Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, 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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 65
Found at i:6679945 original size:2 final size:2
Alignment explanation
Indices: 6679938--6679984 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6679928 TTCTAACATT
6679938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6679980 TA TA T
1 TA TA T
6679985 TATTTTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6680025 original size:26 final size:27
Alignment explanation
Indices: 6679944--6680028 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
6679934 CATTTATATA
* * *
6679944 TATATATATATATATATATATATATATAT
1 TATATATATAT-TATTTTTATAT-TTTAT
*
6679973 ATATATATATATTATTTTTAGTTTTTTAT
1 -TATATATATATTATTTTTA-TATTTTAT
6680002 TATATATAT-TGTATTTTT-TATTTTAT
1 TATATATATAT-TATTTTTATATTTTAT
6680028 T
1 T
6680029 CTTCTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.17
27 1 0.02
28 16 0.33
29 10 0.21
30 13 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TATATATATATTATTTTTATATTTTAT
Found at i:6680083 original size:6 final size:6
Alignment explanation
Indices: 6679984--6680107 Score: 63
Period size: 6 Copynumber: 19.2 Consensus size: 6
6679974 TATATATATA
* *
6679984 TTATTT TTAGTTTT TTATTAT ATATATT GTATTT TT-TATT TTATTCT
1 TTATTT TTA--TTT TTATT-T TTAT-TT TTATTT TTAT-TT TTATT-T
* * * * *
6680031 TCT-TTT ATTATTA TTATTA TTATTT ATCTTT TTATCTTT TTATTTT TTGTTT
1 T-TATTT -TTATTT TTATTT TTATTT TTATTT TTA--TTT TTA-TTT TTATTT
*
6680083 TTGTTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
6680108 CTTATTTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
5 1 0.01
6 58 0.62
7 21 0.22
8 14 0.15
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:6680132 original size:29 final size:27
Alignment explanation
Indices: 6680099--6680167 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
6680089 TTATTTTTAT
6680099 TTTTATTTTCTTATTTTATTCCTATCTTA
1 TTTTATTTT-TT-TTTTATTCCTATCTTA
* *
6680128 TTTTACTTTTTTTTTA--CTTATCTTA
1 TTTTATTTTTTTTTTATTCCTATCTTA
6680153 -TTTATTTTGTTTTTT
1 TTTTATTTT-TTTTTT
6680168 TATTTCACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 7 0.19
25 14 0.39
27 5 0.14
28 2 0.06
29 8 0.22
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTATTTTTTTTTTATTCCTATCTTA
Found at i:6690416 original size:12 final size:12
Alignment explanation
Indices: 6690397--6690425 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6690387 TTGAAAAATG
6690397 AAAG-AAAAAGA
1 AAAGAAAAAAGA
6690408 AAAGAAAAAAGA
1 AAAGAAAAAAGA
6690420 AAAGAA
1 AAAGAA
6690426 GGTGGGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:6693340 original size:2 final size:2
Alignment explanation
Indices: 6693333--6693365 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6693323 TCCTAACATT
6693333 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 T
6693366 TGTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6693423 original size:27 final size:27
Alignment explanation
Indices: 6693383--6693443 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
6693373 TTTATTATTA
* * *
6693383 TTATTATTATTTTTTATCTTTTTGTTT
1 TTATTTTTGTTTTTTATCTTTATGTTT
* *
6693410 TTGTTTTTGTTTTTTATGTTTATGTTT
1 TTATTTTTGTTTTTTATCTTTATGTTT
6693437 TTATTTT
1 TTATTTT
6693444 AATTTTCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.02, G:0.08, T:0.79
Consensus pattern (27 bp):
TTATTTTTGTTTTTTATCTTTATGTTT
Found at i:6693443 original size:21 final size:21
Alignment explanation
Indices: 6693371--6693443 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
6693361 TATATTGTTT
6693371 TTTTTATTATTATTAT-TATTAT-
1 TTTTTATT-TT-TTATGT-TTATG
* *
6693393 TTTTTATCTTTT-TGTTTTTG
1 TTTTTATTTTTTATGTTTATG
*
6693413 TTTTTGTTTTTTATGTTTATG
1 TTTTTATTTTTTATGTTTATG
6693434 TTTTTATTTT
1 TTTTTATTTT
6693444 AATTTTCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 13 0.31
21 18 0.43
22 7 0.17
ACGTcount: A:0.14, C:0.01, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTATGTTTATG
Found at i:6693449 original size:27 final size:25
Alignment explanation
Indices: 6693383--6693459 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 25
6693373 TTTATTATTA
*
6693383 TTATTATTATTTTTTATCTTTTTGTTT
1 TTATT-TTATTTTTTAT-TTTATGTTT
* *
6693410 TTGTTTTTGTTTTTTATGTTTATGTTT
1 TT-ATTTTATTTTTTAT-TTTATGTTT
6693437 TTATTTTAATTTTCTTATTTTAT
1 TTATTTT-ATTTT-TTATTTTAT
6693460 TCCTATCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 4 0.10
27 31 0.76
28 6 0.15
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (25 bp):
TTATTTTATTTTTTATTTTATGTTT
Found at i:6695021 original size:35 final size:36
Alignment explanation
Indices: 6694975--6695055 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 36
6694965 AACACAATCA
*
6694975 TCAATTACATTCTAAACCCCAAATTC-CAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAAATACT
**
6695010 TCAATTACATTCTAAACCTTAAATTCTAAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAAATACT
6695046 TCAATTACAT
1 TCAATTACAT
6695056 GCCCAACACC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 24 0.57
36 18 0.43
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (36 bp):
TCAATTACATTCTAAACCCCAAATTCTAAAAATACT
Found at i:6695070 original size:36 final size:34
Alignment explanation
Indices: 6694975--6695072 Score: 90
Period size: 36 Copynumber: 2.8 Consensus size: 34
6694965 AACACAATCA
* * *
6694975 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
1 TCAATTACA-TCCAAACACCAAATTCAAAAATACT
* *
6695010 TCAATTACATTCTAAAC-CTTAAATTCTAAAAATACT
1 TCAATTACA-TCCAAACAC-CAAATTC-AAAAATACT
*
6695046 TCAATTACATGCCCAACACCAAATTCA
1 TCAATTACAT-CCAAACACCAAATTCA
6695073 TAATTCATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
34 1 0.02
35 25 0.46
36 27 0.50
37 1 0.02
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.30
Consensus pattern (34 bp):
TCAATTACATCCAAACACCAAATTCAAAAATACT
Found at i:6695742 original size:148 final size:148
Alignment explanation
Indices: 6695555--6695853 Score: 431
Period size: 148 Copynumber: 2.0 Consensus size: 148
6695545 AAACTATTTA
* * * *
6695555 AATTAAAATCAAATAATATTATAGTATTATAAATATTTATTATTAAATTTAAACAAAAACTCAAA
1 AATTAAAATAAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
* **
6695620 AAATCAATTCAATTCGACTTGATTTAAATTTTATAAACTC-AATTCGAGAAAA-TTTTGAGTAAA
66 AAATAAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATT-GA-AAAACTTTCAAGTAAA
*
6695683 CTATTTTATAAATTGAACTG
129 CTATTTTATAAACTGAACTG
* * *
6695703 AATTAGAATAAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAAAATAAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
* * *
6695768 AATTAAATTCAATTCGACTTGATTTAAATTTTTTAAACTCAAATTGAAAAACTTTCAAGTCAACT
66 AAATAAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATTGAAAAACTTTCAAGTAAACT
*
6695833 ATTTTATAAACTGAATTG
131 ATTTTATAAACTGAACTG
6695851 AAT
1 AAT
6695854 ATTTAGGTCC
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
147 4 0.03
148 126 0.94
149 4 0.03
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (148 bp):
AATTAAAATAAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
AAATAAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATTGAAAAACTTTCAAGTAAACT
ATTTTATAAACTGAACTG
Found at i:6696058 original size:35 final size:35
Alignment explanation
Indices: 6696017--6696096 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
6696007 TGGGGTGGGC
** *
6696017 ATGTAATTGAATTATTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAGCATTTTAGAATTTGAGGTTTAGA
* *
6696052 ATGTAATTGAAGCATTTTAGATTTTGGGGTTTAGA
1 ATGTAATTGAAGCATTTTAGAATTTGAGGTTTAGA
6696087 ATGTAATTGA
1 ATGTAATTGA
6696097 TGACTGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTAGAATTTGAGGTTTAGA
Found at i:6697036 original size:2 final size:2
Alignment explanation
Indices: 6697029--6697054 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6697019 TGTTTAGCAT
6697029 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
6697055 CAATCAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6697862 original size:19 final size:20
Alignment explanation
Indices: 6697814--6697856 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6697804 AAAAAAAAGG
6697814 AACCGAGAAATGAAAAAACA
1 AACCGAGAAATGAAAAAACA
6697834 AACCGAGAAATGAAAAAACA
1 AACCGAGAAATGAAAAAACA
6697854 AAC
1 AAC
6697857 TAGAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.65, C:0.16, G:0.14, T:0.05
Consensus pattern (20 bp):
AACCGAGAAATGAAAAAACA
Found at i:6697868 original size:19 final size:20
Alignment explanation
Indices: 6697818--6697868 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6697808 AAAAGGAACC
*
6697818 GAGAAATGAAAAAACAAACC
1 GAGAAATGAAAAAACAAACA
6697838 GAGAAATGAAAAAACAAACTA
1 GAGAAATGAAAAAACAAAC-A
6697859 GA-AAAT-AAAA
1 GAGAAATGAAAA
6697869 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 23 0.79
21 2 0.07
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.08
Consensus pattern (20 bp):
GAGAAATGAAAAAACAAACA
Found at i:6703017 original size:6 final size:6
Alignment explanation
Indices: 6703006--6703032 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6702996 TGCAAGATTT
6703006 AGCAGG AGCAGG AGCAGG AGCAGG AGC
1 AGCAGG AGCAGG AGCAGG AGCAGG AGC
6703033 CGATACCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.48, T:0.00
Consensus pattern (6 bp):
AGCAGG
Found at i:6706532 original size:19 final size:20
Alignment explanation
Indices: 6706482--6706535 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 20
6706472 ACCACCCACA
6706482 AGGTATCGATACCTCTATGCT
1 AGGTATCGATACCTCTAT-CT
*
6706503 AGGGTACCGATACC-CTA-CTT
1 A-GGTATCGATACCTCTATC-T
6706523 AGGTATCGATACC
1 AGGTATCGATACC
6706536 AAAATTAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 4 0.14
22 11 0.38
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (20 bp):
AGGTATCGATACCTCTATCT
Found at i:6706611 original size:22 final size:21
Alignment explanation
Indices: 6706559--6706612 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6706549 AAGTTCCCTG
6706559 GGTATCGATACCCTCCCCATA
1 GGTATCGATACCCTCCCCATA
* **
6706580 GGCATCGATACCCTTTCCATA
1 GGTATCGATACCCTCCCCATA
6706601 TGGTATCGATAC
1 -GGTATCGATAC
6706613 TATTCATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCCTCCCCATA
Found at i:6708493 original size:20 final size:20
Alignment explanation
Indices: 6708468--6708540 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
6708458 GGAGTTAGGT
*
6708468 AGTATCGATACCCTTGTTAG
1 AGTATCAATACCCTTGTTAG
* ** *
6708488 AGTATCAATACTTCTAAATTGG
1 AGTATCAATAC-CCT-TGTTAG
*
6708510 AGTATCGATACCCTTGTTAG
1 AGTATCAATACCCTTGTTAG
6708530 AGTATCAATAC
1 AGTATCAATAC
6708541 TTCTAAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 23 0.57
21 4 0.10
22 13 0.32
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTATCAATACCCTTGTTAG
Found at i:6708513 original size:22 final size:22
Alignment explanation
Indices: 6708487--6708562 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
6708477 ACCCTTGTTA
6708487 GAGTATCAATACTTCTAAATTG
1 GAGTATCAATACTTCTAAATTG
* * ** *
6708509 GAGTATCGATAC-CCT-TGTTA
1 GAGTATCAATACTTCTAAATTG
6708529 GAGTATCAATACTTCTAAATTG
1 GAGTATCAATACTTCTAAATTG
*
6708551 GAGTATCGATAC
1 GAGTATCAATAC
6708563 CTACCTTAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 13 0.32
21 4 0.10
22 24 0.59
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (22 bp):
GAGTATCAATACTTCTAAATTG
Found at i:6708521 original size:42 final size:42
Alignment explanation
Indices: 6708468--6708563 Score: 192
Period size: 42 Copynumber: 2.3 Consensus size: 42
6708458 GGAGTTAGGT
6708468 AGTATCGATACCCTTGTTAGAGTATCAATACTTCTAAATTGG
1 AGTATCGATACCCTTGTTAGAGTATCAATACTTCTAAATTGG
6708510 AGTATCGATACCCTTGTTAGAGTATCAATACTTCTAAATTGG
1 AGTATCGATACCCTTGTTAGAGTATCAATACTTCTAAATTGG
6708552 AGTATCGATACC
1 AGTATCGATACC
6708564 TACCTTAGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (42 bp):
AGTATCGATACCCTTGTTAGAGTATCAATACTTCTAAATTGG
Found at i:6715765 original size:20 final size:20
Alignment explanation
Indices: 6715728--6715778 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
6715718 TCGTTCAATG
6715728 AGTATCGATACTACA-GGGT
1 AGTATCGATACTACAGGGGT
*
6715747 GGGTATCGATACT-CGAGGGGT
1 -AGTATCGATACTAC-AGGGGT
6715768 AGTATCGATAC
1 AGTATCGATAC
6715779 CTAGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (20 bp):
AGTATCGATACTACAGGGGT
Found at i:6718674 original size:23 final size:23
Alignment explanation
Indices: 6718648--6718715 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
6718638 GGTTCTACGC
6718648 GGTCCTTTGGGATAATTCTATGA
1 GGTCCTTTGGGATAATTCTATGA
* * * *
6718671 GGTCATTTGGGACAATTCTACGC
1 GGTCCTTTGGGATAATTCTATGA
* *
6718694 GGTCCTTTAGGATAAATCTATG
1 GGTCCTTTGGGATAATTCTATG
6718716 TGTCACTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (23 bp):
GGTCCTTTGGGATAATTCTATGA
Found at i:6718726 original size:46 final size:47
Alignment explanation
Indices: 6718640--6718739 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 47
6718630 TAGTCGAGGG
* *
6718640 TTCTACGCGGTCCTTTGGGATAATTCTATGAGGTCATTTGG-GACA-A
1 TTCTACGCGGTCCTTTAGGATAAATCTATGAGGTCATTTGGTG-CATA
*
6718686 TTCTACGCGGTCCTTTAGGATAAATCTATG-TGTCACTTTGGTGCATA
1 TTCTACGCGGTCCTTTAGGATAAATCTATGAGGTCA-TTTGGTGCATA
6718733 TTCTACG
1 TTCTACG
6718740 TGGCACTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 4 0.08
46 35 0.73
47 9 0.19
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (47 bp):
TTCTACGCGGTCCTTTAGGATAAATCTATGAGGTCATTTGGTGCATA
Found at i:6718737 original size:24 final size:24
Alignment explanation
Indices: 6718710--6718763 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6718700 TTAGGATAAA
* * *
6718710 TCTATGTGTCACTTTGGTGCATAT
1 TCTACGTGGCACTTTGGTGCAAAT
6718734 TCTACGTGGCACTTTGGTGCAAAT
1 TCTACGTGGCACTTTGGTGCAAAT
6718758 TCTACG
1 TCTACG
6718764 CATCCGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (24 bp):
TCTACGTGGCACTTTGGTGCAAAT
Found at i:6719764 original size:20 final size:20
Alignment explanation
Indices: 6719739--6719781 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6719729 TTTAAGAGCT
6719739 CATTTAGGACCATGTAGATG
1 CATTTAGGACCATGTAGATG
* * *
6719759 CATTTAGGAGCATTTAGTTG
1 CATTTAGGACCATGTAGATG
6719779 CAT
1 CAT
6719782 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATGTAGATG
Found at i:6735864 original size:23 final size:23
Alignment explanation
Indices: 6735838--6735900 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
6735828 GCGATCTTTT
*
6735838 GGGACAATTCTATGTGGTCCTTC
1 GGGATAATTCTATGTGGTCCTTC
**
6735861 GGGATAATTCTATACGGTCCTTC
1 GGGATAATTCTATGTGGTCCTTC
* *
6735884 GTGATAAATCTATGTGG
1 GGGATAATTCTATGTGG
6735901 CAATTCGGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (23 bp):
GGGATAATTCTATGTGGTCCTTC
Found at i:6735924 original size:24 final size:24
Alignment explanation
Indices: 6735897--6735946 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6735887 ATAAATCTAT
*
6735897 GTGGCAATTCGGTGCATATTCCAC
1 GTGGCAATTCGGTGCAAATTCCAC
* *
6735921 GTGGCACTTCGGTGCAAATTCTAC
1 GTGGCAATTCGGTGCAAATTCCAC
6735945 GT
1 GT
6735947 AGCAGTTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (24 bp):
GTGGCAATTCGGTGCAAATTCCAC
Found at i:6737862 original size:3 final size:3
Alignment explanation
Indices: 6737854--6737918 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
6737844 GAAGCAAAAC
*
6737854 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6737902 AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
6737919 TGTAGGCATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6746509 original size:18 final size:19
Alignment explanation
Indices: 6746461--6746510 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
6746451 CCCATACTGG
6746461 GAGTATCGATACTCTACCCTT
1 GAGTATCGATA--CTACCCTT
*
6746482 G-GTATTGATACT-CCCTT
1 GAGTATCGATACTACCCTT
6746499 GAGTATCGATAC
1 GAGTATCGATAC
6746511 CAAAAATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
20 8 0.31
21 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (19 bp):
GAGTATCGATACTACCCTT
Found at i:6749895 original size:163 final size:163
Alignment explanation
Indices: 6749625--6749943 Score: 442
Period size: 163 Copynumber: 2.0 Consensus size: 163
6749615 ACCCTAAACC
* *
6749625 TTTTGTAATTTATTTATCGATGCAGCCAAATTTGTTTTTATTTATTTTTTGTTTGAGTCTTATAG
1 TTTTGTAATTTATTTATCGATGCAGCCAAATTTATTTTTATTTATTTTTCGTTTGAGTCTTATAG
* * *
6749690 TTGAAATTTTAACTTTTTCCATATATGATTATTATATGATCTAAAATGGCTATTTTCAATGTTAT
66 TTGAAATTTTAACTTTTTCCATATATGATTATTATATGATCTAAAATGACTAGTTTCAATATTAT
* * *
6749755 ATGAGAATTTATAAATTATGTATTTAATATTTT
131 ATGAAAATGTATAAATTACGTATTTAATATTTT
* * * * * *
6749788 TTTTGTAGTTTGTTTGTCGATGTAGTCAAATTTATTTTTATTTATTTTTCGTTTGAGTCTTTTAG
1 TTTTGTAATTTATTTATCGATGCAGCCAAATTTATTTTTATTTATTTTTCGTTTGAGTCTTATAG
* * * * *
6749853 TTGAATTTTTAAGTTTTTCCTTATAT-AGTTCTTATATGATCTAAAGTGACTAGTTTCAATATTA
66 TTGAAATTTTAACTTTTTCCATATATGA-TTATTATATGATCTAAAATGACTAGTTTCAATATTA
*
6749917 TATGAAAATGTCTAAATTACGTATTTA
130 TATGAAAATGTATAAATTACGTATTTA
6749944 GTTTACAATA
Statistics
Matches: 135, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
162 1 0.01
163 134 0.99
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (163 bp):
TTTTGTAATTTATTTATCGATGCAGCCAAATTTATTTTTATTTATTTTTCGTTTGAGTCTTATAG
TTGAAATTTTAACTTTTTCCATATATGATTATTATATGATCTAAAATGACTAGTTTCAATATTAT
ATGAAAATGTATAAATTACGTATTTAATATTTT
Found at i:6757627 original size:36 final size:36
Alignment explanation
Indices: 6757581--6757654 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
6757571 TGAGATGCAA
6757581 GTATGTATATATGAAATATGGAATATGCCATTATTT
1 GTATGTATATATGAAATATGGAATATGCCATTATTT
6757617 GTATGTATATATGAAATATGGAATATGCCATTATTT
1 GTATGTATATATGAAATATGGAATATGCCATTATTT
6757653 GT
1 GT
6757655 TGTTACAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (36 bp):
GTATGTATATATGAAATATGGAATATGCCATTATTT
Found at i:6758278 original size:22 final size:21
Alignment explanation
Indices: 6758253--6758302 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
6758243 ACTCTATTAA
6758253 AAATTAGTTTTTATTATATTTT
1 AAATTAGTTTTTATTAT-TTTT
6758275 AAA-T--TTTTTATTATTTTT
1 AAATTAGTTTTTATTATTTTT
6758293 -AATTAAGTTT
1 AAATT-AGTTT
6758303 CCTCTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
17 2 0.08
18 5 0.21
19 10 0.42
21 4 0.17
22 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
AAATTAGTTTTTATTATTTTT
Found at i:6758313 original size:34 final size:34
Alignment explanation
Indices: 6758273--6758337 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
6758263 TTATTATATT
6758273 TTAAATTTTTT-ATTATTTTTAATTAAGTTTCCTC
1 TTAAATTTTTTAATT-TTTTTAATTAAGTTTCCTC
*
6758307 TTAAATTTTTTAATTTTTTTTATTAAGTTTC
1 TTAAATTTTTTAATTTTTTTAATTAAGTTTC
6758338 ATAATTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (34 bp):
TTAAATTTTTTAATTTTTTTAATTAAGTTTCCTC
Found at i:6759844 original size:20 final size:20
Alignment explanation
Indices: 6759819--6759864 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6759809 TTGTGGGTAC
*
6759819 CGATACTAACCCTTTAGTAT
1 CGATACTAAACCTTTAGTAT
*
6759839 CGATACTAAACCTTTGGTAT
1 CGATACTAAACCTTTAGTAT
6759859 CGATAC
1 CGATAC
6759865 CTACCTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (20 bp):
CGATACTAAACCTTTAGTAT
Found at i:6759884 original size:20 final size:20
Alignment explanation
Indices: 6759861--6759898 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6759851 TTTGGTATCG
6759861 ATACCTACC-TACTGGTATTA
1 ATACC-ACCATACTGGTATTA
*
6759881 ATACCCCCATACTGGTAT
1 ATACCACCATACTGGTAT
6759899 AAGCTATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACCACCATACTGGTATTA
Found at i:6759983 original size:18 final size:19
Alignment explanation
Indices: 6759917--6759987 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
6759907 TGGGTAAGAT
6759917 AGTATCGATACTCTAGGCTG
1 AGTATCGATACT-TAGGCTG
*
6759937 AGTATCGATACTTTGGTGCTGG
1 AGTATCGATAC-TTAG-GCT-G
* *
6759959 GGTATCGATACTT-GCCTG
1 AGTATCGATACTTAGGCTG
6759977 AGTATCGATAC
1 AGTATCGATAC
6759988 CAAATTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.25
19 2 0.05
20 14 0.32
21 6 0.14
22 11 0.25
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (19 bp):
AGTATCGATACTTAGGCTG
Found at i:6772748 original size:21 final size:21
Alignment explanation
Indices: 6772707--6772754 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6772697 TTTTATAACG
* *
6772707 TTAAAATATGTTATTTAATTA
1 TTAAAATATGTAAATTAATTA
6772728 TTAAAATATAGTAAATT-ATTA
1 TTAAAATAT-GTAAATTAATTA
6772749 -TAAAAT
1 TTAAAAT
6772755 CTATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAAAATATGTAAATTAATTA
Found at i:6772760 original size:15 final size:15
Alignment explanation
Indices: 6772742--6772822 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
6772732 AATATAGTAA
6772742 ATTATTATAAAATCT
1 ATTATTATAAAATCT
*
6772757 ATTATTTTAATAAT-T
1 ATTATTATAA-AATCT
* * **
6772772 -TTA-AATATAATAA
1 ATTATTATAAAATCT
*
6772785 ATTATTATAAATATATT
1 ATTATTATAAA-AT-CT
6772802 ATTATTATAAAATCT
1 ATTATTATAAAATCT
6772817 ATTATT
1 ATTATT
6772823 TTAATTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 6 0.12
15 21 0.42
16 7 0.14
17 11 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATTATAAAATCT
Found at i:6772802 original size:42 final size:42
Alignment explanation
Indices: 6772708--6772804 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
6772698 TTTATAACGT
* * *
6772708 TAAAATATGTTA-TTTAATTATTAAAATATAGTAAATTATTA
1 TAAAATATATTATTTTAATAATTAAAATATAATAAATTATTA
* *
6772749 TAAAATCTATTATTTTAATAATTTTAAATATAATAAATTATTA
1 TAAAATATATTATTTTAATAA-TTAAAATATAATAAATTATTA
6772792 T-AAATATATTATT
1 TAAAATATATTATT
6772805 ATTATAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 10 0.21
42 18 0.38
43 20 0.42
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (42 bp):
TAAAATATATTATTTTAATAATTAAAATATAATAAATTATTA
Found at i:6772807 original size:17 final size:18
Alignment explanation
Indices: 6772785--6772822 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6772775 AATATAATAA
6772785 ATTATTAT-AAATATATT
1 ATTATTATAAAATATATT
*
6772802 ATTATTATAAAATCTATT
1 ATTATTATAAAATATATT
6772820 ATT
1 ATT
6772823 TTAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTATAAAATATATT
Found at i:6772817 original size:60 final size:61
Alignment explanation
Indices: 6772723--6772836 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 61
6772713 TATGTTATTT
6772723 AATTATTAAAATATAGTAAATTATTATAAAATCTATTATTTTAATAATTTTAAATATAATA
1 AATTATTAAAATATAGTAAATTATTATAAAATCTATTATTTTAATAATTTTAAATATAATA
* *
6772784 AATTATTATAAATATA-T-TATTATTATAAAATCTATTATTTTAATTATTTTAAA
1 AATTATTA-AAATATAGTAAATTATTATAAAATCTATTATTTTAATAATTTTAAA
6772837 ATATTCGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
60 34 0.68
61 9 0.18
62 7 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (61 bp):
AATTATTAAAATATAGTAAATTATTATAAAATCTATTATTTTAATAATTTTAAATATAATA
Found at i:6775065 original size:3 final size:3
Alignment explanation
Indices: 6775057--6775087 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
6775047 GTGTTAGCTG
6775057 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
6775088 AAAAAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6775079 original size:13 final size:13
Alignment explanation
Indices: 6775057--6775088 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6775047 GTGTTAGCTG
6775057 TAAT-AATAATAA
1 TAATAAATAATAA
6775069 TAATAAATAATAA
1 TAATAAATAATAA
6775082 TAATAAA
1 TAATAAA
6775089 AAAAAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAAATAATAA
Found at i:6776447 original size:28 final size:29
Alignment explanation
Indices: 6776392--6776448 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
6776382 AAAATCTTTT
*
6776392 GATTTATAAATAATATGACTCTTTCTTTGAC
1 GATTTATAAATAATATAACTC--TCTTTGAC
6776423 GATTTATAAATAATATAACTC-CTTTG
1 GATTTATAAATAATATAACTCTCTTTG
6776449 CATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
31 20 0.80
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (29 bp):
GATTTATAAATAATATAACTCTCTTTGAC
Found at i:6779071 original size:43 final size:42
Alignment explanation
Indices: 6779013--6779156 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 42
6779003 CAATTTTAGT
* *
6779013 TTTTTATCCTTATAATTGATGTCCCTAATTTTTGTAATCCTAC
1 TTTTTATCTTTATAATTGATGTCCCTAATTTTT-TAATCCCAC
* *
6779056 TTTTTATCTTTATAATGGA-GGCCCTTAATTTTTTTCAATCCCA-
1 TTTTTATCTTTATAATTGATGTCCC-TAA-TTTTTT-AATCCCAC
* *
6779099 TTTTT-T-TTTGTAATTGATGAT-CCTAAGTTTTTCAATCCCAC
1 TTTTTATCTTTATAATTGATG-TCCCTAA-TTTTTTAATCCCAC
* * *
6779140 CTTGTACCTTTATAATT
1 TTTTTATCTTTATAATT
6779157 AAGCTCCTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
40 7 0.09
41 20 0.25
42 8 0.10
43 34 0.43
44 11 0.14
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (42 bp):
TTTTTATCTTTATAATTGATGTCCCTAATTTTTTAATCCCAC
Found at i:6779365 original size:43 final size:43
Alignment explanation
Indices: 6779236--6779366 Score: 142
Period size: 42 Copynumber: 3.1 Consensus size: 43
6779226 CCCTAATTTT
* * * *
6779236 TTTTTTCAATCTCAATTTTTACCTTTAAAATTGATGCCCCT-A
1 TTTTTTCAATATCACTTTTTACCTTTATAATTGAAGCCCCTAA
* * *
6779278 TTTTTTTAATATCACTTTTTACCTTTATAATTGAAGTCCATAA
1 TTTTTTCAATATCACTTTTTACCTTTATAATTGAAGCCCCTAA
* *
6779321 TTTTTTCAATCAT-ACTTTTTA-CTTCTATAGTTTAAGCCCCTAA
1 TTTTTTCAAT-ATCACTTTTTACCTT-TATAATTGAAGCCCCTAA
6779364 TTT
1 TTT
6779367 AATCATTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
42 37 0.50
43 35 0.47
44 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (43 bp):
TTTTTTCAATATCACTTTTTACCTTTATAATTGAAGCCCCTAA
Found at i:6797471 original size:11 final size:11
Alignment explanation
Indices: 6797438--6797469 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
6797428 TATCTAATAT
6797438 AAATAAATTTA
1 AAATAAATTTA
6797449 AAATAAATTTA
1 AAATAAATTTA
6797460 AAATTAAATT
1 AAA-TAAATT
6797470 AATGTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAAATTTA
Found at i:6799105 original size:23 final size:23
Alignment explanation
Indices: 6799073--6799133 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
6799063 CTCGTATAAA
6799073 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * *
6799096 TGCACTGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
6799119 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
6799134 TATAAGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:6806021 original size:23 final size:23
Alignment explanation
Indices: 6805991--6806051 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
6805981 CTCATATAAA
6805991 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
6806014 TGCACCGAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
6806037 TGCACTGTAGTGCCA
1 TGCACCGAAGTGCCA
6806052 TATAAGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:6806763 original size:19 final size:19
Alignment explanation
Indices: 6806739--6806791 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
6806729 ATTTAAGGGG
* *
6806739 GTGCATTGATTCACTATTT
1 GTGCATCGATACACTATTT
6806758 GTGCATCGATACACTATTT
1 GTGCATCGATACACTATTT
*
6806777 GTGCATCAATACACT
1 GTGCATCGATACACT
6806792 GATGGCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (19 bp):
GTGCATCGATACACTATTT
Found at i:6808018 original size:2 final size:2
Alignment explanation
Indices: 6808013--6808300 Score: 229
Period size: 2 Copynumber: 149.0 Consensus size: 2
6808003 AATTGAAACA
6808013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
6808053 AT A- AT AGT AT A- AT AT GT A- AG AT GA- AT GT A- AT GA- AA AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT -AT AT AT
* * * **
6808090 AT A- AT AC AT GT AT AT AT AT -T AT A- AT GT AT AT -T AT GC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6808128 AC A- AT AT A- AGT AT AT ACT -T AT AT A- AGT AT AT A- AT AT A-
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT
* *
6808165 AGT AT AC ACT AT ACT -T AT AGT AT AT GT AT AT A- AT AT AT AT AT
1 A-T AT AT A-T AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
6808207 AT AT AT AT 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 AT AT AT AT
6808249 AT AT AT AT 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 AT AT AT AT
*
6808291 TT AT AT AT AT
1 AT AT AT AT AT
6808301 GTATGATCAA
Statistics
Matches: 233, Mismatches: 23, Indels: 60
0.74 0.07 0.19
Matches are distributed among these distances:
1 20 0.09
2 201 0.86
3 12 0.05
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6808721 original size:44 final size:45
Alignment explanation
Indices: 6808654--6808768 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 45
6808644 TTATGAAATT
* * * * *
6808654 AAAAAATTTAAGGACCTCGATTATAAATGTAAAAAGTGAGTTTG-
1 AAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTGA
*
6808698 AAAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGA
1 AAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTGA
* *
6808743 AAAAAACTTAGGGGCCTCATTTATAA
1 AAAAAACTTAAGGGCCTCAATTATAA
6808769 TTATAAGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
44 38 0.61
45 24 0.39
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (45 bp):
AAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTGA
Found at i:6809258 original size:19 final size:19
Alignment explanation
Indices: 6809212--6809258 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
6809202 AAAATCAGAA
6809212 TTCCTCTAAATTTCTCAAT
1 TTCCTCTAAATTTCTCAAT
*
6809231 TGCCCTCTAAATTTCT-AAT
1 T-TCCTCTAAATTTCTCAAT
6809250 TTCCATCTA
1 TTCC-TCTA
6809259 TTCTCAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 13 0.54
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.45
Consensus pattern (19 bp):
TTCCTCTAAATTTCTCAAT
Found at i:6809288 original size:20 final size:20
Alignment explanation
Indices: 6809265--6809331 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
6809255 TCTATTCTCA
*
6809265 AAATTTTCCAATTTCCCTCT
1 AAATTTCCCAATTTCCCTCT
*
6809285 AAA-TTCCCAACTT-CC-C-
1 AAATTTCCCAATTTCCCTCT
*
6809301 AAAATTCCTCAATTTCCCTCT
1 AAATTTCC-CAATTTCCCTCT
6809322 AAA-TTCCCAA
1 AAATTTCCCAA
6809332 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
16 3 0.08
17 5 0.13
18 7 0.18
19 13 0.33
20 8 0.21
21 3 0.08
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTTCCCAATTTCCCTCT
Found at i:6809307 original size:17 final size:18
Alignment explanation
Indices: 6809285--6809318 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6809275 ATTTCCCTCT
6809285 AAATTCC-CAACTTCCCA
1 AAATTCCTCAACTTCCCA
*
6809302 AAATTCCTCAATTTCCC
1 AAATTCCTCAACTTCCC
6809319 TCTAAATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTCCTCAACTTCCCA
Found at i:6810013 original size:2 final size:2
Alignment explanation
Indices: 6810006--6810051 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
6809996 ACTCACTTGA
6810006 AT AT AT AT 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 AT AT AT AT
6810048 AT AT
1 AT AT
6810052 CTCAAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6810226 original size:13 final size:13
Alignment explanation
Indices: 6810210--6810254 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
6810200 TGGAATTATT
6810210 TTAATGATTATAA
1 TTAATGATTATAA
6810223 TTAAT-ATTTATAA
1 TTAATGA-TTATAA
*
6810236 TATAAGGATTATAA
1 T-TAATGATTATAA
6810250 TTAAT
1 TTAAT
6810255 ATAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 15 0.56
14 10 0.37
15 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TTAATGATTATAA
Found at i:6813768 original size:17 final size:17
Alignment explanation
Indices: 6813746--6813780 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6813736 CCTGGACCAA
**
6813746 GCCGTTGACTGTTGACC
1 GCCGTTGAAAGTTGACC
6813763 GCCGTTGAAAGTTGACC
1 GCCGTTGAAAGTTGACC
6813780 G
1 G
6813781 TTAACTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (17 bp):
GCCGTTGAAAGTTGACC
Found at i:6817994 original size:21 final size:21
Alignment explanation
Indices: 6817928--6817998 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
6817918 TTTAAATGTT
*
6817928 ATAA-TAAAATATTAATTATG
1 ATAATTAATATATTAATTATG
* *
6817948 ATAACT-A-A-ATTAATAAAT-
1 ATAATTAATATATTAAT-TATG
*
6817966 ATATTTAATATATTAATTATG
1 ATAATTAATATATTAATTATG
6817987 ATAATTAATATA
1 ATAATTAATATA
6817999 CTTTATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 10 0.25
19 4 0.10
20 8 0.20
21 18 0.45
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (21 bp):
ATAATTAATATATTAATTATG
Found at i:6818015 original size:14 final size:15
Alignment explanation
Indices: 6817994--6818041 Score: 64
Period size: 13 Copynumber: 3.3 Consensus size: 15
6817984 ATGATAATTA
6817994 ATATACTTTATATTT
1 ATATACTTTATATTT
6818009 A-ATAC-TTATATTT
1 ATATACTTTATATTT
*
6818022 ATATACTTTAATACTT
1 ATATACTTT-ATATTT
6818038 ATAT
1 ATAT
6818042 CCAAACACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 3 0.10
16 9 0.31
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATACTTTATATTT
Found at i:6818019 original size:13 final size:14
Alignment explanation
Indices: 6817994--6818029 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6817984 ATGATAATTA
6817994 ATATACTTTATATTT
1 ATATAC-TTATATTT
6818009 A-ATACTTATATTT
1 ATATACTTATATTT
6818022 ATATACTT
1 ATATACTT
6818030 TAATACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 10 0.50
15 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATACTTATATTT
Found at i:6818051 original size:22 final size:22
Alignment explanation
Indices: 6818006--6818063 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
6817996 ATACTTTATA
** * *
6818006 TTTAATACTTATATTTATATAC
1 TTTAATACTTATATCCAAACAC
6818028 TTTAATACTTATATCCAAACAC
1 TTTAATACTTATATCCAAACAC
6818050 TTT-ATAACTTATAT
1 TTTAAT-ACTTATAT
6818064 ATATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATACTTATATCCAAACAC
Found at i:6818514 original size:6 final size:6
Alignment explanation
Indices: 6818506--6818582 Score: 100
Period size: 6 Copynumber: 12.8 Consensus size: 6
6818496 ATATGTATGT
* * *
6818506 GTGTGT GTGTGT GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGCGC
1 GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC
* * *
6818554 GTGTGT GTGTGT GTGCGC GTGTGC GTGTG
1 GTGTGC GTGTGC GTGTGC GTGTGC GTGTG
6818583 TATGTATATG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.00, C:0.13, G:0.51, T:0.36
Consensus pattern (6 bp):
GTGTGC
Found at i:6818592 original size:6 final size:6
Alignment explanation
Indices: 6818583--6818621 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
6818573 TGTGCGTGTG
* *
6818583 TATGTA TATGTA TATGTA TATGTA TGTATAA TATGTA TA
1 TATGTA TATGTA TATGTA TATGTA TATGT-A TATGTA TA
6818622 ATGAATGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (6 bp):
TATGTA
Found at i:6819363 original size:25 final size:24
Alignment explanation
Indices: 6819317--6819362 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6819307 TGATGGGGGA
6819317 TGAAATTGAATTAATTATAAAATG
1 TGAAATTGAATTAATTATAAAATG
*
6819341 TGAAGTTGATATTAA-TATAAAA
1 TGAAATTGA-ATTAATTATAAAA
6819363 AAATGGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (24 bp):
TGAAATTGAATTAATTATAAAATG
Found at i:6825329 original size:8 final size:9
Alignment explanation
Indices: 6825306--6825330 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6825296 TTTCAAACAT
6825306 TATTTTTAA
1 TATTTTTAA
6825315 TATTTTTAA
1 TATTTTTAA
6825324 TATTTTT
1 TATTTTT
6825331 CAAAACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTAA
Found at i:6828232 original size:22 final size:22
Alignment explanation
Indices: 6828207--6828414 Score: 74
Period size: 22 Copynumber: 9.2 Consensus size: 22
6828197 ATATAAAAAG
*
6828207 TATAATTATA-AAGACTAAAGTA
1 TATAAATATATAAGA-TAAAGTA
*
6828229 TATAAATATATAATATAAAGTA
1 TATAAATATATAAGATAAAGTA
* *
6828251 TAT--ATATGT-ATATAAAGTA
1 TATAAATATATAAGATAAAGTA
* *
6828270 TATATATATATATATATAAAGCTTTA
1 TATAAATATATA-AGATAAAG---TA
**
6828296 GTATAAAGTGTATATTGGTATATAA-TAA
1 -TATAAA---TATATAAG-ATA-AAGT-A
*
6828324 TATAAAGTATATAATATAAAGTA
1 TATAAA-TATATAAGATAAAGTA
*
6828347 TATAAGTAT-TAA-ATATAAGTA
1 TATAAATATATAAGATA-AAGTA
* * *
6828368 TATAAGTAT-TAAATATAAAATA
1 TATAAATATAT-AAGATAAAGTA
* * *
6828390 TATAAGTATAT-ATATAAGGTA
1 TATAAATATATAAGATAAAGTA
6828411 TATA
1 TATA
6828415 CTTATATATT
Statistics
Matches: 151, Mismatches: 15, Indels: 41
0.73 0.07 0.20
Matches are distributed among these distances:
19 13 0.09
20 8 0.05
21 35 0.23
22 37 0.25
23 23 0.15
24 4 0.03
25 6 0.04
26 2 0.01
27 12 0.08
28 1 0.01
30 8 0.05
31 2 0.01
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (22 bp):
TATAAATATATAAGATAAAGTA
Found at i:6828239 original size:2 final size:2
Alignment explanation
Indices: 6828227--6828287 Score: 61
Period size: 2 Copynumber: 30.0 Consensus size: 2
6828217 AAGACTAAAG
* * * *
6828227 TA TA TA AA TA TA TA -A TA TA AA GTA TA TA TA TG TA TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
6828270 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
6828288 AAGCTTTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
1 1 0.02
2 45 0.94
3 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6828265 original size:19 final size:19
Alignment explanation
Indices: 6828184--6828497 Score: 108
Period size: 20 Copynumber: 15.6 Consensus size: 19
6828174 AATAAAGTAT
*
6828184 AAGTATATTATATATATAAA
1 AAGTATA-TATATATATATA
* *
6828204 AAGTATA-ATTATAAAGACTA
1 AAGTATATA-TATATATA-TA
6828224 AAGTATATAAATATATAATATA
1 AAGTATAT--ATATAT-ATATA
*
6828246 AAGTATATATATGTATATA
1 AAGTATATATATATATATA
6828265 AAGTATATATATATATAT-
1 AAGTATATATATATATATA
* ** *
6828283 -A-TATAAAGCTTTAGTATA
1 AAGTATATATATATA-TATA
* *
6828301 AAGTGTATAT-TGGTATATA
1 AAGTATATATAT-ATATATA
* *
6828320 ATAATATAAAGTATATAATATA
1 A-AGTATATA-TATAT-ATATA
*
6828342 AAGTATATA-AGTATTAAATA
1 AAGTATATATA-TA-TATATA
*
6828362 TAAGTATATAAGTATTAAATATA
1 -AAGTATAT-A-TA-TATATATA
*
6828385 AAATATATAAGTATATATATA
1 AAGTATAT-A-TATATATATA
* *
6828406 AGGTATATACTTATATATTTTA
1 AAGTATATA--TATATA-TATA
* * *
6828428 TA-TTTAATACTTATAAACTATA
1 AAGTAT-ATA--TATATA-TATA
6828450 AAGTATA-AGTATAT-TAT-
1 AAGTATATA-TATATATATA
* *
6828467 AAGTATATATATAAACCATA
1 AAGTATATATATATA-TATA
6828487 AAGTATATATA
1 AAGTATATATA
6828498 CTTTATACTA
Statistics
Matches: 222, Mismatches: 43, Indels: 58
0.69 0.13 0.18
Matches are distributed among these distances:
16 8 0.04
17 15 0.07
18 5 0.02
19 38 0.17
20 53 0.24
21 39 0.18
22 52 0.23
23 9 0.04
24 3 0.01
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (19 bp):
AAGTATATATATATATATA
Found at i:6828300 original size:23 final size:23
Alignment explanation
Indices: 6828175--6828290 Score: 97
Period size: 23 Copynumber: 5.3 Consensus size: 23
6828165 TAACTCAACA
6828175 ATAAAGTATAAGTATATTATATATAT
1 ATAAAGTAT-A-TATA-TATATATAT
* *
6828201 AAAAAGTATA-AT-TATA-A-AG
1 ATAAAGTATATATATATATATAT
*
6828220 ACTAAAGTATATAAATATATA-AT
1 A-TAAAGTATATATATATATATAT
*
6828243 ATAAAG----TATATATATGTAT
1 ATAAAGTATATATATATATATAT
6828262 ATAAAGTATATATATATATATAT
1 ATAAAGTATATATATATATATAT
6828285 ATAAAG
1 ATAAAG
6828291 CTTTAGTATA
Statistics
Matches: 73, Mismatches: 8, Indels: 21
0.72 0.08 0.21
Matches are distributed among these distances:
18 8 0.11
19 10 0.14
20 9 0.12
21 5 0.07
22 9 0.12
23 23 0.32
25 1 0.01
26 8 0.11
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (23 bp):
ATAAAGTATATATATATATATAT
Found at i:6828355 original size:8 final size:8
Alignment explanation
Indices: 6828224--6828401 Score: 102
Period size: 8 Copynumber: 23.1 Consensus size: 8
6828214 ATAAAGACTA
6828224 AAGTATAT
1 AAGTATAT
*
6828232 AAATATAT
1 AAGTATAT
6828240 AA-TATA-
1 AAGTATAT
6828246 AAGTATAT
1 AAGTATAT
6828254 ATATGTATAT
1 A-A-GTATAT
6828264 AAAGTATAT
1 -AAGTATAT
6828273 -A-TATAT
1 AAGTATAT
6828279 ATA-TATAT
1 A-AGTATAT
6828287 AAAGCT-T-T
1 -AAG-TATAT
6828295 -AGTATA-
1 AAGTATAT
6828301 AAGTGTATAT
1 AA--GTATAT
**
6828311 TGGTATAT
1 AAGTATAT
6828319 AA-TAATAT
1 AAGT-ATAT
6828327 AAAGTATAT
1 -AAGTATAT
6828336 AA-TATA-
1 AAGTATAT
6828342 AAGTATAT
1 AAGTATAT
6828350 AAGTAT-T
1 AAGTATAT
6828357 AA--ATAT
1 AAGTATAT
6828363 AAGTATAT
1 AAGTATAT
6828371 AAGTAT-T
1 AAGTATAT
*
6828378 AAATATA-
1 AAGTATAT
*
6828385 AAATATAT
1 AAGTATAT
6828393 AAGTATAT
1 AAGTATAT
6828401 A
1 A
6828402 TATAAGGTAT
Statistics
Matches: 137, Mismatches: 7, Indels: 52
0.70 0.04 0.27
Matches are distributed among these distances:
5 3 0.02
6 15 0.11
7 35 0.26
8 54 0.39
9 20 0.15
10 9 0.07
11 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.39
Consensus pattern (8 bp):
AAGTATAT
Found at i:6828366 original size:21 final size:21
Alignment explanation
Indices: 6828342--6828414 Score: 103
Period size: 21 Copynumber: 3.4 Consensus size: 21
6828332 ATATAATATA
6828342 AAGTATATAAGTATTAAATAT
1 AAGTATATAAGTATTAAATAT
6828363 AAGTATATAAGTATTAAATAT
1 AAGTATATAAGTATTAAATAT
* *
6828384 AAAATATATAAGTA-TATATAT
1 -AAGTATATAAGTATTAAATAT
6828405 AAGGTATATA
1 AA-GTATATA
6828415 CTTATATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 33 0.70
22 12 0.26
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
AAGTATATAAGTATTAAATAT
Found at i:6828384 original size:43 final size:42
Alignment explanation
Indices: 6828320--6828414 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 42
6828310 TTGGTATATA
*
6828320 ATAA-TATA-AAGTATATAATATAAAGTATATAAGTATTAAAT
1 ATAAGTATATAAGTATATAATATAAAATATATAAGTA-TAAAT
*
6828361 ATAAGTATATAAGTAT-TAAATATAAAATATATAAGTATATAT
1 ATAAGTATATAAGTATAT-AATATAAAATATATAAGTATAAAT
6828403 ATAAGGTATATA
1 ATAA-GTATATA
6828415 CTTATATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
41 4 0.08
42 13 0.27
43 31 0.65
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (42 bp):
ATAAGTATATAAGTATATAATATAAAATATATAAGTATAAAT
Found at i:6828393 original size:30 final size:31
Alignment explanation
Indices: 6828313--6828401 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 31
6828303 GTGTATATTG
*
6828313 GTATATAATAATATAAAGTATATAA-TATA-AA
1 GTATAT-A-AATATAAAATATATAAGTATATAA
* *
6828344 GTATATAAGTAT-TAA-ATATAAGTATATAA
1 GTATATAAATATAAAATATATAAGTATATAA
6828373 GTAT-TAAATATAAAATATATAAGTATATA
1 GTATATAAATATAAAATATATAAGTATATA
6828402 TATAAGGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 6 0.12
28 11 0.22
29 12 0.24
30 14 0.29
31 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (31 bp):
GTATATAAATATAAAATATATAAGTATATAA
Found at i:6828572 original size:8 final size:8
Alignment explanation
Indices: 6828534--6828706 Score: 88
Period size: 8 Copynumber: 22.1 Consensus size: 8
6828524 TATATATATA
6828534 TATATACT
1 TATATACT
6828542 TATATA-T
1 TATATACT
* *
6828549 TTTATATT
1 TATATACT
6828557 TA-ATACT
1 TATATACT
6828564 TATATACT
1 TATATACT
6828572 TATAT--T
1 TATATACT
6828578 TA-ATACT
1 TATATACT
6828585 TATATACTT
1 TATATAC-T
6828594 TATATTA-T
1 TATA-TACT
6828602 TATATACCT
1 TATATA-CT
*
6828611 ATATACACT
1 -TATATACT
6828620 T-TATAC-
1 TATATACT
6828626 TA-A-AGCTT
1 TATATA-C-T
6828634 TATATA-T
1 TATATACT
6828641 ATATATA-T
1 -TATATACT
6828649 ATATATACT
1 -TATATACT
*
6828658 T-TATATGT
1 TATATA-CT
6828666 ATATATACTT
1 -TATATAC-T
6828676 TATATACT
1 TATATACT
6828684 T-TATA-T
1 TATATACT
* *
6828690 TATACATT
1 TATATACT
6828698 TATATACT
1 TATATACT
6828706 T
1 T
6828707 TAGTCTTTAT
Statistics
Matches: 131, Mismatches: 10, Indels: 48
0.69 0.05 0.25
Matches are distributed among these distances:
5 3 0.02
6 8 0.06
7 33 0.25
8 56 0.43
9 18 0.14
10 13 0.10
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (8 bp):
TATATACT
Found at i:6828593 original size:21 final size:20
Alignment explanation
Indices: 6828522--6828590 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 20
6828512 TTTATAAGTG
*
6828522 TATATA-TATATATATATACT
1 TATATATTATATTTA-ATACT
6828542 TATATATTTTATATTTAATACT
1 TATATA--TTATATTTAATACT
6828564 TATATACTTATATTTAATACT
1 TATATA-TTATATTTAATACT
6828585 TATATA
1 TATATA
6828591 CTTTATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 6 0.14
21 20 0.45
22 11 0.25
23 7 0.16
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATATTATATTTAATACT
Found at i:6828597 original size:30 final size:30
Alignment explanation
Indices: 6828526--6828606 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
6828516 TAAGTGTATA
* * *
6828526 TATATA-TATATATACTTATATATTTTATATT
1 TATATACTTTATATAC-T-TATATTTAATACT
6828557 TA-ATAC-TTATATACTTATATTTAATACT
1 TATATACTTTATATACTTATATTTAATACT
6828585 TATATACTTTATATTA-TTATAT
1 TATATACTTTATA-TACTTATAT
6828607 ACCTATATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
28 13 0.30
29 5 0.12
30 21 0.49
31 4 0.09
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
TATATACTTTATATACTTATATTTAATACT
Found at i:6828641 original size:2 final size:2
Alignment explanation
Indices: 6828634--6829647 Score: 165
Period size: 2 Copynumber: 509.0 Consensus size: 2
6828624 ACTAAAGCTT
* * *
6828634 TA TA TA TA TA TA TA TA TA TA TA CTT TA TA TG TA TA TA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * * * *
6828678 TA TA CTT TA TA T- TA TA CA TT TA TA TA CTT TA GTC TT TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
* * *
6828719 T- TG TA CTT TA TA TA TA TA TA TA CT- TA TA CTT TA TA T- TA T-
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * *
6828758 TA TA TA TG TG TA TA TA TA TA TA T- TA TA CTA -A AA CTT 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
*
6828800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
6828842 TA TA GA -A TA AA GTA TA TA TG CA TA TA TA -A TT TA TA TA -A AA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6828882 TA TA -A GTA TA -A GTA TA T- TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
6828923 GTA TA -A T- TA TA AA GA CTA AA GTA TA TA AA GTA TA TA TA CA TA
1 -TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA
* * * * *
6828965 TA AA GTA CA -A GTA CA -A GTG TA TA TA TA TA TA TA TA TA TA AA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
6829006 CTA AA AA GTA TA -A GTA TA TA TA TA TA AA GT- TT TA GTA TA AA GCA
1 -TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA
* * * * * * *
6829050 TA TA TA AA TA T- TA T- TA -A TA -A TT TA TT TT TA -A AA AA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
6829087 TA -A AA TA TG TG TA TA TA CTT TA TA TA CT- TA TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA TA
* * *
6829127 TA CTT TA GTA TT TA TA -A T- TA TA CTT TA TA TA TA TA TA TA -A
1 TA -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
6829167 TA TA CT- TA TA T- TT TA TA T- TA T- TA TA TA TG TG TA TA TA CTT
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
6829207 TA TA TA TA TA TA TA TA -A TT TA TA -A T- TA TA CA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
6829245 TA AA TA TA GA T- TG TA TA TA TT TA AA TA TA -A T- TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
6829285 -A TT TA TA TA TA AA CTA TA TA -A TT TA TA T- TA -A TA AA CTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
6829325 TA GTT TA TA TA TA GTA -A AA TA GT- TCA TA TA TA AA CTC TA TA GTT
1 TA -TA TA TA TA TA -TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA
* * * * *
6829369 TA TA CA TGG TA TA TA TA GTA TA TA -A TGA TA AA AA TA TA AA T-
1 TA TA TA T-A TA TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA TA
* * *
6829410 TA TA TA T- TT TA TA TA CA TA GTT TA TA TA TA TA -A 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
* * * * *
6829451 AA CTA TA TA AA CA CTA TA TA GTT TA TA T- TA -A TA AA CTA TA TA
1 TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * * *
6829493 GTT TA TA CA TA -A TA TA TA TA -A TT TA TA TA T- TG TA TA TA -A
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6829532 TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA TA TA -A 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
* * * *
6829574 TA CTT TA TA TA TA AA CTA TA TA CTT TA TA CA TA -A 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
*
6829616 GTT TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6829648 ATTGTTTCAA
Statistics
Matches: 726, Mismatches: 164, Indels: 244
0.64 0.14 0.22
Matches are distributed among these distances:
1 63 0.09
2 603 0.83
3 60 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6828668 original size:15 final size:16
Alignment explanation
Indices: 6828642--6828681 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6828632 TTTATATATA
6828642 TATATATATATATACTT
1 TATATA-ATATATACTT
*
6828659 TATATGTATATATACTT
1 TATAT-AATATATACTT
6828676 TATATA
1 TATATA
6828682 CTTTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (16 bp):
TATATAATATATACTT
Found at i:6828699 original size:120 final size:119
Alignment explanation
Indices: 6828390--6828708 Score: 304
Period size: 125 Copynumber: 2.7 Consensus size: 119
6828380 ATATAAAATA
* *
6828390 TATAAGTATATATATA-AGGTATATACTTATATATTTTATATTTAATACTTATAAACTATAAAGT
1 TATAAGTATATATATATA--TATATACTTATATATTTTATATTTAATACTTATATACT-TATA-T
* * * * * ** *
6828454 ATAAGTATA-TTATA-AGTATATA-TATAAACCATAAAGTATATATACTTTATACTAAAACTT
62 -TTA-TATACTTATATACTTTATATTAT-TA-TAT-ACCTATATACACTTTATACTAAAACTT
6828514 TATAAGTGTATATATATATATATATACTTATATATTTTATATTTAATACTTATATACTTATATTT
1 TATAA--GTATATATATATATATATACTTATATATTTTATATTTAATACTTATATACTTATATTT
*
6828579 A-ATACTTATATACTTTATATTATTATATACCTATATACACTTTATACTAAAGCTT
64 ATATACTTATATACTTTATATTATTATATACCTATATACACTTTATACTAAAACTT
*
6828634 TAT-A-TATATATATATATATATACTT-TATA-TGTATA--T-ATACTTTATATACTT-TATATT
1 TATAAGTATATATATATATATATACTTATATATTTTATATTTAATAC-TTATATACTTATAT-TT
* *
6828691 ATACATTTATATACTTTA
64 ATATACTTATATACTTTA
6828709 GTCTTTATAA
Statistics
Matches: 172, Mismatches: 14, Indels: 29
0.80 0.07 0.13
Matches are distributed among these distances:
111 7 0.04
112 14 0.08
113 14 0.08
114 5 0.03
115 4 0.02
116 21 0.12
119 1 0.01
120 29 0.17
121 7 0.04
122 9 0.05
123 4 0.02
124 8 0.05
125 37 0.22
126 11 0.06
127 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (119 bp):
TATAAGTATATATATATATATATACTTATATATTTTATATTTAATACTTATATACTTATATTTAT
ATACTTATATACTTTATATTATTATATACCTATATACACTTTATACTAAAACTT
Found at i:6828897 original size:21 final size:19
Alignment explanation
Indices: 6828873--6828934 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 19
6828863 ATATATAATT
6828873 TATATAAAATATAAGTATAA
1 TATATAAAATATAA-TATAA
* *
6828893 GTATATTATATATATATATATA
1 -TATATAAAATATA-ATATA-A
*
6828915 TATATAAAGTATAATTATAA
1 TATATAAAATATAA-TATAA
6828935 AGACTAAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATAAAATATAATATAA
Found at i:6829118 original size:17 final size:16
Alignment explanation
Indices: 6829098--6829220 Score: 93
Period size: 15 Copynumber: 7.9 Consensus size: 16
6829088 AAAATATGTG
6829098 TATATACTTTATATACT
1 TATATA-TTTATATACT
*
6829115 TATATACTTATATACT
1 TATATATTTATATACT
6829131 T-TAGTATTTATA-A-T
1 TATA-TATTTATATACT
*
6829145 TATA-CTTTATATA--
1 TATATATTTATATACT
*
6829158 TATATA-TAATATACT
1 TATATATTTATATACT
6829173 TATAT-TTTATATTA-T
1 TATATATTTATA-TACT
6829188 TATATATGTGTATATACTT
1 TATATAT-T-TATATAC-T
*
6829207 TATATATATATATA
1 TATATATTTATATA
6829221 TAATTTATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
13 16 0.19
14 3 0.03
15 20 0.23
16 20 0.23
17 15 0.17
18 4 0.05
19 8 0.09
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATATTTATATACT
Found at i:6829169 original size:11 final size:11
Alignment explanation
Indices: 6829155--6829649 Score: 90
Period size: 11 Copynumber: 46.2 Consensus size: 11
6829145 TATACTTTAT
6829155 ATATATATATA
1 ATATATATATA
6829166 ATATACT-TATA
1 ATATA-TATATA
* *
6829177 TTTTATAT-TA
1 ATATATATATA
* *
6829187 TTATATATGT-
1 ATATATATATA
* *
6829197 GTATATACT-TT
1 ATATATA-TATA
6829208 ATATATATAT-
1 ATATATATATA
*
6829218 ATATAATTTATA
1 ATAT-ATATATA
*
6829230 AT-TATACATA
1 ATATATATATA
6829240 ATATATAAATATA
1 ATATAT--ATATA
*
6829253 GAT-TGTATAT-
1 -ATATATATATA
* *
6829263 ATTTAAATATA
1 ATATATATATA
6829274 AT-TCATATATA
1 ATAT-ATATATA
*
6829285 ATTTATATATA
1 ATATATATATA
*
6829296 A-A-CTATATA
1 ATATATATATA
*
6829305 ATTTATAT-TA
1 ATATATATATA
*
6829315 ATAAACTATATA
1 ATATA-TATATA
* *
6829327 GTTTATATATA
1 ATATATATATA
* * *
6829338 GTA-AAATAGTTC
1 ATATATATA--TA
*
6829350 ATATATAAACT-
1 ATATATATA-TA
* *
6829361 CTATAGTTTATA
1 ATATA-TATATA
*
6829373 CATGGTATATATA
1 -AT-ATATATATA
*
6829386 GTATATAATGATA
1 ATATAT-AT-ATA
*
6829399 A-AAATATA-A
1 ATATATATATA
*
6829408 AT-TATATATT
1 ATATATATATA
* *
6829418 TTATATACATA
1 ATATATATATA
*
6829429 GTTTATATATATA
1 --ATATATATATA
6829442 ATATATATA-A
1 ATATATATATA
*
6829452 A-CTATATA-A
1 ATATATATATA
* *
6829461 ACA-CTATATA
1 ATATATATATA
* *
6829471 GTTTATAT-TA
1 ATATATATATA
*
6829481 ATAAACTATATA
1 ATATA-TATATA
* * *
6829493 GTTTATACAT-
1 ATATATATATA
6829503 A-ATATATATA
1 ATATATATATA
* *
6829513 ATTTATATATT
1 ATATATATATA
*
6829524 GTATATA-ATA
1 ATATATATATA
*
6829534 ATATAAATATA
1 ATATATATATA
6829545 A-ACTATATAGT-
1 ATA-TATATA-TA
*
6829556 TTATATATATA
1 ATATATATATA
6829567 ATATATATACT-
1 ATATATATA-TA
6829578 -T-TATATATA
1 ATATATATATA
*
6829587 A-A-CTATATA
1 ATATATATATA
* * *
6829596 CTTTATACATA
1 ATATATATATA
6829607 ATATATATAGT-
1 ATATATATA-TA
*
6829618 TTATATATAT-
1 ATATATATATA
6829628 ATATATATAT-
1 ATATATATATA
6829638 ATATAT-TATA
1 ATATATATATA
6829648 AT
1 AT
6829650 TGTTTCAATT
Statistics
Matches: 347, Mismatches: 83, Indels: 109
0.64 0.15 0.20
Matches are distributed among these distances:
8 1 0.00
9 49 0.14
10 82 0.24
11 155 0.45
12 28 0.08
13 28 0.08
14 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (11 bp):
ATATATATATA
Found at i:6829229 original size:17 final size:17
Alignment explanation
Indices: 6829114--6829312 Score: 69
Period size: 17 Copynumber: 11.4 Consensus size: 17
6829104 CTTTATATAC
*
6829114 TTATATACT-TATATACT
1 TTATATA-TATATATAAT
* *
6829131 TTAGTATTTATAATTATACT
1 TTA-TATATAT-A-TATAAT
6829151 TTATATATATATATAAT
1 TTATATATATATATAAT
* * *
6829168 ATACTTATATTTTATATTAT
1 TTA--TATA-TATATATAAT
* * *
6829188 TATATATGTGTATATACTT
1 T-TATATATATATATA-AT
6829207 TATATATATATATATAAT
1 T-TATATATATATATAAT
*
6829225 TTATA-ATTATACATAA-
1 TTATATA-TATATATAAT
6829241 -TATATA-A-ATATAGAT
1 TTATATATATATATA-AT
6829256 TGTATATAT-T-TA-AAT
1 T-TATATATATATATAAT
*
6829271 ATA-AT-TCATATATAAT
1 TTATATAT-ATATATAAT
6829287 TTATATATAAACTATATAAT
1 TTATATAT--A-TATATAAT
6829307 TTATAT
1 TTATAT
6829313 TAATAAACTA
Statistics
Matches: 138, Mismatches: 19, Indels: 47
0.68 0.09 0.23
Matches are distributed among these distances:
12 1 0.01
13 6 0.04
14 5 0.04
15 8 0.06
16 8 0.06
17 33 0.24
18 14 0.10
19 30 0.22
20 31 0.22
21 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
TTATATATATATATAAT
Found at i:6829302 original size:20 final size:19
Alignment explanation
Indices: 6829278--6829643 Score: 191
Period size: 20 Copynumber: 17.9 Consensus size: 19
6829268 AATATAATTC
*
6829278 ATATATAATTTATATATAA
1 ATATATAGTTTATATATAA
*
6829297 ACTATATAATTTATATTAATAA
1 A-TATATAGTTTATA-T-ATAA
6829319 ACTATATAGTTTATATATAGTA
1 A-TATATAGTTTATATATA--A
*
6829341 A-A-ATAGTTCATATATAA
1 ATATATAGTTTATATATAA
* * **
6829358 ACTCTATAGTTTATACATGGT
1 A-TATATAGTTTATATAT-AA
*
6829379 ATATATAGTATATAATGATAA
1 ATATATAGTTTAT-AT-ATAA
* * * *
6829400 AAATATAAATTATATATTTTAT
1 ATATAT-AGTT-TATA-TATAA
*
6829422 ATACATAGTTTATATATATA
1 ATATATAGTTTATATATA-A
**
6829442 ATATATA-TAAACTATATAAA
1 ATATATAGTTTA-TATAT-AA
6829462 CACTATATAGTTTATATTAATAA
1 -A-TATATAGTTTATA-T-ATAA
*
6829485 ACTATATAGTTTATACATAA
1 A-TATATAGTTTATATATAA
* **
6829505 TATATATAATTTATATATTGT
1 -ATATATAGTTTATATA-TAA
* * *
6829526 ATATAATAATATAAATATAA
1 ATAT-ATAGTTTATATATAA
6829546 ACTATATAGTTTATATATATAA
1 A-TATATAG-TT-TATATATAA
*
6829568 TATATATACTTTATATATAA
1 -ATATATAGTTTATATATAA
* *
6829588 ACTATATACTTTATACATAA
1 A-TATATAGTTTATATATAA
*
6829608 TATATATAGTTTATATATAT
1 -ATATATAGTTTATATATAA
*
6829628 ATATATA-TATATATAT
1 ATATATAGTTTATATAT
6829644 TATAATTGTT
Statistics
Matches: 271, Mismatches: 45, Indels: 63
0.72 0.12 0.17
Matches are distributed among these distances:
17 2 0.01
18 8 0.03
19 27 0.10
20 121 0.45
21 33 0.12
22 68 0.25
23 10 0.04
24 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (19 bp):
ATATATAGTTTATATATAA
Found at i:6829447 original size:9 final size:9
Alignment explanation
Indices: 6829433--6829649 Score: 93
Period size: 9 Copynumber: 24.2 Consensus size: 9
6829423 TACATAGTTT
6829433 ATATATATA
1 ATATATATA
6829442 ATATATATA
1 ATATATATA
6829451 A-ACTATATA
1 ATA-TATATA
*
6829460 A-ACACTAT-
1 ATATA-TATA
*
6829468 ATAGTTTATA
1 ATA-TATATA
*
6829478 TTA-ATA-A
1 ATATATATA
6829485 ACTATATAGT-
1 A-TATATA-TA
* *
6829495 TTATACATA
1 ATATATATA
6829504 ATATATATA
1 ATATATATA
*
6829513 ATTTATATA
1 ATATATATA
* *
6829522 TTGTATATA
1 ATATATATA
6829531 ATA-ATATA
1 ATATATATA
6829539 A-ATATA-A
1 ATATATATA
*
6829546 ACTATATAGTTT
1 A-TATATA--TA
6829558 ATATATATA
1 ATATATATA
6829567 ATATATATA
1 ATATATATA
*
6829576 CTTTATATATA
1 --ATATATATA
6829587 A-ACTATATA
1 ATA-TATATA
* *
6829596 CTTTATACATA
1 --ATATATATA
6829607 ATATATATA
1 ATATATATA
* *
6829616 GTTTATAT-
1 ATATATATA
6829624 ATATATAT-
1 ATATATATA
6829632 ATATATAT-
1 ATATATATA
6829640 ATAT-TATA
1 ATATATATA
6829648 AT
1 AT
6829650 TGTTTCAATT
Statistics
Matches: 158, Mismatches: 27, Indels: 47
0.68 0.12 0.20
Matches are distributed among these distances:
7 7 0.04
8 38 0.24
9 90 0.57
10 2 0.01
11 19 0.12
12 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (9 bp):
ATATATATA
Found at i:6834816 original size:29 final size:28
Alignment explanation
Indices: 6834749--6834816 Score: 64
Period size: 33 Copynumber: 2.2 Consensus size: 28
6834739 TATTTTAACA
*
6834749 AACTTGGGAAAAAGGTAGCTAACTATACC
1 AACTT-GGAAAAAGGTAACTAACTATACC
*
6834778 AACTTGCTTGGACAAAAGGTAACTAATTATACC
1 AA----CTTGGA-AAAAGGTAACTAACTATACC
6834811 AACTTG
1 AACTTG
6834817 CTAATTAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
29 6 0.19
32 3 0.09
33 23 0.72
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
AACTTGGAAAAAGGTAACTAACTATACC
Found at i:6841618 original size:11 final size:10
Alignment explanation
Indices: 6841588--6841628 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
6841578 TGGGCTTGTA
6841588 ATTTAATATT
1 ATTTAATATT
6841598 ATTTATATATGT
1 ATTTA-ATAT-T
6841610 ATTTAATATAT
1 ATTTAATAT-T
6841621 ATTTAATA
1 ATTTAATA
6841629 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:6841632 original size:3 final size:3
Alignment explanation
Indices: 6841624--6841709 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
6841614 AATATATATT
* *
6841624 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6841672 TAA TAA TAG TAA TAA TAA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6841710 TGGGTAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6842163 original size:112 final size:112
Alignment explanation
Indices: 6842031--6842928 Score: 1313
Period size: 113 Copynumber: 7.9 Consensus size: 112
6842021 AGAATTATGC
* *
6842031 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
6842096 TATGAACTTCTCTAGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
6842143 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
6842208 TATGAACTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATT-TGAGC
66 TATGAACTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAG-GT
* *
6842255 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
6842320 TATGAACCTTCTCTGGCAAAA-ATAATCCATCAAGTGATGGATT-TGAGC
66 TATGAA-CTTCTCTGG-AAAAGATAATCCATCAATTGATGAATTCAG-GT
* *
6842368 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
6842433 TATGAACTTTCTCTAGAAAAGATAATCCATCAATTGATGAGTTCAGGT
66 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
*
6842481 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * *
6842546 CATTATGAAC-TCTACCTGGCAATGTTGATCCATCAATTGATGAATTCAGGT
63 CATTATGAACTTCT--CTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
6842597 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
6842662 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAGTTCAGGT
66 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
*
6842710 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * *
6842775 CATTATGAAC-TCTACCT-GCAATGTTGATCCATCAAATGATGAATTCAGGT
63 CATTATGAACTTCT--CTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
6842825 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
6842890 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATG
66 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATG
6842929 GATTTGAGTC
Statistics
Matches: 722, Mismatches: 43, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
111 1 0.00
112 198 0.27
113 305 0.42
114 14 0.02
115 81 0.11
116 123 0.17
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
Found at i:6842623 original size:229 final size:227
Alignment explanation
Indices: 6842031--6842928 Score: 1400
Period size: 229 Copynumber: 4.0 Consensus size: 227
6842021 AGAATTATGC
*
6842031 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
6842096 TATGAACT-T-CTCTAGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAAT
66 TATGAACTCTACTCTGGCAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAAT
6842159 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * * *
6842223 AAAAGCTAATCCATCAAGTGATGGATTTGA-GC
196 AAAAGATAATCCATCAATTGAT-GAGTTCAGGT
* * *
6842255 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
6842320 TATGAAC-CTTCTCTGGCAAAAATAATCCATCAAGTGATGGATT-TGAGCAAAAGGTTGAACAAA
66 TATGAACTCTACTCTGGCAAAGATAATCCATCAATTGATGAATTCAG-GTAAAAGGTTGAACAAA
* * *
6842383 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTA
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
6842448 GAAAAGATAATCCATCAATTGATGAGTTCAGGT
195 GAAAAGATAATCCATCAATTGATGAGTTCAGGT
6842481 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * *
6842546 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
63 CATTATGAACTCTACTCTGGCAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
6842610 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
128 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
6842675 TGGAAAAGATAATCCATCAATTGATGAGTTCAGGT
193 TGGAAAAGATAATCCATCAATTGATGAGTTCAGGT
6842710 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * *
6842775 CATTATGAACTCTAC-CT-GCAATGTTGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACA
63 CATTATGAACTCTACTCTGGCAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
6842838 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
128 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
6842903 TGGAAAAGATGATCCATCAAATGATG
193 TGGAAAAGATAATCCATCAATTGATG
6842929 GATTTGAGTC
Statistics
Matches: 627, Mismatches: 37, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
224 70 0.11
225 104 0.17
226 77 0.12
228 134 0.21
229 238 0.38
230 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (227 bp):
AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTACTCTGGCAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGATAATCCATCAATTGATGAGTTCAGGT
Found at i:6844293 original size:83 final size:83
Alignment explanation
Indices: 6843653--6844278 Score: 1067
Period size: 83 Copynumber: 7.5 Consensus size: 83
6843643 TAGTTCTTAC
* *
6843653 CAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
*
6843718 TTCAATGATTGGTTCTGT
66 TTCAATGATTTGTTCTGT
* * *
6843736 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
*
6843801 TTCAATGATTGGTTCTGT
66 TTCAATGATTTGTTCTGT
*
6843819 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
6843884 TTCAATGATTTGTTCTGT
66 TTCAATGATTTGTTCTGT
*
6843902 CAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
6843967 TTCAATGATTTGTTCTGT
66 TTCAATGATTTGTTCTGT
* *
6843985 CAAACCAGATCAGATAATTCAAAGAATACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
*
6844050 TTCAATGATTTGTTCTGC
66 TTCAATGATTTGTTCTGT
* * *
6844068 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT-TCA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCT-A
6844131 AATTCAATGATTTGTTCTGT
64 AATTCAATGATTTGTTCTGT
*
6844151 CAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
6844216 TTCAATGATTTGTTCTGT
66 TTCAATGATTTGTTCTGT
*
6844234 CAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
6844279 TGGCAAATTC
Statistics
Matches: 519, Mismatches: 20, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
82 3 0.01
83 513 0.99
84 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAA
TTCAATGATTTGTTCTGT
Found at i:6845436 original size:1 final size:1
Alignment explanation
Indices: 6845432--6845482 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
6845422 TTGACCCCCC
* * * * *
6845432 TTTTTTCTTTTTTCTCTTTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6845483 CTTCTTTCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:6845443 original size:7 final size:7
Alignment explanation
Indices: 6845431--6845491 Score: 67
Period size: 7 Copynumber: 9.3 Consensus size: 7
6845421 CTTGACCCCC
6845431 CTTTTTT
1 CTTTTTT
6845438 CTTTTTT
1 CTTTTTT
*
6845445 C--TCTT
1 CTTTTTT
6845450 -TTTTTT
1 CTTTTTT
6845456 CTTTTTT
1 CTTTTTT
6845463 CTTTTTT
1 CTTTTTT
6845470 -TTTTTT
1 CTTTTTT
*
6845476 TTTTTTT
1 CTTTTTT
*
6845483 CTTCTTT
1 CTTTTTT
6845490 CT
1 CT
6845492 CTTCAAGCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.07
6 9 0.20
7 34 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:6845449 original size:9 final size:9
Alignment explanation
Indices: 6845432--6845494 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
6845422 TTGACCCCCC
6845432 TTTTT-TCT
1 TTTTTCTCT
6845440 TTTTTCTCT
1 TTTTTCTCT
*
6845449 TTTTTTTCT
1 TTTTTCTCT
*
6845458 TTTTTCTTT
1 TTTTTCTCT
* *
6845467 TTTTTTTTT
1 TTTTTCTCT
*
6845476 TTTTTTTCT
1 TTTTTCTCT
*
6845485 TCTTTCTCT
1 TTTTTCTCT
6845494 T
1 T
6845495 CAAGCATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
8 5 0.11
9 42 0.89
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:6845453 original size:18 final size:18
Alignment explanation
Indices: 6845432--6845485 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
6845422 TTGACCCCCC
6845432 TTTTTTCTTTTTTCTCTT
1 TTTTTTCTTTTTTCTCTT
*
6845450 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCTCTT
* *
6845468 TTTTTTTTTTTTTTTCTT
1 TTTTTTCTTTTTTCTCTT
6845486 CTTTCTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTCTT
Found at i:6845455 original size:11 final size:10
Alignment explanation
Indices: 6845439--6845489 Score: 61
Period size: 11 Copynumber: 5.0 Consensus size: 10
6845429 CCCTTTTTTC
6845439 TTTTTTCTCTT
1 TTTTTTCT-TT
6845450 TTTTTTCTTT
1 TTTTTTCTTT
6845460 TTTCTTT-TTT
1 TTT-TTTCTTT
6845470 TTTTTT-TTT
1 TTTTTTCTTT
6845479 TTTTCTTCTTT
1 TTTT-TTCTTT
6845490 CTCTTCAAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 10 0.27
10 13 0.35
11 14 0.38
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:6856168 original size:24 final size:23
Alignment explanation
Indices: 6856140--6856208 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
6856130 ACGAAATATT
6856140 AATAATATATATAAATACTATAAA
1 AATAATATATATAAATA-TATAAA
* *
6856164 AATAATATGTATATATATATAAA
1 AATAATATATATAAATATATAAA
*
6856187 AATAATTATAAATTAAATATAT
1 AATAA-TATATA-TAAATATAT
6856209 GAAATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 11 0.29
24 19 0.50
25 8 0.21
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
AATAATATATATAAATATATAAA
Found at i:6856206 original size:23 final size:23
Alignment explanation
Indices: 6856140--6856207 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
6856130 ACGAAATATT
*
6856140 AATAATATATATA-AATACTATAAA
1 AATAATATAAATATAA-A-TATAAA
** *
6856164 AATAATATGTATATATATATAAA
1 AATAATATAAATATAAATATAAA
6856187 AATAATTATAAAT-TAAATATA
1 AATAA-TATAAATATAAATATA
6856208 TGAAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 18 0.49
24 18 0.49
25 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (23 bp):
AATAATATAAATATAAATATAAA
Found at i:6858336 original size:11 final size:10
Alignment explanation
Indices: 6858306--6858346 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
6858296 TGGGCTTGTA
6858306 ATTTAATATT
1 ATTTAATATT
6858316 ATTTATATATGT
1 ATTTA-ATAT-T
6858328 ATTTAATATAT
1 ATTTAATAT-T
6858339 ATTTAATA
1 ATTTAATA
6858347 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:6858350 original size:3 final size:3
Alignment explanation
Indices: 6858342--6858427 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
6858332 AATATATATT
*
6858342 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
6858390 TAA TTA TAG TAA TAA TAA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6858428 TGGGTAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6862668 original size:108 final size:108
Alignment explanation
Indices: 6862479--6862673 Score: 338
Period size: 108 Copynumber: 1.8 Consensus size: 108
6862469 TTCTTTATAA
* * *
6862479 GCTTATCCTGAATTTCCTGCACAAGCTGCGGTAAATTAGGATCAATTGCCTTCCTCACAGCCACA
1 GCTTATCCTGAATTTCCTGCACAAGCTGCGGCAAACTAAGATCAATTGCCTTCCTCACAGCCACA
6862544 TGATTCTCACTCCTTTCTTTTTGCCTCCTATGGTTGACGGGTC
66 TGATTCTCACTCCTTTCTTTTTGCCTCCTATGGTTGACGGGTC
*
6862587 GCTTATCCTGAATTTCCTGCACAAGCTGCGGCGAACTAAGATCAATCT-CCTTCCTCACAGCCAC
1 GCTTATCCTGAATTTCCTGCACAAGCTGCGGCAAACTAAGATCAAT-TGCCTTCCTCACAGCCAC
6862651 ATGATTCTCACTCCTTTCTTTTT
65 ATGATTCTCACTCCTTTCTTTTT
6862674 CCCTATCTCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
108 81 0.99
109 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (108 bp):
GCTTATCCTGAATTTCCTGCACAAGCTGCGGCAAACTAAGATCAATTGCCTTCCTCACAGCCACA
TGATTCTCACTCCTTTCTTTTTGCCTCCTATGGTTGACGGGTC
Found at i:6863720 original size:31 final size:31
Alignment explanation
Indices: 6863685--6863746 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6863675 TAGTATTTAG
* *
6863685 ATAAATTTATTAAAATATTATAAAATTATTA
1 ATAAATTTATTAAAATACTATAAAATAATTA
*
6863716 ATAAATTTATTTAAATACTATAAAATAATTA
1 ATAAATTTATTAAAATACTATAAAATAATTA
6863747 TTATATTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAAATTTATTAAAATACTATAAAATAATTA
Found at i:6864806 original size:21 final size:21
Alignment explanation
Indices: 6864750--6864806 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
6864740 ACGATTTAAA
* *
6864750 ATAATAATAAATTCAATATGT
1 ATAAAAATAAATTTAATATGT
*
6864771 ATAAAAATAAATTTAATATTT
1 ATAAAAATAAATTTAATATGT
* *
6864792 ATAAAATTAATTTTA
1 ATAAAAATAAATTTA
6864807 TCAATGCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAAAAATAAATTTAATATGT
Found at i:6864958 original size:13 final size:12
Alignment explanation
Indices: 6864916--6864966 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
6864906 AAAAATTATT
6864916 AATTATATTAAA
1 AATTATATTAAA
* *
6864928 AATAAT-TTAAT
1 AATTATATTAAA
*
6864939 GATTATATATAAA
1 AATTATAT-TAAA
6864952 AATTATATTAAA
1 AATTATATTAAA
6864964 AAT
1 AAT
6864967 AAATATAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 8 0.26
12 13 0.42
13 10 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
AATTATATTAAA
Found at i:6864961 original size:18 final size:20
Alignment explanation
Indices: 6864901--6864958 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
6864891 TATATATATA
6864901 ATTATAAAAATTATTAATTAT
1 ATTATAAAAATTA-TAATTAT
* *
6864922 ATTAAAAATAATT-TAATGATT
1 ATTATAAA-AATTATAATTA-T
6864943 ATATATAAAAATTATA
1 AT-TATAAAAATTATA
6864959 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.17
21 14 0.47
22 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTATAAAAATTATAATTAT
Found at i:6867825 original size:64 final size:65
Alignment explanation
Indices: 6867669--6867848 Score: 206
Period size: 65 Copynumber: 2.8 Consensus size: 65
6867659 AATTAAATTG
* * * *
6867669 AACATCGAATGCATTTCATGCATCGATACA-CATACCATGCACCGATGCACTGAGGATGTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATA-CATGCACCGATGCACTCAGGATATTATGA
6867733 A
65 A
* * * *
6867734 AACATCGAATGCATTTGATGCATCGATGCACCAGT-CATGCATCGATGCACTCTGGCTATTTTG-
1 AACATCGAATGCATTTGATGCATCGATGCACCA-TACATGCACCGATGCACTCAGGATATTATGA
6867797 A
65 A
* * *
6867798 AACATCGAATGCACTTGATGCATCGATGCACTCTTA-GTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCAC-CATACATGCACCGATGCACT
6867849 AAGGTTCCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
64 45 0.45
65 51 0.52
66 2 0.02
67 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACATGCACCGATGCACTCAGGATATTATGAA
Found at i:6867828 original size:17 final size:19
Alignment explanation
Indices: 6867800--6867848 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
6867790 TATTTTGAAA
6867800 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
6867818 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
6867837 CACCGATGCACT
1 CATCGATGCACT
6867849 AAGGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:6876476 original size:65 final size:64
Alignment explanation
Indices: 6876372--6876531 Score: 171
Period size: 65 Copynumber: 2.5 Consensus size: 64
6876362 AATTAAATTG
* * * * *
6876372 AACATCGAATGCATTTCATGCAACGATGCA-CATACCATGCACCGATGCATTGAGGATGTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATA-CATGCACCGATGCACTCAGGATATTATG-
6876436 A
64 A
* * * *
6876437 AACATCGAATGCATTTGATGCATCGATGCACCAGT-CATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACCA-TACATGCACCGATGCACTCAGGATATTATGA
** *
6876501 AACATTAAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
6876532 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 29 0.36
65 49 0.60
66 2 0.02
67 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACATGCACCGATGCACTCAGGATATTATGA
Found at i:6880952 original size:18 final size:19
Alignment explanation
Indices: 6880926--6880961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6880916 ATTAAAAAGA
6880926 AAACAC-AAATTTTGAAAT
1 AAACACAAAATTTTGAAAT
*
6880944 AAACCCAAAATTTTGAAA
1 AAACACAAAATTTTGAAA
6880962 ACCTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (19 bp):
AAACACAAAATTTTGAAAT
Found at i:6886024 original size:13 final size:13
Alignment explanation
Indices: 6886006--6886072 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 13
6885996 TGAAGGAAGT
6886006 TTGATGAAAGAAA
1 TTGATGAAAGAAA
*
6886019 TTGATG-AAG--T
1 TTGATGAAAGAAA
*
6886029 TTGATTAAAGAAA
1 TTGATGAAAGAAA
*
6886042 TTGATG-AAG--T
1 TTGATGAAAGAAA
*
6886052 TTAATGAAAGAAA
1 TTGATGAAAGAAA
6886065 TTGATGAA
1 TTGATGAA
6886073 TTTTTATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
10 10 0.25
11 6 0.15
12 6 0.15
13 18 0.45
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.31
Consensus pattern (13 bp):
TTGATGAAAGAAA
Found at i:6886027 original size:23 final size:23
Alignment explanation
Indices: 6886001--6886072 Score: 126
Period size: 23 Copynumber: 3.1 Consensus size: 23
6885991 ATGGTTGAAG
6886001 GAAGTTTGATGAAAGAAATTGAT
1 GAAGTTTGATGAAAGAAATTGAT
*
6886024 GAAGTTTGATTAAAGAAATTGAT
1 GAAGTTTGATGAAAGAAATTGAT
*
6886047 GAAGTTTAATGAAAGAAATTGAT
1 GAAGTTTGATGAAAGAAATTGAT
6886070 GAA
1 GAA
6886073 TTTTTATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.31
Consensus pattern (23 bp):
GAAGTTTGATGAAAGAAATTGAT
Found at i:6887849 original size:21 final size:22
Alignment explanation
Indices: 6887803--6887852 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6887793 GGAGCGTCTG
6887803 GTGCATCGATGCACTAGCCTTA
1 GTGCATCGATGCACTAGCCTTA
*
6887825 -TGCATCGATGCA-TAAGGC-TA
1 GTGCATCGATGCACT-AGCCTTA
6887845 GTGCATCG
1 GTGCATCG
6887853 GTACACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACTAGCCTTA
Found at i:6887966 original size:64 final size:63
Alignment explanation
Indices: 6887916--6888071 Score: 253
Period size: 64 Copynumber: 2.5 Consensus size: 63
6887906 GTGCACTAAG
6887916 AGTGCATCGATGCATAAAATGCATTCGATGTTTT-A-AACAAGCCTGAGTGCATCGATGCATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAGTGCATCGATGCATGGT
* *
6887979 CTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGTATCGATGCATGGT
1 -AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
6888043 AGTGCATCGATGCATAAAATGCATTCGAT
1 AGTGCATCGATGCATAAAATGCATTCGAT
6888072 ATGGTGAGTG
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
63 28 0.32
64 54 0.62
65 3 0.03
66 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
Found at i:6890769 original size:43 final size:44
Alignment explanation
Indices: 6890718--6890813 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
6890708 GGCGTTGTGC
*
6890718 ATCGATGCACATTC-AA-GGAGTGC-TCGATGCA-TCTTCATGATGT
1 ATCGATGCACATTCAAAGGGA-TGCATCGATGCACTATTCA-G-TGT
6890761 ATCGATGCACATTCAAAGGGATGCATCGATGCACTATTCAGTGT
1 ATCGATGCACATTCAAAGGGATGCATCGATGCACTATTCAGTGT
6890805 ATCGATGCA
1 ATCGATGCA
6890814 TTATGCACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
43 14 0.29
44 17 0.35
45 12 0.25
46 5 0.10
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGGATGCATCGATGCACTATTCAGTGT
Found at i:6890788 original size:24 final size:22
Alignment explanation
Indices: 6890715--6890800 Score: 88
Period size: 24 Copynumber: 3.8 Consensus size: 22
6890705 CATGGCGTTG
6890715 TGCATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
*
6890737 GTGC-TCGATGCATC-TTC-ATGA
1 -TGCATCGATGCA-CATTCAAGGA
*
6890758 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGA
6890782 TGCATCGATGCACTATTCA
1 TGCATCGATGCAC-ATTCA
6890801 GTGTATCGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.06
21 14 0.27
22 11 0.21
23 5 0.10
24 15 0.29
25 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:6897368 original size:28 final size:28
Alignment explanation
Indices: 6897325--6897399 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
6897315 ATTTGTTGTG
*
6897325 GTGGAGGGGGTTGTTGGGTTACTTGAAAC
1 GTGGA-GGGGCTGTTGGGTTACTTGAAAC
**
6897354 GTGGAGGGGCTGTTGGGTTGTTTGAAAC
1 GTGGAGGGGCTGTTGGGTTACTTGAAAC
6897382 GTGGAGGGGCTGTTGGGT
1 GTGGAGGGGCTGTTGGGT
6897400 ATGAAAGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
28 38 0.88
29 5 0.12
ACGTcount: A:0.13, C:0.07, G:0.49, T:0.31
Consensus pattern (28 bp):
GTGGAGGGGCTGTTGGGTTACTTGAAAC
Found at i:6897996 original size:95 final size:93
Alignment explanation
Indices: 6897881--6898070 Score: 335
Period size: 95 Copynumber: 2.0 Consensus size: 93
6897871 TAAAATCTCA
* *
6897881 TTTGAAAACATCATGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCCTTCAC
1 TTTGAAAACATCATGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGCAC
6897946 TGAAGGTCTTATGGATGACCCGAAGGGTT
66 TGAAGGTCTTATGGATGACCCGAA-GGTT
*
6897975 TTTGAAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGCA
1 TTTG-AAAACATCATGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGCA
6898040 CTGAAGGTCTTATGGATGACCCGAAGGTT
65 CTGAAGGTCTTATGGATGACCCGAAGGTT
6898069 TT
1 TT
6898071 ACAAATTACC
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 10 0.11
95 82 0.89
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (93 bp):
TTTGAAAACATCATGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGCAC
TGAAGGTCTTATGGATGACCCGAAGGTT
Done.