Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 59 of 328
Found at i:16439607 original size:16 final size:15
Alignment explanation
Indices: 16439572--16439628 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
16439562 TGTTATTAAA
16439572 TATTATTATTT-TAATG
1 TATTATTATTTCT-A-G
*
16439588 TATTGTTATTTCTAG
1 TATTATTATTTCTAG
16439603 TTATTATTATTTCTAG
1 -TATTATTATTTCTAG
16439619 TATTATTATT
1 TATTATTATT
16439629 ATAATATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 11 0.30
16 25 0.68
17 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTATTATTTCTAG
Found at i:16439718 original size:3 final size:3
Alignment explanation
Indices: 16439712--16439740 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16439702 ATTCTAATAA
16439712 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16439741 AATATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16439725 original size:11 final size:11
Alignment explanation
Indices: 16439711--16439751 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
16439701 TATTCTAATA
16439711 ATATTATTATT
1 ATATTATTATT
16439722 ATATTATTATT
1 ATATTATTATT
16439733 ATTATTATAATATT
1 A-TATTAT--TATT
16439747 ATATT
1 ATATT
16439752 TAGATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 12 0.44
12 6 0.22
13 4 0.15
14 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTATTATT
Found at i:16439746 original size:17 final size:17
Alignment explanation
Indices: 16439700--16439748 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
16439690 TCTCATTACT
* *
16439700 TTATTCTAATAATATTA
1 TTATTATAATATTATTA
*
16439717 TTATTATATTATTATTA
1 TTATTATAATATTATTA
16439734 TTATTATAATATTAT
1 TTATTATAATATTAT
16439749 ATTTAGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATAATATTATTA
Found at i:16439878 original size:17 final size:16
Alignment explanation
Indices: 16439856--16439911 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
16439846 TTACTTTCAC
16439856 TATATTTTTTTAAATAT
1 TATATTTTTTT-AATAT
*
16439873 TATA-TTTTTCATATAT
1 TATATTTTTTTA-ATAT
16439889 TATGTATTTTTTT-ATAT
1 TA--TATTTTTTTAATAT
16439906 TATATT
1 TATATT
16439912 ATTCGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 10 0.30
18 2 0.06
19 5 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TATATTTTTTTAATAT
Found at i:16439888 original size:16 final size:16
Alignment explanation
Indices: 16439869--16439927 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
16439859 ATTTTTTTAA
16439869 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
*
16439885 ATATTATGTATTTTT-TT
1 ATATTA--TATTTTTCAT
* *
16439902 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
16439918 ATATTTTATT
1 ATATTATATT
16439928 GTATTATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 6 0.17
16 16 0.44
17 7 0.19
18 7 0.19
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:16439906 original size:33 final size:34
Alignment explanation
Indices: 16439858--16439922 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
16439848 ACTTTCACTA
*
16439858 TATTTTTTTAAATATTATATTTTTCATATATTATG
1 TATTTTTTT-AATATTATATTATTCATATATTATG
*
16439893 TATTTTTTT-ATATTATATTATTCGTATATT
1 TATTTTTTTAATATTATATTATTCATATATT
16439923 TTATTGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 19 0.68
35 9 0.32
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (34 bp):
TATTTTTTTAATATTATATTATTCATATATTATG
Found at i:16439938 original size:33 final size:33
Alignment explanation
Indices: 16439862--16439944 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
16439852 TCACTATATT
* *
16439862 TTTTTAAATATTATATTTTTCATATATTATGTA
1 TTTTTATATATTATATTATTCATATATTATGTA
* *
16439895 TTTTTTTATATTATATTATTCGTATATT-T-TA
1 TTTTTATATATTATATTATTCATATATTATGTA
16439926 TTGTATTATATATATATAT
1 TT-T-TTATATAT-TATAT
16439945 ATAAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 4 0.10
32 2 0.05
33 31 0.74
34 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (33 bp):
TTTTTATATATTATATTATTCATATATTATGTA
Found at i:16440132 original size:25 final size:25
Alignment explanation
Indices: 16440094--16440141 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16440084 ATTATTGTTA
* *
16440094 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
16440119 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
16440142 TTATGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Found at i:16440308 original size:12 final size:12
Alignment explanation
Indices: 16440291--16440316 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16440281 TATAATCTGA
16440291 ATACTATATTAT
1 ATACTATATTAT
16440303 ATACTATATTAT
1 ATACTATATTAT
16440315 AT
1 AT
16440317 TTTTTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
ATACTATATTAT
Found at i:16440331 original size:14 final size:16
Alignment explanation
Indices: 16440295--16440364 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
16440285 ATCTGAATAC
* *
16440295 TATATTATATACTATA
1 TATATTATCTTCTATA
*
16440311 TTATATT-TTTTCT-TA
1 -TATATTATCTTCTATA
16440326 TATATTATCTTCTATA
1 TATATTATCTTCTATA
* *
16440342 TATATATAT-ATATATA
1 TATAT-TATCTTCTATA
16440358 TATATTA
1 TATATTA
16440365 ATAACTCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 6 0.13
15 9 0.20
16 21 0.47
17 9 0.20
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTATCTTCTATA
Found at i:16440343 original size:2 final size:2
Alignment explanation
Indices: 16440338--16440362 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16440328 TATTATCTTC
16440338 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
16440363 TAATAACTCT
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:16452947 original size:139 final size:138
Alignment explanation
Indices: 16452691--16452951 Score: 370
Period size: 139 Copynumber: 1.9 Consensus size: 138
16452681 CTGCTTTCAG
*
16452691 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACATGCTGAGGTATTTCCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACACA-GCTGAGGTATTTCCAATT
*
16452756 TCTGTTTTAGTTCATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAATT
63 TCTATTTTAGTTCATGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAATT
16452821 TCTACTTTTCCA
127 TCTACTTTTCCA
16452833 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACAC-GCTGAGGTAATTT-CAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAGGCACACAGCTGAGGT-ATTTCCAATTT
*
16452895 CTATCTTTAATTTCTACT-TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 CTAT-TTT-AGTTC-A-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
16452952 CTTAGGGCAC
Statistics
Matches: 110, Mismatches: 3, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
138 17 0.15
139 41 0.37
140 8 0.07
141 6 0.05
142 35 0.32
143 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (138 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCACACAGCTGAGGTATTTCCAATTTCT
ATTTTAGTTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAATTTCTA
CTTTTCCA
Found at i:16452963 original size:86 final size:87
Alignment explanation
Indices: 16452814--16453209 Score: 458
Period size: 86 Copynumber: 4.6 Consensus size: 87
16452804 GAGTTGAGCT
*
16452814 TTTAATTTCTAC-TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACG
1 TTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGCACACG
*
16452877 CTGAGGTAA-TTTCAATTTCTATC
66 CTGAGG-AATTTTCAATTTCT-TG
*
16452900 TTTAATTTCTACTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-GCACG
1 TTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGCACACG
* *
16452963 CTAAGGAATTTTTAATTT-TTG
66 CTGAGGAATTTTCAATTTCTTG
* * * *
16452984 TTTCCAATCTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCAC
1 TTT--AATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-CAC
* * *
16453048 ACGCTGAGGTATTTCCAAATTC-TG
63 ACGCTGAGGAATTTTCAATTTCTTG
* * * *
16453072 TTTAATTTATAC-TTTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCC-TCGGCTCACA
1 TTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG--CACA
*
16453135 TGCTGAGGAATTTTCAATTTC-TG
64 CGCTGAGGAATTTTCAATTTCTTG
* *
16453158 TTTTAA-TTC-ATTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
1 -TTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
16453210 TTTTAATTTC
Statistics
Matches: 269, Mismatches: 29, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
84 4 0.01
85 12 0.04
86 221 0.82
87 10 0.04
88 22 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTAATTTCTACTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGCACACG
CTGAGGAATTTTCAATTTCTTG
Found at i:16453240 original size:55 final size:55
Alignment explanation
Indices: 16453175--16453374 Score: 355
Period size: 55 Copynumber: 3.6 Consensus size: 55
16453165 TCATTTTTTC
**
16453175 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTTTAATTTCTGTTTTTCAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTTAATTTCTGTTTTTCAA
* *
16453230 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAATTTCTATTTTTCAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTTAATTTCTGTTTTTCAA
*
16453285 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCTTTTAATTTCTGTTTTTCAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTTAATTTCTGTTTTTCAA
16453340 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
16453375 CTTTGGTCAC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 139 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (55 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTTAATTTCTGTTTTTCAA
Found at i:16453662 original size:10 final size:10
Alignment explanation
Indices: 16453647--16453684 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
16453637 AAAGAATAAA
16453647 GATTGAAGTT
1 GATTGAAGTT
16453657 GATTGAAGTT
1 GATTGAAGTT
16453667 GATTGAAGTT
1 GATTGAAGTT
16453677 GATTGAAG
1 GATTGAAG
16453685 ACACCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (10 bp):
GATTGAAGTT
Found at i:16455376 original size:27 final size:26
Alignment explanation
Indices: 16455346--16455419 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
16455336 TCATTCCTAA
*
16455346 TATTATTAATACTATTATTTCTATATT
1 TATTATTAATACTATTATTT-TATAGT
** * *
16455373 TATTATTGTTATTATTAATTTTCTAGT
1 TATTATTAATACTATT-ATTTTATAGT
16455400 TATTA--AATACTATTATTTTA
1 TATTATTAATACTATTATTTTA
16455420 ATGTATTGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
24 5 0.14
25 6 0.16
27 22 0.59
28 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (26 bp):
TATTATTAATACTATTATTTTATAGT
Found at i:16455442 original size:16 final size:15
Alignment explanation
Indices: 16455422--16455463 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
16455412 TTATTTTAAT
*
16455422 GTATTGTTATTTCTA
1 GTATTATTATTTCTA
16455437 GTTATTATTATTTCTA
1 G-TATTATTATTTCTA
16455453 GTATTATTATT
1 GTATTATTATT
16455464 ATAATATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (15 bp):
GTATTATTATTTCTA
Found at i:16455560 original size:11 final size:11
Alignment explanation
Indices: 16455546--16455574 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
16455536 TATTCTAATA
16455546 ATATTATTATT
1 ATATTATTATT
16455557 ATATTATTATT
1 ATATTATTATT
16455568 ATATTAT
1 ATATTAT
16455575 ATTTAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTATTATT
Found at i:16455714 original size:27 final size:27
Alignment explanation
Indices: 16455681--16455767 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
16455671 TTACTTTCAC
*
16455681 TATATTTTTTAAATATTATATTAT-TCG
1 TATATTTTTTAAATATTATATTATAT-A
*
16455708 TATATTTTATT--GTATTATA-TATATA
1 TATATTTT-TTAAATATTATATTATATA
*
16455733 TATATTTTTTAAATAATTATATTATGTA
1 TATATTTTTTAAAT-ATTATATTATATA
*
16455761 TACATTT
1 TATATTT
16455768 GTAAGTATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
24 2 0.04
25 11 0.22
26 9 0.18
27 14 0.29
28 13 0.27
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
TATATTTTTTAAATATTATATTATATA
Found at i:16455819 original size:28 final size:27
Alignment explanation
Indices: 16455786--16455852 Score: 66
Period size: 30 Copynumber: 2.4 Consensus size: 27
16455776 CATACTATTC
* *
16455786 ATATATTTTATTGTTATTTCATATATAT
1 ATATATTTTATTATTAGTT-ATATATAT
16455814 ATATATATGTATATTATTAGTTATATATAT
1 ATATAT-T-T-TATTATTAGTTATATATAT
16455844 AT-T-TTTTAT
1 ATATATTTTAT
16455853 ACTATTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 1 0.03
28 7 0.21
29 2 0.06
30 11 0.32
31 9 0.26
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (27 bp):
ATATATTTTATTATTAGTTATATATAT
Found at i:16456132 original size:2 final size:2
Alignment explanation
Indices: 16456125--16456159 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16456115 CATATTATCT
16456125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16456160 TTAATAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16464956 original size:2 final size:2
Alignment explanation
Indices: 16464949--16464973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16464939 TATGGTAGTT
16464949 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
16464974 GTTCAATAAA
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:16465979 original size:41 final size:41
Alignment explanation
Indices: 16465932--16466262 Score: 358
Period size: 41 Copynumber: 8.1 Consensus size: 41
16465922 ATTTGCAATA
* * * *
16465932 AAACGCCGCAAAAAACTGAGCAATAGCGGTGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
16465973 AAACGCCACTAAAAACTGAGCAATAGCTGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
16466014 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
16466055 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * * * *
16466096 AAACACCACTAAAAACTTATCTATATCGACGTTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCG-TTTTTGGTCC
* * * *
16466138 AAATGCCACTAAAAACTGGGTAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * **
16466179 AAACGCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* ** * *
16466219 AAACACTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
16466260 AAA
1 AAA
16466263 TGCTGCAAAA
Statistics
Matches: 233, Mismatches: 55, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
40 30 0.13
41 173 0.74
42 30 0.13
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:16466034 original size:82 final size:82
Alignment explanation
Indices: 16465932--16466262 Score: 432
Period size: 82 Copynumber: 4.0 Consensus size: 82
16465922 ATTTGCAATA
* * *
16465932 AAACGCCGCAAAAAACTGAGCAATAGCGGTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
16465997 AGCTGCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
** * *
16466014 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
16466079 AGCGGCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * * * * *
16466096 AAACACCACTAAAAACTTATCTATATCGACGT-TTTTTGTTCCAAATGCCACTAAAAACTGGGTA
1 AAACGCCACTAAAAACTGAGCTATAGCG--GTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCA
16466160 ATAGCGGCGTTTCTGGTCC
64 ATAGCGGCGTTTCTGGTCC
* * * * **
16466179 AAACGCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCCAAACACTGCTAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
*
16466243 AGCGGCATTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
16466260 AAA
1 AAA
16466263 TGCTGCAAAA
Statistics
Matches: 215, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.00
81 46 0.21
82 112 0.52
83 55 0.26
84 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (82 bp):
AAACGCCACTAAAAACTGAGCTATAGCGGTGTTTTTGTTCCAAACGCCACTAAAAACTGAGCAAT
AGCGGCGTTTCTGGTCC
Found at i:16466294 original size:164 final size:164
Alignment explanation
Indices: 16465962--16466307 Score: 455
Period size: 164 Copynumber: 2.1 Consensus size: 164
16465952 CAATAGCGGT
* *
16465962 GTTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCTGCGTTTCTGGTCCAAACGCCACTAAA
1 GTTTTTGTTCCAAATGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAA
* * * * * *
16466027 AACTGAGCTATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTG
66 AACTAAGCTATAGCGACATTTTTGGTCCAAACGACTCTAAAAACTGAGCAATAGCGGCATTTCTG
* * *
16466092 GTCCAAACACCACTAAAAACTTATCTATATCGAC
131 GTCCAAACACCACTAAAAACTTATATATAGCAAC
* *
16466126 GTTTTTTGTTCCAAATGCCACTAAAAACTGGGTAATAGCGGCGTTTCTGGTCCAAACGCCACT-A
1 G-TTTTTGTTCCAAATGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAA
**
16466190 AAACTAAGCTATAGCGATGTTTTTGGTCCAAAC-ACTGCTAAAAACTGAGCAATAGCGGCATTTC
65 AAACTAAGCTATAGCGACATTTTTGGTCCAAACGACT-CTAAAAACTGAGCAATAGCGGCATTTC
** ** *
16466254 TGGTCCAAATGCTGC-AAAAAGTTGATATATAGCAAC
129 TGGTCCAAACACCACTAAAAACTT-ATATATAGCAAC
*
16466290 GTTTTTGGTCCAAATGCC
1 GTTTTTGTTCCAAATGCC
16466308 GTAAAACGTT
Statistics
Matches: 158, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
163 25 0.16
164 76 0.48
165 57 0.36
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (164 bp):
GTTTTTGTTCCAAATGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAA
AACTAAGCTATAGCGACATTTTTGGTCCAAACGACTCTAAAAACTGAGCAATAGCGGCATTTCTG
GTCCAAACACCACTAAAAACTTATATATAGCAAC
Found at i:16466426 original size:18 final size:17
Alignment explanation
Indices: 16466394--16466428 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16466384 ATTTTCTTAT
*
16466394 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
16466411 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
16466429 AACTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:16466597 original size:7 final size:7
Alignment explanation
Indices: 16466586--16466617 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16466576 TGGCTTTATC
*
16466586 TAAACCC
1 TAAACCT
16466593 TAAACCT
1 TAAACCT
16466600 TAAACCT
1 TAAACCT
16466607 TAAACCT
1 TAAACCT
16466614 TAAA
1 TAAA
16466618 TTCTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:16466795 original size:7 final size:7
Alignment explanation
Indices: 16466784--16466847 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
16466774 ATTATTTTTG
*
16466784 GGTTTAG
1 GGTTTAA
16466791 GGTTTAA
1 GGTTTAA
**
16466798 TATTTAA
1 GGTTTAA
16466805 GGTTTAA
1 GGTTTAA
* *
16466812 GGTCTAT
1 GGTTTAA
*
16466819 GGTTTAG
1 GGTTTAA
*
16466826 GGTTGTAT
1 GGTT-TAA
16466834 GGTTTAA
1 GGTTTAA
16466841 GGTTTAA
1 GGTTTAA
16466848 TAGTTATTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:16466836 original size:15 final size:15
Alignment explanation
Indices: 16466805--16466844 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16466795 TAATATTTAA
*
16466805 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTGTAT
*
16466819 GGTTTAGGGTTGTAT
1 GGTTTAAGGTTGTAT
16466834 GGTTTAAGGTT
1 GGTTTAAGGTT
16466845 TAATAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (15 bp):
GGTTTAAGGTTGTAT
Found at i:16466959 original size:22 final size:20
Alignment explanation
Indices: 16466929--16466992 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
16466919 TGTTTGGGGT
*
16466929 TTAGTGTTTAAGGTTTAAGG
1 TTAGGGTTTAAGGTTTAAGG
*
16466949 TCTTAGGGTTTATGGTTTTAAAGG
1 --TTAGGGTTTAAGG-TTT-AAGG
*
16466973 TTAGGGTTTAGGGTTTAAGG
1 TTAGGGTTTAAGGTTTAAGG
16466993 GCTAAGGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.11
21 3 0.08
22 23 0.62
23 3 0.08
24 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.44
Consensus pattern (20 bp):
TTAGGGTTTAAGGTTTAAGG
Found at i:16466960 original size:15 final size:14
Alignment explanation
Indices: 16466920--16466992 Score: 51
Period size: 15 Copynumber: 5.1 Consensus size: 14
16466910 AAAGTTTGTT
*
16466920 GTTTGGGGTTT-AG
1 GTTTAGGGTTTAAG
*
16466933 TGTTTAAGGTTTAAG
1 -GTTTAGGGTTTAAG
*
16466948 GTCTTAGGGTTTATG
1 GT-TTAGGGTTTAAG
* *
16466963 GTTTTAAAGG-TTAGG
1 G-TTT-AGGGTTTAAG
16466978 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
16466992 G
1 G
16466993 GCTAAGGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
13 3 0.07
14 19 0.41
15 20 0.43
16 4 0.09
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:16467214 original size:87 final size:84
Alignment explanation
Indices: 16467031--16467188 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 84
16467021 AAATCAATTT
* * * *
16467031 ATTTTAAGGTTTAAGTAAGCAATAATATTCTTCTTTAATAACTTTTGTACCTTGTAATATATATA
1 ATTTTAGGGTTTAGGTAAGCAATAAGATTCTTCTTTAATAACTTTTGTACC-T-T-ATACATATA
16467096 TATATAGGGTTTTGGGTTTATG
63 TATATAGGGTTTTGGGTTTATG
*
16467118 ATTTTAGGGTTTAGGTAAGCAATAAGATTCTTTTTTAA-ATACTTTTGTACC-T-TACA-ATATA
1 ATTTTAGGGTTTAGGTAAGCAATAAGATTCTTCTTTAATA-ACTTTTGTACCTTATACATATATA
16467179 TATAGGGTTT
65 TATAGGGTTT
16467189 ATGGTTATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
81 15 0.23
82 3 0.05
84 1 0.02
86 1 0.02
87 45 0.69
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (84 bp):
ATTTTAGGGTTTAGGTAAGCAATAAGATTCTTCTTTAATAACTTTTGTACCTTATACATATATAT
ATAGGGTTTTGGGTTTATG
Found at i:16467512 original size:21 final size:21
Alignment explanation
Indices: 16467486--16467556 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
16467476 CATGGAAGTG
* *
16467486 GGTTTAAGG-TTTAGGATTTAG
1 GGTTT-AGGATTTAGGGTTTAA
*
16467507 GATTTAGGATTTAGGGTTTAA
1 GGTTTAGGATTTAGGGTTTAA
*
16467528 GGTTTAGGGTATT-GGGTTTAA
1 GGTTTAGGAT-TTAGGGTTTAA
16467549 GGTTTAGG
1 GGTTTAGG
16467557 GGTAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 3 0.07
21 38 0.88
22 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (21 bp):
GGTTTAGGATTTAGGGTTTAA
Found at i:16467536 original size:14 final size:14
Alignment explanation
Indices: 16467485--16467557 Score: 69
Period size: 14 Copynumber: 5.2 Consensus size: 14
16467475 GCATGGAAGT
16467485 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
*
16467499 GGATTT-AGGATTTA
1 GGGTTTAAGG-TTTA
* *
16467513 GGATTTAGGGTTTA
1 GGGTTTAAGGTTTA
* *
16467527 AGGTTTAGGGTATT-
1 GGGTTTAAGGT-TTA
16467541 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
16467555 GGG
1 GGG
16467558 GTAAATTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
13 5 0.10
14 40 0.82
15 4 0.08
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:16468664 original size:20 final size:20
Alignment explanation
Indices: 16468639--16468691 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
16468629 AGGGGCACAC
16468639 GCCCGTGTGGCCT-GAGACAT
1 GCCCGTGTGGCCTGGA-ACAT
16468659 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
16468679 GCCCGTGTGGCCT
1 GCCCGTGTGGCCT
16468692 ACCCGTGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.11, C:0.32, G:0.36, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:16470866 original size:3 final size:3
Alignment explanation
Indices: 16470845--16470900 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
16470835 TTATCTCAAT
16470845 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16470889 TAA TAA TAA TAA
1 TAA TAA TAA TAA
16470901 GTAAATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:16471302 original size:18 final size:18
Alignment explanation
Indices: 16471279--16471315 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16471269 TTTACATTCC
16471279 TTAGTGTTAGAATTGTCT
1 TTAGTGTTAGAATTGTCT
16471297 TTAGTGTTAGAATTGTCT
1 TTAGTGTTAGAATTGTCT
16471315 T
1 T
16471316 CACATCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (18 bp):
TTAGTGTTAGAATTGTCT
Found at i:16472201 original size:24 final size:24
Alignment explanation
Indices: 16472174--16472231 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
16472164 AATACTATGT
16472174 ATATAATATTTGTAACTAAAATTA
1 ATATAATATTTGTAACTAAAATTA
* *
16472198 ATATTATATTTGTATCTAAAATTA
1 ATATAATATTTGTAACTAAAATTA
*
16472222 ATATGATATT
1 ATATAATATT
16472232 ATAAAATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (24 bp):
ATATAATATTTGTAACTAAAATTA
Found at i:16472336 original size:21 final size:20
Alignment explanation
Indices: 16472312--16472350 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16472302 TTGTAGGGGA
*
16472312 CATTTTATATTATAGTTATTT
1 CATTTCATATTATA-TTATTT
*
16472333 CATTTCATTTTATATTAT
1 CATTTCATATTATATTAT
16472351 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
CATTTCATATTATATTATTT
Found at i:16473809 original size:9 final size:9
Alignment explanation
Indices: 16473795--16473894 Score: 86
Period size: 9 Copynumber: 11.4 Consensus size: 9
16473785 ATATCATATA
16473795 ATAACTTAC
1 ATAACTTAC
*
16473804 ATAACTCAC
1 ATAACTTAC
*
16473813 ACAACTTAC
1 ATAACTTAC
16473822 ATAACTTA-
1 ATAACTTAC
*
16473830 ATAACTTAT
1 ATAACTTAC
16473839 ATATA-TATATC
1 ATA-ACT-TA-C
16473850 AT-A--TA-
1 ATAACTTAC
*
16473855 ATAATTTAC
1 ATAACTTAC
*
16473864 ATAACTCAC
1 ATAACTTAC
16473873 ATAACTTAC
1 ATAACTTAC
16473882 ATAACTTAC
1 ATAACTTAC
16473891 ATAA
1 ATAA
16473895 TACATAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 2 0.03
8 10 0.13
9 55 0.73
10 3 0.04
11 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:16474609 original size:13 final size:15
Alignment explanation
Indices: 16474591--16474622 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16474581 GACCTATAAC
16474591 GCCTAG-AAT-TTGG
1 GCCTAGAAATATTGG
16474604 GCCTAGAAATATTGG
1 GCCTAGAAATATTGG
16474619 GCCT
1 GCCT
16474623 TTAGTATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (15 bp):
GCCTAGAAATATTGG
Found at i:16475784 original size:27 final size:27
Alignment explanation
Indices: 16475754--16475997 Score: 250
Period size: 27 Copynumber: 9.1 Consensus size: 27
16475744 CCCATAATAA
* *
16475754 AAAAATACTAAAATATCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
16475781 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
* ** * *
16475808 GAAATTACCGAAACACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTGT
* *
16475835 AAAATTA-TCGAAATACCC-CAATTTGT
1 AAAATTACT-AAAATACCCTCGATTTGT
* * *
16475861 AAAATTACTGAAATACCCCCGAATTGT
1 AAAATTACTAAAATACCCTCGATTTGT
* *
16475888 AAAATTA-TCAAAATACCTTC-AATTGT
1 AAAATTACT-AAAATACCCTCGATTTGT
16475914 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
*
16475941 AAAATTA-TCAAAATA-TCTCTGATTTGT
1 AAAATTACT-AAAATACCCTC-GATTTGT
*
16475968 AAAATTA-TCAAAACACCCTCGATTTGT
1 AAAATTACT-AAAATACCCTCGATTTGT
16475995 AAA
1 AAA
16475998 CGATTTGTAA
Statistics
Matches: 186, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
26 50 0.27
27 133 0.72
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTGT
Found at i:16475891 original size:53 final size:53
Alignment explanation
Indices: 16475754--16475997 Score: 269
Period size: 53 Copynumber: 4.6 Consensus size: 53
16475744 CCCATAATAA
* * *
16475754 AAAAATACTAAAATATCCTCGATTTGTAAAATTA-CTAAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGTAAAATTATC-AAAATACCC-CAATTTGT
* ** * * *
16475808 GAAATTACCGAAACACCCTCGATTTATAAAATTATCGAAATACCCCAATTTGT
1 AAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCCAATTTGT
* * * *
16475861 AAAATTACTGAAATACCCCCGAATTGTAAAATTATCAAAATACCTTCAA-TTGT
1 AAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACC-CCAATTTGT
* **
16475914 AAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATATCTCTGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATA-CCCCAATTTGT
*
16475968 AAAATTA-TCAAAACACCCTCGATTTGTAAA
1 AAAATTACT-AAAATACCCTCGATTTGTAAA
16475998 CGATTTGTAA
Statistics
Matches: 160, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
53 89 0.56
54 70 0.44
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCCAATTTGT
Found at i:16475893 original size:80 final size:81
Alignment explanation
Indices: 16475754--16475997 Score: 280
Period size: 80 Copynumber: 3.0 Consensus size: 81
16475744 CCCATAATAA
* * * * * * *
16475754 AAAAATACTAAAATATCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTGAAATTACCGA
1 AAAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCCCGATTTGTAAAATTATCAA
*
16475819 AACACCCTCGATTTAT
66 AACACCCTCGATTTGT
* * *
16475835 AAAATTA-TCGAAATACCC-CAATTTGTAAAATTACTGAAATACCCCCGAATTGTAAAATTATCA
1 AAAATTACT-AAAATACCCTCAATTTGTAAAATTACTAAAATACCCCCGATTTGTAAAATTATCA
* * *
16475898 AAATACCTTC-AATTGT
65 AAACACCCTCGATTTGT
* * * *
16475914 AAAATTACTAAAATACCCTCGATTTGTAAAATTA-TCAAAATATCTCTGATTTGTAAAATTATCA
1 AAAATTACTAAAATACCCTCAATTTGTAAAATTACT-AAAATACCCCCGATTTGTAAAATTATCA
16475978 AAACACCCTCGATTTGT
65 AAACACCCTCGATTTGT
16475995 AAA
1 AAA
16475998 CGATTTGTAA
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
79 20 0.15
80 93 0.69
81 21 0.16
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCCCGATTTGTAAAATTATCAA
AACACCCTCGATTTGT
Found at i:16476033 original size:27 final size:26
Alignment explanation
Indices: 16476003--16476091 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
16475993 GTAAACGATT
16476003 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
* **
16476030 TGTAGAATTAACGAAATAAGCTTGTAG
1 TGTAAAATT-ACGAAATACCCTTGTAG
* * *
16476057 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATTAC-GAAATACCCTTGTAG
*
16476084 GGTAAAAT
1 TGTAAAAT
16476092 GACAATTTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.04
27 47 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCTTGTAG
Found at i:16481875 original size:26 final size:26
Alignment explanation
Indices: 16481846--16481927 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
16481836 TGATACAAAT
16481846 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16481872 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16481898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16481924 TGAT
1 TGAT
16481928 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16488876 original size:25 final size:26
Alignment explanation
Indices: 16488835--16488939 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
16488825 TTATACAAAT
16488835 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16488861 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
16488885 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16488911 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16488936 TGAT
1 TGAT
16488940 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
24 9 0.12
25 52 0.68
26 16 0.21
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16491642 original size:13 final size:14
Alignment explanation
Indices: 16491626--16491654 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16491616 TTTTAAATAT
16491626 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
16491639 TTATAATGGTTTAA
1 TTATAATGGTTTAA
16491653 TT
1 TT
16491655 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:16492478 original size:43 final size:43
Alignment explanation
Indices: 16492414--16492770 Score: 254
Period size: 43 Copynumber: 8.3 Consensus size: 43
16492404 TCTGCTAAAA
* *
16492414 TTAGTGGCGTTTTTT-AGAAAAGCGCCGGTAAAGGTCACTTTCT
1 TTAGCGGCGTTTTTTGA-AAAAGCGCCGCTAAAGGTCACTTTCT
* *
16492457 TTAGCGGC-TTTTTTGAAAAAAGCGCCGGTAAAGGTCA-TGTTAT
1 TTAGCGGCGTTTTTTG-AAAAAGCGCCGCTAAAGGTCACT-TTCT
* * *
16492500 TTAGCGGCGTTTGTATG-AAAAGCGCTGCTAAAGGTCACGTTCT
1 TTAGCGGCGTTT-TTTGAAAAAGCGCCGCTAAAGGTCACTTTCT
* * *
16492543 TTAGCGGCGTTTGTATG-AAAAGCGCCACTAAAGGCCACTTTCT
1 TTAGCGGCGTTT-TTTGAAAAAGCGCCGCTAAAGGTCACTTTCT
* * *
16492586 TTAGTGGCG-TTTTTGAGAAAAGTGCCGTTAAAGGTCA-TGTTCT
1 TTAGCGGCGTTTTTTGA-AAAAGCGCCGCTAAAGGTCACT-TTCT
* **
16492629 TTAGCGGCGTTTGTATG-AAAA-CTGCCGCTAAAGGTCACCCTCT
1 TTAGCGGCGTTT-TTTGAAAAAGC-GCCGCTAAAGGTCACTTTCT
* * * * * * *
16492672 TTAACGGTG-TTTTTGAGAAAATCACCACTAAA-TTCACGTTCT
1 TTAGCGGCGTTTTTTGA-AAAAGCGCCGCTAAAGGTCACTTTCT
* * * * *
16492714 TTAACGGCGCTTTCTCAAAAA-CGCCGCTAAATGTCA-TGTTCT
1 TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCACT-TTCT
* *
16492756 TTAGCGACATTTTTT
1 TTAGCGGCGTTTTTT
16492771 TTACATAAAC
Statistics
Matches: 252, Mismatches: 43, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
41 14 0.06
42 48 0.19
43 177 0.70
44 7 0.03
45 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCACTTTCT
Found at i:16492649 original size:129 final size:129
Alignment explanation
Indices: 16492430--16492761 Score: 368
Period size: 129 Copynumber: 2.6 Consensus size: 129
16492420 GCGTTTTTTA
** * *
16492430 GAAAAGCGCCGGTAAAGGTCACTTTCTTTAGCGGCTTTTTTGAAAAAAGCGCCGGTAAAGGTCAT
1 GAAAAGCGCCACTAAAGGCCACTTTCTTTAGCGGCGTTTTTGAAAAAAGCGCCGGTAAAGGTCAT
*
16492495 GTTATTTAGCGGCGTTTGTATGAAAAGC-GCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTAT
66 GTTATTTAGCGGCGTTTGTATGAAAA-CTGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTAT
* * * *
16492559 GAAAAGCGCCACTAAAGGCCACTTTCTTTAGTGGCGTTTTTGAGAAAAGTGCCGTTAAAGGTCAT
1 GAAAAGCGCCACTAAAGGCCACTTTCTTTAGCGGCGTTTTTGAAAAAAGCGCCGGTAAAGGTCAT
* ** * * *
16492624 GTTCTTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACCCTCTTTAACGGTGTTTTTGA-
66 GTTATTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGT-AT
* * ** * * * * * *
16492688 GAAAATCACCACTAAA-TTCACGTTCTTTAACGGCGCTTTCT-CAAAAA-CGCCGCTAAATGTCA
1 GAAAAGCGCCACTAAAGGCCACTTTCTTTAGCGGCG-TTTTTGAAAAAAGCGCCGGTAAAGGTCA
*
16492750 TGTTCTTTAGCG
65 TGTTATTTAGCG
16492762 ACATTTTTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
127 24 0.14
128 19 0.11
129 128 0.74
130 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (129 bp):
GAAAAGCGCCACTAAAGGCCACTTTCTTTAGCGGCGTTTTTGAAAAAAGCGCCGGTAAAGGTCAT
GTTATTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTAT
Found at i:16492673 original size:86 final size:86
Alignment explanation
Indices: 16492414--16492761 Score: 305
Period size: 86 Copynumber: 4.1 Consensus size: 86
16492404 TCTGCTAAAA
* * * *
16492414 TTAGTGGCGTTTTTTAGAAAAGCGCCGGTAAAGGTCACT-TTCTTTAGCGGC-TTT-TTTGAAAA
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCA-TGTTCTTTAGCGGCGTTTGTATG--AA
* ** *
16492476 AAGCGCCGGTAAAGGTCATGTTAT
63 AAGCGCCGCTAAAGGTCACCTTCT
* * *
16492500 TTAGCGGCGTTTGT-ATGAAAAGCGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAA
1 TTAGCGGCGTTTTTGA-GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAA
* * *
16492564 GCGCCACTAAAGGCCACTTTCT
65 GCGCCGCTAAAGGTCACCTTCT
* * *
16492586 TTAGTGGCGTTTTTGAGAAAAGTGCCGTTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAA-
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAG
*
16492650 CTGCCGCTAAAGGTCACCCTCT
66 C-GCCGCTAAAGGTCACCTTCT
* * * * * * * * * * * *
16492672 TTAACGGTGTTTTTGAGAAAATCACCACTAAA-TTCACGTTCTTTAACGGCGCTT-TCTCAAAAA
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAG
* **
16492735 CGCCGCTAAATGTCATGTTCT
66 CGCCGCTAAAGGTCACCTTCT
16492756 TTAGCG
1 TTAGCG
16492762 ACATTTTTTT
Statistics
Matches: 214, Mismatches: 41, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
84 27 0.13
85 21 0.10
86 159 0.74
87 4 0.02
88 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (86 bp):
TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAG
CGCCGCTAAAGGTCACCTTCT
Found at i:16493083 original size:88 final size:88
Alignment explanation
Indices: 16492979--16493142 Score: 256
Period size: 88 Copynumber: 1.9 Consensus size: 88
16492969 TTTTTCAAGA
* *
16492979 TTTTAAAAATCCTAGATAAACCCCAATTTCCCTTTTGGCTCTTGAGAATGCTAACTTGAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
16493044 GTTTTCATGTGGTTAAGGTGGAT
66 GTTTTCATGTGGTTAAGGTGGAT
* * * * * *
16493067 TTTTAAAAACCCTAGATAAACCCCAGTTTTCCTTTTGGCTATTGAGAGTGTTGATTTGAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
16493132 GTTTTCATGTG
66 GTTTTCATGTG
16493143 CTTAGGGTTC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (88 bp):
TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
GTTTTCATGTGGTTAAGGTGGAT
Found at i:16495504 original size:2 final size:2
Alignment explanation
Indices: 16495497--16495530 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16495487 TTCGTTATTA
16495497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16495531 CAATCAATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16496055 original size:3 final size:3
Alignment explanation
Indices: 16496047--16496086 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16496037 TCAAAATCTG
16496047 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16496087 ACCTACTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16498826 original size:11 final size:11
Alignment explanation
Indices: 16498790--16498835 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
16498780 TTAGTATTTT
16498790 TTATTAAAAAA
1 TTATTAAAAAA
* *
16498801 TTGTT-AGAAA
1 TTATTAAAAAA
*
16498811 TTATTAAAATA
1 TTATTAAAAAA
16498822 TTATTAAAAAA
1 TTATTAAAAAA
16498833 TTA
1 TTA
16498836 AAATTACTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (11 bp):
TTATTAAAAAA
Found at i:16499182 original size:14 final size:14
Alignment explanation
Indices: 16499148--16499182 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16499138 TTGTCATCTC
*
16499148 ACTATTATATTGTT
1 ACTATTTTATTGTT
16499162 ACTATTTTATTGTT
1 ACTATTTTATTGTT
*
16499176 ATTATTT
1 ACTATTT
16499183 GAATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (14 bp):
ACTATTTTATTGTT
Found at i:16499697 original size:2 final size:2
Alignment explanation
Indices: 16499690--16499718 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16499680 AAGAGTAATT
16499690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16499719 TTAAAGGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16499770 original size:31 final size:31
Alignment explanation
Indices: 16499735--16499798 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16499725 GATTATGTCT
16499735 TAAAAAAGTATTCAACATGAGTAGATGATGA
1 TAAAAAAGTATTCAACATGAGTAGATGATGA
16499766 TAAAAAAGTATTCAACATGAGTAGATGATGA
1 TAAAAAAGTATTCAACATGAGTAGATGATGA
16499797 TA
1 TA
16499799 TATTGACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (31 bp):
TAAAAAAGTATTCAACATGAGTAGATGATGA
Found at i:16503634 original size:20 final size:18
Alignment explanation
Indices: 16503609--16503674 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 18
16503599 AGGTTAAAGA
16503609 AATTATAAAAATTTAAAAAT
1 AATTATAAAAA--TAAAAAT
16503629 AATTAT-AAAATAAAAAT
1 AATTATAAAAATAAAAAT
* *
16503646 AATTATATTAAATATAAAT
1 AATTATA-AAAATAAAAAT
16503665 AA-TATAAAAA
1 AATTATAAAAA
16503675 AGTGCAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 16 0.39
18 4 0.10
19 15 0.37
20 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTATAAAAATAAAAAT
Found at i:16504879 original size:16 final size:16
Alignment explanation
Indices: 16504844--16504884 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16504834 AAAATATAGC
*
16504844 ATTATATCTATTGTGT
1 ATTATATCAATTGTGT
16504860 ATTATATCAATTGATG-
1 ATTATATCAATTG-TGT
16504876 ATTA-ATCAA
1 ATTATATCAA
16504885 AAGTGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (16 bp):
ATTATATCAATTGTGT
Found at i:16508451 original size:15 final size:14
Alignment explanation
Indices: 16508428--16508508 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
16508418 TTCATTTAGC
*
16508428 TTTAAATATTATTCA
1 TTTATATATTATT-A
16508443 TTTATATA-TATTA
1 TTTATATATTATTA
*
16508456 TTGT-TATCACTATTA
1 TT-TATAT-ATTATTA
*
16508471 TTTTTATATTATTA
1 TTTATATATTATTA
16508485 -TTATAT-TATATTTA
1 TTTATATAT-TA-TTA
*
16508499 GTTATATATT
1 TTTATATATT
16508509 TTAAATATCT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 1 0.02
13 13 0.24
14 16 0.29
15 24 0.44
16 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:16508488 original size:17 final size:19
Alignment explanation
Indices: 16508466--16508510 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
16508456 TTGTTATCAC
16508466 TATTATTTTTATA-TTA-T
1 TATTATTTTTATATTTAGT
*
16508483 TATTA-TATTATATTTAGT
1 TATTATTTTTATATTTAGT
16508501 TATATATTTT
1 TAT-TATTTT
16508511 AAATATCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 4 0.18
19 2 0.09
20 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTATTTTTATATTTAGT
Found at i:16508557 original size:3 final size:3
Alignment explanation
Indices: 16508549--16508593 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
16508539 GCATATATAT
* *
16508549 TTA TTA TTA TTA GTA TTA TTA TTA -TA TTCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
16508594 GTACTAGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:16508567 original size:12 final size:11
Alignment explanation
Indices: 16508546--16508593 Score: 62
Period size: 12 Copynumber: 4.2 Consensus size: 11
16508536 TATGCATATA
16508546 TATT-TATTAT
1 TATTATATTAT
16508556 TATTAGTATTAT
1 TATTA-TATTAT
16508568 TATTATATTCAT
1 TATTATATT-AT
16508580 TATTAATATTAT
1 TATT-ATATTAT
16508592 TA
1 TA
16508594 GTACTAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 21 0.62
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTATATTAT
Found at i:16508748 original size:22 final size:23
Alignment explanation
Indices: 16508696--16508753 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
16508686 CATTTTAATA
*
16508696 TATATATATATATCGTATATGTTT
1 TATATATAT-TATCGTATATCTTT
16508720 TATATATATTAT-GTATATACTTT
1 TATATATATTATCGTATAT-CTTT
16508743 TA-ATATTATTA
1 TATATA-TATTA
16508754 GTTATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 9 0.29
23 13 0.42
24 9 0.29
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATATTATCGTATATCTTT
Found at i:16508858 original size:21 final size:20
Alignment explanation
Indices: 16508701--16508863 Score: 70
Period size: 22 Copynumber: 7.7 Consensus size: 20
16508691 TAATATATAT
*
16508701 ATATATATCGTATATGTTTTA
1 ATATATAT-GTATATATTTTA
16508722 TATATATTATGTATATACTTTTA
1 -ATATA-TATGTATATA-TTTTA
* *
16508745 ATAT-TATTAGTTATATTTTTTT
1 ATATATA-T-G-TATATATTTTA
* *
16508767 ATACTATTTCGTGTATATATTT-
1 ATA-TATAT-GTATATAT-TTTA
*
16508789 ATAT-TATCCTTATTATTATTATTA
1 ATATATAT--GTA-TA-TATT-TTA
*
16508813 ATAT-TA-GTATATGTTTT-
1 ATATATATGTATATATTTTA
16508830 AT-TATATGTATATATCTTTA
1 ATATATATGTATATAT-TTTA
16508850 ATATATATGTATAT
1 ATATATATGTATAT
16508864 CTTTATGTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
16 1 0.01
17 4 0.04
18 9 0.08
19 6 0.05
20 8 0.07
21 17 0.15
22 34 0.31
23 24 0.22
24 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (20 bp):
ATATATATGTATATATTTTA
Found at i:16508876 original size:19 final size:19
Alignment explanation
Indices: 16508810--16508868 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
16508800 ATTATTATTA
*
16508810 TTAATAT-TA-GTATATGT
1 TTAATATATATGTATATCT
*
16508827 TTTAT-TATATGTATATATCT
1 TTAATATATATG--TATATCT
16508847 TTAATATATATGTATATCT
1 TTAATATATATGTATATCT
16508866 TTA
1 TTA
16508869 TGTAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 1 0.03
19 10 0.29
20 10 0.29
21 6 0.18
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (19 bp):
TTAATATATATGTATATCT
Found at i:16508963 original size:24 final size:24
Alignment explanation
Indices: 16508920--16508982 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
16508910 TTCTAATATG
*
16508920 TATATACTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
16508943 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
16508968 TATATATTACGTATA
1 TATATATTATGTATA
16508983 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 8 0.24
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:16509122 original size:25 final size:25
Alignment explanation
Indices: 16509091--16509138 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16509081 TTTTAAATAA
**
16509091 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
16509116 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
16509139 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:16509144 original size:25 final size:25
Alignment explanation
Indices: 16509080--16509144 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
16509070 TATATAATTT
**
16509080 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
16509107 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
16509132 TTTTTAATACTAT
1 TTTTTAATACTAT
16509145 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:16518463 original size:3 final size:3
Alignment explanation
Indices: 16518450--16518516 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
16518440 ATATAGATAT
* * * *
16518450 TTA TTA TTTA TTA TTA TT- CTA TTA -AA TTA TAA TTT TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
16518494 -AA TTA TGA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
16518517 AAAATATATT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
2 3 0.06
3 42 0.88
4 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:16518494 original size:20 final size:20
Alignment explanation
Indices: 16518459--16518513 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
16518449 TTTATTATTT
16518459 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
* *
16518481 ATTTTTATTATTAAATTATG
1 ATTATTATTATTAAATTATA
16518501 ATTATTATTATTA
1 ATTATTATTATTA
16518514 TTAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 23 0.77
21 1 0.03
22 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:16518526 original size:20 final size:20
Alignment explanation
Indices: 16518458--16518527 Score: 52
Period size: 23 Copynumber: 3.2 Consensus size: 20
16518448 ATTTATTATT
*
16518458 TATTATTATTCTATT-AAATTA
1 TATTATTA-T-TATTAAAAATA
* *
16518479 TAATTTTTATTATTAAATTATGA
1 T-ATTATTATTATTAAA-AAT-A
16518502 TTATTATTATTATTAAAAATA
1 -TATTATTATTATTAAAAATA
16518523 TATTA
1 TATTA
16518528 AAATAAAGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 9 0.23
21 5 0.13
22 9 0.23
23 15 0.38
24 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
TATTATTATTATTAAAAATA
Found at i:16518773 original size:3 final size:3
Alignment explanation
Indices: 16518760--16518829 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
16518750 AATAAGATAT
*
16518760 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16518808 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
16518830 AAAGTTAATA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16519982 original size:45 final size:45
Alignment explanation
Indices: 16519932--16520042 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
16519922 CGACTATTGT
*
16519932 TACTGTTACTGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
** *
16519977 TACTGTTACCATTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
16520022 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
16520043 TGCTACTGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:16520818 original size:15 final size:14
Alignment explanation
Indices: 16520794--16520824 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
16520784 GTCGAAATTT
16520794 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
16520808 ATAATAAAAATAAAA
1 ATAA-AAAAATAAAA
16520823 AT
1 AT
16520825 TTGGAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:16524326 original size:75 final size:75
Alignment explanation
Indices: 16524244--16524541 Score: 499
Period size: 75 Copynumber: 4.0 Consensus size: 75
16524234 TTATTCGAAT
16524244 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
16524309 TTTTCAAAAA
66 TTTTCAAAAA
16524319 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
16524384 TTTTCAAAAA
66 TTTTCAAAAA
*
16524394 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACGCTGAGGTATTTTTAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTATTTTTAATTTCTG
16524458 TTTTTCAAAAA
65 TTTTTCAAAAA
* * * * * * *
16524469 AATCAACTCATATTACGAGAGGTGAGTTGAGCCGCGGGTCCACGTTGAGGTGTTTTCAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-ACACGCTGAGGTATTTTTAATTTCTG
16524534 TTTTTCAA
65 TTTTTCAA
16524542 TTTCTACTTT
Statistics
Matches: 212, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
74 1 0.00
75 181 0.85
76 30 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (75 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
TTTTCAAAAA
Found at i:16524552 original size:14 final size:14
Alignment explanation
Indices: 16524521--16524555 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16524511 CGTTGAGGTG
**
16524521 TTTTCAATTTCTGT
1 TTTTCAATTTCTAC
16524535 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
16524549 TTTTCAA
1 TTTTCAA
16524556 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:16524629 original size:14 final size:14
Alignment explanation
Indices: 16524610--16524654 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
16524600 TGCCAAGGTA
16524610 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
*
16524624 TTTTCAAATTCTGT
1 TTTTCAAATTCTAT
*
16524638 TTTT-AATTTCTAT
1 TTTTCAAATTCTAT
16524651 TTTT
1 TTTT
16524655 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:16524654 original size:13 final size:13
Alignment explanation
Indices: 16524608--16524657 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
16524598 CATGCCAAGG
*
16524608 TATTTTCAAATTC
1 TATTTTTAAATTC
16524621 TATTTTTCAAATTC
1 TATTTTT-AAATTC
* *
16524635 TGTTTTTAATTTC
1 TATTTTTAAATTC
16524648 TATTTTTAAA
1 TATTTTTAAA
16524658 AAAAAACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTAAATTC
Found at i:16524711 original size:103 final size:103
Alignment explanation
Indices: 16524521--16524742 Score: 306
Period size: 103 Copynumber: 2.2 Consensus size: 103
16524511 CGTTGAGGTG
* * * *
16524521 TTTTCAATTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCAAGATGTGAGTTG
1 TTTTCAAATTCTGTTTTTCAATTTCTACTTTTAAAAAAACAACTCATATTGCAAGAGGTGAGTTG
*
16524586 AGCCTCGGGTCACATGCCAAGGTATTTTCAAATTCTAT
66 AGCCTCGAGTCACATGCCAAGGTATTTTCAAATTCTAT
* *
16524624 TTTTCAAATTCTGTTTTT-AATTTCTATTTTTAAAAAAAAACAACTCATATTGCGAGAGGTGAGT
1 TTTTCAAATTCTGTTTTTCAATTTCTACTTTT--AAAAAAACAACTCATATTGCAAGAGGTGAGT
* * *
16524688 TGAGCCTC-AGTCACATGCTAAGGTATTTTCAATTTCTGT
64 TGAGCCTCGAGTCACATGCCAAGGTATTTTCAAATTCTAT
16524727 TTTTC-AATTCATGTTT
1 TTTTCAAATTC-TGTTT
16524743 CAACAATCAA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
102 17 0.16
103 54 0.51
104 35 0.33
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (103 bp):
TTTTCAAATTCTGTTTTTCAATTTCTACTTTTAAAAAAACAACTCATATTGCAAGAGGTGAGTTG
AGCCTCGAGTCACATGCCAAGGTATTTTCAAATTCTAT
Found at i:16524772 original size:86 final size:86
Alignment explanation
Indices: 16524624--16524902 Score: 339
Period size: 86 Copynumber: 3.2 Consensus size: 86
16524614 CAAATTCTAT
* * * * *
16524624 TTTTCAAATTCTGTTTTTAATTTCTATTTTTAAAAAAAAACAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCTGTTTTTAATGTCT-GTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
16524689 GAGCCTCAGTCACATGCTAAGGTA
63 GAGCCTCGGTCACATGCCAAGGTA
*
16524713 TTTTCAATTTCTGTTTTTCAAT-TCATG-TTTCAACAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTT-AATGTC-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
16524776 AGCCCCGGGCTACATGCCGAGGTA
64 AGCCTCGGTC-ACATGCCAAGGTA
*
16524800 -TTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
16524864 CCTTGGCTCACACGCCAAGGTA
66 CCTCGG-TCACATGCCAAGGTA
*
16524886 TTTTCAATTCCTGTTTT
1 TTTTCAATTTCTGTTTT
16524903 CGAAAATCAA
Statistics
Matches: 165, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
85 5 0.03
86 107 0.65
87 27 0.16
88 3 0.02
89 19 0.12
90 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (86 bp):
TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGTCACATGCCAAGGTA
Found at i:16524943 original size:74 final size:74
Alignment explanation
Indices: 16524822--16524966 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 74
16524812 TTTTTAATGT
* * *
16524822 CTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTAT
1 CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTAT
16524887 TTTCAATTC
66 TTTCAATTC
* * * *
16524896 CTGTTTTCGAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGTCACATGCCGAGGTAT
1 CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTAT
16524961 TTTCAA
66 TTTCAA
16524967 ATTCTACTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (74 bp):
CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTAT
TTTCAATTC
Found at i:16524984 original size:74 final size:74
Alignment explanation
Indices: 16524825--16524982 Score: 219
Period size: 74 Copynumber: 2.1 Consensus size: 74
16524815 TTAATGTCTG
* * *
16524825 TTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTT
*
16524890 CAATTCCTG
66 CAATTCCTC
* * * *
16524899 TTTTCGAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTT
16524964 CAAATT-CTAC
66 C-AATTCCT-C
16524974 TTTTCAAAA
1 TTTTCAAAA
16524983 TCTGTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
74 61 0.84
75 12 0.16
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTT
CAATTCCTC
Found at i:16526585 original size:3 final size:3
Alignment explanation
Indices: 16526579--16526733 Score: 76
Period size: 3 Copynumber: 51.7 Consensus size: 3
16526569 CATTTATATA
* * * *
16526579 TAT TAT TGT TAT CAC TAT TAT TTT TA- TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
16526625 TAT TA- TATT TAGT TA- TAT T-T T-T TAAA TAT CTCAT TTT TTT TAC
1 TAT TAT TA-T TA-T TAT TAT TAT TAT T-AT TAT -T-AT TAT TAT TAT
*
16526668 TAT TA- TAT GCA- TAT ATATT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT -TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
16526713 TAT TCAT TAT TAA TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TA
16526734 GTACTAGTAT
Statistics
Matches: 117, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
2 17 0.15
3 81 0.69
4 16 0.14
5 3 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:16526861 original size:23 final size:23
Alignment explanation
Indices: 16526835--16526928 Score: 77
Period size: 23 Copynumber: 4.0 Consensus size: 23
16526825 TCATTTCTAA
16526835 TATATATATATCGTATATGTTTT
1 TATATATATATCGTATATGTTTT
*
16526858 TATATATATTAT-GTATATATTTT
1 TATATATA-TATCGTATATGTTTT
* *
16526881 TA-ATAT-TACTAGTTATATTTTTT
1 TATATATATA-TCG-TATATGTTTT
*
16526904 TATATACTATTTCGTGTATATGTTT
1 TATATA-TATATC--GTATATGTTT
16526929 ATATTATCGT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
20 2 0.04
21 1 0.02
22 5 0.09
23 31 0.54
24 6 0.11
25 2 0.04
26 9 0.16
27 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (23 bp):
TATATATATATCGTATATGTTTT
Found at i:16526886 original size:24 final size:24
Alignment explanation
Indices: 16526827--16527129 Score: 91
Period size: 24 Copynumber: 13.1 Consensus size: 24
16526817 CATTATTATC
*
16526827 ATTTCTAATATATATATATCGTATAT
1 ATTTTTAATATATAT-TAT-GTATAT
*
16526853 GTTTTT-ATATATATTATGTATAT
1 ATTTTTAATATATATTATGTATAT
*
16526876 ATTTTTAATAT-TACTA-GT-TAT
1 ATTTTTAATATATATTATGTATAT
* *
16526897 ATTTTTTTATATACTATT-TCGTGTAT
1 A-TTTTTAATATA-TATTAT-GTATAT
* **
16526923 ATGTTT-ATAT-TATCGT-TAT-T
1 ATTTTTAATATATATTATGTATAT
* *
16526943 ATTATTATTA-ATATTA-GTATAT
1 ATTTTTAATATATATTATGTATAT
* *
16526965 -GTTTT-AT-TATATG---TATAT
1 ATTTTTAATATATATTATGTATAT
*
16526983 ATCTTTAATATATATATATGTATAT
1 ATTTTTAATATATAT-TATGTATAT
* *
16527008 CTTTATGTAATAT-TATTAATAGT-T-G
1 ATTT-T-TAATATATATT-AT-GTATAT
* *
16527033 CTTTTTAACAT-TATTA--T-TAT
1 ATTTTTAATATATATTATGTATAT
* *
16527053 -TTTCTAATATGTATATACTATGTAAAT
1 ATTTTTAATA--TATAT--TATGTATAT
*
16527080 A-TTTTAATACTATATTATGTATAC
1 ATTTTTAATA-TATATTATGTATAT
* *
16527104 ATTTTTTATATATATTACGTATAT
1 ATTTTTAATATATATTATGTATAT
16527128 AT
1 AT
16527130 ATCTTTTTAA
Statistics
Matches: 206, Mismatches: 36, Indels: 72
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.02
19 12 0.06
20 12 0.06
21 23 0.11
22 19 0.09
23 25 0.12
24 39 0.19
25 33 0.16
26 21 0.10
27 17 0.08
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.55
Consensus pattern (24 bp):
ATTTTTAATATATATTATGTATAT
Found at i:16527243 original size:34 final size:32
Alignment explanation
Indices: 16527180--16527244 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
16527170 TTTCTAATAC
* * *
16527180 TATATTACATTTTTTACATATTATCTTATGTG
1 TATATTACATTTTTTAAATACTATATTATGTG
*
16527212 TATATATATATTTTTTAAATAACTATATTATGT
1 TATAT-TACATTTTTTAAAT-ACTATATTATGT
16527245 ATGTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.19
33 12 0.44
34 10 0.37
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (32 bp):
TATATTACATTTTTTAAATACTATATTATGTG
Found at i:16527265 original size:25 final size:25
Alignment explanation
Indices: 16527234--16527281 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16527224 TTTTAAATAA
**
16527234 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
16527259 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
16527282 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:16527287 original size:25 final size:25
Alignment explanation
Indices: 16527223--16527287 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
16527213 ATATATATAT
**
16527223 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
16527250 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
16527275 TTTTTAATACTAT
1 TTTTTAATACTAT
16527288 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:16528121 original size:8 final size:8
Alignment explanation
Indices: 16528108--16528133 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16528098 TCGAAATTCC
16528108 ATTTTCAA
1 ATTTTCAA
16528116 ATTTTCAA
1 ATTTTCAA
16528124 ATTTTCAA
1 ATTTTCAA
16528132 AT
1 AT
16528134 AATCGCCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTCAA
Found at i:16530267 original size:27 final size:27
Alignment explanation
Indices: 16530237--16530315 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
16530227 TATAGGCCTT
* *
16530237 ACCAGTCGCACCTGCCAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
* * *
16530264 ACCATTCGCGCCTATCAGATAGGCTCC
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
* *
16530291 ACCAGTTGCGTCTGTCAGATAGGCT
1 ACCAGTCGCGCCTGTCAGATAGGCT
16530316 TCGCCAAGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.22
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAGATAGGCTCA
Found at i:16531474 original size:32 final size:32
Alignment explanation
Indices: 16531437--16531512 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
16531427 TTTTTTTATA
16531437 ATTTTTTATTTTTAAAAATTATAT-ATTTTTT
1 ATTTTTTATTTTTAAAAATTATATAATTTTTT
** * * *
16531468 ACTTTTTTAAATTTATAATTTATTTAATTTTTT
1 A-TTTTTTATTTTTAAAAATTATATAATTTTTT
16531501 ATGTTTTTATTT
1 AT-TTTTTATTT
16531513 AAAATGTGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.03
32 19 0.54
33 15 0.43
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (32 bp):
ATTTTTTATTTTTAAAAATTATATAATTTTTT
Found at i:16531500 original size:25 final size:24
Alignment explanation
Indices: 16531431--16531501 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 24
16531421 AAGTGTTTTT
*
16531431 TTTATAATTTTTT-ATTTTTAAAA
1 TTTATAATTTTTTAATTTTTTAAA
* *
16531454 ATTATATATTTTTTACTTTTTTAAA
1 TTTATA-ATTTTTTAATTTTTTAAA
16531479 TTTATAATTTATTTAATTTTTTA
1 TTTATAATTT-TTTAATTTTTTA
16531502 TGTTTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 24 0.60
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATAATTTTTTAATTTTTTAAA
Found at i:16531746 original size:19 final size:20
Alignment explanation
Indices: 16531709--16531748 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16531699 AATGTTTTGA
*
16531709 AATTAAAATATAAAGAAAAT
1 AATTAAAATATAAAAAAAAT
*
16531729 AATTTAAAT-TAAAAAAAAT
1 AATTAAAATATAAAAAAAAT
16531748 A
1 A
16531749 GAGAAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATTAAAATATAAAAAAAAT
Found at i:16532381 original size:28 final size:26
Alignment explanation
Indices: 16532349--16532409 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 26
16532339 TTTTAAATAA
16532349 TTTTAATGATTTTT-AATTTTACAAACAT
1 TTTTAAT-ATTTTTGAATTTT-CAAA-AT
*
16532377 TTTTACATTTTTTTGAATTTTCAAAAT
1 TTTTA-ATATTTTTGAATTTTCAAAAT
16532404 TTTTAA
1 TTTTAA
16532410 AAAATCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.03
27 7 0.23
28 14 0.47
29 8 0.27
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTAATATTTTTGAATTTTCAAAAT
Found at i:16532924 original size:9 final size:9
Alignment explanation
Indices: 16532912--16533068 Score: 52
Period size: 9 Copynumber: 16.0 Consensus size: 9
16532902 GAAAAATTTA
*
16532912 TAAAATTGT
1 TAAAATTAT
16532921 TAAAA--AT
1 TAAAATTAT
16532928 TAAAATTAT
1 TAAAATTAT
16532937 TAAAATTGA-
1 TAAAATT-AT
* *
16532946 TATAAACTAA
1 TA-AAATTAT
*
16532956 TAAAATATTT
1 TAAAAT-TAT
16532966 TAAATATTAT
1 TAAA-ATTAT
* *
16532976 AAAAAAATAT
1 -TAAAATTAT
16532986 CTAATAAATTAT
1 -T-A-AAATTAT
* *
16532998 AAAAAATATT
1 TAAAATTA-T
*
16533008 TAAAATATTTT
1 T-AAA-ATTAT
16533019 TAAAAATTAT
1 T-AAAATTAT
16533029 TAAAAGTATAT
1 TAAAA-T-TAT
16533040 TAAAATTAAT
1 TAAAATT-AT
16533050 ATAAAATTA-
1 -TAAAATTAT
16533059 TAAAGATTAT
1 TAAA-ATTAT
16533069 AATAAAAAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 37
0.67 0.10 0.22
Matches are distributed among these distances:
7 6 0.05
8 4 0.04
9 34 0.30
10 30 0.27
11 30 0.27
12 8 0.07
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
TAAAATTAT
Found at i:16533023 original size:21 final size:21
Alignment explanation
Indices: 16532957--16533044 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
16532947 ATAAACTAAT
* *
16532957 AAAATATTTTAAATATTATAAA
1 AAAATATTTAAAATATT-TTAA
* *
16532979 AAAATATCTAATAA-ATTATAA
1 AAAATATTTAA-AATATTTTAA
*
16533000 AAAATATTTAAAATATTTTTA
1 AAAATATTTAAAATATTTTAA
*
16533021 AAAAT-TATTAAAAGTATATTAA
1 AAAATAT-TTAAAA-TATTTTAA
16533043 AA
1 AA
16533045 TTAATATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.06
21 28 0.53
22 20 0.38
23 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (21 bp):
AAAATATTTAAAATATTTTAA
Found at i:16534202 original size:86 final size:86
Alignment explanation
Indices: 16534048--16534223 Score: 273
Period size: 86 Copynumber: 2.0 Consensus size: 86
16534038 TTAGGTTTAT
* * * *
16534048 TTTTTTCCTTATTGTACTCTCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCCTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
16534113 TGGTTTTTCCCTCTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
* * *
16534134 TTTTCTCCATATTGTACTATTGTTTGTTTACTCATTTAGTGAAAATTTGAT-TCCTCATTTATCC
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGT-CTCATTTATCC
16534198 ATGGTTTTTCCCTCTTTGAGGG
65 ATGGTTTTTCCCTCTTTGAGGG
16534220 TTTT
1 TTTT
16534224 TCACGTAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 81 0.99
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (86 bp):
TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
TGGTTTTTCCCTCTTTGAGGG
Found at i:16535640 original size:10 final size:9
Alignment explanation
Indices: 16535607--16535764 Score: 87
Period size: 10 Copynumber: 17.1 Consensus size: 9
16535597 CTTATAATTT
16535607 TTTTGTATAA
1 TTTT-TATAA
*
16535617 TTTATTA-GA
1 TTT-TTATAA
16535626 TTTTTATATA
1 TTTTTATA-A
16535636 TTTTTATAA
1 TTTTTATAA
*
16535645 TATTTATAA
1 TTTTTATAA
16535654 GTTTTTAT-A
1 -TTTTTATAA
16535663 TTTTTCATAA
1 TTTTT-ATAA
*
16535673 TATTTATAA
1 TTTTTATAA
*
16535682 GTTTATATCAA
1 -TTTTTAT-AA
16535693 TTTTTA-ATA
1 TTTTTATA-A
16535702 TTTTT-TAA
1 TTTTTATAA
* *
16535710 TAGTTAATAA
1 T-TTTTATAA
16535720 -TTTTATAAA
1 TTTTTAT-AA
*
16535729 TTTTT-TAC
1 TTTTTATAA
*
16535737 TTTTAATAA
1 TTTTTATAA
*
16535746 TTGTTTATGA
1 TT-TTTATAA
16535756 TTTTT-TAA
1 TTTTTATAA
16535764 T
1 T
16535765 CATTTTTATG
Statistics
Matches: 114, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
8 23 0.20
9 39 0.34
10 49 0.43
11 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16535658 original size:28 final size:28
Alignment explanation
Indices: 16535627--16535704 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
16535617 TTTATTAGAT
16535627 TTTTATATATTTTTATAATATTTATAAG
1 TTTTATATATTTTTATAATATTTATAAG
16535655 TTTT-TATATTTTTCATAATATTTATAAG
1 TTTTATATATTTTT-ATAATATTTATAAG
*
16535683 -TTTATATCAATTTT-TAATATTT
1 TTTTATAT-ATTTTTATAATATTT
16535705 TTTAATAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 20 0.43
28 21 0.46
29 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATATATTTTTATAATATTTATAAG
Found at i:16535666 original size:37 final size:37
Alignment explanation
Indices: 16535612--16535746 Score: 104
Period size: 37 Copynumber: 3.6 Consensus size: 37
16535602 AATTTTTTTG
* *
16535612 TATAATTTATTAGATTTTT-ATATATTTTTATAA-TATT-
1 TATAATTT-TTATATTTTTCATA-ATATTTATAAGT-TTA
16535649 TATAAGTTTTTATATTTTTCATAATATTTATAAGTTTA
1 TATAA-TTTTTATATTTTTCATAATATTTATAAGTTTA
* *
16535687 TATCAATTTTTAATATTTTT--TAATAGTTAATAATTTTA
1 TAT-AATTTTT-ATATTTTTCATAATA-TTTATAAGTTTA
* *
16535725 TA-AATTTTT-TACTTTTAATAAT
1 TATAATTTTTATATTTTTCATAAT
16535747 TGTTTATGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
34 6 0.07
36 11 0.13
37 30 0.36
38 27 0.32
39 10 0.12
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (37 bp):
TATAATTTTTATATTTTTCATAATATTTATAAGTTTA
Found at i:16535725 original size:38 final size:35
Alignment explanation
Indices: 16535615--16535746 Score: 97
Period size: 38 Copynumber: 3.6 Consensus size: 35
16535605 TTTTTTGTAT
* * * *
16535615 AATTTATTAGATTTTTATATATTTTTATAATATTTATA
1 AATTT-TTATATTTTTATA-ATATTAATAA-GTTTATA
* *
16535653 AGTTTTTATATTTTTCATAATATTTATAAGTTTATA
1 AATTTTTATATTTTT-ATAATATTAATAAGTTTATA
*
16535689 TCAATTTTTAATATTTTT-TAATAGTTAATAATTTTATA
1 --AATTTTT-ATATTTTTATAATA-TTAATAAGTTTATA
*
16535727 AATTTTT-TACTTTTAATAAT
1 AATTTTTATA-TTTTTATAAT
16535747 TGTTTATGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
34 2 0.03
35 4 0.05
36 17 0.22
37 23 0.29
38 25 0.32
39 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (35 bp):
AATTTTTATATTTTTATAATATTAATAAGTTTATA
Found at i:16535742 original size:26 final size:27
Alignment explanation
Indices: 16535691--16535764 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
16535681 AGTTTATATC
16535691 AATTTTTAATATTTTTTAATAGTTAAT
1 AATTTTTAATATTTTTTAATAGTTAAT
* *
16535718 AATTTTATAA-ATTTTTTACT-TTTAAT
1 AATTTT-TAATATTTTTTAATAGTTAAT
16535744 AATTGTTT-ATGATTTTTTAAT
1 AATT-TTTAAT-ATTTTTTAAT
16535765 CATTTTTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 1 0.03
26 10 0.25
27 26 0.65
28 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
AATTTTTAATATTTTTTAATAGTTAAT
Found at i:16535761 original size:21 final size:20
Alignment explanation
Indices: 16535737--16535775 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16535727 AATTTTTTAC
16535737 TTTTAATAATTGTTTATGATT
1 TTTTAATAATT-TTTATGATT
*
16535758 TTTTAATCATTTTTATGA
1 TTTTAATAATTTTTATGA
16535776 GAAAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTAATAATTTTTATGATT
Found at i:16537212 original size:17 final size:17
Alignment explanation
Indices: 16537190--16537232 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
16537180 ACAAATCATT
16537190 AACATCATTATCATTAC
1 AACATCATTATCATTAC
16537207 AACATCATTATCATTAC
1 AACATCATTATCATTAC
*
16537224 AAAATCATT
1 AACATCATT
16537233 TTACGTCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
AACATCATTATCATTAC
Found at i:16538404 original size:20 final size:20
Alignment explanation
Indices: 16538365--16538404 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16538355 TTACTTATTG
* *
16538365 ATTTTGTTGTTTTTTACAGC
1 ATTTTATTGTTGTTTACAGC
*
16538385 ATTTTATTGTTGTTTCCAGC
1 ATTTTATTGTTGTTTACAGC
16538405 CTTTACAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.57
Consensus pattern (20 bp):
ATTTTATTGTTGTTTACAGC
Found at i:16547030 original size:22 final size:21
Alignment explanation
Indices: 16546981--16547035 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
16546971 AATACTTTAT
*
16546981 TTTCAAATTATTTATTTGGGA
1 TTTCAAAATATTTATTTGGGA
*
16547002 ATT-AAAATATTTGGATTT-GGA
1 TTTCAAAATATTT--ATTTGGGA
16547023 TTTCAAAAT-TTTA
1 TTTCAAAATATTTA
16547036 GCTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 10 0.36
22 9 0.32
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCAAAATATTTATTTGGGA
Found at i:16555421 original size:2 final size:2
Alignment explanation
Indices: 16555414--16555443 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16555404 CAAAACAAGA
*
16555414 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16555444 GCTTGTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16557421 original size:3 final size:3
Alignment explanation
Indices: 16557413--16557456 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16557403 TCACTTTGAA
16557413 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16557457 AGATGCACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16558241 original size:12 final size:12
Alignment explanation
Indices: 16558224--16558249 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16558214 TATTTGTTTC
16558224 TTGTTTTAATGT
1 TTGTTTTAATGT
16558236 TTGTTTTAATGT
1 TTGTTTTAATGT
16558248 TT
1 TT
16558250 TTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATGT
Found at i:16563267 original size:28 final size:27
Alignment explanation
Indices: 16563209--16563268 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
16563199 TATTTAGTAT
*
16563209 CAGTACAGTCTGGGCCTTAGCCTTTAAA
1 CAGTACAGTCTGGGCCTAAGCC-TTAAA
*
16563237 CAGTAGCAGTGTGGGCCTAAGCC-TAATA
1 CAGTA-CAGTCTGGGCCTAAGCCTTAA-A
16563265 CAGT
1 CAGT
16563269 TTCAGTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 10 0.36
29 15 0.54
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCTTAAA
Found at i:16563405 original size:26 final size:26
Alignment explanation
Indices: 16563376--16563425 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16563366 CCAGCACACC
*
16563376 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
**
16563402 AATAACGCAGCGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
16563426 GCAGTAAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:16570160 original size:34 final size:34
Alignment explanation
Indices: 16570095--16570160 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
16570085 CAGTGCATAC
**
16570095 AGTAACGTTCTAGGCCTGAGCCCTATTCAGTATT
1 AGTAACGTTCTAGGCCTGAGCCCTAAACAGTATT
* *
16570129 AGTAACG-TCTGGGCCTTAGCCCTTAAACAGTA
1 AGTAACGTTCTAGGCCTGAGCCC-TAAACAGTA
16570161 GCAGTGTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (34 bp):
AGTAACGTTCTAGGCCTGAGCCCTAAACAGTATT
Found at i:16583718 original size:25 final size:24
Alignment explanation
Indices: 16583687--16583754 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 24
16583677 TTAAATAAAA
* *
16583687 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
16583713 ATTTAAAAACATAAAAAC-AA-AT
1 ATTTAAAAACATAAAAACAAATAT
16583735 A-TT-AAAACA-AAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
16583755 AAAAATGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.16
20 8 0.21
21 3 0.08
22 3 0.08
23 2 0.05
24 1 0.03
25 3 0.08
26 12 0.32
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:16586780 original size:8 final size:8
Alignment explanation
Indices: 16586747--16586795 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
16586737 TAAATAAGAA
16586747 ATAATAATT
1 ATAATAA-T
16586756 ATAATAAT
1 ATAATAAT
*
16586764 TTAATAAT
1 ATAATAAT
16586772 ATAATAAT
1 ATAATAAT
**
16586780 AT-ATGTT
1 ATAATAAT
16586787 ATAATAAT
1 ATAATAAT
16586795 A
1 A
16586796 ATGGAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
7 5 0.15
8 21 0.64
9 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
ATAATAAT
Found at i:16589236 original size:9 final size:9
Alignment explanation
Indices: 16589222--16589253 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16589212 GCAATTTAAT
16589222 TTAATTTTA
1 TTAATTTTA
16589231 TTAATTTTA
1 TTAATTTTA
16589240 TT-A-TTTA
1 TTAATTTTA
16589247 TTAATTT
1 TTAATTT
16589254 ACTTTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTA
Found at i:16594229 original size:14 final size:14
Alignment explanation
Indices: 16594210--16594243 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16594200 TTGAATCTTC
*
16594210 TTATTTTTTTGTTT
1 TTATTTTTTTATTT
16594224 TTATTTTTTTATTT
1 TTATTTTTTTATTT
*
16594238 TCATTT
1 TTATTT
16594244 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:16598065 original size:14 final size:14
Alignment explanation
Indices: 16598046--16598079 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16598036 TTGAATCTTC
*
16598046 TTATTTTTTTGTTT
1 TTATTTTTTTATTT
16598060 TTATTTTTTTATTT
1 TTATTTTTTTATTT
*
16598074 TCATTT
1 TTATTT
16598080 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTATTT
Done.