Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 32 of 105
Found at i:6324141 original size:8 final size:8
Alignment explanation
Indices: 6324090--6324137 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
6324080 ATAACATACT
6324090 TACATATA
1 TACATATA
6324098 TACATATA
1 TACATATA
6324106 TACATATA
1 TACATATA
6324114 TAC--ATA
1 TACATATA
6324120 TACATATA
1 TACATATA
*
6324128 TATATATA
1 TACATATA
6324136 TA
1 TA
6324138 TATACCACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.16
8 31 0.84
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (8 bp):
TACATATA
Found at i:6324489 original size:64 final size:64
Alignment explanation
Indices: 6324421--6324541 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
6324411 AATTAAATGA
* * * ** * *
6324421 GATTATTGAAGGCATTTTTGGCTAAAAATGCCTTTAATAATCCATTCAAAAAATTTTGGAGAAG
1 GATTATTGAAGGCATTTTCGACCAAAAACACCTTCAATAATCCATACAAAAAATTTTGGAGAAG
* *
6324485 GATTATTGAAGGTATTTTCGACCAAAAACACCTTCAATAATCCATACAAAAACTTTT
1 GATTATTGAAGGCATTTTCGACCAAAAACACCTTCAATAATCCATACAAAAAATTTT
6324542 TTGTATTGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (64 bp):
GATTATTGAAGGCATTTTCGACCAAAAACACCTTCAATAATCCATACAAAAAATTTTGGAGAAG
Found at i:6324931 original size:63 final size:63
Alignment explanation
Indices: 6324781--6325083 Score: 272
Period size: 64 Copynumber: 4.8 Consensus size: 63
6324771 TTATAAAAAA
* ** ** * * *
6324781 TTGAATGGGATTATTGAAGGCGTTTTTAGTTAAAAATACCTTCAATAATCTATTCAAAAAATT
1 TTGAAAGGGATTATTGAAGGTATTTTTAGCCAAAAATGCCTTCAATAATCCATACAAAAAATT
* * * * * *
6324844 TTAGAAAGGGATTATTAAAAGTATTTTCAGCTATAAATGCTTTCAATAATCCATACAAAAAATT
1 TT-GAAAGGGATTATTGAAGGTATTTTTAGCCAAAAATGCCTTCAATAATCCATACAAAAAATT
* * *
6324908 TTGAAAGGGATTATTGAAGGTATTTTT-GTCCAAAAATG-CTTAAATAATCCAAACAAAAAAAT
1 TTGAAAGGGATTATTGAAGGTATTTTTAG-CCAAAAATGCCTTCAATAATCCATACAAAAAATT
* * * * * * *
6324970 TTGTTAAGAGGAATATTAAAGGTGTTTTTGGCCAAAAATGCCTTCAATAATCCCT-GAAAAAA-T
1 TTG-AAAG-GGATTATTGAAGGTATTTTTAGCCAAAAATGCCTTCAATAATCCATACAAAAAATT
* * * * * *
6325033 TTAAAAAGGATTATTGAAGGCATTTTTGGCCAAAAATACCTTTAATAATCC
1 TTGAAAGGGATTATTGAAGGTATTTTTAGCCAAAAATGCCTTCAATAATCC
6325084 CTTTTCAATA
Statistics
Matches: 196, Mismatches: 38, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
61 38 0.19
62 26 0.13
63 37 0.19
64 83 0.42
65 12 0.06
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (63 bp):
TTGAAAGGGATTATTGAAGGTATTTTTAGCCAAAAATGCCTTCAATAATCCATACAAAAAATT
Found at i:6324934 original size:127 final size:125
Alignment explanation
Indices: 6324775--6325083 Score: 311
Period size: 127 Copynumber: 2.5 Consensus size: 125
6324765 ATTAGCTTAT
* * * * * **
6324775 AAAAAA-TTGAATGGGATTATTGAAGGCGTTTTTAGTTAAAAATACCTTCAATAATCTATTCAAA
1 AAAAAATTTGAAAGGGATTATTGAAGGCATTTTT-GTCAAAAATACCTTAAATAATCCAAACAAA
* * * * *
6324839 AAATTTTAG-AAAG-GGATTATTAAAAGTATTTTCAGCTATAAATGCTTTCAATAATCCATAC
65 AAAATTT-GTAAAGAGGAATATTAAAAGTATTTTCAGCCAAAAATGCCTTCAATAATCCAT-C
* *
6324900 AAAAAATTTTGAAAGGGATTATTGAAGGTATTTTTGTCCAAAAAT-GCTTAAATAATCCAAACAA
1 AAAAAA-TTTGAAAGGGATTATTGAAGGCATTTTTGT-CAAAAATACCTTAAATAATCCAAACAA
* * * ** * *
6324964 AAAAATTTGTTAAGAGGAATATTAAAGGTGTTTTTGGCCAAAAATGCCTTCAATAATCCCTG
64 AAAAATTTGTAAAGAGGAATATTAAAAGTATTTTCAGCCAAAAATGCCTTCAATAATCCATC
* * * *
6325026 AAAAAATTTAAAAAGGATTATTGAAGGCATTTTTGGCCAAAAATACCTTTAATAATCC
1 AAAAAATTTGAAAGGGATTATTGAAGGCATTTTT-GTCAAAAATACCTTAAATAATCC
6325084 CTTTTCAATA
Statistics
Matches: 150, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
125 39 0.26
126 44 0.29
127 67 0.45
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (125 bp):
AAAAAATTTGAAAGGGATTATTGAAGGCATTTTTGTCAAAAATACCTTAAATAATCCAAACAAAA
AAATTTGTAAAGAGGAATATTAAAAGTATTTTCAGCCAAAAATGCCTTCAATAATCCATC
Found at i:6331324 original size:18 final size:18
Alignment explanation
Indices: 6331301--6331351 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
6331291 CTTTATTTGG
6331301 CAAATTGGGTTTTAATCT
1 CAAATTGGGTTTTAATCT
6331319 CAAATTGGGTTTTAATCT
1 CAAATTGGGTTTTAATCT
*
6331337 CAAATTGAGTTTTAA
1 CAAATTGGGTTTTAA
6331352 GCTCCATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
CAAATTGGGTTTTAATCT
Found at i:6331411 original size:14 final size:14
Alignment explanation
Indices: 6331375--6331416 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6331365 TGGATAATTC
6331375 ATTTTCTTTT-TTT
1 ATTTTCTTTTATTT
6331388 ATTCTTCTTTTATTT
1 ATT-TTCTTTTATTT
* *
6331403 ATTTCCTTTGATTT
1 ATTTTCTTTTATTT
6331417 TTATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 3 0.12
14 16 0.64
15 6 0.24
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (14 bp):
ATTTTCTTTTATTT
Found at i:6331484 original size:13 final size:13
Alignment explanation
Indices: 6331466--6331490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6331456 TTAAAATCTA
6331466 AAAAATATAAAAT
1 AAAAATATAAAAT
6331479 AAAAATATAAAA
1 AAAAATATAAAA
6331491 ATTAGAAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:6331489 original size:22 final size:22
Alignment explanation
Indices: 6331458--6331505 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
6331448 TCAATATTTT
* *
6331458 AAAATCTAAAAAATATAAAATA
1 AAAATATAAAAAATAGAAAATA
* *
6331480 AAAATATAAAAATTAGAAGATA
1 AAAATATAAAAAATAGAAAATA
6331502 AAAA
1 AAAA
6331506 CGTAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATATAAAAAATAGAAAATA
Found at i:6331491 original size:14 final size:14
Alignment explanation
Indices: 6331466--6331522 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
6331456 TTAAAATCTA
6331466 AAAAATAT-AAAAT
1 AAAAATATAAAAAT
6331479 AAAAATATAAAAAT
1 AAAAATATAAAAAT
* * *
6331493 TAGAAGATAAAAACGT
1 AAAAATATAAAAA--T
6331509 AAAAATAATAAAAA
1 AAAAAT-ATAAAAA
6331523 ATCACTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 8 0.24
14 15 0.44
16 4 0.12
17 7 0.21
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:6331550 original size:18 final size:18
Alignment explanation
Indices: 6331517--6331551 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6331507 GTAAAAATAA
*
6331517 TAAAAAATCACTAAAACT
1 TAAAAAATCACAAAAACT
*
6331535 TAAAAAATGACAAAAAC
1 TAAAAAATCACAAAAAC
6331552 ACAAAAGCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.03, T:0.17
Consensus pattern (18 bp):
TAAAAAATCACAAAAACT
Found at i:6335143 original size:24 final size:24
Alignment explanation
Indices: 6335114--6335175 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
6335104 TTTTTTTCAA
6335114 ATGCATGCAAAA-AAAAAAAAATTC
1 ATGCAT-CAAAACAAAAAAAAATTC
* * *
6335138 ATGCATTAAAACTAAAAAAAATTA
1 ATGCATCAAAACAAAAAAAAATTC
*
6335162 ATG-AACAAAACAAA
1 ATGCATCAAAACAAA
6335176 GCAATAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.65, C:0.11, G:0.06, T:0.18
Consensus pattern (24 bp):
ATGCATCAAAACAAAAAAAAATTC
Found at i:6336446 original size:3 final size:3
Alignment explanation
Indices: 6336431--6336462 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6336421 CTGAATTATA
*
6336431 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6336463 AAAAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6337752 original size:17 final size:17
Alignment explanation
Indices: 6337680--6337757 Score: 75
Period size: 17 Copynumber: 4.4 Consensus size: 17
6337670 GTTTTATTTA
6337680 TTTATTTATTTATTTTT
1 TTTATTTATTTATTTTT
** * *
6337697 GCTAATTATTCATTTGTT
1 TTTATTTATTTATTT-TT
* *
6337715 CTTATTTATCTTCAATTTT
1 TTTATTTAT-TT-ATTTTT
6337734 TTTATTTATTTATTTTT
1 TTTATTTATTTATTTTT
6337751 TTTATTT
1 TTTATTT
6337758 CTAGGATTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
17 23 0.49
18 10 0.21
19 11 0.23
20 3 0.06
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTATTTTT
Found at i:6338602 original size:3 final size:3
Alignment explanation
Indices: 6338594--6338619 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6338584 ATTTATTTAT
6338594 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6338620 TCTGCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6338845 original size:62 final size:60
Alignment explanation
Indices: 6338707--6339017 Score: 258
Period size: 62 Copynumber: 5.0 Consensus size: 60
6338697 TCCTAAACTA
* * * *
6338707 AAATTTTTAGAAAAAAGTATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAAT
1 AAATTTTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
*** * *
6338767 AAAATTTTTTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 -AAA-TTTTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
*
6338829 AAATTTTTAAAACAAAAATTTTCAAAAGGTATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTT
1 AAATTTTTAAAA-AAAAA---T----A--T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
* *
6338894 GAAATT
55 AAAAAT
* * * * * *
6338900 AAA--ATTAAAAAAAAACCATTTTGGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAAT
1 AAATTTTTAAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* *
6338959 AAAAATTTT---AAAAAATATTTTT-AGGAAAAGTTGAAAGTATTAATTTTTCTT-AAAAT
1 -AAATTTTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
6339015 AAA
1 AAA
6339018 AACCTCCAAA
Statistics
Matches: 206, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
55 3 0.01
56 5 0.02
57 25 0.12
58 5 0.02
59 39 0.19
60 10 0.05
61 11 0.05
62 54 0.26
64 1 0.00
68 6 0.03
69 6 0.03
70 1 0.00
71 40 0.19
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (60 bp):
AAATTTTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
Found at i:6338921 original size:71 final size:71
Alignment explanation
Indices: 6338775--6338914 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 71
6338765 ATAAAATTTT
*
6338775 TTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTTAAA
1 TTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-TATTAAA
*
6338840 ACAAAAA
65 AAAAAAA
** * * *
6338847 TTTTCAAAAGGTA-TTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAA-ATTAAAA
1 TTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATATTAAAA
6338910 AAAAA
66 AAAAA
6338915 CCATTTTGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
69 10 0.16
71 40 0.66
72 11 0.18
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (71 bp):
TTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATATTAAAA
AAAAAA
Found at i:6338932 original size:59 final size:56
Alignment explanation
Indices: 6338859--6339019 Score: 196
Period size: 59 Copynumber: 2.8 Consensus size: 56
6338849 TTCAAAAGGT
* *
6338859 ATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTAAAAAAAAACC
1 ATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAATT-AAAAAAAA-C
* ** * ** *
6338917 ATTTTGGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAAATTTTAAAAAAT
1 ATTTT-GAGGAAAAGTTGAAAGTATTAATTTTTCTT-AAAATAAAAATTAAAAAAAAC
*
6338975 ATTTTTAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAA
1 ATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAA
6339020 CCTCCAAATG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 10 0.11
57 25 0.29
58 10 0.11
59 32 0.37
60 10 0.11
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (56 bp):
ATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAATTAAAAAAAAC
Found at i:6340186 original size:54 final size:55
Alignment explanation
Indices: 6340091--6340197 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 55
6340081 TCTGACTTTG
* *
6340091 TGCATCATTTTCATTATCATATGTAACATTGTGCATCTGCATCATT-TCATTTTA
1 TGCATCATTTTCATGATCATATGTAACATTATGCATCTGCATCATTCTCATTTTA
* * *
6340145 TGCATCATTTTCATGATCATGTTTTAACATTAT-CATTTGCATCATTCTCATTT
1 TGCATCATTTTCATGATCAT-ATGTAACATTATGCATCTGCATCATTCTCATTT
6340198 CATCAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 31 0.67
55 15 0.33
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (55 bp):
TGCATCATTTTCATGATCATATGTAACATTATGCATCTGCATCATTCTCATTTTA
Found at i:6342587 original size:5 final size:5
Alignment explanation
Indices: 6342577--6342615 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
6342567 TCAAAGAGAG
6342577 AAAGA AAAGA AAA-A AAAG- AAA-A AAAG- AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
6342616 ATGCCACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.47
5 16 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:6342593 original size:9 final size:9
Alignment explanation
Indices: 6342575--6342616 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
6342565 TCTCAAAGAG
*
6342575 AGAAAGAAA
1 AGAAAAAAA
6342584 AGAAAAAAA
1 AGAAAAAAA
6342593 AG-AAAAAA
1 AGAAAAAAA
*
6342601 AGAAAGAAA
1 AGAAAAAAA
6342610 AGAAAAA
1 AGAAAAA
6342617 TGCCACAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:6342603 original size:17 final size:17
Alignment explanation
Indices: 6342575--6342616 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
6342565 TCTCAAAGAG
6342575 AGAAAGAAAAGAAAAAAA
1 AGAAA-AAAAGAAAAAAA
*
6342593 AGAAAAAAAGAAAGAAA
1 AGAAAAAAAGAAAAAAA
6342610 AGAAAAA
1 AGAAAAA
6342617 TGCCACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAGAAAAAAA
Found at i:6343027 original size:21 final size:20
Alignment explanation
Indices: 6342982--6343084 Score: 79
Period size: 21 Copynumber: 5.2 Consensus size: 20
6342972 GAGAAAAAAT
*
6342982 AAAAAAAATAAAAAAAATG-
1 AAAAAAAAGAAAAAAAATGA
* * *
6343001 -AGAAAAAGGAAAAACATGA
1 AAAAAAAAGAAAAAAAATGA
*
6343020 AGAAAAAATGAAAAAAAATGA
1 A-AAAAAAAGAAAAAAAATGA
* *
6343041 AAAAAAGAGAAAGAAAGA-GA
1 AAAAAAAAGAAA-AAAAATGA
*
6343061 GAAAAAAAA-TAAAAAAATGA
1 -AAAAAAAAGAAAAAAAATGA
6343081 AAAA
1 AAAA
6343085 TGAAAAAAAG
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
18 14 0.22
19 8 0.12
20 15 0.23
21 27 0.42
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAATGA
Found at i:6343037 original size:40 final size:38
Alignment explanation
Indices: 6342984--6343084 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 38
6342974 GAAAAAATAA
6342984 AAAAAATAAAAAAAATGAGAAAAAG-GAAA-AACATGA-AG
1 AAAAAATAAAAAAAATGA-AAAAAGAGAAAGAA-A-GAGAG
6343022 AAAAAATGAAAAAAAATGAAAAAAAGAGAAAGAAAGAGAG
1 AAAAAAT-AAAAAAAATG-AAAAAAGAGAAAGAAAGAGAG
*
6343062 AAAAAAAATAAAAAAATGAAAAA
1 AAAAAATA-AAAAAAATGAAAAA
6343085 TGAAAAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
38 7 0.12
39 24 0.43
40 23 0.41
41 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (38 bp):
AAAAAATAAAAAAAATGAAAAAAGAGAAAGAAAGAGAG
Found at i:6343044 original size:47 final size:45
Alignment explanation
Indices: 6342973--6343094 Score: 130
Period size: 47 Copynumber: 2.8 Consensus size: 45
6342963 GTGAAAGATG
*
6342973 AGAAAAAATAAAAAAAATAAAAAAAATGAGAAAAAGGAAAAACATGA
1 AGAAAAAATAAAAAAAAT-GAAAAAATGAGAAAAAGGAAAAACA-GA
* * *
6343020 AGAAAAAATGAAAAAAAATGAAAAAA--AGAGAAA-GAAAGAGAGA
1 AGAAAAAAT-AAAAAAAATGAAAAAATGAGAAAAAGGAAAAACAGA
*
6343063 A-AAAAAAT-AAAAAAATG-AAAAATGAAAAAAAG
1 AGAAAAAATAAAAAAAATGAAAAAATGAGAAAAAG
6343095 ATGAAAATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
39 5 0.08
40 9 0.14
41 5 0.08
42 7 0.11
43 3 0.05
44 6 0.09
45 6 0.09
47 15 0.23
48 9 0.14
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (45 bp):
AGAAAAAATAAAAAAAATGAAAAAATGAGAAAAAGGAAAAACAGA
Found at i:6343083 original size:9 final size:9
Alignment explanation
Indices: 6342970--6343093 Score: 83
Period size: 9 Copynumber: 13.1 Consensus size: 9
6342960 TGGGTGAAAG
6342970 ATGAGAAAAA
1 ATGA-AAAAA
*
6342980 ATAAAAAAA
1 ATGAAAAAA
*
6342989 ATAAAAAAA
1 ATGAAAAAA
*
6342998 ATGAGAAAA
1 ATGAAAAAA
* *
6343007 AGGAAAAAC
1 ATGAAAAAA
6343016 ATGAAGAAAAA
1 ATG-A-AAAAA
6343027 ATGAAAAAAA
1 ATG-AAAAAA
6343037 ATGAAAAAA
1 ATGAAAAAA
*
6343046 AGAGAAAGAAA
1 A-TGAAA-AAA
*
6343057 GAGAGAAAAAAA
1 -A-TG-AAAAAA
6343069 AT-AAAAAA
1 ATGAAAAAA
6343077 ATG--AAAA
1 ATGAAAAAA
6343084 ATGAAAAAA
1 ATGAAAAAA
6343093 A
1 A
6343094 GATGAAAATG
Statistics
Matches: 95, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
7 7 0.07
8 8 0.08
9 41 0.43
10 16 0.17
11 13 0.14
12 7 0.07
13 3 0.03
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.08
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:6343103 original size:17 final size:17
Alignment explanation
Indices: 6343023--6343101 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 17
6343013 AACATGAAGA
6343023 AAAAATGAAAAAAAATG
1 AAAAATGAAAAAAAATG
* *
6343040 AAAAAAAGAGAAAGAAAGAGAG
1 -AAAAATGA-AAA-AAA-A-TG
**
6343062 AAAAAAAATAAAAAAATG
1 AAAAATGA-AAAAAAATG
6343080 AAAAATGAAAAAAAGATG
1 AAAAATGAAAAAAA-ATG
6343098 AAAA
1 AAAA
6343102 TGGAAGAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
17 6 0.12
18 21 0.43
19 4 0.08
20 6 0.12
21 11 0.22
22 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (17 bp):
AAAAATGAAAAAAAATG
Found at i:6344444 original size:25 final size:25
Alignment explanation
Indices: 6344385--6344438 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
6344375 TTTGAGTCTT
* *
6344385 AAATGAAAATCTTTAAGATGTTTCC
1 AAATAAAAATCTTTAAAATGTTTCC
* *
6344410 AATTAAAAATCTTTAAAATGTTTTC
1 AAATAAAAATCTTTAAAATGTTTCC
6344435 AAAT
1 AAAT
6344439 CTAAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (25 bp):
AAATAAAAATCTTTAAAATGTTTCC
Found at i:6344467 original size:46 final size:46
Alignment explanation
Indices: 6344417--6344691 Score: 288
Period size: 46 Copynumber: 6.0 Consensus size: 46
6344407 TCCAATTAAA
* * * *
6344417 AATCTTTAAAATGTTTTCAAATCTA-AATTTTTGAGTTTTAAATGAG
1 AATCTTTAAAACGTTTTCAAAT-GAGAATCTTTGAGTCTTAAATGAG
*
6344463 AATCTTTAAAATGTTTTTC-AATGAGAATCTTTGAGTCTTAAATGAG
1 AATCTTTAAAACG-TTTTCAAATGAGAATCTTTGAGTCTTAAATGAG
* * * * * *
6344509 AATCTTTAAGACATTTTTAAATCTA-AATTTTTGAGTCTTAGATGAG
1 AATCTTTAAAACGTTTTCAAAT-GAGAATCTTTGAGTCTTAAATGAG
* * * *
6344555 AATCTTTAAGACATTTCCAAATGAGAATCTTTGAGTTTTAAATGAG
1 AATCTTTAAAACGTTTTCAAATGAGAATCTTTGAGTCTTAAATGAG
* * * * *
6344601 AATATTTAAGACGTTTCCAAATGAGAATATTTGAATCTTAAATGAG
1 AATCTTTAAAACGTTTTCAAATGAGAATCTTTGAGTCTTAAATGAG
* *
6344647 AATCTTTAAGACATTTTCAAATGAGAATCTTTGAGT-TTCAAATGA
1 AATCTTTAAAACGTTTTCAAATGAGAATCTTTGAGTCTT-AAATGA
6344692 AAATTTTGAG
Statistics
Matches: 197, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
45 8 0.04
46 183 0.93
47 6 0.03
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (46 bp):
AATCTTTAAAACGTTTTCAAATGAGAATCTTTGAGTCTTAAATGAG
Found at i:6344531 original size:92 final size:91
Alignment explanation
Indices: 6344417--6344691 Score: 342
Period size: 92 Copynumber: 3.0 Consensus size: 91
6344407 TCCAATTAAA
* * **
6344417 AATCTTTAA-A-ATGTTTTCAAATCTAAATTTTTGAGTTTTAAATGAGAATCTTTAAAATGTTTT
1 AATCTTTAAGACAT-TTTT-AAATCTAAATTTTTGAGTCTTAAATGAGAATCTTTAAGA-CATTT
6344480 TC-AATGAGAATCTTTGAGTCTTAAATGAG
63 TCAAATGAGAATCTTTGAGT-TTAAATGAG
* *
6344509 AATCTTTAAGACATTTTTAAATCTAAATTTTTGAGTCTTAGATGAGAATCTTTAAGACATTTCCA
1 AATCTTTAAGACATTTTTAAATCTAAATTTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCA
6344574 AATGAGAATCTTTGAGTTTTAAATGAG
66 AATGAGAATCTTTGAG-TTTAAATGAG
* * ** * * *
6344601 AATATTTAAGACGTTTCCAAAT-GAGAATATTTGAATCTTAAATGAGAATCTTTAAGACATTTTC
1 AATCTTTAAGACATTTTTAAATCTA-AATTTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTC
6344665 AAATGAGAATCTTTGAGTTTCAAATGA
65 AAATGAGAATCTTTGAGTTT-AAATGA
6344692 AAATTTTGAG
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
91 8 0.05
92 146 0.90
93 6 0.04
94 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (91 bp):
AATCTTTAAGACATTTTTAAATCTAAATTTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCA
AATGAGAATCTTTGAGTTTAAATGAG
Found at i:6344579 original size:25 final size:24
Alignment explanation
Indices: 6344550--6344748 Score: 140
Period size: 25 Copynumber: 8.7 Consensus size: 24
6344540 TGAGTCTTAG
6344550 ATGAGAATCTTTAAGACATTTCCAA
1 ATGAGAATCTTTAAGACATTT-CAA
* *
6344575 ATGAGAATCTTT--GA-GTTTTAA
1 ATGAGAATCTTTAAGACATTTCAA
* *
6344596 ATGAGAATATTTAAGACGTTTCCAA
1 ATGAGAATCTTTAAGACATTT-CAA
*
6344621 ATGAGAATATTT--GA-ATCTT-AA
1 ATGAGAATCTTTAAGACAT-TTCAA
6344642 ATGAGAATCTTTAAGACATTTTCAA
1 ATGAGAATCTTTAAGACA-TTTCAA
*
6344667 ATGAGAATCTTT--GA-GTTTCAA
1 ATGAGAATCTTTAAGACATTTCAA
* * *
6344688 ATGAAAAT-TTT--GA-GTTTTAA
1 ATGAGAATCTTTAAGACATTTCAA
* *
6344708 AGGAGAA-CTTTAAGATAATTTCAA
1 ATGAGAATCTTTAAGA-CATTTCAA
*
6344732 ATGAGAATCTTTGAGAC
1 ATGAGAATCTTTAAGAC
6344749 GTGAAACCCT
Statistics
Matches: 142, Mismatches: 16, Indels: 33
0.74 0.08 0.17
Matches are distributed among these distances:
20 19 0.13
21 39 0.27
22 6 0.04
23 12 0.08
24 18 0.13
25 48 0.34
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (24 bp):
ATGAGAATCTTTAAGACATTTCAA
Found at i:6344701 original size:20 final size:21
Alignment explanation
Indices: 6344572--6344704 Score: 81
Period size: 21 Copynumber: 6.0 Consensus size: 21
6344562 AAGACATTTC
*
6344572 CAAATGAGAATCTTTGAGTTT
1 CAAATGAAAATCTTTGAGTTT
* * *
6344593 TAAATGAGAATATTTAAGACGTTT
1 CAAATGAAAATCTTT--GA-GTTT
* * *
6344617 CCAAATGAGAATATTTGAATCTT
1 -CAAATGAAAATCTTTGAGT-TT
* *
6344640 -AAATGAGAATCTTTAAGACATTTT
1 CAAATGAAAATCTTT--G--AGTTT
*
6344664 CAAATGAGAATCTTTGAGTTT
1 CAAATGAAAATCTTTGAGTTT
6344685 CAAATGAAAAT-TTTGAGTTT
1 CAAATGAAAATCTTTGAGTTT
6344705 TAAAGGAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
20 9 0.10
21 40 0.43
22 1 0.01
23 8 0.09
24 6 0.06
25 30 0.32
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
CAAATGAAAATCTTTGAGTTT
Found at i:6344732 original size:65 final size:68
Alignment explanation
Indices: 6344594--6344746 Score: 195
Period size: 65 Copynumber: 2.2 Consensus size: 68
6344584 TTTGAGTTTT
* * *
6344594 AAATGAGAATATTTAAGACGTTTCCAAATGAGAATATTTGAATCTTAAATGAGAATCTTTAAGAC
1 AAATGAGAATCTTT--GA-GTTTCCAAATGAAAATATTTGAATCTTAAAGGAGAATCTTTAAGAC
*
6344659 ATTTTC
63 AATTTC
* * *
6344665 AAATGAGAATCTTTGAGTTT-CAAATGAAAAT-TTTGAGTTTTAAAGGAGAA-CTTTAAGATAAT
1 AAATGAGAATCTTTGAGTTTCCAAATGAAAATATTTGAATCTTAAAGGAGAATCTTTAAGACAAT
6344727 TTC
66 TTC
6344730 AAATGAGAATCTTTGAG
1 AAATGAGAATCTTTGAG
6344747 ACGTGAAACC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
65 30 0.40
66 16 0.21
67 10 0.13
68 4 0.05
69 2 0.03
71 13 0.17
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (68 bp):
AAATGAGAATCTTTGAGTTTCCAAATGAAAATATTTGAATCTTAAAGGAGAATCTTTAAGACAAT
TTC
Found at i:6345010 original size:114 final size:114
Alignment explanation
Indices: 6344809--6345075 Score: 417
Period size: 114 Copynumber: 2.3 Consensus size: 114
6344799 TTAAACTTTT
* * *
6344809 AATGTGAATCTCCAAAATTCAAATGAAAAGTTTTGAACTCAACTTTTGGATGCGAATTTCTAAAT
1 AATGTGAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATACGAATCTCTAAAT
*
6344874 TTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
66 TTTTGAATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
* * *
6344923 GATGTGAATCTCCAAAATTTAAATGAAAAGCTTTGAACTCAACTTTTGGATATGAATCTCTAAAT
1 AATGTGAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATACGAATCTCTAAAT
*
6344988 TTTTGAATGAGTACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
66 TTTTGAATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
* ****
6345037 AATGTGAACCTTTTGAATTCAAATGAAAAGCTTTGAACT
1 AATGTGAATCTCCAAAATTCAAATGAAAAGCTTTGAACT
6345076 TTTGGATGAG
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 138 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (114 bp):
AATGTGAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATACGAATCTCTAAAT
TTTTGAATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
Found at i:6345391 original size:44 final size:44
Alignment explanation
Indices: 6345343--6345461 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
6345333 AAGTTGTGGT
*
6345343 GCCTCTGT-TTAAAGGAGCTTTATTTATTTTTCAAAAGTTATTGA
1 GCCTCT-TATTAAAGGAGCTTTGTTTATTTTTCAAAAGTTATTGA
* * *
6345387 GCCTCTTATTAGAA-AAGCTTTGTTTATTTTTCCAAAGTTGTTGA
1 GCCTCTTATTA-AAGGAGCTTTGTTTATTTTTCAAAAGTTATTGA
* * *
6345431 ACTTCTTATTAGAGGAGCTTTGTTTATTTTT
1 GCCTCTTATTAAAGGAGCTTTGTTTATTTTT
6345462 ATCAAAGTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 60 0.94
45 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (44 bp):
GCCTCTTATTAAAGGAGCTTTGTTTATTTTTCAAAAGTTATTGA
Found at i:6345518 original size:10 final size:10
Alignment explanation
Indices: 6345503--6345532 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
6345493 CTTTATTTTA
6345503 AAAAAAAAAT
1 AAAAAAAAAT
6345513 AAAAAAAAAT
1 AAAAAAAAAT
6345523 AAAAACAAAA
1 AAAAA-AAAA
6345533 AAATGTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:6345521 original size:16 final size:16
Alignment explanation
Indices: 6345502--6345535 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6345492 ACTTTATTTT
*
6345502 AAAAAAAAAATAAAAA
1 AAAAAAAAAACAAAAA
*
6345518 AAAATAAAAACAAAAA
1 AAAAAAAAAACAAAAA
6345534 AA
1 AA
6345536 TGTTAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:6345848 original size:18 final size:20
Alignment explanation
Indices: 6345813--6345850 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6345803 TCATTTGTTC
6345813 TTATTTATCTTCGATTTTTT
1 TTATTTATCTTCGATTTTTT
6345833 TTATTTATC-T-GATTTTTT
1 TTATTTATCTTCGATTTTTT
6345851 ATTTCTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (20 bp):
TTATTTATCTTCGATTTTTT
Found at i:6346869 original size:60 final size:59
Alignment explanation
Indices: 6346798--6346931 Score: 135
Period size: 60 Copynumber: 2.3 Consensus size: 59
6346788 AAATTTTCAG
* *
6346798 AAAAA-AAATATTTTTGGTAAAAATTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTA
1 AAAAATAAACATTTTTGG-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTA
* * * * * * * *
6346857 AAACATATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTC
1 AAAAATAAACATTTTTG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTA
* *
6346917 TAAAATAAAAATTTT
1 AAAAATAAACATTTT
6346932 CAAAAAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
59 4 0.07
60 56 0.92
61 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (59 bp):
AAAAATAAACATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTA
Found at i:6346985 original size:57 final size:56
Alignment explanation
Indices: 6346913--6347144 Score: 188
Period size: 57 Copynumber: 4.1 Consensus size: 56
6346903 GAAAATCAAA
* * *
6346913 TTTC-TAAAATAAAAATTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAATATCAATT
1 TTTCTTAAAATAAAAATTTT-AAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATT
* * ** * * *
6346969 TTTCTTGAAATTAAAATTAAAAAAAAAAACATTTTTAGGAAAAGTTGGAAGTACCAATT
1 TTTCTTAAAATAAAAATT---TTAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATT
* *
6347028 TTTCTTAAAAATAAAAA--TTAAAAAATACATTTTTAGAAAAAGTTGAAAGTATTAATT
1 TTTCTT-AAAATAAAAATTTTAAAAAAT--ATTTTTAGGAAAAGTTGAAAGTATCAATT
* * ** * *
6347085 TTTCTTAAAATAAAAACCTCT---AAATGCTTTAAAGAAAAGTTGAAAGTATCAATT
1 TTTCTTAAAATAAAAA-TTTTAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATT
6347139 TTTCTT
1 TTTCTT
6347145 GTATAAAAGC
Statistics
Matches: 140, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
54 29 0.21
55 6 0.04
56 18 0.13
57 42 0.30
59 37 0.26
60 8 0.06
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (56 bp):
TTTCTTAAAATAAAAATTTTAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATT
Found at i:6347003 original size:72 final size:72
Alignment explanation
Indices: 6346869--6347003 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
6346859 ACATATATAT
* * ** *
6346869 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCTAAAATAAAAATTTTCA
1 TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATCAAAATTAAAAAAAAAAAATTTTCA
6346934 AAAAGTA
66 AAAAGTA
* *
6346941 TTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTG-AAATTAAAATTAAAAAAAAAAACATTTT
1 TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATCAAAATTAAAAAAAAAAA-ATTTT
6347004 TAGGAAAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 17 0.31
72 38 0.69
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (72 bp):
TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATCAAAATTAAAAAAAAAAAATTTTCA
AAAAGTA
Found at i:6347009 original size:59 final size:56
Alignment explanation
Indices: 6346913--6347100 Score: 207
Period size: 57 Copynumber: 3.3 Consensus size: 56
6346903 GAAAATCAAA
** ** * *
6346913 TTTC-TAAAATAAAAATTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAATATCAATT
1 TTTCTTAAAATAAAAA-TTAAAAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATT
* * * *
6346969 TTTCTTGAAATTAAAATTAAAAAAAAAAACATTTTTAGGAAAAGTTGGAAGTACCAATT
1 TTTCTTAAAATAAAAATT---AAAAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATT
* * *
6347028 TTTCTTAAAAATAAAAATTAAAAAATACATTTTTAGAAAAAGTTGAAAGTATTAATT
1 TTTCTT-AAAATAAAAATTAAAAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATT
6347085 TTTCTTAAAATAAAAA
1 TTTCTTAAAATAAAAA
6347101 CCTCTAAATG
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
56 16 0.15
57 48 0.44
59 36 0.33
60 10 0.09
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (56 bp):
TTTCTTAAAATAAAAATTAAAAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATT
Found at i:6347361 original size:20 final size:20
Alignment explanation
Indices: 6347336--6347383 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
6347326 AGTATTGAAG
6347336 TCAATTAAGAATAATTTCCA
1 TCAATTAAGAATAATTTCCA
*
6347356 TCAATTAAGAATAATTTCTA
1 TCAATTAAGAATAATTTCCA
*
6347376 ACAATTAA
1 TCAATTAA
6347384 TTACTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (20 bp):
TCAATTAAGAATAATTTCCA
Found at i:6352095 original size:30 final size:29
Alignment explanation
Indices: 6352054--6352122 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
6352044 TTTTCCCATG
*
6352054 AAACCCCAAATTTGAAAACC-TAAACCCTA
1 AAACCCTAAATTTG-AAACCTTAAACCCTA
*
6352083 AAACCACTAAATTTGAAACCTTAAACCTTA
1 AAACC-CTAAATTTGAAACCTTAAACCCTA
6352113 AAACCCTAAA
1 AAACCCTAAA
6352123 CCCTAAACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.20
Consensus pattern (29 bp):
AAACCCTAAATTTGAAACCTTAAACCCTA
Found at i:6352110 original size:7 final size:7
Alignment explanation
Indices: 6352098--6352136 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
6352088 ACTAAATTTG
6352098 AAACCTT
1 AAACCTT
6352105 AAACCTT
1 AAACCTT
*
6352112 AAAACCCT
1 -AAACCTT
*
6352120 AAACCCT
1 AAACCTT
6352127 AAACCTT
1 AAACCTT
6352134 AAA
1 AAA
6352137 ACCAACCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCTT
Found at i:6352123 original size:22 final size:22
Alignment explanation
Indices: 6352098--6352139 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6352088 ACTAAATTTG
*
6352098 AAACCTTAAACCTTAAAACCCT
1 AAACCCTAAACCTTAAAACCCT
6352120 AAACCCTAAACCTTAAAACC
1 AAACCCTAAACCTTAAAACC
6352140 AACCTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTAAACCTTAAAACCCT
Found at i:6352139 original size:15 final size:15
Alignment explanation
Indices: 6352068--6352129 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
6352058 CCCAAATTTG
6352068 AAAA-CCTAAACCCT
1 AAAACCCTAAACCCT
**
6352082 AAAACCACTAAA-TTT
1 AAAACC-CTAAACCCT
* * *
6352097 GAAACCTTAAACCTT
1 AAAACCCTAAACCCT
6352112 AAAACCCTAAACCCT
1 AAAACCCTAAACCCT
6352127 AAA
1 AAA
6352130 CCTTAAAACC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
14 8 0.22
15 24 0.65
16 5 0.14
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:6356965 original size:117 final size:116
Alignment explanation
Indices: 6356755--6356970 Score: 299
Period size: 117 Copynumber: 1.9 Consensus size: 116
6356745 TTTTGTATAG
* *
6356755 GAAAAATTAATACTTTCAACTTCTCCCCAAAATATTTTTTAGAAAACTTTAATTTCGAGGAAAAT
1 GAAAAATTAATACTTTCAACTTCTCCCCAAAATATTTTTTAGAAAACTTTAATTTCAAAGAAAAT
* *
6356820 TGATACGTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCGA
66 TAATACGTTCAACTTTTCCGCAAAAATATTTTTTGGAAACTTTAATTTCGA
* * * * *
6356871 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAAGC-TTATTTTCAAAGAAA
1 GAAAAATTAATACTTTCAACTTCTCCCC-AAAATA-TTTTTTAGAAAACTTTAATTTCAAAGAAA
* * *
6356935 ATTAATACTTTTAACTTTTTCGCAAAAATATTTTTT
64 ATTAATACGTTCAACTTTTCCGCAAAAATATTTTTT
6356971 TTTGAATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
116 26 0.30
117 49 0.57
118 11 0.13
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (116 bp):
GAAAAATTAATACTTTCAACTTCTCCCCAAAATATTTTTTAGAAAACTTTAATTTCAAAGAAAAT
TAATACGTTCAACTTTTCCGCAAAAATATTTTTTGGAAACTTTAATTTCGA
Found at i:6356971 original size:59 final size:57
Alignment explanation
Indices: 6356757--6356970 Score: 252
Period size: 58 Copynumber: 3.7 Consensus size: 57
6356747 TTGTATAGGA
* * *
6356757 AAAATTAATACTTTCAACTTCTCCCC-AAAATATTTTTTAGAAAACTTTAATTTCGAGG
1 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTT-GGAAACTTTAATTTC-AAG
* * * *
6356815 AAAATTGATACGTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCGAG
1 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAG
* *
6356872 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAAGC-TTATTTTCAAAG
1 -AAAATTAATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-CTTTAATTTC-AAG
* * *
6356932 AAAATTAATACTTTTAACTTTTTCGCAAAAATATTTTTT
1 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTT
6356971 TTTGAATTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 73 0.54
59 59 0.43
60 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (57 bp):
AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAG
Found at i:6357028 original size:6 final size:6
Alignment explanation
Indices: 6357017--6357054 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
6357007 AAAGAGAAGT
*
6357017 AAAATA AAAATA AAAAT- AAAATA AAGATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
6357055 GAATATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:6357038 original size:17 final size:17
Alignment explanation
Indices: 6357016--6357054 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6357006 TAAAGAGAAG
6357016 TAAAATAAAAATAAAAA
1 TAAAATAAAAATAAAAA
*
6357033 TAAAATAAAGATAAAAA
1 TAAAATAAAAATAAAAA
6357050 TAAAA
1 TAAAA
6357055 GAATATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAATAAAAATAAAAA
Found at i:6357333 original size:21 final size:22
Alignment explanation
Indices: 6357299--6357343 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
6357289 TTTCTCAGAA
*
6357299 TCCCTTCTCATCTTCTCTCTCT
1 TCCCTTCTCATCTTCTCTCCCT
*
6357321 TCCCTTCT-TTCTTCTCTCCCT
1 TCCCTTCTCATCTTCTCTCCCT
6357342 TC
1 TC
6357344 TCTCTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (22 bp):
TCCCTTCTCATCTTCTCTCCCT
Found at i:6357920 original size:20 final size:21
Alignment explanation
Indices: 6357874--6357985 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 21
6357864 CAAAAAACAA
*
6357874 AAAAATATATTAAT-AGATAATT
1 AAAAATA-A-TAATCAGATAAAT
*
6357896 AAAAA-AATAATCAGATATAT
1 AAAAATAATAATCAGATAAAT
* *
6357916 CAAAATATTAA-CAGATAAAT
1 AAAAATAATAATCAGATAAAT
*
6357936 AAAAATAATAAT-AGATAACT
1 AAAAATAATAATCAGATAAAT
* *
6357956 TATAATAGATAAAT-AGATAAAT
1 AAAAATA-AT-AATCAGATAAAT
*
6357978 AATAATAA
1 AAAAATAA
6357986 ATATATAACT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
19 4 0.05
20 40 0.55
21 8 0.11
22 21 0.29
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATAATAATCAGATAAAT
Found at i:6357973 original size:22 final size:20
Alignment explanation
Indices: 6357939--6357996 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
6357929 GATAAATAAA
6357939 AATAAT-AATAGATAACTTAT
1 AATAATAAATAGATAAC-TAT
6357959 AATAGATAAATAGATAA--AT
1 AATA-ATAAATAGATAACTAT
*
6357978 AATAATAAATATATAACTA
1 AATAATAAATAGATAACTA
6357997 GATAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 5 0.15
21 2 0.06
22 9 0.27
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAATAAATAGATAACTAT
Found at i:6357979 original size:26 final size:26
Alignment explanation
Indices: 6357959--6358079 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 26
6357949 GATAACTTAT
6357959 AATAGATAAATAGATAAATAATAATA
1 AATAGATAAATAGATAAATAATAATA
* *
6357985 AATATATAACTAGATAAATAA-AATA
1 AATAGATAAATAGATAAATAATAATA
* * *
6358010 TATATATAAATA-TTAACA-AATAA-A
1 AATAGATAAATAGATAA-ATAATAATA
* * *
6358034 AA-A-ATAAAATATATATATATTAATA
1 AATAGAT-AAATAGATAAATAATAATA
6358059 AATAG-T-AATA-ATAAATAATAA
1 AATAGATAAATAGATAAATAATAA
6358080 ATACATAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
22 2 0.03
23 16 0.21
24 17 0.22
25 20 0.26
26 21 0.28
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (26 bp):
AATAGATAAATAGATAAATAATAATA
Found at i:6357988 original size:4 final size:4
Alignment explanation
Indices: 6357959--6358100 Score: 53
Period size: 4 Copynumber: 35.5 Consensus size: 4
6357949 GATAACTTAT
* * * * *
6357959 AATA GATA AATA GATA AAT- AAT- AATA AATA TATA ACTA GATA AATAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
* * * * * * * *
6358006 AATA TATA TATA AATA TTAACA AATA AAAA AATA AA-A TATA TATA TATT
1 AATA AATA AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA
* *
6358055 AATA AATA GTAAT- AATA AAT- AATA AATA CATA AGATA CA-A AATA AA
1 AATA AATA --AATA AATA AATA AATA AATA AATA A-ATA AATA AATA AA
6358101 ATATAAAATA
Statistics
Matches: 103, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
3 16 0.16
4 74 0.72
5 7 0.07
6 6 0.06
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:6358075 original size:31 final size:30
Alignment explanation
Indices: 6357972--6358082 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 30
6357962 AGATAAATAG
*
6357972 ATAAATAATAATAAATATATAACTAGATAAATAAA
1 ATAAAT-AT-ATAAATAT-TAAC-AAATAAA-AAA
*
6358007 ATATATATATAAATATTAACAAATAAAAAA
1 ATAAATATATAAATATTAACAAATAAAAAA
* * * *
6358037 ATAAAATATATATATATTAATAAATAGTAATA
1 AT-AAATATATAAATATTAACAAATA-AAAAA
6358069 ATAAATA-ATAAATA
1 ATAAATATATAAATA
6358083 CATAAGATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
30 11 0.17
31 31 0.47
32 9 0.14
33 8 0.12
34 2 0.03
35 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
ATAAATATATAAATATTAACAAATAAAAAA
Found at i:6358079 original size:39 final size:37
Alignment explanation
Indices: 6357979--6358157 Score: 99
Period size: 37 Copynumber: 4.8 Consensus size: 37
6357969 TAGATAAATA
*
6357979 ATAATAAATAT-ATAACTAGATAAATAAAATATATATAT
1 ATAATAAATATAATAA-TAAAT-AATAAAATATATATAT
*
6358017 A-AATATTAACA-AATAA-AAA-AATAAAATATATATAT
1 ATAATA--AATATAATAATAAATAATAAAATATATATAT
* * *
6358052 ATTAATAAATAGTAATAATAAATAATAAATACATAAGATAC
1 A-TAATAAATA-TAATAATAAATAATAAA-ATAT-ATATAT
* * *
6358093 AAAATAAAATATAA-AATATAA-AATTAAAATAAAAATA-
1 ATAAT-AAATATAATAATA-AATAA-TAAAATATATATAT
6358130 ATAATAAAATATAA-AATACAA-AATAAAA
1 ATAAT-AAATATAATAATA-AATAATAAAA
6358158 ACAAAATGGG
Statistics
Matches: 115, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
35 20 0.17
36 5 0.04
37 36 0.31
38 8 0.07
39 21 0.18
40 15 0.13
41 10 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (37 bp):
ATAATAAATATAATAATAAATAATAAAATATATATAT
Found at i:6358102 original size:94 final size:95
Alignment explanation
Indices: 6357910--6358142 Score: 232
Period size: 94 Copynumber: 2.4 Consensus size: 95
6357900 AAATAATCAG
* *
6357910 ATATATCA-AAATATTAACAGATAAATAAAAATAATAATAGATAACTTATAATAGATAAATAGAT
1 ATATAT-ATAAATATTAACAAAT-AA-AAAAATAATAATATAT-AC-TATAATAGATAAATAGAT
* * *
6357974 AAATAATAATAAATATATAACTAGATAAATAAAAT
61 AAATAATAATAAATACATAAATACATAAATAAAAT
*
6358009 ATATATATAAATATTAACAAATAAAAAAATAA-AATATATA-TATATTA-ATAAATAG-TAATAA
1 ATATATATAAATATTAACAAATAAAAAAATAATAATATATACTATAATAGATAAATAGAT-A-AA
6358070 TAAATAATAAATACATAAGATACA-AAATAAAAT
64 T-AATAATAAATACATAA-ATACATAAATAAAAT
* *
6358103 ATAAAATATAAA-ATT-A-AAATAAAAATAATAATAAAATATA
1 AT-ATATATAAATATTAACAAATAAAAA-AATAATAATATATA
6358143 AAATACAAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 21
0.80 0.05 0.14
Matches are distributed among these distances:
91 1 0.01
92 18 0.15
93 15 0.13
94 36 0.31
95 12 0.10
96 6 0.05
97 8 0.07
98 3 0.03
99 19 0.16
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (95 bp):
ATATATATAAATATTAACAAATAAAAAAATAATAATATATACTATAATAGATAAATAGATAAATA
ATAATAAATACATAAATACATAAATAAAAT
Found at i:6358108 original size:7 final size:7
Alignment explanation
Indices: 6358096--6358158 Score: 67
Period size: 7 Copynumber: 8.9 Consensus size: 7
6358086 AAGATACAAA
6358096 ATAAAAT
1 ATAAAAT
6358103 ATAAAAT
1 ATAAAAT
6358110 ATAAAAT
1 ATAAAAT
6358117 -TAAAAT
1 ATAAAAT
*
6358123 AAAAATAAT
1 -ATAA-AAT
6358132 AATAAAAT
1 -ATAAAAT
6358140 ATAAAAT
1 ATAAAAT
*
6358147 ACAAAAT
1 ATAAAAT
6358154 A-AAAA
1 ATAAAA
6358159 CAAAATGGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.20
7 28 0.56
8 5 0.10
9 7 0.14
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:6358108 original size:12 final size:11
Alignment explanation
Indices: 6358093--6358157 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 11
6358083 CATAAGATAC
6358093 AAAATAAAATAT
1 AAAATAAAA-AT
6358105 AAAATATAAAATT
1 AAAATA-AAAA-T
6358118 AAAATAAAAAT
1 AAAATAAAAAT
6358129 AATAATAAAATAT
1 AA-AATAAAA-AT
6358142 AAAATACAAAAT
1 AAAATA-AAAAT
6358154 AAAA
1 AAAA
6358158 ACAAAATGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.06
12 28 0.58
13 17 0.35
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:6358115 original size:19 final size:18
Alignment explanation
Indices: 6358033--6358157 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 18
6358023 TAACAAATAA
*
6358033 AAAAATAAAATATATATAT
1 AAAAATAAAATATA-AAAT
**
6358052 ATTAAT-AAATAGTAATAAT
1 AAAAATAAAATA-TAA-AAT
* *
6358071 AAATAATAAATACATAAGAT
1 AAA-AATAAA-ATATAAAAT
6358091 ACAAAATAAAATATAAAAT
1 A-AAAATAAAATATAAAAT
6358110 ATAAAATTAAAATA-AAAAT
1 A-AAAA-TAAAATATAAAAT
*
6358129 AATAATAAAATATAAAAT
1 AAAAATAAAATATAAAAT
6358147 ACAAAATAAAA
1 A-AAAATAAAA
6358158 ACAAAATGGG
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.08
18 15 0.18
19 35 0.41
20 19 0.22
21 7 0.08
22 2 0.02
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATAAAATATAAAAT
Found at i:6358417 original size:46 final size:42
Alignment explanation
Indices: 6358340--6358552 Score: 168
Period size: 41 Copynumber: 5.0 Consensus size: 42
6358330 AAGATTTGAT
* *
6358340 CAAAACTCCTCTAAGT-AGAGGCTGAACGACTTTAAGAAAACATAAA
1 CAAAGCTCCTCTAA-TCAGAGGCTCAACGACTTT--G-AAA-ATAAA
* *
6358386 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATGAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAA
* * * *
6358428 TAAAGCTTCTCTAAACAGAGGCTCAATC-ACTTTGGAAAGTAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAA-CGACTTT-GAAAATAAA
*
6358471 C--GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA-ATAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATA-AA
** * * * *
6358511 -ATGGCTTCTCTAATTAGAGGCTCAACAATTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAATAAA
6358553 TGGCAACTTT
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 7 0.05
41 52 0.37
42 38 0.27
43 11 0.08
44 1 0.01
45 1 0.01
46 28 0.20
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (42 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAA
Found at i:6358553 original size:41 final size:40
Alignment explanation
Indices: 6358394--6358556 Score: 177
Period size: 41 Copynumber: 4.0 Consensus size: 40
6358384 AACAAAGCTC
*
6358394 CTCTAATCAGAGGCTCAATGACTTTGAAAATGAATAAA--GCTT
1 CTCTAATCAGAGGCTCAA-CACTTTG-AAA--AATAAATGGCTT
* * * * *
6358436 CTCTAAACAGAGGCTCAATCACTTTGGAAAGTAAACGGCTC
1 CTCTAATCAGAGGCTCAA-CACTTTGAAAAATAAATGGCTT
6358477 CTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGCTT
1 CTCTAATCAGAGGCTCAAC-ACTTTGAAAAATAAATGGCTT
* *
6358518 CTCTAATTAGAGGCTCAACAATTTTGAAAAATAAATGGC
1 CTCTAATCAGAGGCTCAAC-ACTTTGAAAAATAAATGGC
6358557 AACTTTGAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.05
40 1 0.01
41 75 0.71
42 24 0.23
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (40 bp):
CTCTAATCAGAGGCTCAACACTTTGAAAAATAAATGGCTT
Found at i:6358572 original size:61 final size:61
Alignment explanation
Indices: 6358497--6358617 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
6358487 AGGCTCAACG
* *
6358497 ACTTTGAAAAATAAATGGCTTC-TCTAATTAGAGGCTCAACAATTTTGAAAAATAAATGGCA
1 ACTTTGAAAAATAAATGGC-TCATCTAATTAGAAGCTCAACAACTTTGAAAAATAAATGGCA
6358558 ACTTTGAAAAATAAATGGCTCATCTAATTAGAAGCTCAACAACTTTGAAAAATAAATGGC
1 ACTTTGAAAAATAAATGGCTCATCTAATTAGAAGCTCAACAACTTTGAAAAATAAATGGC
6358618 TCCTCTAATC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 2 0.04
61 55 0.96
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (61 bp):
ACTTTGAAAAATAAATGGCTCATCTAATTAGAAGCTCAACAACTTTGAAAAATAAATGGCA
Found at i:6358602 original size:41 final size:41
Alignment explanation
Indices: 6358556--6358662 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
6358546 AAATAAATGG
*
6358556 CAACTTTGAAAAATAAATGGCTCATCTAATTAGAAGC-TCAA
1 CAACTTTGAAAAATAAATGGCTCATCTAATCAGAAGCATC-A
* * *
6358597 CAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCATCC
1 CAACTTTGAAAAATAAATGGCTCATCTAATCAGAAGCATCA
* * *
6358638 CAACTTTGGAAAGTAAATTGCTCAT
1 CAACTTTGAAAAATAAATGGCTCAT
6358663 TGACAATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 55 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (41 bp):
CAACTTTGAAAAATAAATGGCTCATCTAATCAGAAGCATCA
Found at i:6358655 original size:102 final size:102
Alignment explanation
Indices: 6358456--6358655 Score: 267
Period size: 102 Copynumber: 2.0 Consensus size: 102
6358446 AGGCTCAATC
* * * * * *
6358456 ACTTTGGAAAGTAAACGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGCTTCTC
1 ACTTTGAAAAATAAACGGCTCATCTAATCAGAAGCTCAACAACTTTGAAAAATAAATGGCTCCTC
* *
6358521 TAATTAGAGGCTCAACAATTTTGAAAAATAAATGGCA
66 TAATCAGAGGCTCAACAACTTTGAAAAATAAATGGCA
* *
6358558 ACTTTGAAAAATAAATGGCTCATCTAATTAGAAGCTCAACAACTTTGAAAAATAAATGGCTCCTC
1 ACTTTGAAAAATAAACGGCTCATCTAATCAGAAGCTCAACAACTTTGAAAAATAAATGGCTCCTC
* * *
6358623 TAATCAGAGGCATC-CCAACTTTGGAAAGTAAAT
66 TAATCAGAGGC-TCAACAACTTTGAAAAATAAAT
6358656 TGCTCATTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 82 0.98
103 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (102 bp):
ACTTTGAAAAATAAACGGCTCATCTAATCAGAAGCTCAACAACTTTGAAAAATAAATGGCTCCTC
TAATCAGAGGCTCAACAACTTTGAAAAATAAATGGCA
Found at i:6359673 original size:19 final size:18
Alignment explanation
Indices: 6359649--6359700 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6359639 ATTCACTTTT
6359649 TTTTCTTCTTTTTTTTCCA
1 TTTTCTTCTTTTTTTT-CA
**
6359668 TTTTCTT-TTTTTCATCA
1 TTTTCTTCTTTTTTTTCA
6359685 TTTT-TTCTCTTTTTTT
1 TTTTCTTCT-TTTTTTT
6359701 TTTCATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 7 0.26
18 11 0.41
19 7 0.26
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTCTTTTTTTTCA
Found at i:6359673 original size:40 final size:38
Alignment explanation
Indices: 6359629--6359709 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 38
6359619 GCCTTGAGTC
*
6359629 TTTCTTCTTCATTCA-C-TTTTTTTTCTTCTTTTTTTTCCAT
1 TTTCTT-TT-ATTCATCATTTTTTCTCTT-TTTTTTTT-CAT
*
6359669 TTTCTTTTTTTCATCATTTTTTCTCTTTTTTTTTTCAT
1 TTTCTTTTATTCATCATTTTTTCTCTTTTTTTTTTCAT
6359707 TTT
1 TTT
6359710 AAGCATAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
38 10 0.27
39 11 0.30
40 16 0.43
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (38 bp):
TTTCTTTTATTCATCATTTTTTCTCTTTTTTTTTTCAT
Found at i:6359674 original size:37 final size:38
Alignment explanation
Indices: 6359636--6359709 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
6359626 GTCTTTCTTC
*
6359636 TTCATTCA-C-TTTTTTTTCTTCTTTTTTTTCCATTTTCT
1 TTCATTCATCATTTTTTCTCTT-TTTTTTTT-CATTTTCT
**
6359674 TTTTTTCATCATTTTTTCTCTTTTTTTTTTCATTTT
1 TTCATTCATCATTTTTTCTCTTTTTTTTTTCATTTT
6359710 AAGCATAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 12 0.39
39 9 0.29
40 10 0.32
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (38 bp):
TTCATTCATCATTTTTTCTCTTTTTTTTTTCATTTTCT
Found at i:6367420 original size:21 final size:20
Alignment explanation
Indices: 6367372--6367421 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6367362 GTACTTGGGT
6367372 ATTTTCTTCTTCAATTTAGC
1 ATTTTCTTCTTCAATTTAGC
**
6367392 ATACTCTTACTTCAATCTT-GC
1 ATTTTCTT-CTTCAAT-TTAGC
6367413 ATTTTCTTC
1 ATTTTCTTC
6367422 AATCAGCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTTCTTCTTCAATTTAGC
Found at i:6370172 original size:58 final size:57
Alignment explanation
Indices: 6370081--6370359 Score: 314
Period size: 58 Copynumber: 4.8 Consensus size: 57
6370071 GCTTTTGTAC
* *
6370081 AAGAAAAATTGATACTTTCAACTTCTCC-CCAAAATATTTTTTAGAAAACTTTAATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAC-TT-ATTTT
* * *
6370139 GAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACCTTTTTT-GAAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTC---AAAAATA--TTTTTTAGAAAACTTA-TTTT
* * * *
6370201 AAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATACTTTTTGGAAAGCTTATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
6370257 CAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
1 -AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
*
6370315 CAA-AGAAAATTGATACTTTCAACCTTTCCTCAAAAATATATTTTT
1 -AAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
6370360 TTAAATTTTA
Statistics
Matches: 193, Mismatches: 16, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
56 9 0.05
57 34 0.18
58 94 0.49
59 6 0.03
61 2 0.01
62 37 0.19
63 5 0.03
64 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (57 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:6370408 original size:17 final size:17
Alignment explanation
Indices: 6370377--6370466 Score: 99
Period size: 17 Copynumber: 4.8 Consensus size: 17
6370367 TTATTTAAAG
6370377 AAAATAAAATGATAAAATA
1 AAAATAAAAT-A-AAAATA
6370396 AAAATGAAAATAAAAATAA
1 AAAAT-AAAATAAAAAT-A
6370415 AGAGAAGTAAAATAAAAATA
1 A-A-AA-TAAAATAAAAATA
*
6370435 AAAATAAAATAAAGATA
1 AAAATAAAATAAAAATA
6370452 AAAATAAAAATAAAA
1 AAAAT-AAAATAAAA
6370467 GAATATTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
17 17 0.27
18 15 0.24
19 9 0.14
20 8 0.13
21 13 0.21
22 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:6370413 original size:6 final size:6
Alignment explanation
Indices: 6370377--6370466 Score: 87
Period size: 6 Copynumber: 14.5 Consensus size: 6
6370367 TTATTTAAAG
*
6370377 AAAAT- AAAATGA TAAAATA AAAATG AAAATA AAAATA AAGAGA-A GTAAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AA-A-ATA --AAAATA
*
6370429 AAAATA AAAAT- AAAATA AAGATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
6370467 GAATATTAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
5 10 0.14
6 48 0.67
7 4 0.06
8 8 0.11
9 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:6370433 original size:27 final size:29
Alignment explanation
Indices: 6370377--6370466 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 29
6370367 TTATTTAAAG
* *
6370377 AAAATAAAATGATAAAATAAAAATGAAAATA
1 AAAATAAAAT-A-AAGATAAAAATAAAAATA
*
6370408 AAAATAAAGA-GAAG-T-AAAATAAAAATA
1 AAAATAAA-ATAAAGATAAAAATAAAAATA
6370435 AAAATAAAATAAAGATAAAAATAAAAATA
1 AAAATAAAATAAAGATAAAAATAAAAATA
6370464 AAA
1 AAA
6370467 GAATATTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 2 0.04
29 17 0.33
31 8 0.16
32 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (29 bp):
AAAATAAAATAAAGATAAAAATAAAAATA
Found at i:6370476 original size:23 final size:23
Alignment explanation
Indices: 6370377--6370476 Score: 85
Period size: 23 Copynumber: 4.1 Consensus size: 23
6370367 TTATTTAAAG
* * *
6370377 AAAATAAAATGATAAAATAAAAATG
1 AAAATAAAA--ATAAAAGAATAATA
6370402 AAAATAAAAATAAAGAGAAGTAAAATA
1 AAAATAAAAATAAA-AGAA-T--AATA
*
6370429 AAAATAAAAATAAAATAA-AGATA
1 AAAATAAAAATAAAAGAATA-ATA
*
6370452 AAAATAAAAATAAAAGAATATTA
1 AAAATAAAAATAAAAGAATAATA
6370475 AA
1 AA
6370477 CAATTCTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.02
23 29 0.46
24 4 0.06
25 9 0.14
26 3 0.05
27 17 0.27
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (23 bp):
AAAATAAAAATAAAAGAATAATA
Found at i:6370737 original size:21 final size:22
Alignment explanation
Indices: 6370703--6370747 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
6370693 TTTCTCAGAA
6370703 TCCCTTCTCGTCTTCTCTCTCT
1 TCCCTTCTCGTCTTCTCTCTCT
*
6370725 TCCCTTCT-TTCTTCTCTCTCT
1 TCCCTTCTCGTCTTCTCTCTCT
6370746 TC
1 TC
6370748 TCTCTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.53
Consensus pattern (22 bp):
TCCCTTCTCGTCTTCTCTCTCT
Found at i:6371352 original size:20 final size:20
Alignment explanation
Indices: 6371285--6371397 Score: 82
Period size: 20 Copynumber: 5.4 Consensus size: 20
6371275 AAAAAAAGAA
* *
6371285 AAAAATATTAATAGATAATT
1 AAAAATAATAATAGATAAAT
* *
6371305 AAAAAGAAAATAATCAGATATAT
1 -AAAA-ATAATAAT-AGATAAAT
* * *
6371328 CAAAACATTAATAGATAAAT
1 AAAAATAATAATAGATAAAT
*
6371348 AAAAATAATAATAGATAACT
1 AAAAATAATAATAGATAAAT
* *
6371368 TATAATAGATAAATAGATAAAT
1 AAAAATA-AT-AATAGATAAAT
*
6371390 AATAATAA
1 AAAAATAA
6371398 ATATATAACT
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
20 28 0.39
21 13 0.18
22 25 0.35
23 6 0.08
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATAATAATAGATAAAT
Found at i:6371377 original size:34 final size:31
Alignment explanation
Indices: 6371336--6371548 Score: 122
Period size: 33 Copynumber: 6.6 Consensus size: 31
6371326 ATCAAAACAT
*
6371336 TAATAGATAAATAAAAATAATAATAGATAACTTA
1 TAATAGATAAATAAAAATAATAATAAAT-A--TA
6371370 TAATAGATAAATAGATAAATAATAATAAATATA
1 TAATAGATAAATA-A-AAATAATAATAAATATA
6371403 TAACTAGATAAAT-AAAAT-ATATATAAATAT-
1 TAA-TAGATAAATAAAAATAATA-ATAAATATA
* *
6371433 TAACAGAT-AA-AAAAATAA-AATATATATA
1 TAATAGATAAATAAAAATAATAATAAATATA
* *
6371461 TTAATAAATAGCACTAATAAAT-A-AATAAATA-A
1 -TAATAGATA--AATAA-AAATAATAATAAATATA
* *
6371493 TAAATACATAAGATACAAAATAA-AATATAAAATA
1 T-AATAGATAA-ATA-AAAATAATAATA-AATATA
* *
6371527 TAAAATATAAAATACAAAATAA
1 TAATAGAT-AAATA-AAAATAA
6371549 AAAAAAACAA
Statistics
Matches: 147, Mismatches: 12, Indels: 41
0.74 0.06 0.20
Matches are distributed among these distances:
27 7 0.05
28 8 0.05
29 11 0.07
30 7 0.05
31 19 0.13
32 16 0.11
33 34 0.23
34 30 0.20
35 2 0.01
36 13 0.09
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (31 bp):
TAATAGATAAATAAAAATAATAATAAATATA
Found at i:6371385 original size:22 final size:20
Alignment explanation
Indices: 6371337--6371408 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
6371327 TCAAAACATT
* *
6371337 AATAGATAAATAAAAATAAT-
1 AATAGATAACT-ATAATAATA
6371357 AATAGATAACTTATAATAGATA
1 AATAGATAAC-TATAATA-ATA
6371379 AATAGATAA--ATAATAATA
1 AATAGATAACTATAATAATA
*
6371397 AATATATAACTA
1 AATAGATAACTA
6371409 GATAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 11 0.25
19 6 0.14
20 15 0.34
21 3 0.07
22 9 0.20
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (20 bp):
AATAGATAACTATAATAATA
Found at i:6371391 original size:26 final size:26
Alignment explanation
Indices: 6371371--6371503 Score: 78
Period size: 26 Copynumber: 4.9 Consensus size: 26
6371361 GATAACTTAT
6371371 AATAGATAAATAGATAAATAATAATA
1 AATAGATAAATAGATAAATAATAATA
* *
6371397 AATATATAACTAGATAAATAA-AATA
1 AATAGATAAATAGATAAATAATAATA
* *
6371422 TATATAAATATTAACAGATAAA-AA-AATAA
1 -A-ATAGATA--AATAGATAAATAATAAT-A
* *
6371451 AATATATATATTA-ATAAATAGCACTAATA
1 AATAGATA-AATAGATAAATA--A-TAATA
*
6371480 AATAAATAAATA-ATAAATACATAA
1 AATAGATAAATAGATAAATA-ATAA
6371504 GATACAAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
25 9 0.10
26 27 0.31
27 14 0.16
28 17 0.20
29 17 0.20
30 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AATAGATAAATAGATAAATAATAATA
Found at i:6371396 original size:14 final size:14
Alignment explanation
Indices: 6371350--6371443 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 14
6371340 AGATAAATAA
6371350 AAATAATAATAGAT
1 AAATAATAATAGAT
* *
6371364 AACTTATAATAGAT
1 AAATAATAATAGAT
*
6371378 AAATAGATAAATAATAAT
1 AAATA-AT-AAT-A-GAT
6371396 AAATATATAACTAGAT
1 AAATA-ATAA-TAGAT
* *
6371412 AAATAAAATATATAT
1 AAATAATA-ATAGAT
* *
6371427 AAATATTAACAGAT
1 AAATAATAATAGAT
6371441 AAA
1 AAA
6371444 AAAATAAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
14 22 0.36
15 14 0.23
16 11 0.18
17 4 0.07
18 10 0.16
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:6371400 original size:4 final size:4
Alignment explanation
Indices: 6371371--6371516 Score: 52
Period size: 4 Copynumber: 36.5 Consensus size: 4
6371361 GATAACTTAT
* * * * *
6371371 AATA GATA AATA GATA AAT- AAT- AATA AATA TATA ACTA GATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * * * * *
6371417 AA-A TATA TATA AATA TTAACA GATA AAAA AATAA AATA TATA TATT AATA
1 AATA AATA AATA AATA --AATA AATA AATA AAT-A AATA AATA AATA AATA
* * *
6371467 AATA GCACT- AATA AATA AATA AAT- AATA AATA CATA AGATA CA-A AATA
1 AATA --AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AATA
6371515 AA
1 AA
6371517 ATATAAAATA
Statistics
Matches: 103, Mismatches: 28, Indels: 22
0.67 0.18 0.14
Matches are distributed among these distances:
3 15 0.15
4 76 0.74
5 7 0.07
6 5 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:6371432 original size:8 final size:8
Alignment explanation
Indices: 6371371--6371540 Score: 58
Period size: 8 Copynumber: 21.5 Consensus size: 8
6371361 GATAACTTAT
*
6371371 AATAGATA
1 AATATATA
*
6371379 AATAGATA
1 AATATATA
6371387 AATAATAATA
1 AAT-AT-ATA
6371397 AATATATA
1 AATATATA
* *
6371405 ACTAGATA
1 AATATATA
6371413 AATA-A-A
1 AATATATA
6371419 ATATATATA
1 A-ATATATA
6371428 AATAT-TA
1 AATATATA
* *
6371435 ACAGATAAA
1 A-ATATATA
*
6371444 AAAATA-A
1 AATATATA
6371451 AATATATA
1 AATATATA
*
6371459 TAT-TAATA
1 AATAT-ATA
6371467 AATAGCACTAATA
1 AAT---A-T-ATA
*
6371480 AATAAATA
1 AATATATA
6371488 AATA-ATA
1 AATATATA
*
6371495 AATACAT-
1 AATATATA
* *
6371502 AAGATACA
1 AATATATA
6371510 AA-ATA-A
1 AATATATA
6371516 AATATA-A
1 AATATATA
6371523 AATATA-A
1 AATATATA
6371530 AATATA-A
1 AATATATA
6371537 AATA
1 AATA
6371541 CAAAATAAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 35
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.04
7 50 0.38
8 54 0.41
9 7 0.05
10 7 0.05
13 8 0.06
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (8 bp):
AATATATA
Found at i:6371442 original size:29 final size:28
Alignment explanation
Indices: 6371386--6371464 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 28
6371376 ATAAATAGAT
6371386 AAATAATAATAAATATATAACTAGATAAATA
1 AAATAAT-ATAAATAT-TAACTAGATAAA-A
6371417 AAATATATATAAATATTAAC-AGATAAAA
1 AAATA-ATATAAATATTAACTAGATAAAA
*
6371445 AAATAAAATATATATATTAA
1 AAAT--AATATAAATATTAA
6371465 TAAATAGCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 5 0.11
29 19 0.43
30 5 0.11
31 13 0.30
32 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
AAATAATATAAATATTAACTAGATAAAA
Found at i:6371524 original size:7 final size:7
Alignment explanation
Indices: 6371512--6371551 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
6371502 AAGATACAAA
6371512 ATAAAAT
1 ATAAAAT
6371519 ATAAAAT
1 ATAAAAT
6371526 ATAAAAT
1 ATAAAAT
6371533 ATAAAAT
1 ATAAAAT
*
6371540 ACAAAAT
1 ATAAAAT
6371547 A-AAAA
1 ATAAAA
6371552 AAAACAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 4 0.12
7 28 0.88
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (7 bp):
ATAAAAT
Found at i:6371536 original size:21 final size:21
Alignment explanation
Indices: 6371479--6371552 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
6371469 TAGCACTAAT
6371479 AAATAAATAAATA-ATAAATACA
1 AAATAAA-AAATATA-AAATACA
* *
6371501 TAAGAT-ACAAA-ATAAAATATA
1 -AA-ATAAAAAATATAAAATACA
*
6371522 AAATATAAAATATAAAATACA
1 AAATAAAAAATATAAAATACA
6371543 AAATAAAAAA
1 AAATAAAAAA
6371553 AAACAAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 25 0.61
22 4 0.10
23 3 0.07
24 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (21 bp):
AAATAAAAAATATAAAATACA
Found at i:6371552 original size:14 final size:14
Alignment explanation
Indices: 6371487--6371552 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
6371477 ATAAATAAAT
*
6371487 AAATAATAAATACA
1 AAATAAAAAATACA
*
6371501 TAAGATACAAAAT--A
1 -AA-ATAAAAAATACA
* *
6371515 AAATATAAAATATA
1 AAATAAAAAATACA
*
6371529 AAATATAAAATACA
1 AAATAAAAAATACA
6371543 AAATAAAAAA
1 AAATAAAAAA
6371553 AAACAAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
12 8 0.19
13 2 0.05
14 24 0.56
15 2 0.05
16 7 0.16
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAAATACA
Found at i:6371916 original size:44 final size:44
Alignment explanation
Indices: 6371881--6371979 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
6371871 GAGCTTCCTT
* *
6371881 TAGAATCCCGAGGGAACTAAG-AGTTACATGGTGGGAGCTATTTC
1 TAGAATCCCAAGAGAACTAAGTA-TTACATGGTGGGAGCTATTTC
* * *
6371925 TAGAATCTCAAGAGAGCTAAGTATTACATGGTGGGAGCTATCTC
1 TAGAATCCCAAGAGAACTAAGTATTACATGGTGGGAGCTATTTC
*
6371969 TAGAATTCCAA
1 TAGAATCCCAA
6371980 CATTAGATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (44 bp):
TAGAATCCCAAGAGAACTAAGTATTACATGGTGGGAGCTATTTC
Found at i:6380012 original size:2 final size:2
Alignment explanation
Indices: 6380005--6380033 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6379995 TTGTTTATCA
6380005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6380034 GATAGATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6382074 original size:23 final size:20
Alignment explanation
Indices: 6382024--6382065 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6382014 CAGTGAGGTC
6382024 TTGTCCAAGATCCATTATTA
1 TTGTCCAAGATCCATTATTA
6382044 TTGTCCAAGATCCATTATTA
1 TTGTCCAAGATCCATTATTA
6382064 TT
1 TT
6382066 AGATGCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (20 bp):
TTGTCCAAGATCCATTATTA
Found at i:6382192 original size:22 final size:22
Alignment explanation
Indices: 6382167--6382209 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6382157 ATTATATTAG
*
6382167 TTAAATACCATATAATTAACTA
1 TTAAATACCACATAATTAACTA
6382189 TTAAATACCACATAATTAACT
1 TTAAATACCACATAATTAACT
6382210 CAGTTAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATACCACATAATTAACTA
Found at i:6384017 original size:3 final size:3
Alignment explanation
Indices: 6384011--6384113 Score: 152
Period size: 3 Copynumber: 34.3 Consensus size: 3
6384001 AGAAAAAGGA
* *
6384011 GAT GAT GAT GAT GAT GAA GAT GAT GAT GAT GAT GAT GAG GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * *
6384059 GAT GAT GAT GAT AAT GAT GTT GAT GTT GAT GAT GAT AAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
6384107 GAT GAT G
1 GAT GAT G
6384114 GTGAAATATA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:6386022 original size:17 final size:16
Alignment explanation
Indices: 6386000--6386043 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
6385990 AAAATTATGC
6386000 TTGAAGTTGTGAATTGT
1 TTGAAGTTGT-AATTGT
6386017 TTGAAGTTGCTAATTGT
1 TTGAAGTTG-TAATTGT
6386034 TTGAAGTTGT
1 TTGAAGTTGT
6386044 TATATTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (16 bp):
TTGAAGTTGTAATTGT
Found at i:6386843 original size:20 final size:19
Alignment explanation
Indices: 6386789--6386845 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
6386779 TTTTATTTAA
6386789 ATTATTGATGAATTTATACT
1 ATTATTGATGAATTT-TACT
* * **
6386809 TTTATCGACAAAATTTTACT
1 ATTATTGA-TGAATTTTACT
6386829 ATTATTGATGGAATTTT
1 ATTATTGAT-GAATTTT
6386846 TATAGTTACC
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (19 bp):
ATTATTGATGAATTTTACT
Found at i:6412394 original size:21 final size:21
Alignment explanation
Indices: 6412369--6412414 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6412359 TTCAACCATA
6412369 TCTTCTAATTGCCCTTTT-ATC
1 TCTTCTAATTG-CCTTTTCATC
6412390 TCTTCTAATTGCCTTTTCATC
1 TCTTCTAATTGCCTTTTCATC
6412411 TCTT
1 TCTT
6412415 TTATGCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.13, C:0.28, G:0.04, T:0.54
Consensus pattern (21 bp):
TCTTCTAATTGCCTTTTCATC
Found at i:6413170 original size:44 final size:44
Alignment explanation
Indices: 6413122--6413208 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
6413112 ATTAGTATGC
* * *
6413122 ATAAAGAATTAAAATCTACAAAACAAACAAATAGATTAGTACAT
1 ATAAAAAATCAAAAGCTACAAAACAAACAAATAGATTAGTACAT
* * * *
6413166 ATAAAAAATCATAAGCTATAAAATAAACAAATAGGTTAGTACA
1 ATAAAAAATCAAAAGCTACAAAACAAACAAATAGATTAGTACA
6413209 CATGTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (44 bp):
ATAAAAAATCAAAAGCTACAAAACAAACAAATAGATTAGTACAT
Found at i:6413824 original size:21 final size:23
Alignment explanation
Indices: 6413778--6413825 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6413768 AAACCATACA
*
6413778 ATAAAACATACAAATATAATATT
1 ATAAAACACACAAATATAATATT
*
6413801 ATAAATCACACAAATA-AATA-T
1 ATAAAACACACAAATATAATATT
6413822 ATAA
1 ATAA
6413826 TCATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 4 0.17
23 14 0.61
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAACACACAAATATAATATT
Found at i:6413856 original size:58 final size:54
Alignment explanation
Indices: 6413801--6413973 Score: 204
Period size: 58 Copynumber: 3.1 Consensus size: 54
6413791 ATATAATATT
* *
6413801 ATAAATCACACAAATAAATATATAATCAT-AAAATATTATAAATCATGTAATTA
1 ATAAATCACACAAATAAATATATAATCATGCAAATATTATAAATCATGCAATTA
* * *
6413854 ATAAATCATACAAATAAATATATTAATAATCATGCAAATATTATTAACCATGCAATTA
1 ATAAATCACACAAAT-AA-ATA-T-ATAATCATGCAAATATTATAAATCATGCAATTA
* *
6413912 ATAAATCACACAAATAAATATATTAACAATCATGCAATTATTATAAATCATACAATTA
1 ATAAATCACACAAATAAATATA-T---AATCATGCAAATATTATAAATCATGCAATTA
6413970 ATAA
1 ATAA
6413974 TATAAATCAT
Statistics
Matches: 101, Mismatches: 10, Indels: 13
0.81 0.08 0.10
Matches are distributed among these distances:
53 14 0.14
54 3 0.03
55 5 0.05
56 4 0.04
57 10 0.10
58 65 0.64
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (54 bp):
ATAAATCACACAAATAAATATATAATCATGCAAATATTATAAATCATGCAATTA
Found at i:6413896 original size:18 final size:18
Alignment explanation
Indices: 6413873--6413908 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6413863 ACAAATAAAT
*
6413873 ATATTAATAATCATGCAA
1 ATATTAATAACCATGCAA
*
6413891 ATATTATTAACCATGCAA
1 ATATTAATAACCATGCAA
6413909 TTAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
ATATTAATAACCATGCAA
Found at i:6413960 original size:18 final size:20
Alignment explanation
Indices: 6413939--6413984 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
6413929 ATATATTAAC
*
6413939 AATCATGCAATT-AT-TATA
1 AATCATACAATTAATATATA
6413957 AATCATACAATTAATAATATA
1 AATCATACAATTAAT-ATATA
6413978 AATCATA
1 AATCATA
6413985 TCAAGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 2 0.08
21 11 0.46
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (20 bp):
AATCATACAATTAATATATA
Found at i:6415023 original size:41 final size:43
Alignment explanation
Indices: 6414972--6415057 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 43
6414962 AAAATTACTT
*
6414972 TATTTATTTATATTCATTCATTTAAA-T-AATAAATT-ATTCA
1 TATTTATTTATATTCATTCAATTAAATTAAATAAATTCATTCA
* *
6415012 TATTTAATTTATATTTATTTAATTAAATTAAATAAATTCATTCA
1 TATTT-ATTTATATTCATTCAATTAAATTAAATAAATTCATTCA
6415056 TA
1 TA
6415058 AACATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 5 0.13
41 18 0.46
42 1 0.03
43 8 0.21
44 7 0.18
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (43 bp):
TATTTATTTATATTCATTCAATTAAATTAAATAAATTCATTCA
Found at i:6415099 original size:26 final size:23
Alignment explanation
Indices: 6415053--6415099 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
6415043 ATAAATTCAT
*
6415053 TCATAAACATTAAAAGAATATGC
1 TCATAAACATTAAAACAATATGC
6415076 TCATAAACATATATAAATCAATAT
1 TCATAAACAT-TA-AAA-CAATAT
6415100 ATTTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 3 0.15
26 5 0.25
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (23 bp):
TCATAAACATTAAAACAATATGC
Found at i:6415130 original size:15 final size:14
Alignment explanation
Indices: 6415108--6415150 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
6415098 ATATTTATAA
6415108 ATAATAAATAAATT
1 ATAATAAATAAATT
6415122 ATAATTAAATAAATT
1 ATAA-TAAATAAATT
* *
6415137 AAAACAAATAAATT
1 ATAATAAATAAATT
6415151 TTAAATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:6416184 original size:6 final size:6
Alignment explanation
Indices: 6416173--6416250 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
6416163 ATTAAGATAA
* ** * * * *
6416173 AAAATT AAAATT AACATT AAAAAC GAAATT CAAATC AAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * *
6416221 ACAATT ACAATT ACAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
6416251 TTTGAGCTTG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:6419583 original size:4 final size:4
Alignment explanation
Indices: 6419570--6419602 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
6419560 CACACTGCTA
6419570 TTCT TT-T TTCT TTCT TTCT TTCT TTCT TT-T TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
6419603 CCCTTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:6420731 original size:48 final size:49
Alignment explanation
Indices: 6420674--6420769 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
6420664 AGCAAGAATT
* *
6420674 TTTTAATTGCTTTTCCAATTTTAAATTATGATTTTATGGTTTGGATTAC
1 TTTTAATTGCTTTTCCAATTTTAAATTATGATTTCATGGTTTGAATTAC
* * *
6420723 TTTT-ATTGCTTTTTCTATTTTAAATTATGATTTCCTGGTTTGAATTA
1 TTTTAATTGCTTTTCCAATTTTAAATTATGATTTCATGGTTTGAATTA
6420770 TTTGTGTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 38 0.90
49 4 0.10
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.57
Consensus pattern (49 bp):
TTTTAATTGCTTTTCCAATTTTAAATTATGATTTCATGGTTTGAATTAC
Found at i:6422787 original size:3 final size:3
Alignment explanation
Indices: 6422779--6422820 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6422769 TTACTGAATA
6422779 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
6422821 GTCATTGACT
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:6423079 original size:18 final size:19
Alignment explanation
Indices: 6423056--6423095 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
6423046 TTCTAATAAT
6423056 AATTAAAAATG-AATTTAA
1 AATTAAAAATGAAATTTAA
6423074 AATTAAAAATGATAATTTAA
1 AATTAAAAATGA-AATTTAA
6423094 AA
1 AA
6423096 ATATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AATTAAAAATGAAATTTAA
Found at i:6427976 original size:10 final size:10
Alignment explanation
Indices: 6427961--6427999 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
6427951 GTAAGGAGAG
*
6427961 AAAATTTGTC
1 AAAATTTTTC
6427971 AAAATTTTTTC
1 AAAA-TTTTTC
6427982 -AAATTTTTC
1 AAAATTTTTC
6427991 AAAATTTTT
1 AAAATTTTT
6428000 TATTTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 6 0.23
10 15 0.58
11 5 0.19
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (10 bp):
AAAATTTTTC
Found at i:6427987 original size:20 final size:20
Alignment explanation
Indices: 6427962--6428000 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6427952 TAAGGAGAGA
6427962 AAATTTGTCAAAATTTTTTC
1 AAATTTGTCAAAATTTTTTC
*
6427982 AAATTTTTCAAAATTTTTT
1 AAATTTGTCAAAATTTTTT
6428001 ATTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
AAATTTGTCAAAATTTTTTC
Found at i:6427989 original size:11 final size:11
Alignment explanation
Indices: 6427969--6428000 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6427959 AGAAAATTTG
6427969 TCAAAATTTTT
1 TCAAAATTTTT
6427980 TC-AAA-TTTT
1 TCAAAATTTTT
6427989 TCAAAATTTTT
1 TCAAAATTTTT
6428000 T
1 T
6428001 ATTTTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.32
10 6 0.32
11 7 0.37
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (11 bp):
TCAAAATTTTT
Found at i:6461461 original size:22 final size:22
Alignment explanation
Indices: 6461395--6461461 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
6461385 ATTATTTTGC
6461395 TTTTATGTGAATAGCTATTA-T
1 TTTTATGTGAATAGCTATTACT
* * **
6461416 TTTGA-GGGATATATTTATCT-CT
1 TTTTATGTGA-ATAGCTAT-TACT
6461438 TTTTATGTGAATAGCTATTACT
1 TTTTATGTGAATAGCTATTACT
6461460 TT
1 TT
6461462 GAGAGTTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 9
0.66 0.16 0.18
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 16 0.48
23 3 0.09
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.52
Consensus pattern (22 bp):
TTTTATGTGAATAGCTATTACT
Found at i:6467357 original size:2 final size:2
Alignment explanation
Indices: 6467350--6467401 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
6467340 CTTCTTTATC
* * *
6467350 TA TA TA TA AA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6467392 TA TA TA TA TA
1 TA TA TA TA TA
6467402 AAGAGGATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6468837 original size:17 final size:17
Alignment explanation
Indices: 6468817--6468864 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
6468807 TTTAAAATGT
6468817 TTAAAATAATAATATTA
1 TTAAAATAATAATATTA
*
6468834 TTAAAAT-AT--TATTT
1 TTAAAATAATAATATTA
*
6468848 TTAATATAATAATATTA
1 TTAAAATAATAATATTA
6468865 AATTAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 2 0.08
17 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATAATAATATTA
Found at i:6468846 original size:14 final size:14
Alignment explanation
Indices: 6468824--6468877 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
6468814 TGTTTAAAAT
6468824 AATAATATTATTAA
1 AATAATATTATTAA
* *
6468838 AATATTATTTTTAA
1 AATAATATTATTAA
* *
6468852 TATAATAATATTAA
1 AATAATATTATTAA
* *
6468866 ATTAATAGTATT
1 AATAATATTATT
6468878 TAATATTAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AATAATATTATTAA
Found at i:6468878 original size:31 final size:30
Alignment explanation
Indices: 6468816--6468895 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
6468806 TTTTAAAATG
* *
6468816 TTTAAAATAATAATATT--ATTAAAATATTA
1 TTTAATATAATAATATTAAATT-AAATAGTA
6468845 TTTTTAATATAATAATATTAAATT-AATAGTA
1 --TTTAATATAATAATATTAAATTAAATAGTA
6468876 TTTAATATTAA-AATATTAAA
1 TTTAATA-TAATAATATTAAA
6468896 ATTTTAGAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 16 0.36
30 3 0.07
31 22 0.50
33 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTAATATAATAATATTAAATTAAATAGTA
Found at i:6468880 original size:29 final size:28
Alignment explanation
Indices: 6468825--6468897 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
6468815 GTTTAAAATA
* * *
6468825 ATAATATTATTAAAATATTATTTTTAAT
1 ATAATAATATTAAAATAATATATTTAAT
*
6468853 ATAATAATATTAAATTAATAGTATTTAAT
1 ATAATAATATTAAAATAATA-TATTTAAT
6468882 ATTAA-AATATTAAAAT
1 A-TAATAATATTAAAAT
6468898 TTTAGAGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 17 0.45
29 18 0.47
30 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
ATAATAATATTAAAATAATATATTTAAT
Found at i:6468894 original size:14 final size:15
Alignment explanation
Indices: 6468848--6468894 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
6468838 AATATTATTT
6468848 TTAATA-TAATAATA
1 TTAATATTAATAATA
*
6468862 TTAA-ATTAATAGTA
1 TTAATATTAATAATA
6468876 TTTAATATTAA-AATA
1 -TTAATATTAATAATA
6468891 TTAA
1 TTAA
6468895 AATTTTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 15 0.54
15 7 0.25
16 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TTAATATTAATAATA
Found at i:6468899 original size:21 final size:21
Alignment explanation
Indices: 6468857--6468899 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6468847 TTTAATATAA
* **
6468857 TAATATTAAATTAATAGTATT
1 TAATATTAAAATAATAAAATT
*
6468878 TAATATTAAAATATTAAAATT
1 TAATATTAAAATAATAAAATT
6468899 T
1 T
6468900 TAGAGTTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATATTAAAATAATAAAATT
Found at i:6469091 original size:22 final size:22
Alignment explanation
Indices: 6469063--6469106 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6469053 ATATTCATAT
*
6469063 TATTAAAGTACTATTAA-TATTA
1 TATTAAA-TAATATTAATTATTA
6469085 TATTAAATAATATTAATTATTA
1 TATTAAATAATATTAATTATTA
6469107 AATAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTAAATAATATTAATTATTA
Done.