Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 202 of 333
Found at i:66160741 original size:21 final size:21
Alignment explanation
Indices: 66160717--66160758 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66160707 TGTAAATTAC
66160717 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
66160738 TAAATAGAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
66160759 GAGATGCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:66160984 original size:25 final size:25
Alignment explanation
Indices: 66160931--66160984 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
66160921 AATCAAAATA
*
66160931 TTATTTCTATTCTTTTTCTTTCTTC
1 TTATTTCTATTCTTTTTCTTTATTC
*
66160956 TTATTTCT-TTTTATTTTCATTTATT-
1 TTATTTCTATTCT-TTTTC-TTTATTC
66160981 TTAT
1 TTAT
66160985 ATTTTACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.12
25 17 0.68
26 5 0.20
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (25 bp):
TTATTTCTATTCTTTTTCTTTATTC
Found at i:66161573 original size:40 final size:38
Alignment explanation
Indices: 66161510--66161655 Score: 186
Period size: 40 Copynumber: 3.7 Consensus size: 38
66161500 CTTTAGTGGT
* *
66161510 ATTAGCGGCGCTTTTTGACAAACGCCACTATATGTCGACC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATA-GT-GACC
66161550 ATTAGCGGCGCTTTTAT-AAAAACGCCGCTATAGGTTGACC
1 ATTAGCGGCGCTTTT-TGAAAAACGCCGCTATA-G-TGACC
*
66161590 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATGAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAG-TGACC
*
66161629 ATTAGCGGCGCTTTCTAGAAAAACGCC
1 ATTAGCGGCGCTTT-TTGAAAAACGCC
66161656 TTAAAAAACA
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 20 0.21
40 74 0.77
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (38 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGTGACC
Found at i:66162110 original size:14 final size:14
Alignment explanation
Indices: 66162045--66162123 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
66162035 GTTAGGGGGG
66162045 TAAGGGTTAGAGG-T
1 TAAGGGTTA-AGGTT
* *
66162059 TAAGGGCTAGGGTT
1 TAAGGGTTAAGGTT
* * *
66162073 TAAGGTTTATGTTT
1 TAAGGGTTAAGGTT
* **
66162087 TATGATTTAAGGTT
1 TAAGGGTTAAGGTT
*
66162101 TAAGGGTTAAGGGT
1 TAAGGGTTAAGGTT
66162115 TAAGGGTTA
1 TAAGGGTTA
66162124 GGAGTTAGAG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 2 0.04
14 48 0.96
ACGTcount: A:0.27, C:0.01, G:0.34, T:0.38
Consensus pattern (14 bp):
TAAGGGTTAAGGTT
Found at i:66162117 original size:21 final size:21
Alignment explanation
Indices: 66162045--66162119 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
66162035 GTTAGGGGGG
*
66162045 TAAGGGTTAGAGG-TTAAGGGC
1 TAAGGGTTA-AGGTTTAAGGGT
* **
66162066 T-AGGGTTTAAGGTTTATGTTT
1 TAAGGG-TTAAGGTTTAAGGGT
* **
66162087 TATGATTTAAGGTTTAAGGGT
1 TAAGGGTTAAGGTTTAAGGGT
66162108 TAAGGGTTAAGG
1 TAAGGGTTAAGG
66162120 GTTAGGAGTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
20 7 0.18
21 30 0.79
22 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.35, T:0.37
Consensus pattern (21 bp):
TAAGGGTTAAGGTTTAAGGGT
Found at i:66162120 original size:7 final size:7
Alignment explanation
Indices: 66162093--66162123 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
66162083 GTTTTATGAT
*
66162093 TTAAGGT
1 TTAAGGG
66162100 TTAAGGG
1 TTAAGGG
66162107 TTAAGGG
1 TTAAGGG
66162114 TTAAGGG
1 TTAAGGG
66162121 TTA
1 TTA
66162124 GGAGTTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:66162130 original size:14 final size:13
Alignment explanation
Indices: 66162045--66162140 Score: 50
Period size: 14 Copynumber: 6.9 Consensus size: 13
66162035 GTTAGGGGGG
66162045 TAAGGGTTAGAGGT
1 TAAGGGTTAG-GGT
*
66162059 TAAGGGCTAGGGTT
1 TAAGGGTTAGGG-T
* **
66162073 TAAGGTTTATGTTT
1 TAAGGGTTA-GGGT
* ** *
66162087 TATGATTTAAGGTT
1 TAAGGGTT-AGGGT
66162101 TAAGGGTTAAGGGT
1 TAAGGGTT-AGGGT
66162115 TAAGGGTTAGGAGT
1 TAAGGGTTAGG-GT
66162129 T-AGAGGTTAGGG
1 TAAG-GGTTAGGG
66162141 GTTTAGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
13 8 0.12
14 55 0.85
15 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.35
Consensus pattern (13 bp):
TAAGGGTTAGGGT
Found at i:66162130 original size:21 final size:21
Alignment explanation
Indices: 66162093--66162143 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
66162083 GTTTTATGAT
*
66162093 TTAAGGTTTAAGGGTTA-AGGG
1 TTAAGGGTTAAGGGTTAGA-GG
* *
66162114 TTAAGGGTTAGGAGTTAGAGG
1 TTAAGGGTTAAGGGTTAGAGG
*
66162135 TTAGGGGTT
1 TTAAGGGTT
66162144 TAGAGTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTAGAGG
Found at i:66162258 original size:18 final size:16
Alignment explanation
Indices: 66162218--66162259 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
66162208 AGAGATAATA
66162218 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
66162233 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
66162251 TTAAATTAT
1 TTAAATTAT
66162260 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:66162321 original size:17 final size:17
Alignment explanation
Indices: 66162269--66162321 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
66162259 TTTAAGAGAA
66162269 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
*
66162286 ATATA-TTAAA-TGGTTTAT
1 A-ATAGATAAACT--TTTAT
66162304 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
66162321 A
1 A
66162322 TATAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (17 bp):
AATAGATAAACTTTTAT
Found at i:66162338 original size:30 final size:32
Alignment explanation
Indices: 66162269--66162346 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 32
66162259 TTTAAGAGAA
*
66162269 AATAGATAAACTTTTATATATATTAAATGGTTTAT
1 AATAGATAAACTTTTATATATA-TAAATAG--TAT
66162304 AATAGATAAACTTTTATATATA-AAATAG-AT
1 AATAGATAAACTTTTATATATATAAATAGTAT
66162334 AATAGATAAACTT
1 AATAGATAAACTT
66162347 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 15 0.36
33 5 0.12
35 22 0.52
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (32 bp):
AATAGATAAACTTTTATATATATAAATAGTAT
Found at i:66163148 original size:37 final size:36
Alignment explanation
Indices: 66163097--66163224 Score: 166
Period size: 37 Copynumber: 3.4 Consensus size: 36
66163087 TCCCCCAAAT
* * *
66163097 CCTTCGCCTCGTGCATTGCAACCCATCTCTTCCGTCG
1 CCTTCGCC-CGTGCATCGCAACCCATCTCCTCCATCG
*
66163134 CCTTCGCCCGGTGCATCGCAACCCATCTCCTCTATCG
1 CCTTCGCCC-GTGCATCGCAACCCATCTCCTCCATCG
* *
66163171 CCTTCGCCCCGTGCATCGCAACCTATCTCCTCCATCA
1 CCTTCG-CCCGTGCATCGCAACCCATCTCCTCCATCG
66163208 CCTTCGCCCTGTGCATC
1 CCTTCGCCC-GTGCATC
66163225 TGCTGCATAG
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
36 4 0.05
37 74 0.91
38 3 0.04
ACGTcount: A:0.12, C:0.46, G:0.15, T:0.27
Consensus pattern (36 bp):
CCTTCGCCCGTGCATCGCAACCCATCTCCTCCATCG
Found at i:66170404 original size:13 final size:14
Alignment explanation
Indices: 66170388--66170416 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66170378 TTTTAAATAT
66170388 TTATAAT-GTTTAA
1 TTATAATAGTTTAA
66170401 TTATAATAGTTTAA
1 TTATAATAGTTTAA
66170415 TT
1 TT
66170417 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:66170808 original size:21 final size:21
Alignment explanation
Indices: 66170782--66170821 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66170772 AAATTGCTCA
* *
66170782 ACTTAAAGCGGAGGCAGCATC
1 ACTTAAAGAGAAGGCAGCATC
66170803 ACTTAAAGAGAAGGCAGCA
1 ACTTAAAGAGAAGGCAGCA
66170822 ACGAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (21 bp):
ACTTAAAGAGAAGGCAGCATC
Found at i:66171115 original size:47 final size:47
Alignment explanation
Indices: 66171023--66171116 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
66171013 CGTTGAATTT
* *
66171023 TTGAAGTATCATTTAGGTTTGCTATTATTAGTTGGATTTGGTGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
* * *
66171070 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTTATGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
66171117 AGGAAGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.19, C:0.06, G:0.24, T:0.50
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
Found at i:66171298 original size:43 final size:43
Alignment explanation
Indices: 66171251--66171344 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
66171241 GGTCAGGTTT
* *
66171251 TTTAGCGGCATTTATACAAAAAGCGCTGCTAATGGCCACGTTC
1 TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
* * * * *
66171294 TTTAGCGGCGTTTGTACAAAAAGTGCTGCTAAAGATCATGTTC
1 TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
66171337 TTTAGCGG
1 TTTAGCGG
66171345 AGTTTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
Found at i:66171651 original size:16 final size:16
Alignment explanation
Indices: 66171620--66171653 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
66171610 ATGTGAAGAA
66171620 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
66171636 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
66171652 TA
1 TA
66171654 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:66175619 original size:12 final size:12
Alignment explanation
Indices: 66175572--66175621 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
66175562 CGTCGCGATT
*
66175572 GTGGTCGTGGTC
1 GTGGTCGTGGAC
66175584 GTGGTCGTGGAC
1 GTGGTCGTGGAC
* * *
66175596 GTAGTGGGGGAC
1 GTGGTCGTGGAC
*
66175608 GTGGTCGAGGAC
1 GTGGTCGTGGAC
66175620 GT
1 GT
66175622 ACCAGTAACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.10, C:0.14, G:0.52, T:0.24
Consensus pattern (12 bp):
GTGGTCGTGGAC
Found at i:66180959 original size:15 final size:15
Alignment explanation
Indices: 66180918--66181053 Score: 57
Period size: 15 Copynumber: 8.8 Consensus size: 15
66180908 TTTATTATTT
*
66180918 TAATAAATTATTTAA
1 TAATAAATTTTTTAA
*
66180933 TATTTCAAATTTTTTAA
1 TA-AT-AAATTTTTTAA
66180950 TAATAAA--TTTTAA
1 TAATAAATTTTTTAA
* * * *
66180963 AAATAATAATCTTAAA
1 TAATAA-ATTTTTTAA
*
66180979 TAAT--ATTCTTTCAA
1 TAATAAATT-TTTTAA
* *
66180993 T-ATTAATATTTTAA
1 TAATAAATTTTTTAA
66181007 TAATAAATATTTATTATAA
1 TAAT-AA-ATTT-TT-TAA
* *
66181026 TAATAAATATATTAA
1 TAATAAATTTTTTAA
66181041 TAATAAATGTTTT
1 TAATAAAT-TTTT
66181054 GTAGTCTAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 27
0.66 0.13 0.20
Matches are distributed among these distances:
13 15 0.17
14 12 0.13
15 20 0.22
16 13 0.15
17 18 0.20
18 4 0.04
19 7 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATAAATTTTTTAA
Found at i:66180983 original size:16 final size:17
Alignment explanation
Indices: 66180947--66180983 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
66180937 TCAAATTTTT
*
66180947 TAATAATAAATTTTAAA
1 TAATAATAAATCTTAAA
66180964 -AATAAT-AATCTTAAA
1 TAATAATAAATCTTAAA
66180979 TAATA
1 TAATA
66180984 TTCTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATCTTAAA
Found at i:66181026 original size:19 final size:19
Alignment explanation
Indices: 66180999--66181035 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
66180989 TCAATATTAA
*
66180999 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
66181018 TATTATAATAATAAATAT
1 TATTATAATAATAAATAT
66181036 ATTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:66183772 original size:30 final size:30
Alignment explanation
Indices: 66183736--66183795 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66183726 TATTTTATTA
*
66183736 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
66183766 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
66183796 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:66185552 original size:18 final size:18
Alignment explanation
Indices: 66185529--66185568 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
66185519 ATTGTGCTAA
66185529 TAGAATGTCAAAATCACT
1 TAGAATGTCAAAATCACT
*
66185547 TAGAATGTCAAAATCGCT
1 TAGAATGTCAAAATCACT
66185565 TAGA
1 TAGA
66185569 GATTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (18 bp):
TAGAATGTCAAAATCACT
Found at i:66189554 original size:35 final size:35
Alignment explanation
Indices: 66189506--66189616 Score: 186
Period size: 35 Copynumber: 3.2 Consensus size: 35
66189496 TCTCTTCTCT
* *
66189506 TTTCTTTAGTTCGAAAATCATATATATTCTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
*
66189541 TTTCTTTATTTCGAAAATCATCTATATTTTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
*
66189576 TTTCTTTATTTCGAAAATCATCTATATTCTTCTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
66189611 TTTCTT
1 TTTCTT
66189617 CTTTTCCAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
Found at i:66191820 original size:22 final size:21
Alignment explanation
Indices: 66191781--66191839 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 21
66191771 ATTGAAAAAA
**
66191781 TTATCTAATTGAAAATTTAAT
1 TTATCTAATTGATTATTTAAT
66191802 TTATCTAATTTGATTATTTAAT
1 TTATCTAA-TTGATTATTTAAT
*
66191824 TAAT-TAATT-ATTATTT
1 TTATCTAATTGATTATTT
66191840 TGAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 11 0.32
22 14 0.41
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
TTATCTAATTGATTATTTAAT
Found at i:66196200 original size:5 final size:5
Alignment explanation
Indices: 66196192--66196216 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66196182 TAAAATAAAT
66196192 TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA
66196217 AAATTCTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGATA
Found at i:66199048 original size:27 final size:27
Alignment explanation
Indices: 66199018--66199258 Score: 226
Period size: 27 Copynumber: 9.2 Consensus size: 27
66199008 GCGACGAAGT
66199018 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
66199045 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
66199072 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
66199099 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
66199126 CACCAGAT-CAGATAATTGT------G-
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
66199146 -ACTAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
66199172 CACTAGAT-CAAATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
66199199 CACCAGA-ACAAATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
66199226 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
66199253 CACCAG
1 CACCAG
66199259 GACGCTTCCT
Statistics
Matches: 180, Mismatches: 11, Indels: 46
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.01
19 13 0.07
21 1 0.01
25 1 0.01
26 12 0.07
27 143 0.79
28 8 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:66199093 original size:54 final size:54
Alignment explanation
Indices: 66199018--66199258 Score: 356
Period size: 54 Copynumber: 4.6 Consensus size: 54
66199008 GCGACGAAGT
*
66199018 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
66199072 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
66199126 CACCAGATCAGATAA-T-T-G--T-G--ACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
66199172 CACTAGATCAAATAATTGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
66199226 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
66199259 GACGCTTCCT
Statistics
Matches: 168, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
46 38 0.23
47 1 0.01
48 2 0.01
49 2 0.01
51 2 0.01
52 2 0.01
53 5 0.03
54 116 0.69
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:66199163 original size:100 final size:100
Alignment explanation
Indices: 66199049--66199245 Score: 358
Period size: 100 Copynumber: 2.0 Consensus size: 100
66199039 CAGAGCCACC
* *
66199049 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
1 AGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAAATAT
66199114 ATGTGGCAGAGCCACCAGATCAGATAATTGTGACT
66 ATGTGGCAGAGCCACCAGATCAGATAATTGTGACT
* *
66199149 AGAACAGATATATGTGGCAGAGCCACTAGATCAAATAATTGTGGCATAGCCACCAGAACAAATAT
1 AGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAAATAT
66199214 ATGTGGCAGAGCCACCAGATCAGATAATTGTG
66 ATGTGGCAGAGCCACCAGATCAGATAATTGTG
66199246 GCATAGCCAC
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (100 bp):
AGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAAATAT
ATGTGGCAGAGCCACCAGATCAGATAATTGTGACT
Found at i:66200910 original size:26 final size:26
Alignment explanation
Indices: 66200880--66200935 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
66200870 TGGAATGCCC
66200880 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66200906 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66200932 ATCA
1 ATCA
66200936 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:66209780 original size:20 final size:20
Alignment explanation
Indices: 66209757--66209795 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66209747 CCAAAAAACA
* *
66209757 AAAAAGACAATGAAAACATG
1 AAAAAGAAAAGGAAAACATG
*
66209777 AAAAGGAAAAGGAAAACAT
1 AAAAAGAAAAGGAAAACAT
66209796 ATTGAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.08, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAGGAAAACATG
Found at i:66214034 original size:12 final size:13
Alignment explanation
Indices: 66214012--66214040 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
66214002 TACATAAAAA
66214012 TATAATAATAAAT
1 TATAATAATAAAT
66214025 TATAAT-ATAAAT
1 TATAATAATAAAT
66214037 TATA
1 TATA
66214041 CAAATCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATAAAT
Found at i:66214490 original size:30 final size:30
Alignment explanation
Indices: 66214456--66214518 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
66214446 GCTTATTTTA
66214456 TTGTTAATTTTATTATTATTTTAAAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGATAT
* *
66214486 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGATAT
66214516 TTG
1 TTG
66214519 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGATAT
Found at i:66214672 original size:12 final size:12
Alignment explanation
Indices: 66214642--66214674 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
66214632 TATATTTTTT
66214642 AAAATT-ATATA
1 AAAATTAATATA
66214653 AAAA-TAATATA
1 AAAATTAATATA
66214664 AAAATTAATAT
1 AAAATTAATAT
66214675 GCAGGCCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:66218518 original size:27 final size:27
Alignment explanation
Indices: 66218470--66218628 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
66218460 GCGAGTTTGC
* *
66218470 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
66218497 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
66218523 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
66218550 TAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
66218577 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
66218604 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
66218629 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:66218570 original size:54 final size:54
Alignment explanation
Indices: 66218488--66218628 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
66218478 GTGACGAAGT
* *
66218488 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
66218542 CATCAGATTAGATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
66218596 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
66218629 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 73 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:66220016 original size:28 final size:28
Alignment explanation
Indices: 66219984--66220047 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
66219974 CAAGAAGAAC
66219984 TCATGAACATCAAGATAGAAGCAAACTA
1 TCATGAACATCAAGATAGAAGCAAACTA
66220012 TCATGAACATCAAGATAGAAGCAAACTA
1 TCATGAACATCAAGATAGAAGCAAACTA
*
66220040 CCATGAAC
1 TCATGAAC
66220048 TTACCTTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.17
Consensus pattern (28 bp):
TCATGAACATCAAGATAGAAGCAAACTA
Found at i:66224447 original size:27 final size:27
Alignment explanation
Indices: 66224399--66224556 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
66224389 ACGAGGCTGC
* * *
66224399 CAGATATTGTGAC-GAAGTCACCAAATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
66224426 TAGATATTGTGGCAGAACCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
66224452 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
66224479 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
66224506 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
66224533 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
66224557 TGACGCTTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:66224493 original size:54 final size:54
Alignment explanation
Indices: 66224434--66224556 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
66224424 TATAGATATT
* * *
66224434 GTGGCAGAACCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
*
66224488 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
66224542 GTGGCATAGCCACCA
1 GTGGCATAGCCACCA
66224557 TGACGCTTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
Found at i:66229894 original size:38 final size:38
Alignment explanation
Indices: 66229851--66229928 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
66229841 TATTTTCCAT
66229851 TCCTTCAAACATTTCACAAAACATACTAAAACATAATA
1 TCCTTCAAACATTTCACAAAACATACTAAAACATAATA
66229889 TCCTTCAAACATTTCACAAAACATACTAAAACATAATA
1 TCCTTCAAACATTTCACAAAACATACTAAAACATAATA
66229927 TC
1 TC
66229929 AAGTTTAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (38 bp):
TCCTTCAAACATTTCACAAAACATACTAAAACATAATA
Found at i:66232607 original size:65 final size:64
Alignment explanation
Indices: 66232495--66232617 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 64
66232485 AAGAATCATT
* * *
66232495 AGAAAAAGTTGGTGTTATTTTAGCATTTTATATTTTTTTAAAGTATGTTTCGTTTTCTTGCATAA
1 AGAAAAAGTTGGTGTTATTTTAGAATTTTATATTATTTTAAAGTATGTTT-ATTTTCTTGCATAA
*
66232560 AGAATAAGTTGGTGTTATTTTAGAATTTT-TATGCTATTTTAAA-TATGTTTATTTTCTT
1 AGAAAAAGTTGGTGTTATTTTAGAATTTTATAT--TATTTTAAAGTATGTTTATTTTCTT
66232618 TATTAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
64 10 0.19
65 34 0.65
66 8 0.15
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (64 bp):
AGAAAAAGTTGGTGTTATTTTAGAATTTTATATTATTTTAAAGTATGTTTATTTTCTTGCATAA
Found at i:66235879 original size:30 final size:30
Alignment explanation
Indices: 66235835--66235897 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
66235825 ACTTAACAAG
*
66235835 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
66235865 CAAATACCTTTAAAATGATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
66235895 CAA
1 CAA
66235898 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:66244335 original size:58 final size:58
Alignment explanation
Indices: 66244273--66244406 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
66244263 AATTCATATT
* * * * *
66244273 ATAATAATTACATTAAGAATGTTATTAAATTATATATTA-TTTTATTAAATTGTATTTA
1 ATAATAATTA-ATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
* * *
66244331 ATAATAATTATTTAAAAATATGATTAAGTTATTTATTATTTTTATTAAAATATATTTA
1 ATAATAATTAATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
*
66244389 ATAATAATCTTATTAAAA
1 ATAATAAT-TAATTAAAA
66244407 TTTAATAACA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 22 0.34
58 35 0.55
59 7 0.11
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (58 bp):
ATAATAATTAATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
Found at i:66244609 original size:16 final size:16
Alignment explanation
Indices: 66244588--66244645 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
66244578 ACACTCTATC
66244588 CCATTACAGTTATATT
1 CCATTACAGTTATATT
** *
66244604 CCATTACAACTCTATT
1 CCATTACAGTTATATT
* ** *
66244620 CAATTATGGTCATATT
1 CCATTACAGTTATATT
66244636 CCATTACAGT
1 CCATTACAGT
66244646 GAACCAAATG
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (16 bp):
CCATTACAGTTATATT
Found at i:66244617 original size:32 final size:32
Alignment explanation
Indices: 66244575--66244643 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
66244565 TGAATTACTG
* *
66244575 ATTAC-ACTCTATCCCATTACAGTTATATTCC
1 ATTACAACTCTATCCAATTACAGTCATATTCC
* **
66244606 ATTACAACTCTATTCAATTATGGTCATATTCC
1 ATTACAACTCTATCCAATTACAGTCATATTCC
66244638 ATTACA
1 ATTACA
66244644 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (32 bp):
ATTACAACTCTATCCAATTACAGTCATATTCC
Found at i:66247622 original size:40 final size:41
Alignment explanation
Indices: 66247563--66247752 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 41
66247553 TGACGATAAC
*
66247563 TCGGCTATGT-ACGGCACTTAGTGTGCGATTCAAGATAGCT
1 TCGGCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCT
** * * *
66247603 TCAACTATG-AATGGTACTTAGTGAGCGATTCAAGATAGTT
1 TCGGCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCT
*
66247643 TTGGCTATGT-ATGGCACTTAGTGTGCGATTCAAGATAGCT
1 TCGGCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCT
* *
66247683 TCGGCTATGTAA-AGCACTTAGTGTGCGAGATT-AAAATAGCT
1 TCGGCTATGTAATGGCACTTAGTGTGC--GATTCAAGATAGCT
* *
66247724 TCCGCTATGTATTGGCACTTAGTGTGCGA
1 TCGGCTATGTAATGGCACTTAGTGTGCGA
66247753 GAATTCGAGT
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
40 90 0.71
41 19 0.15
42 17 0.13
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
TCGGCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCT
Found at i:66255105 original size:41 final size:42
Alignment explanation
Indices: 66255056--66255134 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
66255046 TGCGATTCAG
*
66255056 AATAGCTTCGGCTATGTA-TGGAACTTAGTGTGCGAGATTAA
1 AATAGCTTCGGCTAAGTATTGGAACTTAGTGTGCGAGATTAA
* *
66255097 AATAGCTTCGGCTAAGTATTGGCATTTAGTGTGCGAGA
1 AATAGCTTCGGCTAAGTATTGGAACTTAGTGTGCGAGA
66255135 ATTTGAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (42 bp):
AATAGCTTCGGCTAAGTATTGGAACTTAGTGTGCGAGATTAA
Found at i:66260452 original size:18 final size:18
Alignment explanation
Indices: 66260425--66260459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66260415 ATTTTAAACT
*
66260425 TTAAACTAAATATTAAAA
1 TTAAACTAAATAATAAAA
*
66260443 TTAAATTAAATAATAAA
1 TTAAACTAAATAATAAA
66260460 TAGTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAACTAAATAATAAAA
Found at i:66260954 original size:21 final size:20
Alignment explanation
Indices: 66260907--66260962 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
66260897 ATATATAAAA
66260907 AATATAAATTTTT-TAATTT
1 AATATAAATTTTTATAATTT
66260926 -ATGGATAAAATTTTTATAATTT
1 AAT--AT-AAATTTTTATAATTT
66260948 AATAT-AATTTTTATA
1 AATATAAATTTTTATA
66260963 TAATTGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.06
19 10 0.31
20 2 0.06
21 10 0.31
22 6 0.19
23 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATAAATTTTTATAATTT
Found at i:66261303 original size:35 final size:35
Alignment explanation
Indices: 66261237--66261303 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
66261227 AAGTTGAATA
* **
66261237 AATTAATTTATCCTTTAAATTTAACCTATATAAAC
1 AATTAATTTATCCTTTAAAATTAAAATATATAAAC
*
66261272 AATTTATTTAT-CTTTAAAATTAAAATAATATA
1 AATTAATTTATCCTTTAAAATTAAAAT-ATATA
66261304 TAAAAATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (35 bp):
AATTAATTTATCCTTTAAAATTAAAATATATAAAC
Found at i:66283592 original size:23 final size:23
Alignment explanation
Indices: 66283566--66283638 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
66283556 GACTCACCAT
*
66283566 AGCTTGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTGTTTC
* ** * *
66283589 AGCTCATTGGATCTTACTGATTC
1 AGCTCGTAAGAGCTTACTGTTTC
* *
66283612 AGCTCGAAAGAGCTTATTGTTT-
1 AGCTCGTAAGAGCTTACTGTTTC
66283634 AGCTC
1 AGCTC
66283639 AATAGAGCTT
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGTTTC
Found at i:66290811 original size:46 final size:48
Alignment explanation
Indices: 66290709--66290836 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 48
66290699 CATAGCTTGT
* * *
66290709 AAGAGCTTACTGTTTCAGCTCATTGGAGC---CTATTGATTCAGCTCGA
1 AAGAGCTTACTGTTTCAGCTCAATGGAGCTTACCATT-ATTCAACTCGA
*
66290755 AAGAGTTTACTG-TTCAGCTCAATGGAGCTTACCATT-TTCAACTC-A
1 AAGAGCTTACTGTTTCAGCTCAATGGAGCTTACCATTATTCAACTCGA
66290800 ATAGAGCTTACTGTTATCAGCTC-ATGAAGAGCTTACC
1 A-AGAGCTTACTGTT-TCAGCTCAATG--GAGCTTACC
66290837 GACCATGTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
45 17 0.25
46 28 0.41
47 4 0.06
48 11 0.16
49 9 0.13
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (48 bp):
AAGAGCTTACTGTTTCAGCTCAATGGAGCTTACCATTATTCAACTCGA
Found at i:66290823 original size:24 final size:23
Alignment explanation
Indices: 66290710--66290823 Score: 99
Period size: 23 Copynumber: 4.9 Consensus size: 23
66290700 ATAGCTTGTA
*
66290710 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * * *
66290733 GGAGCCTATTGATTCAGCTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
*
66290756 AGAGTTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
66290778 GGAGCTTACCAT-TTTCAACTCAAT
1 AGAGCTTA-C-TGTTTCAGCTCAAT
66290802 AGAGCTTACTGTTATCAGCTCA
1 AGAGCTTACTGTT-TCAGCTCA
66290824 TGAAGAGCTT
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
21 2 0.03
22 15 0.21
23 27 0.39
24 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:66295539 original size:12 final size:12
Alignment explanation
Indices: 66295522--66295556 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
66295512 TGAAAAGTAT
66295522 ATATATATATAC
1 ATATATATATAC
66295534 ATATATATATAC
1 ATATATATATAC
*
66295546 ACATATATATA
1 ATATATATATA
66295557 AATGCATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAC
Found at i:66295539 original size:14 final size:14
Alignment explanation
Indices: 66295520--66295556 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
66295510 GTTGAAAAGT
*
66295520 ATATATATATATAC
1 ATATATATATACAC
66295534 ATATATATATACAC
1 ATATATATATACAC
66295548 ATATATATA
1 ATATATATA
66295557 AATGCATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATACAC
Found at i:66305012 original size:28 final size:28
Alignment explanation
Indices: 66304949--66305099 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
66304939 ATATTAAGTC
* *
66304949 CGCACACTCAGTGCTATATAAT-TAACT
1 CGCACACTTAGTGCTATATAATCAAACT
66304976 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66305004 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66305032 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66305060 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66305089 CGCACACTTAG
1 CGCACACTTAG
66305100 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 21 0.18
28 77 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66313223 original size:28 final size:28
Alignment explanation
Indices: 66313160--66313310 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
66313150 ATATTAAGTC
*
66313160 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66313187 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66313215 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66313243 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66313271 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66313300 CGCACACTTAG
1 CGCACACTTAG
66313311 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66318077 original size:47 final size:47
Alignment explanation
Indices: 66318026--66319101 Score: 1360
Period size: 47 Copynumber: 22.0 Consensus size: 47
66318016 TAGGATTTTG
*
66318026 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
***
66318073 TGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
66318124 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
66318171 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** *
66318218 TGTGATGAATGTGAACCCGTATATATATGTGTCATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** *
66318269 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAA
* *
66318322 TGTGATGAATGTGAACATGCGTATGTGTGATAAAGCCGAATGGCTAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
66318369 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** *
66318416 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
66318469 TGTGATGAATGTAAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318516 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** **
66318563 TGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGTTGAATGGCCAA
1 TGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** *
66318614 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
66318667 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318714 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** * *
66318761 TGTGATGAATGTGAAACTGTATATATATGCGTGATAAGGCCAAATGGCCAA
1 TGTGATGAATGTG-AAC---ATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318812 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
* *
66318859 TGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** *
66318906 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318959 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66319006 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
** * * *
66319053 TGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAA
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66319100 TG
1 TG
66319102 CGAAACGTGT
Statistics
Matches: 915, Mismatches: 80, Indels: 68
0.86 0.08 0.06
Matches are distributed among these distances:
47 560 0.61
48 5 0.01
49 4 0.00
50 7 0.01
51 165 0.18
52 4 0.00
53 170 0.19
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
Found at i:66318136 original size:147 final size:143
Alignment explanation
Indices: 66318026--66319101 Score: 971
Period size: 147 Copynumber: 7.3 Consensus size: 143
66318016 TAGGATTTTG
*
66318026 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C
* ** *
66318091 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG------CGTATGT
64 --ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGC
*
66318150 GTGATAAGGCCAAATGGCCAA
127 GTGATAAGG-CGAATGG---A
*
66318171 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C
* * *
66318236 GTATATATATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGC
64 --ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGC
66318301 GTGATAAGGCCGAATGGCCAA
127 GTGATAAGG-CGAATGG---A
* * *
66318322 TGTGATGAATGTGAACATGCGTATGTGTGATAAAGCCGAATGGCTAATGTGATGGATGTGAACAT
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* * *
66318387 GCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGA
66 ACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGCGTGA
66318452 TAAGGCCGAATGGCCAA
131 TAAGG-CGAATGG---A
*
66318469 TGTGATGAATGTAAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* * ** *
66318534 GCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG--TATATATATGTGTGA
66 ACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGCGTGA
*
66318597 TAAGGTTGAATGGCCAA
131 TAAGG-CGAATGG---A
*** * *
66318614 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGGATGT
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * **
66318679 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG------CGTAT
60 GAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATAT
*
66318738 GTGTGATAAGGCCGAATGGCCAA
125 GCGTGATAAGG-CGAATGG---A
*** * *
66318761 TGTGATGAATGTGAAACTGTATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGA
1 TGTGATGAATGTG-AAC---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * ** *
66318826 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATG------CGTATGT
62 ACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGC
*
66318885 GTGGTAAGGCCGAATGGCCAA
127 GTGATAAGG-CGAATGG---A
*** *
66318906 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * **
66318971 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG------CGTAT
60 GAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATAT
*
66319030 GTGTGATAAGGCCGAATGGCCAA
125 GCGTGATAAGG-CGAATGG---A
** * * *
66319053 TGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
66319102 CGAAACGTGT
Statistics
Matches: 866, Mismatches: 49, Indels: 36
0.91 0.05 0.04
Matches are distributed among these distances:
141 27 0.03
144 2 0.00
145 295 0.34
146 2 0.00
147 365 0.42
148 2 0.00
149 1 0.00
151 172 0.20
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (143 bp):
TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
ACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATATGCGTGA
TAAGGCGAATGGA
Found at i:66318383 original size:198 final size:193
Alignment explanation
Indices: 66318047--66319101 Score: 1362
Period size: 198 Copynumber: 5.4 Consensus size: 193
66318037 TGAACATGCG
**
66318047 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C-TATACGTATGTGTGATAAGG
*
66318112 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGAT
63 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
*
66318177 GGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATAT
128 GAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATAT
66318242 A
193 A
* ** *
66318243 TATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C----TATACGTATGTGTGATAA
* *
66318308 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAAGCCGAATGGCTAATGTG
61 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTG
* *
66318373 ATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTAT
126 ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG--T
66318438 ATATA
189 ATATA
* * *
66318443 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAAC-ATGCGTATGTGTGATAAGGCCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTATACGTATGTGTGATAAGGCCG
66318507 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
66 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
*** ** *
66318572 TGTGAACCCGTATATATATGTGTGATAAGGTTGAATGGCCAATGTGATGAATGTGAACCTGTATA
131 TGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG--TA
66318637 TATA
190 TATA
* * *
66318641 TATGCGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAC-ATGCGTATGTGTGATAAGGCCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTATACGTATGTGTGATAAGGCCG
66318705 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
66 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
*** * * *
66318770 TGTGAAACTGTATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAA--C--ATG
131 TGTG-AAC---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATA
**
66318831 CG
192 TA
* * *
66318833 TATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAC-ATGCGTATGTGTGGTAAGGCCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTATACGTATGTGTGATAAGGCCG
*** *
66318897 AATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGT
66 AATGGCCAATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATGT
66318962 GATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--A
125 GATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTA
***
66319023 TGCG
190 TATA
* * *
66319027 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC-ATGA-ATATATGTGGTAAGGCC
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTAT-ACGTATGTGTGATAAGGCC
*
66319090 GAATGGCTAATG
65 GAATGGCCAATG
66319102 CGAAACGTGT
Statistics
Matches: 793, Mismatches: 48, Indels: 38
0.90 0.05 0.04
Matches are distributed among these distances:
192 88 0.11
193 1 0.00
194 202 0.25
195 2 0.00
196 41 0.05
197 4 0.01
198 408 0.51
199 3 0.00
200 44 0.06
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (193 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTATACGTATGTGTGATAAGGCCG
AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
TGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
Found at i:66318946 original size:490 final size:487
Alignment explanation
Indices: 66318026--66319101 Score: 1833
Period size: 490 Copynumber: 2.2 Consensus size: 487
66318016 TAGGATTTTG
*
66318026 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
* * *
66318091 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACATATGCGTGATA
66318156 AGGCCAAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGT
131 AGGCCAAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGT
* *
66318221 GATGAATGTGAACCCGTATATATATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
196 GATGAATGTGAA-CCG-ATACATATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAAAC
*
66318286 TGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
259 TG-ATATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
*
66318351 ATAAAGCCGAATGGCTAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
323 ATAAAGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318416 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
388 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
66318481 AAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
453 AAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
66318516 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
** *
66318581 GTATATATATGTGTGATAAGGTTGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGC
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-----ATACATATGC
*
66318646 GTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
125 GTGATAAGGCCAAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
* * *
66318711 CAATGTGATGAATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
190 CAATGTGATGAATGTGAACCGATACATATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTG
66318774 AAACTG-TATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGT
255 AAACTGATATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGT
* *
66318838 GTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGC
320 GTGATAAAGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
66318903 CAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
385 CAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
*
66318968 TGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
450 TGTAAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
**
66319006 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
1 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
*
66319071 G-A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATG
66319102 CGAAACGTGT
Statistics
Matches: 557, Mismatches: 23, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
486 16 0.03
487 1 0.00
488 9 0.02
489 1 0.00
490 395 0.71
491 1 0.00
492 45 0.08
494 1 0.00
496 88 0.16
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (487 bp):
TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACATATGCGTGATA
AGGCCAAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGT
GATGAATGTGAACCGATACATATGTGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTG
ATATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AAGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGT
GATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAA
CATGCGTATGTGTGATAAGGCCGAATGGCCAA
Found at i:66318985 original size:23 final size:23
Alignment explanation
Indices: 66318958--66319032 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
66318948 CGAATGGCCA
66318958 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
66318981 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
66319005 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
66319028 ATGTG
1 ATGTG
66319033 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:66319490 original size:37 final size:37
Alignment explanation
Indices: 66319308--66319489 Score: 292
Period size: 37 Copynumber: 4.9 Consensus size: 37
66319298 GGAAATATAT
* *
66319308 TCCGGGTAAGACCCGATGACTACATGAGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
66319345 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
66319382 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
66319419 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
66319456 TCCGGGTAAGACCTGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
66319490 TCGTCTGAGC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 136 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:66321122 original size:40 final size:40
Alignment explanation
Indices: 66320759--66321110 Score: 526
Period size: 40 Copynumber: 8.8 Consensus size: 40
66320749 GAGAATTGAG
66320759 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
66320799 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
66320839 AGTGATATATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
66320879 AGTGATATATCTGGGCTAAGTCCCG-AGAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAG-AGCATTCGTGCT
* *
66320919 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
66320959 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
66320999 AGTGATGTATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** *
66321039 AGTGATATATCTGTGCTAAACCCCGAAGAGCTTTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
66321079 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
66321111 ATCATGCTGG
Statistics
Matches: 282, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.00
40 280 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:66325039 original size:47 final size:47
Alignment explanation
Indices: 66324988--66325625 Score: 817
Period size: 47 Copynumber: 13.1 Consensus size: 47
66324978 TTAGGATTTT
*
66324988 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
66325035 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
66325086 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
66325133 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
66325180 ATGTGATGAATGTGAACCCGTATATATATGTGTCATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
66325231 ATGTGATCAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
66325284 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
66325331 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
66325378 ATGTGATGAATGTGAACCTGTATATATATGTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTA--TGTGTGATAAGGCCGAATGGCCA
*
66325431 ATGTGATGAATGTAAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
66325478 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
66325525 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
66325576 ATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
66325623 ATG
1 ATG
66325626 CGAAACGTGT
Statistics
Matches: 524, Mismatches: 46, Indels: 42
0.86 0.08 0.07
Matches are distributed among these distances:
47 299 0.57
48 2 0.00
49 7 0.01
50 3 0.01
51 129 0.25
52 2 0.00
53 82 0.16
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:66325137 original size:145 final size:143
Alignment explanation
Indices: 66324988--66325625 Score: 911
Period size: 145 Copynumber: 4.3 Consensus size: 143
66324978 TTAGGATTTT
*
66324988 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
* *** *
66325053 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-ATGCGTATGTGTG
64 C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTATATATATGCGTG
66325116 ATAAGGCCGAATGGCCA
127 ATAAGGCCGAATGGCCA
*
66325133 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
* * *
66325198 CGTATATATATGTGTCATAAGGCCGAATGGCCAATGTGATCAATGTGAACCTGTATATATATATG
64 C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC----TATATATATG
66325263 CGTGATAAGGCCGAATGGCCA
123 CGTGATAAGGCCGAATGGCCA
* *
66325284 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAATGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
66325349 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGTGTGTG
66 TACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC--TATATATA--TGCGTG
66325414 ATAAGGCCGAATGGCCA
127 ATAAGGCCGAATGGCCA
*
66325431 ATGTGATGAATGTAAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
66325496 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
66 TACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC--TATATATATGCGTGAT
*
66325561 AAGGCCAAATGGCCA
129 AAGGCCGAATGGCCA
* *
66325576 ATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
66325626 CGAAACGTGT
Statistics
Matches: 461, Mismatches: 24, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
145 189 0.41
146 1 0.00
147 184 0.40
149 1 0.00
151 86 0.19
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (143 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTATATATATGCGTGATAA
GGCCGAATGGCCA
Found at i:66325346 original size:198 final size:196
Alignment explanation
Indices: 66325010--66325592 Score: 915
Period size: 198 Copynumber: 3.0 Consensus size: 196
66325000 TGAACATGCG
66325010 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG-TATATATATGTGTGATAAG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-CCGATATATATATGTGTGATAAG
66325074 GCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA
65 GCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA
66325139 TGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATA
130 TGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATA
66325204 TA
195 TA
* * *
66325206 TATGTGTCATAAGGCCGAATGGCCAATGTGATCAATGTGAACCTGTATATATATATGCGTGATAA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC-G-ATATATATATGTGTGATAA
*
66325271 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAATGTG
64 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTG
*
66325336 ATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTAT
129 ATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTAT
66325401 ATA
194 ATA
* ***
66325404 TATGTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-AA---ACATGCGTATGTGTGATAA
1 TA--TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATATATATATGTGTGATAA
66325465 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTG
64 GGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTG
* *** * *
66325530 ATGAATGTGAACCTGTATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAC
129 ATGGATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
66325593 ATGCGTATGT
Statistics
Matches: 359, Mismatches: 19, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
194 88 0.25
195 3 0.01
196 40 0.11
198 192 0.53
199 2 0.01
200 34 0.09
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (196 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATATATATATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
GGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATAT
A
Found at i:66325688 original size:46 final size:46
Alignment explanation
Indices: 66325602--66325689 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
66325592 CATGCGTATG
* * * *
66325602 TGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATA
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGATA
* * *
66325648 TGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
66325690 TGTATATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.25
Consensus pattern (46 bp):
TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGATA
Found at i:66326053 original size:37 final size:37
Alignment explanation
Indices: 66325838--66326052 Score: 358
Period size: 37 Copynumber: 5.8 Consensus size: 37
66325828 ATATATTCCA
*
66325838 GGTAAGACCCGATGACTACGTGTGGATATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
66325875 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
66325912 GGTAAGACCTGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
66325949 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
66325986 AGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* * * *
66326023 GGTAAGACTCGATAACTTCATGTGGAGATT
1 GGTAAGACCCGATGACTACGTGTGGAGATT
66326053 TCGTCTGAGC
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 168 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:66339130 original size:45 final size:44
Alignment explanation
Indices: 66339029--66339249 Score: 284
Period size: 45 Copynumber: 5.0 Consensus size: 44
66339019 CCGAATTCAT
* * * * * *
66339029 TCACTGGCATT-TTGCCTGTTAGGCTCGAAGCCCG-ATATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
* * *
66339071 TCACTGGCATTATAGCCCGCTAGGCTCGAAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
66339116 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
* *
66339161 TCACTGGCATTATAGCCTGCTAGGCTCAATGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAA-AGCCCGAATAGTATC
*
66339206 TCACCGGCATTATAGCCTGCTAAGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTAT
66339250 TGTGCGATAT
Statistics
Matches: 158, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 11 0.07
43 12 0.08
44 9 0.06
45 126 0.80
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:66339172 original size:90 final size:90
Alignment explanation
Indices: 66339029--66339249 Score: 315
Period size: 90 Copynumber: 2.5 Consensus size: 90
66339019 CCGAATTCAT
* * * * * *
66339029 TCACTGGCATT-TTGCCTGTTAGGCTCGAA-GCCCG-ATATTATTTCACTGGCATTATAGCCCGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
66339091 TAGGCTCGAA-AGCCCAAATAGTATC
66 TAGGCTC-AATAGCCCAAATAGTATC
*
66339116 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
* *
66339181 TAGGCTCAATGGCCCGAATAGTATC
66 TAGGCTCAATAGCCCAAATAGTATC
*
66339206 TCACCGGCATTATAGCCTGCTAAGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
66339250 TGTGCGATAT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
87 10 0.08
88 15 0.12
89 7 0.06
90 88 0.73
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (90 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
TAGGCTCAATAGCCCAAATAGTATC
Found at i:66340084 original size:47 final size:47
Alignment explanation
Indices: 66340028--66340169 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
66340018 AAAATTTTCT
* *
66340028 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
66340075 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
*
66340122 TTAACTAAGTAACTTATCCAGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
66340168 TT
1 TT
66340170 TAAATTCAAC
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 14 0.15
47 78 0.85
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:66346910 original size:40 final size:40
Alignment explanation
Indices: 66346855--66347072 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
66346845 TGGATGATAA
*
66346855 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66346895 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66346935 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66346975 CCGAGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
66347015 CCAGGCTAAGTCCCGAAGGCAGGTGAGCGAG-TAGCCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66347055 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66347073 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 17 0.10
40 146 0.90
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66367423 original size:28 final size:28
Alignment explanation
Indices: 66367360--66367482 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
66367350 ATATTAAGTC
*
66367360 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66367387 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
66367415 CGTACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66367443 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66367472 CGCACACTTAG
1 CGCACACTTAG
66367483 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 47 0.55
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66374094 original size:28 final size:28
Alignment explanation
Indices: 66374031--66374181 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
66374021 ATATTAAGTC
*
66374031 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66374058 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66374086 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66374114 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66374142 CGCACACTTAGTACTGTACAATTTAAACT
1 CGCACACTTAGTGCTATATAA-TCAAACT
66374171 CGCACACTTAG
1 CGCACACTTAG
66374182 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.66
29 17 0.15
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66376946 original size:75 final size:75
Alignment explanation
Indices: 66376801--66376949 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
66376791 CGCTAATCGG
* * *
66376801 GTTAGCCAATGATATTAAATGTGAGCCCAGCTCTAGTCTGATAAACCAACAATGTTTGCGCCCAG
1 GTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGTCTGATAAACCAACAATGTTTGCGCCCAG
66376866 CGCTAGTTGT
66 CGCTAGTTGT
* * * * *
66376876 GTTAGCCTACGATATTGAATGTAAGCCCAACTCTAGT-TGGATAAACCAACAGTGTTTGTGTCCA
1 GTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGTCT-GATAAACCAACAATGTTTGCGCCCA
66376940 GCGCTAGTTG
65 GCGCTAGTTG
66376950 GGTATTCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 1 0.02
75 64 0.98
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (75 bp):
GTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGTCTGATAAACCAACAATGTTTGCGCCCAG
CGCTAGTTGT
Found at i:66378414 original size:20 final size:20
Alignment explanation
Indices: 66378386--66378429 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
66378376 TACCAACTTG
*
66378386 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
66378406 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
66378426 CAAC
1 CAAC
66378430 TTAAACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:66378593 original size:43 final size:42
Alignment explanation
Indices: 66378507--66378627 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
66378497 ACACATAGTA
* * *
66378507 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAGATCT
* *
66378549 CATATCAATGCCAATAGCCCAGCTATGGTCTTACACGA-AGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCT
** *
66378592 CATATTGATGCCATATCCCAGATATGGTCTCACACG
1 CATATCAATGCCATATCCCAGATATGGTCTTACACG
66378628 TAATCTCCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAGATCT
Found at i:66387266 original size:75 final size:75
Alignment explanation
Indices: 66387104--66387276 Score: 175
Period size: 75 Copynumber: 2.3 Consensus size: 75
66387094 ATAGAAGAGT
* * * *
66387104 TTTGCACCTAGCACTAGTCGGGTTAGCTGACGATATTGAATGTAAGCCTAGCTCTAGTCAAATAA
1 TTTGCGCCCAGCACTAGTCGGGTTAGCTGACGATATTGAATGTAAGCCCAACTCTAGTCAAATAA
**
66387169 ACCAACAATG
66 ACCAACAACA
* * * * * ***
66387179 TTTGTGCTCAGCACTAGTTGGGTTAGCTGACGATATTGAATGTGAGCCCAACTTTAGTTGGATAA
1 TTTGCGCCCAGCACTAGTCGGGTTAGCTGACGATATTGAATGTAAGCCCAACTCTAGTCAAATAA
* ***
66387244 ACTAATGGCA
66 ACCAACAACA
*
66387254 TTTGCGCCCAGCACTAGTGGGGT
1 TTTGCGCCCAGCACTAGTCGGGT
66387277 ATTCCGATGA
Statistics
Matches: 77, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (75 bp):
TTTGCGCCCAGCACTAGTCGGGTTAGCTGACGATATTGAATGTAAGCCCAACTCTAGTCAAATAA
ACCAACAACA
Found at i:66392984 original size:20 final size:22
Alignment explanation
Indices: 66392959--66393004 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
66392949 TTCATAATTT
66392959 TATTAATAGAA-TAAAT-TTAA
1 TATTAATAGAACTAAATGTTAA
* *
66392979 TATTAATTGAACTAATTGTTAA
1 TATTAATAGAACTAAATGTTAA
66393001 TATT
1 TATT
66393005 GTTAGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
TATTAATAGAACTAAATGTTAA
Found at i:66393351 original size:3 final size:3
Alignment explanation
Indices: 66393340--66393435 Score: 64
Period size: 3 Copynumber: 34.7 Consensus size: 3
66393330 GATGAACTAC
* ** *
66393340 TAT TGT TAT TAT TAT TAT T-T TGC TAT TAT T-T T-T TAT TA- TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
66393384 TAT TAT T-T TAT TAT TGT TAT T-T GAA TAT TA- TAT AAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66393428 TAT TAT TA
1 TAT TAT TA
66393436 ATTTTGTTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
2 15 0.21
3 56 0.79
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:66393376 original size:21 final size:22
Alignment explanation
Indices: 66393337--66393398 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
66393327 AAAGATGAAC
* *
66393337 TACTATTGTTATTATTATTATTT
1 TACTATTATT-TTATTATTATAT
*
66393360 TGCTATTATTTT-TTATTATAT
1 TACTATTATTTTATTATTATAT
66393381 TACTATTATTTTATTATT
1 TACTATTATTTTATTATT
66393399 GTTATTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.56
22 7 0.21
23 8 0.24
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (22 bp):
TACTATTATTTTATTATTATAT
Found at i:66393398 original size:11 final size:11
Alignment explanation
Indices: 66393348--66393452 Score: 77
Period size: 11 Copynumber: 9.3 Consensus size: 11
66393338 ACTATTGTTA
66393348 TTATTATTATT
1 TTATTATTATT
**
66393359 TTGCTATTATT
1 TTATTATTATT
*
66393370 TT-TTATTATA
1 TTATTATTATT
*
66393380 TTACTATTATT
1 TTATTATTATT
66393391 TTATTATTGTTATT
1 TTATTA---TTATT
* * *
66393405 TGAATATTATA
1 TTATTATTATT
*
66393416 TAATTATTATT
1 TTATTATTATT
66393427 TTATTATTAATT
1 TTATTATT-ATT
* *
66393439 TTGTTTTTATT
1 TTATTATTATT
66393450 TTA
1 TTA
66393453 AGTGTATTTG
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
10 8 0.11
11 46 0.64
12 9 0.12
14 9 0.12
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (11 bp):
TTATTATTATT
Found at i:66393435 original size:14 final size:14
Alignment explanation
Indices: 66393340--66393435 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 14
66393330 GATGAACTAC
66393340 TATTGTTATTATTAT
1 TATT-TTATTATTAT
**
66393355 TATTTTGCTATTAT
1 TATTTTATTATTAT
66393369 T-TTTTATTA-TAT
1 TATTTTATTATTAT
*
66393381 TACTATTATT-TTAT
1 TA-TTTTATTATTAT
* *
66393395 TATTGTTATT-TGAA
1 TATT-TTATTATTAT
* *
66393409 TATTATATAATTAT
1 TATTTTATTATTAT
66393423 TATTTTATTATTA
1 TATTTTATTATTA
66393436 ATTTTGTTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
12 4 0.06
13 10 0.16
14 44 0.71
15 4 0.06
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (14 bp):
TATTTTATTATTAT
Found at i:66393531 original size:25 final size:26
Alignment explanation
Indices: 66393503--66393553 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
66393493 TGTAGGAAAT
*
66393503 ATTTATTTTGTAT-T-ATATTTTTTAA
1 ATTTATTTT-TATATAAAATTTTTTAA
66393528 ATTTATTTTTATATAAAATTTTTTAA
1 ATTTATTTTTATATAAAATTTTTTAA
66393554 TACGAGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 10 0.43
26 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTATTTTTATATAAAATTTTTTAA
Found at i:66409270 original size:11 final size:11
Alignment explanation
Indices: 66409216--66409289 Score: 52
Period size: 11 Copynumber: 7.3 Consensus size: 11
66409206 TGGTTGATAC
66409216 GATATGCACAT
1 GATATGCACAT
* *
66409227 GACATG--TAT
1 GATATGCACAT
66409236 GATATGCACAT
1 GATATGCACAT
* *
66409247 GAAATG--TAT
1 GATATGCACAT
66409256 GATATGCACAT
1 GATATGCACAT
*
66409267 GATATG--TAT
1 GATATGCACAT
*
66409276 GAAATGCACAT
1 GATATGCACAT
66409287 GAT
1 GAT
66409290 GTATTCATAA
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
9 21 0.47
11 24 0.53
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
GATATGCACAT
Found at i:66409289 original size:20 final size:20
Alignment explanation
Indices: 66409216--66409289 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
66409206 TGGTTGATAC
*
66409216 GATATGCACATGACATGTAT
1 GATATGCACATGATATGTAT
*
66409236 GATATGCACATGAAATGTAT
1 GATATGCACATGATATGTAT
66409256 GATATGCACATGATATGTAT
1 GATATGCACATGATATGTAT
*
66409276 GAAATGCACATGAT
1 GATATGCACATGAT
66409290 GTATTCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
GATATGCACATGATATGTAT
Found at i:66409401 original size:26 final size:26
Alignment explanation
Indices: 66409339--66409471 Score: 181
Period size: 25 Copynumber: 5.3 Consensus size: 26
66409329 GAGGAAGTGC
*
66409339 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
66409365 -AAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
66409390 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
66409416 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
66409440 AAAAGGG-TT-TTCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
66409462 AAAAGAGGCT
1 AAAAG-GGCT
66409472 AGGCCTCTAG
Statistics
Matches: 100, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
22 8 0.08
23 12 0.12
24 9 0.09
25 36 0.36
26 35 0.35
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:66409415 original size:51 final size:49
Alignment explanation
Indices: 66409338--66409471 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 49
66409328 TGAGGAAGTG
*
66409338 CAAAAGGGCTTATGCCCCAATTTATTGAAAGGGCTTATGCCCCAGTTTATT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAGGGCTT-TGCCCCAGTTTA-T
*
66409389 GAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTATGCCCCAGTTTATTG-AAAGGGCTTTGCCCCAGTTTAT
* *
66409439 CAAAAGGG-TT-TTCCCCAG-TTATTAAAAGAGGCT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAG-GGCT
66409472 AGGCCTCTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
46 4 0.05
47 9 0.12
48 7 0.09
49 2 0.03
50 8 0.11
51 37 0.49
52 9 0.12
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (49 bp):
CAAAAGGGCTTATGCCCCAGTTTATTGAAAGGGCTTTGCCCCAGTTTAT
Found at i:66414038 original size:3 final size:3
Alignment explanation
Indices: 66414030--66414067 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
66414020 AGATATTTAC
66414030 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
66414068 ATTGAGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:66416177 original size:20 final size:20
Alignment explanation
Indices: 66416152--66416200 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
66416142 GCCCACGGGT
66416152 AGGCCACACGGGCATGTTCC
1 AGGCCACACGGGCATGTTCC
66416172 AGGCCACACGGGCATGTTCC
1 AGGCCACACGGGCATGTTCC
66416192 AGGCCACAC
1 AGGCCACAC
66416201 AGGTATGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (20 bp):
AGGCCACACGGGCATGTTCC
Found at i:66416208 original size:20 final size:20
Alignment explanation
Indices: 66416152--66416224 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
66416142 GCCCACGGGT
*
66416152 AGGCCACACGGGCATGTTCC
1 AGGCCACACAGGCATGTTCC
*
66416172 AGGCCACACGGGCATGTTCC
1 AGGCCACACAGGCATGTTCC
*
66416192 AGGCCACACAGGTATG-TCTC
1 AGGCCACACAGGCATGTTC-C
*
66416212 AGGCCAAACAGGC
1 AGGCCACACAGGC
66416225 GTGTGCCCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.04
20 46 0.96
ACGTcount: A:0.25, C:0.33, G:0.29, T:0.14
Consensus pattern (20 bp):
AGGCCACACAGGCATGTTCC
Found at i:66417621 original size:30 final size:31
Alignment explanation
Indices: 66417585--66417652 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
66417575 GGTTTCATAT
*
66417585 CAGTCACTCAAC-TTTTAAAAA-ATAACAAAA
1 CAGTCACT-AACGTTATAAAAACATAACAAAA
* *
66417615 CAGTCACTAACGTTATAAAAACGTGACAAAA
1 CAGTCACTAACGTTATAAAAACATAACAAAA
66417646 CAGTCAC
1 CAGTCAC
66417653 CGGTTAACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.48
31 14 0.42
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAACATAACAAAA
Found at i:66417714 original size:21 final size:21
Alignment explanation
Indices: 66417688--66417727 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
66417678 TAACGGGACC
66417688 GCTGATGTGGCAAGTTAACAA
1 GCTGATGTGGCAAGTTAACAA
66417709 GCTGATGTGGCAAGTTAAC
1 GCTGATGTGGCAAGTTAAC
66417728 TTGTCACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACAA
Found at i:66417812 original size:3 final size:3
Alignment explanation
Indices: 66417800--66417855 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
66417790 CGTTAATAAC
* *
66417800 AGA A-A AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA ACA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
66417847 AGA ACA AGA
1 AGA AGA AGA
66417856 GACTGTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.70, C:0.04, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:66419148 original size:3 final size:3
Alignment explanation
Indices: 66419140--66419178 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
66419130 TTTTTTCTCC
* *
66419140 TCT TCT TCT TCT TCT TCT TCT TTT TCT TTT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
66419179 AAACCCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TCT
Found at i:66460650 original size:65 final size:65
Alignment explanation
Indices: 66460546--66460691 Score: 213
Period size: 65 Copynumber: 2.2 Consensus size: 65
66460536 ATGGGACATG
* * * * *
66460546 TTTGGTGTGTAGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTTGAA-TGTATGAGTC
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATAT-ATTCAACTCTATGAGTC
66460610 A
65 A
*
66460611 TTTGGTGCGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
*
66460676 TTTGGTGTGTTTGAGA
1 TTTGGTGTGTTGGAGA
66460692 TTCGTGTATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 4 0.06
65 68 0.94
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
Found at i:66462168 original size:25 final size:26
Alignment explanation
Indices: 66462122--66462185 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
66462112 TGTTACATGG
66462122 AAAG-CTGTAGTGGCGAAATTATCTGA
1 AAAGCCTGT-GTGGCGAAATTATCTGA
* * * *
66462148 AAAGCCTTTGTGGC-AAGTTATTTGG
1 AAAGCCTGTGTGGCGAAATTATCTGA
66462173 AAAGCCTGTGTGG
1 AAAGCCTGTGTGG
66462186 TGAATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 20 0.62
26 9 0.28
27 3 0.09
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (26 bp):
AAAGCCTGTGTGGCGAAATTATCTGA
Found at i:66463593 original size:48 final size:48
Alignment explanation
Indices: 66463535--66463805 Score: 263
Period size: 48 Copynumber: 5.6 Consensus size: 48
66463525 TTTGTAGGCT
*
66463535 AGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * * ** *** * **
66463583 AATGTAAGACCATGTTTGGAACATGACATCGGTATTGTTATGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* *
66463631 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * * * *** * *
66463679 AGTGTAAGACCGTGTTTGGAATATGGCATCGGCATTGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * *
66463727 AGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAATATGTAAGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* *
66463775 AGTGTAAGACCATGTTTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
66463806 ACATTTTACC
Statistics
Matches: 166, Mismatches: 57, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
48 166 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
Found at i:66463698 original size:96 final size:96
Alignment explanation
Indices: 66463532--66463810 Score: 416
Period size: 96 Copynumber: 2.9 Consensus size: 96
66463522 TTATTTGTAG
* *
66463532 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
* *
66463597 TTTGGAACATGACATCGGTATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
* * * *
66463628 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCGTG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
*
66463693 TTTGGAATATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
* * * *
66463724 GCTAGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAATATGTAAGGCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
*
66463789 TTT-GAGACATGGCATCGACATT
66 TTTGGA-ACATGGCATCGGCATT
66463811 TTACCCTTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
95 2 0.01
96 161 0.99
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGGCATTGTTATGAGA
Found at i:66464955 original size:27 final size:27
Alignment explanation
Indices: 66464907--66464980 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
66464897 TTTAGTACAC
66464907 GGGCGTGTCATGGCCGTGTGAGGGACAT
1 GGGCGTGTCAT-GCCGTGTGAGGGACAT
*
66464935 GTGCGTGTCATGCCGTGTGAGGGACAT
1 GGGCGTGTCATGCCGTGTGAGGGACAT
66464962 GGGCGTGTCATGCCGTGTG
1 GGGCGTGTCATGCCGTGTG
66464981 TGCCAGGCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 34 0.77
28 10 0.23
ACGTcount: A:0.12, C:0.19, G:0.45, T:0.24
Consensus pattern (27 bp):
GGGCGTGTCATGCCGTGTGAGGGACAT
Found at i:66467571 original size:40 final size:40
Alignment explanation
Indices: 66467516--66467739 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
66467506 TATTCGGATG
*
66467516 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** *
66467556 ATATCCGGGCTAAGTCTTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
66467599 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
66467639 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
66467679 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
66467719 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
66467740 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.70
41 1 0.01
43 34 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:66467662 original size:83 final size:80
Alignment explanation
Indices: 66467523--66467739 Score: 260
Period size: 83 Copynumber: 2.7 Consensus size: 80
66467513 ATGATATCCG
* * ** **
66467523 GGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCTTGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
66467588 GAGTAGTTG-CTATACCCA
66 ---TAG-TGACTATACCCA
*
66467606 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
* *
66467671 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* * *
66467686 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
66467740 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.37
81 2 0.02
83 58 0.48
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCA
Found at i:66471900 original size:13 final size:14
Alignment explanation
Indices: 66471869--66471901 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
66471859 TGTATGCTAA
66471869 TTACTCGGTAAGTT
1 TTACTCGGTAAGTT
66471883 TTACTCGGTAAG-T
1 TTACTCGGTAAGTT
66471896 TTACTC
1 TTACTC
66471902 TTCGGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (14 bp):
TTACTCGGTAAGTT
Found at i:66480763 original size:13 final size:13
Alignment explanation
Indices: 66480745--66480770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66480735 TAATAATTAT
66480745 AATAAAAGGTTAA
1 AATAAAAGGTTAA
66480758 AATAAAAGGTTAA
1 AATAAAAGGTTAA
66480771 TAATTAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AATAAAAGGTTAA
Found at i:66484161 original size:22 final size:22
Alignment explanation
Indices: 66484117--66484161 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66484107 TTAATCATTA
* **
66484117 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
66484139 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
66484161 T
1 T
66484162 CAGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:66485885 original size:40 final size:40
Alignment explanation
Indices: 66485681--66485885 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
66485671 CGAAATTTAA
** *
66485681 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66485721 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
66485761 CCGAATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
66485801 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGTCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
66485841 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66485881 CCGGA
1 CCGGA
66485886 CATCATTCAA
Statistics
Matches: 145, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.94
41 8 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66487716 original size:17 final size:16
Alignment explanation
Indices: 66487694--66487727 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66487684 TCAAATTTTC
*
66487694 AATTTCATTTGCAATTT
1 AATTTCAATT-CAATTT
66487711 AATTTCAATTCAATTT
1 AATTTCAATTCAATTT
66487727 A
1 A
66487728 CTACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTCAATTCAATTT
Found at i:66487766 original size:28 final size:27
Alignment explanation
Indices: 66487735--66487795 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
66487725 TTACTACATT
*
66487735 TTTCCATATCAATCTACA-TGCAATTCA
1 TTTCCATA-CAATATACATTGCAATTCA
* *
66487762 CTTTCAATACAATATACATTTCAATTCA
1 -TTTCCATACAATATACATTGCAATTCA
66487790 TTTCCA
1 TTTCCA
66487796 ATAATCACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTCCATACAATATACATTGCAATTCA
Found at i:66488728 original size:22 final size:23
Alignment explanation
Indices: 66488690--66488737 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
66488680 TAAAAATCTT
*
66488690 ATAATATAATATAATAA-CAATA
1 ATAATATAATATAATAATAAATA
*
66488712 ATAATATACT-TATATAATAAATA
1 ATAATATAATATA-ATAATAAATA
66488735 ATA
1 ATA
66488738 CTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATAATATAATAATAAATA
Found at i:66489031 original size:13 final size:13
Alignment explanation
Indices: 66488983--66489037 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
66488973 AATTTAATAG
*
66488983 AAATAATATTAAT
1 AAATAATAATAAT
66488996 AAAT-ATAA-AAT
1 AAATAATAATAAT
**
66489007 ATAA-AACCATAAT
1 A-AATAATAATAAT
66489020 AAATAATAATAAT
1 AAATAATAATAAT
66489033 AAATA
1 AAATA
66489038 CATATTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
11 4 0.12
12 9 0.27
13 20 0.61
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:66494333 original size:21 final size:20
Alignment explanation
Indices: 66494287--66494333 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
66494277 TAGTTTACCC
*
66494287 AATTTTAAATTATTAATTTA
1 AATTTTAAATTATTAATTGA
66494307 ATATTTTAAATTATTAATTGA
1 A-ATTTTAAATTATTAATTGA
66494328 TAATTT
1 -AATTT
66494334 AATATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTTTAAATTATTAATTGA
Found at i:66503804 original size:20 final size:20
Alignment explanation
Indices: 66503757--66503805 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
66503747 ACATTTGCAC
*
66503757 ATATGACCAAAGCATCATAA
1 ATATGACCAAAACATCATAA
*
66503777 ACAT-ACCAAAACATACAT-A
1 ATATGACCAAAACAT-CATAA
66503796 ATATGACCAA
1 ATATGACCAA
66503806 TTCAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.18
Consensus pattern (20 bp):
ATATGACCAAAACATCATAA
Found at i:66506147 original size:37 final size:37
Alignment explanation
Indices: 66506104--66506178 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
66506094 ATTCATCAAT
*
66506104 GACAACATTCAAAATCTTTAACTATTTCAACAATGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
*
66506141 GACAACATTCAAAGTCTTTAACTATTTCAACAACGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
66506178 G
1 G
66506179 GTACGAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (37 bp):
GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
Found at i:66511279 original size:21 final size:21
Alignment explanation
Indices: 66511253--66511293 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
66511243 GCCAAAGAAT
66511253 GGATGAATCTGTAGAAGCCAG
1 GGATGAATCTGTAGAAGCCAG
66511274 GGATGAATCTGTAGAAGCCA
1 GGATGAATCTGTAGAAGCCA
66511294 TTGTAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (21 bp):
GGATGAATCTGTAGAAGCCAG
Found at i:66531517 original size:22 final size:22
Alignment explanation
Indices: 66531440--66531504 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
66531430 TAGTCTCTCT
* *
66531440 AAAAAAATTATAAAAAAGAAATC
1 AAAAAATTTATAAAAAA-AATTC
66531463 AAAATAATTT-T--AAAAAATTC
1 AAAA-AATTTATAAAAAAAATTC
66531483 AAAAAATTTATAAAAAAAATTC
1 AAAAAATTTATAAAAAAAATTC
66531505 CAAATTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 5 0.14
20 9 0.25
21 4 0.11
22 9 0.25
23 5 0.14
24 4 0.11
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAATTTATAAAAAAAATTC
Found at i:66531548 original size:20 final size:20
Alignment explanation
Indices: 66531516--66531584 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
66531506 AAATTTTCAT
* *
66531516 AATTTTAAAAAAATATATAA
1 AATTTAAAAAAAATATAAAA
66531536 AATTTAAAAAAAA-ATTAAAA
1 AATTTAAAAAAAATA-TAAAA
* * *
66531556 AATCTAAATAATATATAAAA
1 AATTTAAAAAAAATATAAAA
66531576 AATTTAAAA
1 AATTTAAAA
66531585 TTTTCAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTTAAAAAAAATATAAAA
Found at i:66531555 original size:29 final size:29
Alignment explanation
Indices: 66531523--66531584 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
66531513 CATAATTTTA
*
66531523 AAAAAATATATAA-AATTTAAAAAAAAATT
1 AAAAAATATA-AATAATATAAAAAAAAATT
* * *
66531552 AAAAAATCTAAATAATATATAAAAAATTT
1 AAAAAATATAAATAATATAAAAAAAAATT
66531581 AAAA
1 AAAA
66531585 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATATAAATAATATAAAAAAAAATT
Found at i:66536760 original size:13 final size:13
Alignment explanation
Indices: 66536734--66536767 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
66536724 AATTAAGCAC
66536734 TTTTCACATAAAA
1 TTTTCACATAAAA
* *
66536747 TTTTCTCATGAAA
1 TTTTCACATAAAA
66536760 TTTTCACA
1 TTTTCACA
66536768 CAAGCATACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (13 bp):
TTTTCACATAAAA
Found at i:66539239 original size:13 final size:13
Alignment explanation
Indices: 66539223--66539249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66539213 TTGAATATGG
66539223 AAATTAAATATAT
1 AAATTAAATATAT
66539236 AAATTAAATATAT
1 AAATTAAATATAT
66539249 A
1 A
66539250 TCCTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTAAATATAT
Done.