTGAA-AAGAAGAGTATTTCTTTGAATTTAGGTATTTTTTTACAATTACAATCT
* *
26374 GTATTAATATAAATTTCAAACA-AAATCAAAATATTGTAATGACTTTGATGATGAACATGAGAAG
65 GTATTAATACAAATTTCAAAAAGAAATCAAAATATTGTAATGACTTTGATGATGAACATGAGAAG
* * *
26438 TTTTTTTTTTTTTTGGTTTGCTTAAATTTTTAAATGCTCAACTTGATTTAATGATTAAAAATAGA
130 --TTTTTTTATTTGGGTTTGCTTAAATTTTTAAATGCTCAACTTGATTTAATGATGAAAAATAGA
26503 AAGAAGA
193 AAGAAGA
*
26510 TTTGGGTTTCCTTGAAAAGAAGAGTATTTCTTTGAATTTGGGTATTTCTTTT
1 TTTGGGTTTCCTTGAAAAGAAGAGTATTTCTTTGAATTTAGGTATTT-TTTT
26562 TTTTTTTTTT
Statistics
Matches: 225, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
198 39 0.17
199 40 0.18
200 107 0.48
201 4 0.02
202 33 0.15
203 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (199 bp):
TTTGGGTTTCCTTGAAAAGAAGAGTATTTCTTTGAATTTAGGTATTTTTTTACAATTACAATCTG
TATTAATACAAATTTCAAAAAGAAATCAAAATATTGTAATGACTTTGATGATGAACATGAGAAGT
TTTTTTATTTGGGTTTGCTTAAATTTTTAAATGCTCAACTTGATTTAATGATGAAAAATAGAAAG
AAGA
Found at i:27744 original size:19 final size:20
Alignment explanation
Indices: 27703--27749 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
27693 GGCATTTACG
*
27703 CAAGAATTAATAATGATTTT
1 CAAGAATTAATAATGATTAT
*
27723 CAAGAATTATTAA-GATTAT
1 CAAGAATTAATAATGATTAT
27742 CAAGAATT
1 CAAGAATT
27750 CCAACAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (20 bp):
CAAGAATTAATAATGATTAT
Found at i:34391 original size:21 final size:21
Alignment explanation
Indices: 34367--34406 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34357 AGGAAAGAAG
34367 TAAAAGTAAAAGTAAAAATAA
1 TAAAAGTAAAAGTAAAAATAA
*
34388 TAAAAGTAAATGTAAAAAT
1 TAAAAGTAAAAGTAAAAAT
34407 GCATTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (21 bp):
TAAAAGTAAAAGTAAAAATAA
Found at i:38971 original size:41 final size:41
Alignment explanation
Indices: 38902--39078 Score: 203
Period size: 41 Copynumber: 4.2 Consensus size: 41
38892 TTGAGTTATA
* * * *
38902 AGTCTTCCTTTAACCATATTCTCATTCTCATCTCAAGACATG
1 AGTCTTCC-TTAATCAAAATCTCATTCTCATCTCGAGACATG
*
38944 AGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGACATG
1 AGTCTTCCTTAATCAAAATCTCATTCTCATCTCGAGACATG
38985 AGTCTTCCTTAATCAAAATCTCATTCTCAT-TCCGAGACATG
1 AGTCTTCCTTAATCAAAATCTCATTCTCATCT-CGAGACATG
* * ** * * *
39026 AGTCTCCCATTTATACAATTTCTCATGCTCAACCCGAGACATG
1 AGTCTTCC-TTAAT-CAAAATCTCATTCTCATCTCGAGACATG
39069 AGTCTTCCTT
1 AGTCTTCCTT
39079 TTTATACACC
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 1 0.01
41 74 0.63
42 14 0.12
43 29 0.25
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.36
Consensus pattern (41 bp):
AGTCTTCCTTAATCAAAATCTCATTCTCATCTCGAGACATG
Found at i:39839 original size:19 final size:19
Alignment explanation
Indices: 39817--39880 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
39807 TCTTAGACTT
*
39817 TCATAATTAACTTAATTAA
1 TCATATTTAACTTAATTAA
* *
39836 TCATCTTTTTAACCTTAATTTA
1 TCA--TATTTAA-CTTAATTAA
*
39858 TCCTATTTAACTTAATTAA
1 TCATATTTAACTTAATTAA
39877 TCAT
1 TCAT
39881 CTTTTTAACC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 14 0.40
20 6 0.17
21 5 0.14
22 10 0.29
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (19 bp):
TCATATTTAACTTAATTAA
Found at i:39853 original size:22 final size:21
Alignment explanation
Indices: 39823--39896 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 21
39813 ACTTTCATAA
39823 TTAACTTAATTAATCATCTTT
1 TTAACTTAATTAATCATCTTT
* *
39844 TTAACCTTAATTTATC--CTAT
1 TTAA-CTTAATTAATCATCTTT
39864 TTAACTTAATTAATCATCTTT
1 TTAACTTAATTAATCATCTTT
39885 TTAACCTTAATT
1 TTAA-CTTAATT
39897 TATCCTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 10 0.22
20 7 0.16
21 11 0.24
22 17 0.38
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAACTTAATTAATCATCTTT
Found at i:39868 original size:41 final size:41
Alignment explanation
Indices: 39823--39905 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
39813 ACTTTCATAA
39823 TTAACTTAATTAATCATCTTTTTAACCTTAATTTATCCTAT
1 TTAACTTAATTAATCATCTTTTTAACCTTAATTTATCCTAT
39864 TTAACTTAATTAATCATCTTTTTAACCTTAATTTATCCTAT
1 TTAACTTAATTAATCATCTTTTTAACCTTAATTTATCCTAT
39905 T
1 T
39906 ATTAATCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (41 bp):
TTAACTTAATTAATCATCTTTTTAACCTTAATTTATCCTAT
Found at i:39910 original size:22 final size:21
Alignment explanation
Indices: 39822--39910 Score: 74
Period size: 22 Copynumber: 4.2 Consensus size: 21
39812 GACTTTCATA
*
39822 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
39843 TTTAACCTTAATTTATCCTA-T
1 ATTAA-CTTAATTAATCATATT
*
39864 -TTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
39884 TTTAACCTTAATTTATCCTATT
1 ATTAA-CTTAATTAATCATATT
39906 ATTAA
1 ATTAA
39911 TCAATATTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.21
20 5 0.09
21 9 0.17
22 28 0.53
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:44316 original size:27 final size:27
Alignment explanation
Indices: 44286--44349 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44276 TTTATTGAGG
* *
44286 TTATTAGTTTATCGATAAATAAATATT
1 TTATTAATTTATCAATAAATAAATATT
* *
44313 TTATTAATTTATTAATAAATTAATA-T
1 TTATTAATTTATCAATAAATAAATATT
*
44339 GTATTAATTTA
1 TTATTAATTTA
44350 GAGAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (27 bp):
TTATTAATTTATCAATAAATAAATATT
Found at i:44356 original size:27 final size:27
Alignment explanation
Indices: 44300--44356 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
44290 TAGTTTATCG
* **
44300 ATAAATAAATATTTTATTAATTTATTA
1 ATAAATAAATATTGTATTAATTTAAGA
*
44327 ATAAATTAATA-TGTATTAATTTAGAGA
1 ATAAATAAATATTGTATTAATTTA-AGA
44354 ATA
1 ATA
44357 TTTCATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (27 bp):
ATAAATAAATATTGTATTAATTTAAGA
Found at i:47635 original size:40 final size:40
Alignment explanation
Indices: 47591--47788 Score: 225
Period size: 40 Copynumber: 4.9 Consensus size: 40
47581 GAATTCACTA
* * * *
47591 GCTCATAGCCTGCTAAGTCGTAGCTTGTATCTTAGCACCG
1 GCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCG
*** *
47631 GCTCATAGCCTGCTAAGTTTTAGCTTGAAATTTTAACACTG
1 GCTCATAGCCTGCTAAGCCGTAGCTTG-AATTTTAACACCG
* *
47672 GCTCATAGCCTGTTAAGCCGTAGCTTGAATTTTAACACCA
1 GCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCG
* * * *
47712 ACTCTTAGCTTGCTAAGCCATAGCTTGAATTTTAACACCG
1 GCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCG
* * * *
47752 GCTTATAGCCTACTAAGCCGTAGCTTAAAATTTAACA
1 GCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACA
47789 TAACAATTTA
Statistics
Matches: 131, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
40 99 0.76
41 32 0.24
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (40 bp):
GCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCG
Found at i:47736 original size:81 final size:80
Alignment explanation
Indices: 47586--47788 Score: 235
Period size: 81 Copynumber: 2.5 Consensus size: 80
47576 TGTACGAATT
* * * * * ** ***
47586 CACTAGCTCATAGCCTGCTAAGTCGTAGCTTGTATCTTAGCACCGGCTCATAGCCTGCTAAGTTT
1 CACTGGCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCAACTCATAGCCTGCTAAGCCA
47651 TAGCTTGAAATTTTAA
66 TAGCTTG-AATTTTAA
* * *
47667 CACTGGCTCATAGCCTGTTAAGCCGTAGCTTGAATTTTAACACCAACTCTTAGCTTGCTAAGCCA
1 CACTGGCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCAACTCATAGCCTGCTAAGCCA
47732 TAGCTTGAATTTTAA
66 TAGCTTGAATTTTAA
* * * * *
47747 CACCGGCTTATAGCCTACTAAGCCGTAGCTTAAAATTTAACA
1 CACTGGCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACA
47789 TAACAATTTA
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 44 0.43
81 59 0.57
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (80 bp):
CACTGGCTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCAACTCATAGCCTGCTAAGCCA
TAGCTTGAATTTTAA
Found at i:50341 original size:24 final size:24
Alignment explanation
Indices: 50309--50358 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
50299 AGGGTAGTGA
*
50309 TTGGTGCTTTCCCATGTTATAATT
1 TTGGTGCTTTCCCACGTTATAATT
50333 TTGGTGCTTTCCCACGTTATAATT
1 TTGGTGCTTTCCCACGTTATAATT
50357 TT
1 TT
50359 AATAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (24 bp):
TTGGTGCTTTCCCACGTTATAATT
Found at i:51433 original size:27 final size:27
Alignment explanation
Indices: 51395--51449 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51385 TACGGCTATA
51395 ATTTATGGAAGGCTCAAGACTTGTGAG
1 ATTTATGGAAGGCTCAAGACTTGTGAG
51422 ATTTATGGAAGGCTCAAGACTTGTGAG
1 ATTTATGGAAGGCTCAAGACTTGTGAG
51449 A
1 A
51450 AACCATGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (27 bp):
ATTTATGGAAGGCTCAAGACTTGTGAG
Found at i:56030 original size:35 final size:35
Alignment explanation
Indices: 55987--56086 Score: 102
Period size: 32 Copynumber: 2.9 Consensus size: 35
55977 ATCATGAATC
55987 TTAAAATTTCATGCATACAATGAATTATCATTTTA
1 TTAAAATTTCATGCATACAATGAATTATCATTTTA
* * ** *
56022 TTATAA-TT--TG-ATACCAAT-AATAATCATGAATC
1 TTAAAATTTCATGCATA-CAATGAATTATCAT-TTTA
56054 TTAAAATTTCATGCATACAATGAATTATCATTT
1 TTAAAATTTCATGCATACAATGAATTATCATTT
56087 GAATTTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
31 11 0.22
32 12 0.24
33 2 0.04
34 2 0.04
35 11 0.22
36 11 0.22
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (35 bp):
TTAAAATTTCATGCATACAATGAATTATCATTTTA
Found at i:56035 original size:67 final size:67
Alignment explanation
Indices: 55956--56086 Score: 262
Period size: 67 Copynumber: 2.0 Consensus size: 67
55946 ATATATAGTA
55956 TATAATTTGATACCAATAATAATCATGAATCTTAAAATTTCATGCATACAATGAATTATCATTTT
1 TATAATTTGATACCAATAATAATCATGAATCTTAAAATTTCATGCATACAATGAATTATCATTTT
56021 AT
66 AT
56023 TATAATTTGATACCAATAATAATCATGAATCTTAAAATTTCATGCATACAATGAATTATCATTT
1 TATAATTTGATACCAATAATAATCATGAATCTTAAAATTTCATGCATACAATGAATTATCATTT
56087 GAATTTTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (67 bp):
TATAATTTGATACCAATAATAATCATGAATCTTAAAATTTCATGCATACAATGAATTATCATTTT
AT
Found at i:56062 original size:32 final size:32
Alignment explanation
Indices: 55959--56062 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
55949 TATAGTATAT
55959 AATTTGATACCAATAATAATCATGAATCTTAA
1 AATTTGATACCAATAATAATCATGAATCTTAA
* ** * *
55991 AATTTCATGCATA-CAATGAATTATCAT-TTTATTAT
1 AA-TT--TG-ATACCAAT-AATAATCATGAATCTTAA
56026 AATTTGATACCAATAATAATCATGAATCTTAA
1 AATTTGATACCAATAATAATCATGAATCTTAA
56058 AATTT
1 AATTT
56063 CATGCATACA
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
31 11 0.20
32 17 0.31
33 2 0.04
34 2 0.04
35 12 0.22
36 11 0.20
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (32 bp):
AATTTGATACCAATAATAATCATGAATCTTAA
Found at i:60209 original size:2 final size:2
Alignment explanation
Indices: 60202--60226 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60192 GAAACTTATT
60202 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
60227 GTGTGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68134 original size:39 final size:39
Alignment explanation
Indices: 68069--68143 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
68059 TATTGTCAAA
*
68069 ATGGTATTGATATTTGTCTAAAGTATCGATACTCTATTC
1 ATGGTATTGATATTTGACTAAAGTATCGATACTCTATTC
68108 ATGGTATTGATACTTT-AC-AAAGGTATCGATACTCTA
1 ATGGTATTGATA-TTTGACTAAA-GTATCGATACTCTA
68144 AACATTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 3 0.09
39 27 0.82
40 3 0.09
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (39 bp):
ATGGTATTGATATTTGACTAAAGTATCGATACTCTATTC
Found at i:80118 original size:97 final size:97
Alignment explanation
Indices: 79952--80145 Score: 316
Period size: 97 Copynumber: 2.0 Consensus size: 97
79942 AACCTTGTAA
* * * *
79952 AAGGGTATTCGATTATCCTGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTCA
* *
80017 AAACCCGAGATAAAGGAATATTGCCTCGATTT
66 AAACCCGAAATAAAGAAATATTGCCTCGATTT
*
80049 AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCACGCCTAGTAAGTTAAAGCATAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTCA
*
80114 AAACCCGAAATAAAGAAATATTGTCTCGATTT
66 AAACCCGAAATAAAGAAATATTGCCTCGATTT
80146 TAAATATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTCA
AAACCCGAAATAAAGAAATATTGCCTCGATTT
Found at i:80515 original size:29 final size:29
Alignment explanation
Indices: 80425--80678 Score: 214
Period size: 29 Copynumber: 8.7 Consensus size: 29
80415 TGAGAGTTTA
* * * *
80425 GGGTTAAAATGTAATTTTAAAAAGTTTTAG
1 GGGTAAAAATGTAATTTTTAGAAG-TTCAG
* *
80455 GGGTAAAAATGTCA-TTTTAGGAAAATTC-G
1 GGGTAAAAATGTAATTTTTA-G-AAGTTCAG
80484 GGGTAAAAACT-TAATTTTTAGAAGTTCAG
1 GGGTAAAAA-TGTAATTTTTAGAAGTTCAG
* * * *
80513 GGGAAAAAATGTGATTTTT-GTAAGTTTAA
1 GGGTAAAAATGTAATTTTTAG-AAGTTCAG
* * *
80542 GGGCAAAAATGGAATTTTAGAGAAGTTCAG
1 GGGTAAAAATGTAATTTT-TAGAAGTTCAG
* * * *
80572 GGATAAAAATGTAATTTTTGGAAGTTGAA
1 GGGTAAAAATGTAATTTTTAGAAGTTCAG
*
80601 GGGTAAAAATGCAATTTTTAGAAGTTCA-
1 GGGTAAAAATGTAATTTTTAGAAGTTCAG
*
80629 GTGTAAAAATGTAATTTTTGAGAAGTTC-G
1 GGGTAAAAATGTAATTTTT-AGAAGTTCAG
*
80658 AGGATAAAAATGTAATTTTTA
1 -GGGTAAAAATGTAATTTTTA
80679 TGGATTTTGA
Statistics
Matches: 179, Mismatches: 33, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
28 24 0.13
29 94 0.53
30 58 0.32
31 3 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTAGAAGTTCAG
Found at i:80582 original size:59 final size:58
Alignment explanation
Indices: 80496--80655 Score: 207
Period size: 59 Copynumber: 2.7 Consensus size: 58
80486 GTAAAAACTT
* * * * *
80496 AATTTTTAGAAGTTCAGGGGA-AAAAATGTGATTTTTGTAAGTTTAAGGGCAAAAATGG
1 AATTTTGAGAAGTTCA-GGGATAAAAATGTAATTTTTGGAAGTTGAAGGGCAAAAATGC
*
80554 AATTTTAGAGAAGTTCAGGGATAAAAATGTAATTTTTGGAAGTTGAAGGGTAAAAATGC
1 AATTTT-GAGAAGTTCAGGGATAAAAATGTAATTTTTGGAAGTTGAAGGGCAAAAATGC
* *
80613 AATTTTTAGAAGTTCAGTG-TAAAAATGTAATTTTTGAGAAGTT
1 AATTTTGAGAAGTTCAGGGATAAAAATGTAATTTTTG-GAAGTT
80656 CGAGGATAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
57 17 0.19
58 27 0.30
59 47 0.52
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (58 bp):
AATTTTGAGAAGTTCAGGGATAAAAATGTAATTTTTGGAAGTTGAAGGGCAAAAATGC
Found at i:80655 original size:117 final size:117
Alignment explanation
Indices: 80411--80655 Score: 270
Period size: 117 Copynumber: 2.1 Consensus size: 117
80401 GAAAATAAAG
** * * * *
80411 TTTTTGAG-AGTTTAGGGTTAAAATGTAATTTTAAAAAGTTTTAGGGGTAAAAATGTCATTTTAG
1 TTTTTGAGAAGTTTAGGGCAAAAATGGAATTTTAAAAAGTTTCAGGGATAAAAATGTAATTTTAG
* *
80475 GAAAATTCGGGGTAAAAACTTAATTTTTAGAAGTTCAGGGGAAAAAATGTGA
66 GAAAATTCGGGGTAAAAACTCAATTTTTAGAAGTTCAGGGGAAAAAATGTAA
* *
80527 TTTTTG-TAAGTTTAAGGGCAAAAATGGAATTTTAGAGAAG-TTCAGGGATAAAAATGTAATTTT
1 TTTTTGAGAAGTTT-AGGGCAAAAATGGAATTTTA-AAAAGTTTCAGGGATAAAAATGTAATTTT
* * * *
80590 TGG-AAGTT-GAAGGGTAAAAA-TGCAATTTTTAGAAGTTCA-GTGTAAAAATGTAA
64 AGGAAAATTCG--GGGTAAAAACT-CAATTTTTAGAAGTTCAGGGGAAAAAATGTAA
80643 TTTTTGAGAAGTT
1 TTTTTGAGAAGTT
80656 CGAGGATAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
115 1 0.01
116 33 0.31
117 69 0.64
118 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (117 bp):
TTTTTGAGAAGTTTAGGGCAAAAATGGAATTTTAAAAAGTTTCAGGGATAAAAATGTAATTTTAG
GAAAATTCGGGGTAAAAACTCAATTTTTAGAAGTTCAGGGGAAAAAATGTAA
Found at i:80668 original size:87 final size:89
Alignment explanation
Indices: 80546--80709 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 89
80536 GTTTAAGGGC
80546 AAAAATGGAATTTTAGAGAAGTTCAGGGATAAAAATGTAA-TTTT-TGGAAGTTGAAGGGTAAAA
1 AAAAATGGAATTTTAGAGAAGTTCAGGGATAAAAATGTAATTTTTATGGAAGTTGAAGGGTAAAA
80609 ATGCAATTTTTAGAAGTTCAGTGT
66 ATGCAATTTTTAGAAGTTCAGTGT
* * ** *
80633 AAAAATGTAATTTTTGAGAAGTTC-GAGGATAAAAATGTAATTTTTATGGATTTTGAATGGTAAA
1 AAAAATGGAATTTTAGAGAAGTTCAG-GGATAAAAATGTAATTTTTATGGAAGTTGAAGGGTAAA
*
80697 AATGTAATTTTTA
65 AATGCAATTTTTA
80710 AGATGTTTAG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.01
87 36 0.53
88 4 0.06
89 27 0.40
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAAATGGAATTTTAGAGAAGTTCAGGGATAAAAATGTAATTTTTATGGAAGTTGAAGGGTAAAA
ATGCAATTTTTAGAAGTTCAGTGT
Found at i:80728 original size:31 final size:29
Alignment explanation
Indices: 80411--80730 Score: 176
Period size: 29 Copynumber: 10.9 Consensus size: 29
80401 GAAAATAAAG
*
80411 TTTTT-GAGAGTTTAGG-GTTAAAATGTAA
1 TTTTTAGA-AGTTTAGGAGTAAAAATGTAA
* * * *
80439 TTTTAAAAAGTTTTAGGGGTAAAAATGTCA
1 TTTTTAGAAG-TTTAGGAGTAAAAATGTAA
** * *
80469 -TTTTAGGAAAATTCGGGGTAAAAACT-TAA
1 TTTTTA-GAAGTTTAGGAGTAAAAA-TGTAA
* * * *
80498 TTTTTAGAAGTTCAGGGGAAAAAATGTGA
1 TTTTTAGAAGTTTAGGAGTAAAAATGTAA
* *
80527 TTTTT-GTAAGTTTAAGG-GCAAAAATGGAA
1 TTTTTAG-AAGTTT-AGGAGTAAAAATGTAA
* *
80556 TTTTAGAGAAGTTCAGG-GATAAAAATGTAA
1 TTTT-TAGAAGTTTAGGAG-TAAAAATGTAA
* * *
80586 TTTTTGGAAGTTGAAGG-GTAAAAATGCAA
1 TTTTTAGAAGTT-TAGGAGTAAAAATGTAA
* *
80615 TTTTTAGAAGTTCA-GTGTAAAAATGTAA
1 TTTTTAGAAGTTTAGGAGTAAAAATGTAA
*
80643 TTTTTGAGAAGTTCGAGGA-TAAAAATGTAA
1 TTTTT-AGAAGTT-TAGGAGTAAAAATGTAA
* * *
80673 TTTTTATGGA-TTTTGAATGGTAAAAATGTAA
1 TTTTTA-GAAGTTTAGGA--GTAAAAATGTAA
* *
80704 TTTTTAAGATGTTTAGGAGTTAAAATG
1 TTTTT-AGAAGTTTAGGAGTAAAAATG
80731 CAGTTTTGGA
Statistics
Matches: 227, Mismatches: 42, Indels: 44
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.00
28 27 0.12
29 104 0.46
30 70 0.31
31 19 0.08
32 6 0.03
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTTTAGAAGTTTAGGAGTAAAAATGTAA
Found at i:82473 original size:6 final size:6
Alignment explanation
Indices: 82462--82538 Score: 83
Period size: 6 Copynumber: 13.7 Consensus size: 6
82452 TAGATTTGAA
* * *
82462 TAAATT TAAATT TAAA-- TAATTT TAAATT TAAA-A TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
82507 TAAAAT T-AATT TAAATT TAAA-T TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
82539 CCTAAAACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.05
5 13 0.22
6 43 0.73
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:82474 original size:16 final size:16
Alignment explanation
Indices: 82450--82538 Score: 106
Period size: 17 Copynumber: 5.4 Consensus size: 16
82440 CATCATTTAT
* *
82450 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
82466 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
82482 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
* *
82499 TTTAAACTTAAAATTAA
1 TTTAAA-TTTAAATAAA
82516 TTTAAATTTAAATTAAA
1 TTTAAATTTAAA-TAAA
82533 TTTAAA
1 TTTAAA
82539 CCTAAAACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
16 27 0.44
17 33 0.53
18 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:82497 original size:17 final size:17
Alignment explanation
Indices: 82460--82555 Score: 122
Period size: 17 Copynumber: 5.7 Consensus size: 17
82450 TTTAGATTTG
82460 AATAAATTTAAATTT-A
1 AATAAATTTAAATTTAA
*
82476 AATAATTTTAAATTTAA
1 AATAAATTTAAATTTAA
*
82493 AATAAATTTAAACTTAA
1 AATAAATTTAAATTTAA
*
82510 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
* **
82527 ATTAAATTTAAACCTAA
1 AATAAATTTAAATTTAA
*
82544 AACAAATTTAAA
1 AATAAATTTAAA
82556 AAATGAGTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
16 14 0.21
17 54 0.79
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:82500 original size:11 final size:11
Alignment explanation
Indices: 82462--82538 Score: 77
Period size: 11 Copynumber: 6.9 Consensus size: 11
82452 TAGATTTGAA
82462 TAAATTTAAATT
1 TAAATTTAAA-T
*
82474 TAAA--TAATTT
1 TAAATTTAA-AT
*
82484 TAAATTTAAAA
1 TAAATTTAAAT
82495 TAAATTTAAACT
1 TAAATTTAAA-T
* *
82507 TAAAATTAATT
1 TAAATTTAAAT
82518 TAAATTTAAAT
1 TAAATTTAAAT
82529 TAAATTTAAA
1 TAAATTTAAA
82539 CCTAAAACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.15
11 30 0.57
12 15 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:83048 original size:39 final size:37
Alignment explanation
Indices: 82995--83962 Score: 349
Period size: 39 Copynumber: 24.9 Consensus size: 37
82985 GAGGTTTGCT
* *
82995 AATGGTG-ATTTGCCCCANGCTCGGGGTAAGAGATCG
1 AATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGATCG
* *
83031 AATGGCTGCAATCTGCCCCTAGTTC-GGGTAAGAGATCG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * *
83069 AATGGCTGTAATCT-ACCCAGGCTCGGGGCAAGAGATTTGCT
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGA--T-CG
* * * *
83110 AATGATG-ATCTGCCTCAAGCTTGGGGTAAGAGATCA
1 AATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * * * *
83146 AATGACTATAATCTACCCCAAGTTCGGGGTAAAAGATTG
1 AATG-GT-GAATCTGCCCCAAGCTCGGGGTAAGAGATCG
** * * * * * * *
83185 GCTGATGATGATTTACCCTAAGTTTGGGGTAAGAGATTG
1 AATGGTGA--ATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * * *
83224 AACAGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGG
1 AA-TGGT-GAATCTGCCCCAAGCTCGGGGTAAGAGA-TCG
* * * * * * *
83264 TTGATGGTG-GTTTGCCCTAAGTTCGGGGTAAAAGATTGACA
1 --AATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGA-T--CG
* * *
83305 AATGGTG-ATCTGCCCTAGGCTTC-GGGTAAAAGATCG
1 AATGGTGAATCTGCCCCAAGC-TCGGGGTAAGAGATCG
* * * * *
83341 AACGGTTGCAATCTACCCTAGGCTCAGGGTAAGAGATCG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * * * * *
83380 AACGGTTGCAATCTACCCTAGGCTCGCGATAAGAGATTG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * * *
83419 ACTGGTGATAATATACCCTAGGCTCGGGGTAAGAGATCG
1 AATGGTG--AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * * *
83458 ACTGATGGTG-ATTTACCTCAGGCTCGGGATAAGAGATCG
1 A---ATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGATCG
* *
83497 AATGGCTGCAATCTGCCCCATGCTCGGGGTAAGAGATTG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
** * * * *
83536 GCTAGTGATGATCTACCCCAAGCTTGAGGTAAGAGATCG
1 AATGGTGA--ATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * *
83575 AACGACTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTG
1 AATG-GTG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
** * * * * *
83614 GCTGGTGATGATCTACCTCAGGCTTGAGGTAAGAGATCG
1 AATGGTGA--ATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * *
83653 AACGGTTGCAATCTGCCTCAAGCTCAGGGTAAGAAATCG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * * *
83692 ACTAATGGTG-ATCTACCCTAGGCTCGAGGTAA-AGGATCG
1 ---AATGGTGAATCTGCCCCAAGCTCGGGGTAAGA-GATCG
* *
83731 GATGGCTGCAATCTGCCCCAAGCTCAGGGTAAGAGATTGGCTG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGA-T--C-G
* * ** * *
83774 -ATGGTG-ATCTGGCTCAATTTCGGGGTAAGAAATTG
1 AATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * *
83809 AATGCCTGTAATCTGCCCCAAGTTCAGGGTAAGAGATCG
1 AATG-GTG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * *
83848 ATTGGTGATGATTTGCCCCAGGCTCGGGGTAAGAGATCG
1 AATGGTGA--ATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * *
83887 AATGGCTGCAATCTACTCCAAGCTTGGGGTAAGAGATCG
1 AATGG-TG-AATCTGCCCCAAGCTCGGGGTAAGAGATCG
* * *
83926 ACTGGTGATGATCTGCCCCAGGCTTGGGGTAAGAGAT
1 AATGGTGA--ATCTGCCCCAAGCTCGGGGTAAGAGAT
83963 TGGATCTTCA
Statistics
Matches: 700, Mismatches: 170, Indels: 121
0.71 0.17 0.12
Matches are distributed among these distances:
35 1 0.00
36 26 0.04
37 23 0.03
38 55 0.08
39 547 0.78
40 17 0.02
41 15 0.02
42 15 0.02
43 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AATGGTGAATCTGCCCCAAGCTCGGGGTAAGAGATCG
Found at i:83102 original size:38 final size:38
Alignment explanation
Indices: 83008--83104 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 38
82998 GGTGATTTGC
*
83008 CCCANGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGC
1 CCCA-GCTCGGGGTAAGAGATCGAATGGCTGCAATCTGA
* *
83047 CCCTAGTTC-GGGTAAGAGATCGAATGGCTGTAATCT-A
1 CCC-AGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGA
*
83084 CCCAGGCTCGGGGCAAGAGAT
1 CCCA-GCTCGGGGTAAGAGAT
83105 TTGCTAATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 1 0.02
37 6 0.12
38 36 0.72
39 6 0.12
40 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (38 bp):
CCCAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGA
Found at i:83360 original size:78 final size:78
Alignment explanation
Indices: 83276--83962 Score: 437
Period size: 78 Copynumber: 8.8 Consensus size: 78
83266 GATGGTGGTT
* * * * *
83276 TGCCCTAAGTTCGGGGTAAAAGATTGACAAATGGTGATCTGCCCTAGGCTTCG-GGTAAAAGATC
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGC-TCGAGGTAAGAGATC
*
83340 GAACGGTTGCAATC
65 GAACGGCTGCAATC
* * * * * * *
83354 TACCCTAGGCTCAGGGTAAGAGA-T--CGAACGGTTGCAATCTACCCTAGGCTCGCGATAAGAGA
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGG-TG--ATCTACCCTAGGCTCGAGGTAAGAGA
* * *
83416 TTG-ACTGG-TGATAATA
63 TCGAAC-GGCTG-CAATC
* * * * *
83432 TACCCTAGGCTCGGGGTAAGAGATCGACTGATGGTGATTTA-CCTCAGGCTCG-GGATAAGAGAT
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCT-AGGCTCGAGG-TAAGAGAT
*
83495 CGAATGGCTGCAATC
64 CGAACGGCTGCAATC
* * * * * * * *
83510 TGCCCCATGCTCGGGGTAAGAGATTGGCTAGTGATGATCTACCCCAAGCTTGAGGTAAGAGATCG
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGCTCGAGGTAAGAGATCG
*
83575 AACGACTGCAATC
66 AACGGCTGCAATC
* * ** * *
83588 TGCCCCAAGCTCGGGGTAAGAGATTGGCTGGTGATGATCTA-CCTCAGGCTTGAGGTAAGAGATC
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCT-AGGCTCGAGGTAAGAGATC
*
83652 GAACGGTTGCAATC
65 GAACGGCTGCAATC
* * *
83666 TG-CCTCAAGCTCAGGGTAAGAAATCGACTAATGGTGATCTACCCTAGGCTCGAGGTAA-AGGAT
1 TGCCCT-AAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGCTCGAGGTAAGA-GAT
* *
83729 CGGATGGCTGCAATC
64 CGAACGGCTGCAATC
* * * * ** *** * * *
83744 TGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCT-GGCTCAATTTCGGGGTAAGAAATT
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCT-AGGCTCGAGGTAAGAGATC
* * *
83808 GAATGCCTGTAATC
65 GAACGGCTGCAATC
* * * * * ** * * * * *
83822 TGCCCCAAGTTCAGGGTAAGAGATCGATTGGTGATGATTTGCCCCAGGCTCGGGGTAAGAGATCG
1 TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGCTCGAGGTAAGAGATCG
*
83887 AATGGCTGCAATC
66 AACGGCTGCAATC
* * * ** * * * * *
83900 TACTCC-AAGCTTGGGGTAAGAGATCGACTGGTGATGATCTGCCCCAGGCTTGGGGTAAGAGAT
1 TGC-CCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGCTCGAGGTAAGAGAT
83963 TGGATCTTCA
Statistics
Matches: 489, Mismatches: 96, Indels: 48
0.77 0.15 0.08
Matches are distributed among these distances:
75 5 0.01
76 2 0.00
77 19 0.04
78 441 0.90
79 16 0.03
80 2 0.00
81 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (78 bp):
TGCCCTAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCTAGGCTCGAGGTAAGAGATCG
AACGGCTGCAATC
Found at i:83721 original size:156 final size:155
Alignment explanation
Indices: 83286--83962 Score: 549
Period size: 156 Copynumber: 4.3 Consensus size: 155
83276 TGCCCTAAGT
* * ** * * * *
83286 TCGGGGTAAAAGATTGACAAATGGTGATCTGCC-CTAGGCTTCGGGTAAAAGATCGAACGGTTGC
1 TCGGGGTAAGAGATCGACTGATGATGATCTACCTC-AGGCTT-GGGTAAGAGATCGAACGGCTGC
* * * ** * * * *
83350 AATCTACCCTAGGCTCAGGGTAAGAGATCGA--ACGGTTGCAATCTACCCTAGGCTCGCGATAAG
64 AATCTGCCCCAAGCTCAGGGTAAGAGATCGACTAATGATG--ATCTACCCCAGGCTCGAGGTAAG
* * * * *
83413 AGATTG-ACTGG-TGATAATATACCCTAGGC
127 AGATCGAAC-GGCTG-CAATCTACCCCAAGC
* * * *
83442 TCGGGGTAAGAGATCGACTGATGGTGATTTACCTCAGGCTCGGGATAAGAGATCGAATGGCTGCA
1 TCGGGGTAAGAGATCGACTGATGATGATCTACCTCAGGCTTGGG-TAAGAGATCGAACGGCTGCA
* * * * * * *
83507 ATCTGCCCCATGCTCGGGGTAAGAGATTGGCTAGTGATGATCTACCCCAAGCTTGAGGTAAGAGA
65 ATCTGCCCCAAGCTCAGGGTAAGAGATCGACTAATGATGATCTACCCCAGGCTCGAGGTAAGAGA
* *
83572 TCGAACGACTGCAATCTGCCCCAAGC
130 TCGAACGGCTGCAATCTACCCCAAGC
* * * *
83598 TCGGGGTAAGAGATTGGCTGGTGATGATCTACCTCAGGCTTGAGGTAAGAGATCGAACGGTTGCA
1 TCGGGGTAAGAGATCGACTGATGATGATCTACCTCAGGCTTG-GGTAAGAGATCGAACGGCTGCA
* * * *
83663 ATCTGCCTCAAGCTCAGGGTAAGAAATCGACTAATGGTGATCTACCCTAGGCTCGAGGTAA-AGG
65 ATCTGCCCCAAGCTCAGGGTAAGAGATCGACTAATGATGATCTACCCCAGGCTCGAGGTAAGA-G
* * *
83727 ATCGGATGGCTGCAATCTGCCCCAAGC
129 ATCGAACGGCTGCAATCTACCCCAAGC
* * * * ** ** * * * * *
83754 TCAGGGTAAGAGATTGGCTGATGGTGATCTGGCTCA-ATTTCGGGGTAAGAAATTGAATGCCTGT
1 TCGGGGTAAGAGATCGACTGATGATGATCTACCTCAGGCTT--GGGTAAGAGATCGAACGGCTGC
* * ** * * *
83818 AATCTGCCCCAAGTTCAGGGTAAGAGATCGATTGGTGATGATTTGCCCCAGGCTCGGGGTAAGAG
64 AATCTGCCCCAAGCTCAGGGTAAGAGATCGACTAATGATGATCTACCCCAGGCTCGAGGTAAGAG
* *
83883 ATCGAATGGCTGCAATCTACTCCAAGC
129 ATCGAACGGCTGCAATCTACCCCAAGC
* * * *
83910 TTGGGGTAAGAGATCGACTGGTGATGATCTGCCCCAGGCTTGGGGTAAGAGAT
1 TCGGGGTAAGAGATCGACTGATGATGATCTACCTCAGGCTT-GGGTAAGAGAT
83963 TGGATCTTCA
Statistics
Matches: 418, Mismatches: 91, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
155 6 0.01
156 397 0.95
157 11 0.03
158 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (155 bp):
TCGGGGTAAGAGATCGACTGATGATGATCTACCTCAGGCTTGGGTAAGAGATCGAACGGCTGCAA
TCTGCCCCAAGCTCAGGGTAAGAGATCGACTAATGATGATCTACCCCAGGCTCGAGGTAAGAGAT
CGAACGGCTGCAATCTACCCCAAGC
Found at i:88645 original size:17 final size:16
Alignment explanation
Indices: 88623--88661 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
88613 TTTGAATTTT
* *
88623 AATTTATTTTAAGTTTA
1 AATTTATTATAA-ATTA
88640 AATTTATTATAAATTA
1 AATTTATTATAAATTA
88656 AATTTA
1 AATTTA
88662 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
AATTTATTATAAATTA
Found at i:89276 original size:25 final size:26
Alignment explanation
Indices: 89248--89299 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
89238 ATTTCATCTT
89248 TTTGAAATAAATGTTAAATAAA-AAA
1 TTTGAAATAAATGTTAAATAAATAAA
*
89273 TTTGAAATAAGTGTTAAATAAATAAA
1 TTTGAAATAAATGTTAAATAAATAAA
89299 T
1 T
89300 GAGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTGAAATAAATGTTAAATAAATAAA
Found at i:90445 original size:29 final size:29
Alignment explanation
Indices: 90328--90603 Score: 147
Period size: 29 Copynumber: 9.5 Consensus size: 29
90318 TATACTCTCT
* * *
90328 AAAAATCACATTTTGACACTTAAACTTTCC
1 AAAAATTACATTTTAAC-CCTAAACTTTCC
* * * *
90358 AAAAATGACATTTT--TCCTCGAACTTCCC
1 AAAAATTACATTTTAACCCT-AAACTTTCC
* *
90386 AAAAATTATATTTTAACCCTTAAA-TTATTC
1 AAAAATTACATTTTAACCC-TAAACTT-TCC
*
90416 AAAAATTACATTTTAACCCTAAACTTTTC
1 AAAAATTACATTTTAACCCTAAACTTTCC
* * * *
90445 AAAAATCATATTTTTACCCTCGAAC-TTCC
1 AAAAATTACATTTTAACCCT-AAACTTTCC
* ** *
90474 AAAAATTCCATTTTTCCCCCAAAC-TTCC
1 AAAAATTACATTTTAACCCTAAACTTTCC
* * **
90502 CAAAATAACATTTTTTCCCTTAAAC-TTCC
1 AAAAATTACATTTTAACCC-TAAACTTTCC
* ** *
90531 AAAAATTACCATTTTACCCCCGAAC-ATCC
1 AAAAATTA-CATTTTAACCCTAAACTTTCC
* *
90560 AAAAATTACCATTTT-ACCCTCAGA-TGTCC
1 AAAAATTA-CATTTTAACCCT-AAACTTTCC
*
90589 AAAAAATACATTTTA
1 AAAAATTACATTTTA
90604 GTCCCCAATG
Statistics
Matches: 193, Mismatches: 41, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
27 2 0.01
28 50 0.26
29 90 0.47
30 50 0.26
31 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTAAACTTTCC
Found at i:90498 original size:28 final size:29
Alignment explanation
Indices: 90415--90660 Score: 134
Period size: 29 Copynumber: 8.6 Consensus size: 29
90405 TTAAATTATT
** * *
90415 CAAAAATTA-CATTTTAACCCTAAACTTTT
1 CAAAAATTACCATTTTTCCCCCAAAC-TTC
* * * *
90444 CAAAAATCA-TATTTTTACCCTCGAACTTC
1 CAAAAATTACCATTTTT-CCCCCAAACTTC
90473 CAAAAATT-CCATTTTTCCCCCAAACTTC
1 CAAAAATTACCATTTTTCCCCCAAACTTC
* * **
90501 CCAAAA-TAACATTTTTTCCCTTAAACTTC
1 CAAAAATTACCA-TTTTTCCCCCAAACTTC
* * *
90530 CAAAAATTACCATTTTACCCCCGAACATC
1 CAAAAATTACCATTTTTCCCCCAAACTTC
* * *
90559 CAAAAATTACCATTTTACCCTCAGA-TGTC
1 CAAAAATTACCATTTTTCCCCCAAACT-TC
*
90588 CAAAAAATA-CATTTTAGT-CCCC-AA-TGTC
1 CAAAAATTACCATTTT--TCCCCCAAACT-TC
* * * *
90616 TAAAAATTATCGTTTTACCCCCAAAAC-TC
1 CAAAAATTACCATTTTTCCCCC-AAACTTC
*
90645 TAAAAATTACCATTTT
1 CAAAAATTACCATTTT
90661 ACCCTAAGCA
Statistics
Matches: 167, Mismatches: 37, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 39 0.23
29 116 0.69
30 11 0.07
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (29 bp):
CAAAAATTACCATTTTTCCCCCAAACTTC
Found at i:90591 original size:86 final size:87
Alignment explanation
Indices: 90456--90665 Score: 209
Period size: 86 Copynumber: 2.4 Consensus size: 87
90446 AAAATCATAT
* * * * * *
90456 TTTTACCCTCGAACTTCCAAAAATT-CCATTTTTCCCCCAAACTTCCCAAAATA-ACATTTT-TT
1 TTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCAAACTTCCCAAAAAATACATTTTAGT
90518 CCCTTAAACT-TCCAAAAATTACCA
66 CCC--AAA-TGTCCAAAAATTACCA
*
90542 TTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCAGA-TGT-CCAAAAAATACATTTTAG
1 TTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCAAACT-TCCCAAAAAATACATTTTAG
* * * *
90605 TCCCCAATGTCTAAAAATTATCG
65 TCCCAAATGTCCAAAAATTACCA
* *
90628 TTTTACCCCC-AAAACTCTAAAAATTACCATTTTACCCT
1 TTTTACCCCCGAACA-TCCAAAAATTACCATTTTACCCT
90666 AAGCATCCAG
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
85 4 0.04
86 76 0.72
87 21 0.20
88 4 0.04
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (87 bp):
TTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCAAACTTCCCAAAAAATACATTTTAGT
CCCAAATGTCCAAAAATTACCA
Found at i:94872 original size:10 final size:10
Alignment explanation
Indices: 94857--94917 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
94847 CGATGTGTTT
94857 AAAAAAAACA
1 AAAAAAAACA
94867 AAAAAACGAA-A
1 AAAAAA--AACA
* *
94878 AAAAAGAAGA
1 AAAAAAAACA
*
94888 AAAAAAAAGA
1 AAAAAAAACA
94898 AAAACAAAACA
1 AAAA-AAAACA
94909 AATAAAAAA
1 AA-AAAAAA
94918 GGGAGTCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
9 2 0.05
10 20 0.47
11 17 0.40
12 4 0.09
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:94915 original size:22 final size:22
Alignment explanation
Indices: 94857--94918 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
94847 CGATGTGTTT
*
94857 AAAAAA-AAC-AAAAAAACGAA
1 AAAAAAGAACAAAAAAAAAGAA
*
94877 AAAAAAGAAGAAAAAAAAAGAA
1 AAAAAAGAACAAAAAAAAAGAA
*
94899 AAACAA-AACAAATAAAAAAG
1 AAAAAAGAACAAA-AAAAAAG
94919 GGAGTCAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.17
21 7 0.20
22 22 0.63
ACGTcount: A:0.84, C:0.06, G:0.08, T:0.02
Consensus pattern (22 bp):
AAAAAAGAACAAAAAAAAAGAA
Found at i:94997 original size:14 final size:15
Alignment explanation
Indices: 94969--95001 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
94959 ATGGCAAAAA
94969 AAAAAAAAGAAAAAGG
1 AAAAAAAAG-AAAAGG
94985 AAAAAAAAG-AAAGG
1 AAAAAAAAGAAAAGG
94999 AAA
1 AAA
95002 GTCAAGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAGG
Found at i:95031 original size:80 final size:82
Alignment explanation
Indices: 94887--95036 Score: 175
Period size: 80 Copynumber: 1.9 Consensus size: 82
94877 AAAAAAGAAG
* * *
94887 AAAAAAAAAGAAAAACAAAACAAATAAAAAAGGGAGTCAAGATAAAAACCTGCCAAAGATATCTT
1 AAAAAAAAAGAAAAACAAAACAAATAAAAAAGGAAGTCAAGACAAAAACCTGCCAAAGACATCTT
94952 -AAAACCCATGGCAAAA
66 GAAAACCCATGGCAAAA
** * *
94968 AAAAAAAAAGAAAAAGGAAA-AAA-AAGAAAGGAAAGTCAAGACAAAAA-CT-CACAAAGGGCAT
1 AAAAAAAAAGAAAAACAAAACAAATAAAAAAGG-AAGTCAAGACAAAAACCTGC-CAAA-GACAT
95029 CTTGAAAA
63 CTTGAAAA
95037 TTTATTCTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
78 1 0.02
79 13 0.22
80 22 0.38
81 22 0.38
ACGTcount: A:0.63, C:0.13, G:0.15, T:0.09
Consensus pattern (82 bp):
AAAAAAAAAGAAAAACAAAACAAATAAAAAAGGAAGTCAAGACAAAAACCTGCCAAAGACATCTT
GAAAACCCATGGCAAAA
Found at i:95912 original size:13 final size:13
Alignment explanation
Indices: 95871--95953 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 13
95861 AAAAAAAGAG
95871 AGAAAGAAAAGAATA
1 AGAAAGAAAA-AA-A
*
95886 AAAAAGAATTAAAAA
1 AGAAAGAA--AAAAA
95901 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
*
95914 GGAAAGGAAAAAAGA
1 AGAAA-GAAAAAA-A
95929 A-AAAGGAAAAAGAA
1 AGAAA-GAAAAA-AA
*
95943 A-ATAGAAAAAA
1 AGAAAGAAAAAA
95954 GGAGAAAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
12 1 0.02
13 15 0.26
14 21 0.36
15 17 0.29
16 2 0.03
17 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (13 bp):
AGAAAGAAAAAAA
Found at i:95938 original size:25 final size:25
Alignment explanation
Indices: 95873--95943 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
95863 AAAAAGAGAG
**
95873 AAAGAAAAGAATAAAAAAG-AATTAAA
1 AAAG-AAAGAA-AAAAAAGAAAGGAAA
*
95899 AAAGAAAGAAAAAAAGGAAAGGAAA
1 AAAGAAAGAAAAAAAAGAAAGGAAA
*
95924 AAAGAAA-AAGGAAAAAGAAA
1 AAAGAAAGAA-AAAAAAGAAA
95944 ATAGAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 8 0.21
25 26 0.68
26 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAAAAAAGAAAGGAAA
Found at i:95952 original size:14 final size:13
Alignment explanation
Indices: 95896--95954 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
95886 AAAAAGAATT
*
95896 AAAAAAGAAAGA-
1 AAAAAAGAAAAAG
* *
95908 AAAAAAGGAAAGG
1 AAAAAAGAAAAAG
95921 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
*
95934 GAAAAAGAAAATAG
1 AAAAAAGAAAA-AG
95948 AAAAAAG
1 AAAAAAG
95955 GAGAAAAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 9 0.24
13 21 0.55
14 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:97653 original size:85 final size:85
Alignment explanation
Indices: 97494--97763 Score: 342
Period size: 85 Copynumber: 3.2 Consensus size: 85
97484 GCCTCTTGAT
* * * * *
97494 GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGGAGTGA
1 GAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCCTGATGAGATACAAAGAAGTAA
97559 ACCAAATCCAACTTCCTGAG
66 ACCAAATCCAACTTCCTGAG
* *
97579 GAGATACTGAGAAGCAGGTCGAAGTAATAAAGTGGTTACCTTCCTGATAAGATACAAAGAAGTAA
1 GAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCCTGATGAGATACAAAGAAGTAA
* * * *
97644 ACTAGATCCAGCTTCCTGAT
66 ACCAAATCCAACTTCCTGAG
* ** * **
97664 GAGATACTAAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTAATGAGATACAAAGAAGTGG
1 GAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCCTGATGAGATACAAAGAAGTAA
*** *
97729 ACCAAATCTGTCTTCCTGAT
66 ACCAAATCCAACTTCCTGAG
*
97749 GAGATACAGAGAAGC
1 GAGATACTGAGAAGC
97764 GAATTAAAAC
Statistics
Matches: 159, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 159 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (85 bp):
GAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCCTGATGAGATACAAAGAAGTAA
ACCAAATCCAACTTCCTGAG
Found at i:97924 original size:208 final size:207
Alignment explanation
Indices: 97651--98357 Score: 825
Period size: 208 Copynumber: 3.4 Consensus size: 207
97641 TAAACTAGAT
* * *
97651 CCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTAATGAGA
1 CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTCGTCTTCTTAATGAGA
* **
97716 TACAAAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGAT
66 TACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGAT
* * *
97781 ACGGTCATCTTCTTGATGAGATATTGAGAAGTAGACCAATCAATGAAACAAGGCTCAATGTGAGC
131 ACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAATCAATGAAACAAAGCTCAATGTGAGC
97846 AAAACTTCGAAC
196 AAAACTTCGAAC
* * * * *
97858 CTCAGCTTGCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGCGGTCGTCTTCTTGATGAG
1 C-CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTCGTCTTCTTAATGAG
* * *
97923 ATGCAGAGAAGTAGACCAAATCCATCTTCCTGATGAGATACAGAGAAACGAATTAAAACAAGTGA
65 ATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGA
* * * *
97988 TGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACTAAATCATTGAAATAAAGCTCAATGTGA
130 TACGGTCATCTTCCTGATGAGATACTGAGAAGTAGAC-CAATCAATGAAACAAAGCTCAATGTGA
* *
98053 GCGAAACTTAGAAAACC
194 GCAAAACTTCG--AA-C
* * * * *
98070 CCAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGAGGTTGTCTTCTTGATGAGA
1 CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTCGTCTTCTTAATGAGA
* * * ** * * *
98135 TATAGAGAAGTGAACCAAATCCATCTT--T--T-TGATTTAGTGAAGCGGATCAAAACAAGT-AT
66 TACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGAT
* * * ** *
98194 TCGGTTATCTTCCTGATGAGATACTGAGAGGTAGACCAAATCAATGAAACCAAAGCTCGTTGTAA
131 ACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC-AATCAATGAAA-CAAAGCTCAATGTGA
98259 GCAAAACTTCGAAC
194 GCAAAACTTCGAAC
* * * * * **
98273 CCTAGCTTCCTGATAAGGTACTGAGAAGC-GTGTTGAAGTAATAAAATTATCGTCTTCTTAATGA
1 CC-AGCTTCCTGATGAGATACTGAGAAGCAG-GTCGAAGCAATAAAGTGGTCGTCTTCTTAATGA
* *
98337 GATACAGAGAAGCGGATCAAA
64 GATACAGAGAAGTGGACCAAA
98358 ACAAGTGATG
Statistics
Matches: 423, Mismatches: 68, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
203 4 0.01
204 66 0.16
205 45 0.11
206 41 0.10
207 2 0.00
208 148 0.35
209 33 0.08
211 82 0.19
212 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (207 bp):
CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTCGTCTTCTTAATGAGA
TACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGAT
ACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAATCAATGAAACAAAGCTCAATGTGAGC
AAAACTTCGAAC
Found at i:98475 original size:173 final size:172
Alignment explanation
Indices: 98173--98530 Score: 500
Period size: 173 Copynumber: 2.1 Consensus size: 172
98163 TTGATTTAGT
* * * * *
98173 GAAGCGGATCAAAACAAGTATTCGGTTATCTTCCTGATGAGATACTGAGAGGTAGACCAAATCAA
1 GAAGCGGATCAAAACAAGTATGCGGTCATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCAA
* * *
98238 TGAAACCAAAGCTCGTTGTAAGCAAAACTTCGAACCCTAGCTTCCTGATAAGGTACTGAGAAGCG
66 TGAAACCAAAGCTCGATGTAAGCAAAACTTCGAACCCTAGCTTCCTGATAAGATACTAAGAAGCG
* * * * * * *
98303 TGTTGAAGTAATAAAATTATCGTCTTCTTAATGAGATACAGA
131 GGTCGAAGCAACAAAATGATCGTATTCCTAATGAGATACAGA
98345 GAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCA
1 GAAGCGGATCAAAACAAGT-ATGCGGTCATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCA
* * * *
98410 ATGAAACCGAAGCTCGATGTGAGCGAAACTTCGAACCCTAGCTTCCTGATGAGATACTAAGAAGC
65 ATGAAACCAAAGCTCGATGTAAGCAAAACTTCGAACCCTAGCTTCCTGATAAGATACTAAGAAGC
* *
98475 GGGTCGAAGCAACAAAATGGTCGTATTCCTGATGAGATACAGA
130 GGGTCGAAGCAACAAAATGATCGTATTCCTAATGAGATACAGA
* *
98518 GAAGTGGACCAAA
1 GAAGCGGATCAAA
98531 TTCGTCTTCT
Statistics
Matches: 162, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
172 19 0.12
173 143 0.88
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (172 bp):
GAAGCGGATCAAAACAAGTATGCGGTCATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCAA
TGAAACCAAAGCTCGATGTAAGCAAAACTTCGAACCCTAGCTTCCTGATAAGATACTAAGAAGCG
GGTCGAAGCAACAAAATGATCGTATTCCTAATGAGATACAGA
Found at i:98727 original size:208 final size:210
Alignment explanation
Indices: 98322--98735 Score: 600
Period size: 208 Copynumber: 2.0 Consensus size: 210
98312 AATAAAATTA
*
98322 TCGTCTTCTTAATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCTGATAAG
1 TCGTCTTCTTAATGAGATACAGAGAAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATAAG
* * * * *
98387 ATACTAAGAAGTAGACCAAATCAATGAAACCGAAGCTCGATGTGAGCGAAACTTCGAACCCTAGC
66 ATACAAAGAAATAGACCAAATCAATGAAACCAAAGCTCAATGAGAGCGAAACTTCGAACCCTAGC
** *** *
98452 TTCCTGATGAGATACTAAGAAGCGGGTCGAAGCAACAAAATGGTCGTATTCCTGATGAGATACAG
131 TTCCTGATGAGATACTAAGAAGCAAGTCGAAGCAACAAAACAATCATATTCCTGATGAGATACAG
*
98517 AGAAGTGGACCAAAT
196 AGAAGTAGACCAAAT
* * * * *
98532 TCGTCTTCTTGATGAGATACGGGGAAGCGGATCAAAACAAATGATGTGGTCATCTTCCTGATGAG
1 TCGTCTTCTTAATGAGATACAGAGAAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATAAG
*
98597 ATACAAAGAAATATACCAAATCAATGAAA-CAAAGCTCAAT-AGAGCGAAACTTCGAACCCTAGC
66 ATACAAAGAAATAGACCAAATCAATGAAACCAAAGCTCAATGAGAGCGAAACTTCGAACCCTAGC
* * *
98660 TTCCTGATGAGATAC-AGAGAAGCAAGTCGAAGCAATAAAGCAATCATCTTCCTGATGAGATACA
131 TTCCTGATGAGATACTA-AGAAGCAAGTCGAAGCAACAAAACAATCATATTCCTGATGAGATACA
98724 GAGAAGTAGACC
195 GAGAAGTAGACC
98736 GAGAGATGAA
Statistics
Matches: 181, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
207 1 0.01
208 86 0.48
209 9 0.05
210 85 0.47
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (210 bp):
TCGTCTTCTTAATGAGATACAGAGAAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATAAG
ATACAAAGAAATAGACCAAATCAATGAAACCAAAGCTCAATGAGAGCGAAACTTCGAACCCTAGC
TTCCTGATGAGATACTAAGAAGCAAGTCGAAGCAACAAAACAATCATATTCCTGATGAGATACAG
AGAAGTAGACCAAAT
Found at i:99125 original size:17 final size:17
Alignment explanation
Indices: 99105--99166 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
99095 CCAATTTTAA
99105 ATTTTGAATTTGAATTT
1 ATTTTGAATTTGAATTT
* *
99122 A-TTTCAAGTTTAAATTT
1 ATTTTGAA-TTTGAATTT
*
99139 ATTTTGAGTTTGAATTT
1 ATTTTGAATTTGAATTT
*
99156 ATTTTAAATTT
1 ATTTTGAATTT
99167 TAAAAAGTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (17 bp):
ATTTTGAATTTGAATTT
Found at i:99660 original size:18 final size:19
Alignment explanation
Indices: 99621--99660 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
99611 CCATCAGTCT
*
99621 TTTA-AGGTATAGCATTTA
1 TTTATAGGTATAGCATATA
99639 -TTATAGGTATA-CATATA
1 TTTATAGGTATAGCATATA
99656 TTTAT
1 TTTAT
99661 TTGTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTATAGGTATAGCATATA
Found at i:99783 original size:25 final size:25
Alignment explanation
Indices: 99755--99804 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99745 ATTTCATCTT
99755 TTTGAAATAAATGTTAAATAAATAA
1 TTTGAAATAAATGTTAAATAAATAA
*
99780 TTTGAAATAAGTGTTAAATAAATAA
1 TTTGAAATAAATGTTAAATAAATAA
99805 ATGAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (25 bp):
TTTGAAATAAATGTTAAATAAATAA
Found at i:100745 original size:30 final size:30
Alignment explanation
Indices: 100703--101074 Score: 272
Period size: 29 Copynumber: 12.7 Consensus size: 30
100693 TTAACCCATG
*
100703 AACTTT-CAAAAATTACATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* *
100732 AACTTTCCAAAAATTATATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * * *
100762 AACTTTTCAAAAATTATATTTTGA-CCACA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* *
100791 AACTTTTCAAAAATTACATTTTAACCAC-CA
1 AACTTTCCAAAAATTACATTTTTACC-CTCA
* ** * * *
100821 AATTTTTGAAAAATCACAATTTTGCCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * * *
100851 AAC-TTCCAAAAATTCCAATTTTGCCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* *
100880 AAC-TTCCAAAAATCACATTTTTTCCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
*
100909 AAC-TTCC-AAAACTACATTTTTGACCC-CA
1 AACTTTCCAAAAATTACATTTTT-ACCCTCA
*
100937 AACTTTCCAAAAATTACCA-TTTTACCCCCA
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
* * *
100967 AACATT-CAAAAATTACCA--TTTACTCTCG
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
* * * *
100995 AA-TGTCTAAAAATTACATTTTTACCAT-T
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
101023 AAGTGTCCAAAAATTAC-TGTTTTACCCTCG
1 AACTTTCCAAAAATTACAT-TTTTACCCTCA
*
101053 AAC-CTCCAAAAATTACCATTTT
1 AACTTTCCAAAAATTA-CATTTT
101075 ACCTCGAGCA
Statistics
Matches: 282, Mismatches: 44, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.01
28 37 0.13
29 146 0.52
30 92 0.33
31 4 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTTACCCTCA
Found at i:101100 original size:86 final size:86
Alignment explanation
Indices: 100942--101102 Score: 189
Period size: 86 Copynumber: 1.9 Consensus size: 86
100932 CCCCAAACTT
* ** *
100942 TCCAAAAATTACCATTTTACCCCCAAACATTCAAAAATTACCATTTACTCTCGAATGTCTAAAAA
1 TCCAAAAATTACCATTTTACCCCCAAACATCCAAAAATTACCATTTACTCTCGAACATCCAAAAA
*
101007 TTACATTTTTACCATTAAGTG
66 TCACATTTTTACCATTAAGTG
** * * * * *
101028 TCCAAAAATTACTGTTTTACCCTCGAACCTCCAAAAATTACCATTTTAC-CTCGAGCATCCAAAC
1 TCCAAAAATTACCATTTTACCCCCAAACATCCAAAAATTACCA-TTTACTCTCGAACATCCAAAA
*
101092 ATCGCATTTTT
65 ATCACATTTTT
101103 GGCTCTGTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
86 56 0.92
87 5 0.08
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (86 bp):
TCCAAAAATTACCATTTTACCCCCAAACATCCAAAAATTACCATTTACTCTCGAACATCCAAAAA
TCACATTTTTACCATTAAGTG
Found at i:105517 original size:28 final size:28
Alignment explanation
Indices: 105463--105671 Score: 138
Period size: 29 Copynumber: 7.2 Consensus size: 28
105453 TGATTTTTAA
*
105463 AAGTTCGAGGGTAAAAATGT-ATGTTTTGG
1 AAGTTCG-GGGAAAAAATGTAAT-TTTTGG
* *
105492 AAGTTTGGGGAAAAAATGGAATTTTTGAG
1 AAGTTCGGGGAAAAAATGTAATTTTTG-G
* ** *
105521 AAGTTTGGGGGACAAAAACATAAGTTTTGG
1 AAG-TTCGGGGA-AAAAATGTAATTTTTGG
* **
105551 AAGTTCGAGAGAAAAAA--TAATTTTTTA
1 AAGTTCG-GGGAAAAAATGTAATTTTTGG
* *
105578 AAGTTCGAGGGTAAAAATGTAATTTTTAG
1 AAGTTCG-GGGAAAAAATGTAATTTTTGG
105607 AAGTTCAGGGG-AAAAATGTAATTTTTGAG
1 AAGTTC-GGGGAAAAAATGTAATTTTTG-G
* * * *
105636 GACTTCAAGGGGTAAAAATATAATTTTTGAG
1 AAGTTC--GGGGAAAAAATGTAATTTTTG-G
105667 AAGTT
1 AAGTT
105672 TAGGGCTCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
27 22 0.15
28 30 0.21
29 42 0.29
30 20 0.14
31 32 0.22
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (28 bp):
AAGTTCGGGGAAAAAATGTAATTTTTGG
Found at i:105554 original size:30 final size:28
Alignment explanation
Indices: 105485--105555 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
105475 AAAAATGTAT
**
105485 GTTTTGGAAGTTTGGGGAAAAAATGGAA
1 GTTTTGGAAGTTTGGGGAAAAAACAGAA
* *
105513 TTTTTGAGAAGTTTGGGGGACAAAAACATAA
1 GTTTTG-GAAGTTT-GGGGA-AAAAACAGAA
105544 GTTTTGGAAGTT
1 GTTTTGGAAGTT
105556 CGAGAGAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.14
29 7 0.20
30 11 0.31
31 12 0.34
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (28 bp):
GTTTTGGAAGTTTGGGGAAAAAACAGAA
Found at i:105570 original size:27 final size:27
Alignment explanation
Indices: 105534--105595 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
105524 TTTGGGGGAC
*
105534 AAAAACATAAGTTTTGGAAGTTCGAGAG
1 AAAAA-ATAAGTTTTGAAAGTTCGAGAG
* * *
105562 AAAAAATAATTTTTTAAAGTTCGAGGG
1 AAAAAATAAGTTTTGAAAGTTCGAGAG
*
105589 TAAAAAT
1 AAAAAAT
105596 GTAATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (27 bp):
AAAAAATAAGTTTTGAAAGTTCGAGAG
Found at i:105653 original size:31 final size:30
Alignment explanation
Indices: 105586--105692 Score: 121
Period size: 31 Copynumber: 3.6 Consensus size: 30
105576 TAAAGTTCGA
*
105586 GGGTAAAAATGTAATTTTT-AGAAGTTCAG
1 GGGTAAAAATGTAATTTTTGAGAACTTCAG
*
105615 GGG-AAAAATGTAATTTTTGAGGACTTCAAG
1 GGGTAAAAATGTAATTTTTGAGAACTTC-AG
* * *
105645 GGGTAAAAATATAATTTTTGAGAAGTTTAG
1 GGGTAAAAATGTAATTTTTGAGAACTTCAG
*
105675 GGCTCAAAAA-GTAATTTT
1 GGGT-AAAAATGTAATTTT
105693 GGAAAAGTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
28 15 0.23
29 9 0.14
30 17 0.26
31 25 0.38
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGTAAAAATGTAATTTTTGAGAACTTCAG
Found at i:105653 original size:115 final size:116
Alignment explanation
Indices: 105455--105671 Score: 280
Period size: 115 Copynumber: 1.9 Consensus size: 116
105445 TAAAAACTTG
* *
105455 ATTTTTAAAAGTTCGAGGGTAAAAATGTATGTTTTGGAAGTTTGGGGAAAAAATGGAATTTTTGA
1 ATTTTTAAAAGTTCGAGGGTAAAAATGTATGTTTTAGAAGTTAGGGGAAAAAATGGAATTTTTGA
* **
105520 GAAGTTTGGGGGACAAAAACATAAGTTTTG-GAAGTTCGAGAGAAAAAATA
66 GAACTTAAGGGGACAAAAACATAAGTTTTGAGAAGTTCGAGAGAAAAAATA
* *
105570 ATTTTTTAAAGTTCGAGGGTAAAAATGTAAT-TTTTAGAAGTTCAGGGG-AAAAATGTAATTTTT
1 ATTTTTAAAAGTTCGAGGGTAAAAATGT-ATGTTTTAGAAGTT-AGGGGAAAAAATGGAATTTTT
* * * *
105633 GAGGACTTCAAGGGG-TAAAAATATAATTTTTGAGAAGTT
64 GAGAACTT-AAGGGGACAAAAACATAAGTTTTGAGAAGTT
105672 TAGGGCTCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
115 71 0.82
116 16 0.18
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (116 bp):
ATTTTTAAAAGTTCGAGGGTAAAAATGTATGTTTTAGAAGTTAGGGGAAAAAATGGAATTTTTGA
GAACTTAAGGGGACAAAAACATAAGTTTTGAGAAGTTCGAGAGAAAAAATA
Found at i:105692 original size:30 final size:31
Alignment explanation
Indices: 105471--105711 Score: 131
Period size: 30 Copynumber: 8.2 Consensus size: 31
105461 AAAAGTTCGA
105471 GGGT-AAAAATGT-ATGTTTTG-GAAGTTT-G
1 GGGTCAAAAATGTAAT-TTTTGAGAAGTTTAG
* * *
105499 GGG-AAAAAATGGAATTTTTGAGAAGTTTGG
1 GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
* ** * *
105529 GGGACAAAAACATAAGTTTTG-GAAG-TTCG
1 GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
* * * *
105558 AGAG--AAAAA-ATAATTTTTTA-AAG-TTCG
1 -GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
*
105585 AGGGT-AAAAATGTAATTTTT-AGAAGTTCAG
1 -GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
* * *
105615 GGG--AAAAATGTAATTTTTGAGGACTTCAAG
1 GGGTCAAAAATGTAATTTTTGAGAAGTT-TAG
*
105645 GGGT-AAAAATATAATTTTTGAGAAGTTTAG
1 GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
* * * *
105675 GGCTCAAAAA-GTAATTTTGGAAAAGTTTTG
1 GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
105705 GGGTCAA
1 GGGTCAA
105712 CATGATTTCT
Statistics
Matches: 171, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
27 18 0.11
28 41 0.24
29 31 0.18
30 44 0.26
31 37 0.22
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (31 bp):
GGGTCAAAAATGTAATTTTTGAGAAGTTTAG
Found at i:107398 original size:6 final size:6
Alignment explanation
Indices: 107387--107463 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
107377 TAGATTTGAA
* * *
107387 TAAATT TAAATT TAAA-- TAATTT TAAATT TAAA-G TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
107432 TAAAAT T-AATT TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
107464 CCAAAAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 12 0.21
6 42 0.74
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:107399 original size:16 final size:16
Alignment explanation
Indices: 107375--107463 Score: 106
Period size: 17 Copynumber: 5.4 Consensus size: 16
107365 CATCATTTAT
* *
107375 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
107391 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
107407 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
* *
107424 TTTAAACTTAAAATTAA
1 TTTAAA-TTTAAATAAA
107441 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
107458 TTTAAA
1 TTTAAA
107464 CCAAAAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
16 27 0.44
17 30 0.48
18 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:107425 original size:11 final size:11
Alignment explanation
Indices: 107387--107463 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
107377 TAGATTTGAA
107387 TAAATTTAAATT
1 TAAATTTAAA-T
*
107399 TAAA--TAATTT
1 TAAATTTAA-AT
*
107409 TAAATTTAAAG
1 TAAATTTAAAT
107420 TAAATTTAAACT
1 TAAATTTAAA-T
* *
107432 TAAAATTAATT
1 TAAATTTAAAT
*
107443 TAAATTTAAAA
1 TAAATTTAAAT
107454 TAAATTTAAA
1 TAAATTTAAA
107464 CCAAAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.15
11 29 0.56
12 15 0.29
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:107429 original size:17 final size:17
Alignment explanation
Indices: 107385--107463 Score: 115
Period size: 17 Copynumber: 4.7 Consensus size: 17
107375 TTTAGATTTG
107385 AATAAATTTAAATTT-A
1 AATAAATTTAAATTTAA
*
107401 AATAATTTTAAATTTAA
1 AATAAATTTAAATTTAA
* *
107418 AGTAAATTTAAACTTAA
1 AATAAATTTAAATTTAA
*
107435 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
107452 AATAAATTTAAA
1 AATAAATTTAAA
107464 CCAAAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
16 14 0.26
17 40 0.74
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:107440 original size:23 final size:23
Alignment explanation
Indices: 107408--107452 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
107398 TTAAATAATT
*
107408 TTAAATTTAAAGTAAATTTAAAC
1 TTAAAATTAAAGTAAATTTAAAC
**
107431 TTAAAATTAATTTAAATTTAAA
1 TTAAAATTAAAGTAAATTTAAA
107453 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTAAAATTAAAGTAAATTTAAAC
Found at i:107470 original size:17 final size:17
Alignment explanation
Indices: 107385--107480 Score: 104
Period size: 17 Copynumber: 5.7 Consensus size: 17
107375 TTTAGATTTG
*
107385 AATAAATTTAAA-TTTA
1 AATAAATTTAAACTTAA
* *
107401 AATAATTTTAAATTTAA
1 AATAAATTTAAACTTAA
*
107418 AGTAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
* *
107435 AATTAATTTAAATTTAA
1 AATAAATTTAAACTTAA
**
107452 AATAAATTTAAACCAAA
1 AATAAATTTAAACTTAA
*
107469 AAAAAATTTAAA
1 AATAAATTTAAA
107481 AAATGAGTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
16 11 0.17
17 55 0.83
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:116325 original size:29 final size:29
Alignment explanation
Indices: 116292--116353 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
116282 TTCTTAACAA
* *
116292 AGATCACTACAAAGGCATTTCCTTCATAG
1 AGATCACCACAAAGGCATTTCCTTAATAG
* **
116321 AGATCACCATAAAGGTGTTTCCTTAATAG
1 AGATCACCACAAAGGCATTTCCTTAATAG
116350 AGAT
1 AGAT
116354 TATAACAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (29 bp):
AGATCACCACAAAGGCATTTCCTTAATAG
Found at i:118576 original size:24 final size:24
Alignment explanation
Indices: 118542--118587 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
118532 TCGGTAGTTG
118542 CATAGTAAGTATCGATAGATCTGCT
1 CATAGTAAGTATCGATAG-TCTGCT
*
118567 CATAG-AAGTATCGGTAGTCTG
1 CATAGTAAGTATCGATAGTCTG
118588 GGTACTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (24 bp):
CATAGTAAGTATCGATAGTCTGCT
Found at i:119072 original size:53 final size:53
Alignment explanation
Indices: 118986--119116 Score: 190
Period size: 53 Copynumber: 2.5 Consensus size: 53
118976 TTAGGTGTTA
* * *
118986 CACCAACTATGGTCTTACATGATATAGTCTTCTTTCCATATGATGCCATAACC
1 CACCAACTATGGTCTTACACGATATAATATTCTTTCCATATGATGCCATAACC
* *
119039 CACCAGCTATAGTCTTACACGATATAATATTCTTTCCATATGATGCCATAACC
1 CACCAACTATGGTCTTACACGATATAATATTCTTTCCATATGATGCCATAACC
* * *
119092 CAACATCTATGGTCTTAGACGATAT
1 CACCAACTATGGTCTTACACGATAT
119117 GGTTTTCTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 69 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
CACCAACTATGGTCTTACACGATATAATATTCTTTCCATATGATGCCATAACC
Found at i:120299 original size:12 final size:12
Alignment explanation
Indices: 120282--120306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
120272 GCTAAAAAGG
120282 ACTTGAAGAACA
1 ACTTGAAGAACA
120294 ACTTGAAGAACA
1 ACTTGAAGAACA
120306 A
1 A
120307 ATCTAAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
ACTTGAAGAACA
Found at i:134680 original size:31 final size:31
Alignment explanation
Indices: 134644--134703 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
134634 CAATTTAAAC
134644 ACTAAATTGGGAAGAAAATCTATGTCATTGT
1 ACTAAATTGGGAAGAAAATCTATGTCATTGT
134675 ACTAAATTGGGAAGAAAATCTATGTCATT
1 ACTAAATTGGGAAGAAAATCTATGTCATT
134704 TGTAATACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTAAATTGGGAAGAAAATCTATGTCATTGT
Found at i:142215 original size:10 final size:9
Alignment explanation
Indices: 142189--142213 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
142179 AATTAATTTA
142189 TTAAAAATT
1 TTAAAAATT
142198 TTAAAAATT
1 TTAAAAATT
142207 TTAAAAA
1 TTAAAAA
142214 ATAAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAAAAATT
Found at i:142226 original size:19 final size:18
Alignment explanation
Indices: 142200--142259 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
142190 TAAAAATTTT
142200 AAAA-ATTTTAAAAAATA
1 AAAATATTTTAAAAAATA
*
142217 AAAACTATTTTTAAAAATTA
1 AAAA-TA-TTTTAAAAAATA
*
142237 AAAATA-TATAAAAATATA
1 AAAATATTTTAAAAA-ATA
142255 AAAAT
1 AAAAT
142260 TTAATTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 11 0.31
18 7 0.19
19 3 0.08
20 15 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATTTTAAAAAATA
Found at i:142256 original size:38 final size:38
Alignment explanation
Indices: 142182--142280 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 38
142172 TGCATTTAAT
*
142182 TAATTTATTAAAAATTTTAAAAATTTTAAAAAATAAAAA-C
1 TAATTT-TTAAAAA--TTAAAAATTATAAAAAATAAAAATC
*
142222 T-ATTTTTAAAAATTAAAAATATATAAAAATATAAAAATT
1 TAATTTTTAAAAATTAAAAAT-TATAAAAA-ATAAAAATC
*
142261 TAATTTTTAAAATTTAAAAA
1 TAATTTTTAAAAATTAAAAA
142281 ATTAATTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
36 8 0.15
37 7 0.13
38 14 0.27
39 5 0.10
40 18 0.35
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (38 bp):
TAATTTTTAAAAATTAAAAATTATAAAAAATAAAAATC
Found at i:142463 original size:100 final size:99
Alignment explanation
Indices: 142288--142489 Score: 386
Period size: 100 Copynumber: 2.0 Consensus size: 99
142278 AAAATTAATT
142288 AAATGTTTATGTGTCATCTATGTGGCAATTCACATGTACATCACGTCAGCAAAGTTAACAAACAT
1 AAATGTTTATGTGTCATCTATGTGGCAATTCACATGTACATCACGTCAGCAAAGTTAACAAACAT
142353 TAATTTTTCGATCCATTTTGATGTGATTTGACAA
66 TAATTTTTCGATCCATTTTGATGTGATTTGACAA
*
142387 AANATGTTTATGTGTCATCTATGTGGCAATTTACATGTACATCACGTCAGCAAAGTTAACAAACA
1 AA-ATGTTTATGTGTCATCTATGTGGCAATTCACATGTACATCACGTCAGCAAAGTTAACAAACA
142452 TTAATTTTTCGATCCATTTTGATGTGATTTGACAA
65 TTAATTTTTCGATCCATTTTGATGTGATTTGACAA
142487 AAA
1 AAA
142490 AATATAGGTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
99 3 0.03
100 98 0.97
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (99 bp):
AAATGTTTATGTGTCATCTATGTGGCAATTCACATGTACATCACGTCAGCAAAGTTAACAAACAT
TAATTTTTCGATCCATTTTGATGTGATTTGACAA
Found at i:145089 original size:14 final size:13
Alignment explanation
Indices: 145048--145090 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
145038 ATGTTATTTT
*
145048 GGTTTTGGTTTAT
1 GGTTTTGGTTTAG
145061 GGTTTTGGAGTTTAG
1 GGTTTT-G-GTTTAG
145076 GGATTTTGGTTTAG
1 GG-TTTTGGTTTAG
145090 G
1 G
145091 ATTGTCGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.23
14 8 0.31
15 8 0.31
16 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (13 bp):
GGTTTTGGTTTAG
Found at i:145174 original size:29 final size:30
Alignment explanation
Indices: 145111--145174 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
145101 TTGGAGATCC
*
145111 TAGTTTAAGGTTTTCAATTTTGGGGATTTT
1 TAGTTTAAGGTTTTCAATTTTGAGGATTTT
**
145141 T-GTTTAAGGTTTTTTA-TTTGAGG-TTTT
1 TAGTTTAAGGTTTTCAATTTTGAGGATTTT
145168 TAAGTTT
1 T-AGTTT
145175 TGGGATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 17 0.59
30 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.22, T:0.58
Consensus pattern (30 bp):
TAGTTTAAGGTTTTCAATTTTGAGGATTTT
Found at i:145204 original size:29 final size:29
Alignment explanation
Indices: 145162--145225 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
145152 TTTTATTTGA
* * * * *
145162 GGTTTTTAAGTTTTGGGATTTTTGTTTAG
1 GGTTTTAAAATTTTGAGATATTAGTTTAG
145191 GGTTTTAAAATTTTGAGATATTAGTTTAG
1 GGTTTTAAAATTTTGAGATATTAGTTTAG
145220 GGTTTT
1 GGTTTT
145226 CGATTTGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (29 bp):
GGTTTTAAAATTTTGAGATATTAGTTTAG
Found at i:148474 original size:30 final size:30
Alignment explanation
Indices: 148428--148653 Score: 255
Period size: 30 Copynumber: 7.6 Consensus size: 30
148418 TTTGGGGGGC
*
148428 AAAATGGTAATATTTGGAAGTTTCGAGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGAGGTCA
* * *
148459 AAAATAGAATTTTTGGAAGTTTCAAGGTTAA
1 AAAATGGAATTTTTGGAAGTTTCGAGG-TCA
*
148490 AAAATAGAATTTTTGGAAGTTTC-AGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGA-GGTCA
* ** * *
148519 AAAATGAAATTTTTTAAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTCA
*
148549 AAAATGGAATTTTTGG-AGGTTCGAGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGA-GGTCA
* *
148578 AAAATGG-ATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTCA
*
148607 AAAATGGAATTTTTGGAAGTTTCGAGGTCG
1 AAAATGGAATTTTTGGAAGTTTCGAGGTCA
148637 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
148654 GGTTCGGGGG
Statistics
Matches: 165, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
28 11 0.07
29 48 0.29
30 73 0.44
31 33 0.20
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGTCA
Found at i:148578 original size:59 final size:59
Alignment explanation
Indices: 148386--148651 Score: 254
Period size: 58 Copynumber: 4.4 Consensus size: 59
148376 AAAGGATAAT
* * * * * *
148386 TTTCGAGGTTAAAAATGGAGTTTTTAGATATTTTTGGGGGGC-AAAATGGTAATATTTGGAAG
1 TTTCGAGGGTAAAAAT-GAATTTTT-GAAAGTTTT-GGGGTCAAAAATGG-AATTTTTGGAAG
* ** * * *
148448 TTTCGA-GGTCAAAAATAGAATTTTTGGAAGTTTCAAGGTTAAAAAATAGAATTTTTGGAAG
1 TTTCGAGGGT-AAAAAT-GAATTTTTGAAAGTTT-TGGGGTCAAAAATGGAATTTTTGGAAG
*
148509 TTTC-AGGGTAAAAATGAAATTTTTTAAAGTTTTGGGGTCAAAAATGGAATTTTTGG-AG
1 TTTCGAGGGTAAAAATG-AATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAG
* * *
148567 GTTCGAGGGTAAAAATGGATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAG
1 TTTCGAGGGTAAAAATGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAG
*
148626 TTTCGA-GGTCGAAAATGGAATTTTTG
1 TTTCGAGGGT-AAAAAT-GAATTTTTG
148652 GAGGTTCGGG
Statistics
Matches: 168, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
58 44 0.26
59 44 0.26
60 28 0.17
61 27 0.16
62 25 0.15
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (59 bp):
TTTCGAGGGTAAAAATGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAG
Found at i:148669 original size:59 final size:60
Alignment explanation
Indices: 148386--148669 Score: 267
Period size: 59 Copynumber: 4.8 Consensus size: 60
148376 AAAGGATAAT
* * * * * * *
148386 TTTCGAGGTTAAAAATGGAGTTTTTAGATATTTTTGGGGGGC-AAAATGGTAATATTTGGAAG
1 TTTCGAGGGTAAAAATGGAATTTTTGGA-AGTTCT-GGGGTCAAAAATGG-AATTTTTGGAAG
* ** * * *
148448 TTTCGA-GGTCAAAAATAGAATTTTTGGAAGTTTCAAGGTTAAAAAATAGAATTTTTGGAAG
1 TTTCGAGGGT-AAAAATGGAATTTTTGGAAG-TTCTGGGGTCAAAAATGGAATTTTTGGAAG
* ** *
148509 TTTC-AGGGTAAAAATGAAATTTTTTAAAGTTTTGGGGTCAAAAATGGAATTTTTGG-AG
1 TTTCGAGGGTAAAAATGGAATTTTTGGAAGTTCTGGGGTCAAAAATGGAATTTTTGGAAG
* *
148567 GTTCGAGGGTAAAAATGG-ATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAG
1 TTTCGAGGGTAAAAATGGAATTTTTGGAAGTTCTGGGGTCAAAAATGGAATTTTTGGAAG
* * *
148626 TTTCGA-GGTCGAAAATGGAATTTTTGGAGGTTCGGGGGT-AAAAA
1 TTTCGAGGGT-AAAAATGGAATTTTTGGAAGTTCTGGGGTCAAAAA
148670 CAAAATTTTA
Statistics
Matches: 182, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
58 44 0.24
59 52 0.29
60 34 0.19
61 23 0.13
62 29 0.16
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (60 bp):
TTTCGAGGGTAAAAATGGAATTTTTGGAAGTTCTGGGGTCAAAAATGGAATTTTTGGAAG
Found at i:149815 original size:3 final size:3
Alignment explanation
Indices: 149802--149879 Score: 75
Period size: 3 Copynumber: 25.0 Consensus size: 3
149792 TTTCCCTTTT
** *
149802 TTA TTA TTTA TTA TTA TTA TTA AAA TAA TTA TTA TTTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
** *
149849 TTA AAA TAA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
149880 ATGCTATCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
3 55 0.86
4 9 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:149840 original size:25 final size:25
Alignment explanation
Indices: 149802--149874 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 25
149792 TTTCCCTTTT
149802 TTATTATTTATTATTATTATTAAAATAA
1 TTATTATTTATTATTATTA-T-AAA-AA
*
149830 TTATTATTTATTATTATTATTAAAA
1 TTATTATTTATTATTATTATAAAAA
*
149855 TAATTATTTATTATTATTAT
1 TTATTATTTATTATTATTAT
149875 TATTAATGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 21 0.49
26 2 0.05
27 1 0.02
28 19 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATTATTTATTATTATTATAAAAA
Found at i:149841 original size:28 final size:28
Alignment explanation
Indices: 149802--149880 Score: 142
Period size: 28 Copynumber: 2.8 Consensus size: 28
149792 TTTCCCTTTT
149802 TTATTATTTATTATTATTATTAAAATAA
1 TTATTATTTATTATTATTATTAAAATAA
149830 TTATTATTTATTATTATTATTAAAATAA
1 TTATTATTTATTATTATTATTAAAATAA
149858 TTATT-TATTATTATTATTATTAA
1 TTATTAT-TTATTATTATTATTAA
149881 TGCTATCAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 1 0.02
28 49 0.98
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATTATTTATTATTATTATTAAAATAA
Found at i:150681 original size:35 final size:35
Alignment explanation
Indices: 150636--150717 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
150626 TTAAATTTAT
* ** *
150636 AATAATTTTAAATTTGAAAATGAATTTAGTCTTAA
1 AATAAATTTAAATTTGAAAACAAATTTAATCTTAA
*
150671 AATAAATTTAAATTTTAAAACAAATTTAATCTTAA
1 AATAAATTTAAATTTGAAAACAAATTTAATCTTAA
150706 AATAAATTTAAA
1 AATAAATTTAAA
150718 ATGAGTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (35 bp):
AATAAATTTAAATTTGAAAACAAATTTAATCTTAA
Found at i:150690 original size:18 final size:18
Alignment explanation
Indices: 150625--150717 Score: 93
Period size: 17 Copynumber: 5.3 Consensus size: 18
150615 CTTTATTTAT
* *
150625 TTTAAA-TTTATAATAAT
1 TTTAAATTTTAAAATAAA
* *
150642 TTTAAATTTGAAAATGAA
1 TTTAAATTTTAAAATAAA
* *
150660 TTT-AGTCTTAAAATAAA
1 TTTAAATTTTAAAATAAA
*
150677 TTTAAATTTTAAAACAAA
1 TTTAAATTTTAAAATAAA
*
150695 TTT-AATCTTAAAATAAA
1 TTTAAATTTTAAAATAAA
150712 TTTAAA
1 TTTAAA
150718 ATGAGTTTGA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
17 34 0.57
18 26 0.43
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTAAATTTTAAAATAAA
Found at i:151684 original size:205 final size:205
Alignment explanation
Indices: 151174--151915 Score: 987
Period size: 205 Copynumber: 3.6 Consensus size: 205
151164 ATGCTAATTG
* * * * *
151174 TTTTATTACTTCGACCTGCTTCTTAGTATCTCATTAGAAAGTTGGGGTTCGAAGATTTGCTCACA
1 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACA
* *
151239 TC-ATGCGTGGGTTTGATTTGGTCTTC-TCTTCTGTGTCTCATCAGGAAGATGA---C--CGTTT
66 TCGA-GCGTGGGTTTGATTTGGTCTTCTTCTT-AGTATCTCATCAGGAAGATGACCGCGTCGTTT
* * * * *
151297 GTTTCAA-TCTGCTTCTCTGTATCCCAACAGGAGGAAGAATTTGGTCCACTTCTCAGTATCTCAT
129 GTTTCAATTC-GCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCTCAT
151361 CAGGAAGCTAACC
193 CAGGAAGCTAACC
* * * * *
151374 ATTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCTAGGATTCGCTCAC
1 -TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCAC
* * *
151439 ATCGAGCGTGGGTTTAATTTGGTCTTCTTCTAAATATCTCATCAGGAAGATGACCGCGTCGTTTG
65 ATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCGTCGTTTG
151504 TTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCTCATCA
130 TTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCTCATCA
151569 GGAAGCTAACC
195 GGAAGCTAACC
* * * * *
151580 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCATGAAGCTAGGGTTCGAAAATTTGTTCATA
1 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACA
* * * * *
151645 TCGAGTGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCGGGAAGATGACCGCATCATCTGT
66 TCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCGTCGTTTGT
* * *
151710 TTCAATTTGCTTCTCTGTATGTCATCAGGAAGACGAATTTTGTCCACTTCTCAGTATCTCATCAG
131 TTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCTCATCAG
*
151775 GAAGCTAACA
196 GAAGCTAACC
* ** * * *
151785 TTTTATTGCTTCGACCTGCTTCGAAAATGTCTCATCAGGAAGCTAAGGTTCGAAGATTTGCTCAC
1 TTTTATTACTTCGACCTGCTTC-TCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCAC
* * * *
151850 ATCGAGCGTGGATTTGATTTGGTCTTCTTCTTAGTATCTTATCAAGAAGATAACCGCGTCGTTTG
65 ATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCGTCGTTTG
151915 T
130 T
151916 GGATAATCGC
Statistics
Matches: 474, Mismatches: 58, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
201 98 0.21
202 4 0.01
204 1 0.00
205 205 0.43
206 164 0.35
207 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (205 bp):
TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACA
TCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCGTCGTTTGT
TTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCTCATCAG
GAAGCTAACC
Found at i:151872 original size:411 final size:406
Alignment explanation
Indices: 151174--151915 Score: 1042
Period size: 411 Copynumber: 1.8 Consensus size: 406
151164 ATGCTAATTG
* * * * *
151174 TTTTATTACTTCGACCTGCTTCTTAGTATCTCATTAGAAAGTTGGGGTTCGAAGATTTGCTCACA
1 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAAATTTGCTCACA
* *
151239 TCATGCGTGGGTTTGATTTGGTCTTCTCTTCTGTGTCTCATCAGGAAGATGACCGTTTGTTTCAA
66 TCATGCGTGGGTTTGATTTGGTCTTCTCTTCAGTATCTCATCAGGAAGATGACCGTTTGTTTCAA
*
151304 TCTGCTTCTCTGTATCCCAACAGGAGGAAGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
131 TCTGCTTCTCTGTATCCCAACAGGAAGAAGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
** * ** * *
151369 TAACCATTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCTAGGATTCG
196 TAACCATTTTATTACTTCAACCTGCTTCAAAATATCTCATCAGGAAGCTAAGGTTCGAAGATTCG
* * *
151434 CTCACATCGAGCGTGGGTTTAATTTGGTCTTCTTCTAAATATCTCATCAGGAAGATGACCGCGTC
261 CTCACATCGAGCGTGGATTTAATTTGGTCTTCTTCTAAATATCTCATCAAGAAGATAACCGCGTC
151499 GTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCT
326 GTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCT
151564 CATCAGGAAGCTAACC
391 CATCAGGAAGCTAACC
* * *
151580 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCATG-AAGCTAGGGTTCGAAAATTTGTTCAT
1 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCA-GAAAGCTAGGGTTCGAAAATTTGCTCAC
* *
151644 ATCGA-GTGTGGGTTTGATTTGGTCTTCTTCTT-AGTATCTCATCGGGAAGATGACCGCATCATC
65 ATC-ATGCGTGGGTTTGATTTGGTCTTC-TCTTCAGTATCTCATCAGGAAGATGACCG--T--T-
* ** * * *
151707 TGTTTCAATTTGCTTCTCTGTATGTCATCAGGAAGACGAATTTTGTCCACTTCTCAGTATCTCAT
123 TGTTTCAATCTGCTTCTCTGTATCCCAACAGGAAGAAGAATTTGGTCCACTTCTCAGTATCTCAT
* * *
151772 CAGGAAGCTAA-CATTTTATTGCTTCGACCTGCTTCGAAAATGTCTCATCAGGAAGCTAAGGTTC
188 CAGGAAGCTAACCATTTTATTACTTCAACCTGCTTC-AAAATATCTCATCAGGAAGCTAAGGTTC
* * * * *
151836 GAAGATTTGCTCACATCGAGCGTGGATTTGATTTGGTCTTCTTCTTAGTATCTTATCAAGAAGAT
252 GAAGATTCGCTCACATCGAGCGTGGATTTAATTTGGTCTTCTTCTAAATATCTCATCAAGAAGAT
151901 AACCGCGTCGTTTGT
317 AACCGCGTCGTTTGT
151916 GGATAATCGC
Statistics
Matches: 290, Mismatches: 37, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
406 99 0.34
407 6 0.02
408 1 0.00
410 23 0.08
411 161 0.56
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (406 bp):
TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAAATTTGCTCACA
TCATGCGTGGGTTTGATTTGGTCTTCTCTTCAGTATCTCATCAGGAAGATGACCGTTTGTTTCAA
TCTGCTTCTCTGTATCCCAACAGGAAGAAGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
TAACCATTTTATTACTTCAACCTGCTTCAAAATATCTCATCAGGAAGCTAAGGTTCGAAGATTCG
CTCACATCGAGCGTGGATTTAATTTGGTCTTCTTCTAAATATCTCATCAAGAAGATAACCGCGTC
GTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTCGTCCACTTCTCAGTATCT
CATCAGGAAGCTAACC
Found at i:159988 original size:17 final size:17
Alignment explanation
Indices: 159970--160077 Score: 119
Period size: 17 Copynumber: 6.2 Consensus size: 17
159960 CTTTATTTAT
* *
159970 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
*
159987 TTTAAATTTGAAAATGAA
1 TTTAAATTT-AAAATAAA
* * *
160005 TTTAGACTTAAATTAAA
1 TTTAAATTTAAAATAAA
160022 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
160039 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
160057 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
160074 TTTA
1 TTTA
160078 CAATGAGTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
16 1 0.01
17 49 0.65
18 25 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:160031 original size:52 final size:52
Alignment explanation
Indices: 159970--160077 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
159960 CTTTATTTAT
* * ** *
159970 TTTAAATTTATAATAATTTTAAATTTGAAAATGAATTTAGA-CTTAAATTAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTA-ATCTTAAAATAAA
*
160022 TTTAAATTTAAAATAAATTTAAATTTTAAAACAAATTTAATCTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAATCTTAAAATAAA
160074 TTTA
1 TTTA
160078 CAATGAGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 1 0.02
52 48 0.98
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (52 bp):
TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAATCTTAAAATAAA
Found at i:160051 original size:35 final size:33
Alignment explanation
Indices: 159970--160077 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 33
159960 CTTTATTTAT
* *
159970 TTTAAATTTATAATAATTTTAAATTTGAAAATGAA
1 TTTAAATTTA-AATAAATTTAAATTT-AAAATAAA
* *
160005 TTTAGACTTAAATTAAATTTAAATTTAAAATAAA
1 TTTAAATTTAAA-TAAATTTAAATTTAAAATAAA
*
160039 TTTAAATTTTAAAACAAATTT-AATCTTAAAATAAA
1 TTTAAA-TTT-AAATAAATTTAAAT-TTAAAATAAA
160074 TTTA
1 TTTA
160078 CAATGAGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
34 17 0.27
35 42 0.68
36 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (33 bp):
TTTAAATTTAAATAAATTTAAATTTAAAATAAA
Found at i:163619 original size:31 final size:31
Alignment explanation
Indices: 163576--163642 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
163566 AAAAGTTACT
*
163576 ATTT-AATTATTGAATTA-TCTAAAAATTTTC
1 ATTTAAATCATTGAATTAGTC-AAAAATTTTC
163606 ATTTAAATCATTGAATTAGTCAAAAATTTTC
1 ATTTAAATCATTGAATTAGTCAAAAATTTTC
163637 ATTTAA
1 ATTTAA
163643 GTCAATTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 4 0.12
31 28 0.82
32 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (31 bp):
ATTTAAATCATTGAATTAGTCAAAAATTTTC
Found at i:165416 original size:16 final size:16
Alignment explanation
Indices: 165385--165421 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
165375 ATGTGGAGAA
165385 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
165401 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
165417 TATTA
1 TATTA
165422 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:166382 original size:20 final size:21
Alignment explanation
Indices: 166347--166388 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
166337 ATATTTTCTA
166347 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGTCAAAACCATT
*
166368 AAGTTAAAGGT-AAAACCATT
1 AAGTTAAAAGTCAAAACCATT
166388 A
1 A
166389 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACCATT
Found at i:173776 original size:21 final size:21
Alignment explanation
Indices: 173752--173802 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
173742 GTGCTAGCTG
173752 TACCGATACAAGT-ATG-ATTTC
1 TACCGATACAAGTCATGCA--TC
*
173773 TACCTATACAAGTCATGCATC
1 TACCGATACAAGTCATGCATC
173794 TACCGATAC
1 TACCGATAC
173803 TAAAAATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 22 0.85
22 3 0.12
23 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (21 bp):
TACCGATACAAGTCATGCATC
Found at i:184831 original size:4 final size:4
Alignment explanation
Indices: 184824--184850 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
184814 AAGAATATAT
184824 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
184851 TAGATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:186490 original size:14 final size:15
Alignment explanation
Indices: 186471--186502 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
186461 TTTTGCTTTA
186471 TTTTATTTTTAT-CT
1 TTTTATTTTTATGCT
186485 TTTTATTTTTATGCT
1 TTTTATTTTTATGCT
186500 TTT
1 TTT
186503 AAAACACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTATGCT
Found at i:191534 original size:151 final size:149
Alignment explanation
Indices: 191050--191585 Score: 708
Period size: 151 Copynumber: 3.6 Consensus size: 149
191040 GTTTTTTTAG
* *
191050 AAAAGTTTAAAATTTTAAACAAAGTTTTGATTTTTTTTTAACTATTTCGAAAT-AAAGTTTAGAT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGA--TTTTTTTAACTATTTCGAAATAAAAATTTAGAT
* * * *
191114 TTCTAAG-AAAGTATTGATTTTCATTAAAAAAG-GAGAAAGTTTATATTTTTAAAAATAAAAATC
64 TTTTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTAAAAAATAAAAATC
*
191177 TATTTTTTTTAGTTATTTTAAAGA
129 ---TGTTTTTAGTTATTTTAAAGA
* * * *
191201 AAAA-TTTAAATTTTTCAATAAAGTTTTAATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
* * *
191265 TTAAGTAAAGTAGTGATTTTCATTAAAAAATAAAGAAAATTTATATTTTTAAAAAATAAAAATAT
66 TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATA-TTTTAAAAAATAAAAATCT
191330 GTTTTTAGTTATTTTAAAGA
130 GTTTTTAGTTATTTTAAAGA
* * * * *
191350 AAAAGTTTAAATTTTTAAATAAAATTTCT-ATTTTTTCAATTATTTCGAAATAAAAATTTTGATT
1 AAAAGTTTAAATTTTTAAACAAAGTTT-TGATTTTTTTAACTATTTCGAAATAAAAATTTAGATT
* *
191414 TTTAAGTAGAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTAGATTTTAAAAAAATAAAAAT
65 TTTAAGTAAAGTAGTGATTTTCATT-AAAAAAGAAAGAAAGTTTATATTTT-AAAAAATAAAAAT
* *
191479 CTGTCTTTTAGTGA-TTTAAAAA
128 CTGT-TTTTAGTTATTTTAAAGA
191501 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTCTA-ATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATT-TAGATT
*
191565 TTGAAGTAAAGTAGTGATTTT
65 TTTAAGTAAAGTAGTGATTTT
191586 GTTTTAATCA
Statistics
Matches: 342, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
148 21 0.06
149 41 0.12
150 124 0.36
151 131 0.38
152 25 0.07
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (149 bp):
AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTAAAAAATAAAAATCTG
TTTTTAGTTATTTTAAAGA
Found at i:192255 original size:24 final size:24
Alignment explanation
Indices: 192220--192280 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
192210 ATTTATTTTT
*
192220 TTTACATTTGAATTTAGGTTAGTA
1 TTTACATTTGAATTTAGATTAGTA
*
192244 TTTAC-TTCTGAATTTAGATTAGTTT
1 TTTACATT-TGAATTTAGATTAG-TA
192269 TTTACATTTGAA
1 TTTACATTTGAA
192281 AAATTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 18 0.56
25 10 0.31
26 2 0.06
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (24 bp):
TTTACATTTGAATTTAGATTAGTA
Found at i:193127 original size:239 final size:239
Alignment explanation
Indices: 192651--193128 Score: 832
Period size: 240 Copynumber: 2.0 Consensus size: 239
192641 AAAATCATAA
*
192651 TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATATTTCTCTTAATTAATTAGTAATTT
1 TAATGATAAAAGATCGAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTAATTAGTAATTT
* *
192716 TTTTAGGTTTTTTTAGGATTTTAAAATATAATTAATTTTAAGAATTGAAAGTATTTTACTAGAAT
66 TTTTAGGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAAT
* *
192781 TATTTAGGTATCCTTTAGGGTTTTTATTAGGAGTAAAAATCTCTAATTTATGTTTAAAATTAGAT
131 TATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTAAAATTAGAT
*
192846 AAGTGTGGTGAACACGTCTTAGTCAAGTTACAAGTAAATTGGAG
196 AAGTGTGGTGAACACGTCCTAGTCAAGTTACAAGTAAATTGGAG
* *
192890 TAATGATAAAAGATCGAATAAGTTGTAAATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGATCGAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTAATTAGTAA-TT
* *
192955 TTTTTGGGTTTTTTTAGGATTCTAAAATAGAATTAATTTTACGAATTGAAAGTATTTTACTAGAA
65 TTTTTAGGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAA
*
193020 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGA
130 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTAAAATTAGA
*
193085 TAAGTTTGGTGAACACGTCCTAGTCAAGTTACAA-TAAATTGGAG
195 TAAGTGTGGTGAACACGTCCTAGTCAAGTTACAAGTAAATTGGAG
193129 ACATTTTTTA
Statistics
Matches: 226, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
239 69 0.31
240 157 0.69
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (239 bp):
TAATGATAAAAGATCGAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTAATTAGTAATTT
TTTTAGGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAAT
TATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTAAAATTAGAT
AAGTGTGGTGAACACGTCCTAGTCAAGTTACAAGTAAATTGGAG
Done.