Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 139 of 163
Found at i:37622221 original size:6 final size:6
Alignment explanation
Indices: 37622210--37622241 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
37622200 ACCAAGGGTA
*
37622210 TTTTTC TTTTTC TTTTTC CTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
37622242 GAGAAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:37627504 original size:20 final size:20
Alignment explanation
Indices: 37627479--37627517 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37627469 CTGTTTCTCA
37627479 GAAATACAA-ATTTGAGGAGG
1 GAAATA-AACATTTGAGGAGG
37627499 GAAATAAAGCATTTGAGGA
1 GAAATAAA-CATTTGAGGA
37627518 TCTTAACCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 6 0.35
21 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.21
Consensus pattern (20 bp):
GAAATAAACATTTGAGGAGG
Found at i:37630382 original size:18 final size:16
Alignment explanation
Indices: 37630351--37630394 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
37630341 GGTTTAAGGT
*
37630351 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
37630368 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
37630382 TTAAAAATTTATT
1 TTAAAAATTTATT
37630395 CTCATTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 9 0.38
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:37637583 original size:17 final size:17
Alignment explanation
Indices: 37637563--37637605 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
37637553 TCTCCCTTGA
*
37637563 TCTTTAACCTTCCATCT
1 TCTTTAACCTTCCATAT
*
37637580 TCTTTAACCTTTCATAT
1 TCTTTAACCTTCCATAT
37637597 TCTTGTAAC
1 TCTT-TAAC
37637606 TACTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (17 bp):
TCTTTAACCTTCCATAT
Found at i:37639985 original size:18 final size:18
Alignment explanation
Indices: 37639944--37639986 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
37639934 CTCTCTCATG
* *
37639944 CGATACCGATCTCTATCC
1 CGATCCCGATCCCTATCC
37639962 CGATCCCGATCCCTATCC
1 CGATCCCGATCCCTATCC
*
37639980 CTATCCC
1 CGATCCC
37639987 TATCTCTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.47, G:0.09, T:0.26
Consensus pattern (18 bp):
CGATCCCGATCCCTATCC
Found at i:37639987 original size:6 final size:6
Alignment explanation
Indices: 37639956--37639990 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37639946 ATACCGATCT
* *
37639956 CTATCC CGATCC CGATCC CTATCC CTATCC CTATC
1 CTATCC CTATCC CTATCC CTATCC CTATCC CTATC
37639991 TCTGTCTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.49, G:0.06, T:0.29
Consensus pattern (6 bp):
CTATCC
Found at i:37649520 original size:16 final size:18
Alignment explanation
Indices: 37649501--37649535 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
37649491 CACGTGACAA
37649501 ATATAAAT-AA-AAAAAT
1 ATATAAATGAATAAAAAT
37649517 ATATAAATGAATAAAAAT
1 ATATAAATGAATAAAAAT
37649535 A
1 A
37649536 AAAACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATATAAATGAATAAAAAT
Found at i:37649711 original size:18 final size:18
Alignment explanation
Indices: 37649607--37649711 Score: 56
Period size: 18 Copynumber: 5.9 Consensus size: 18
37649597 TTTATTAGTT
**
37649607 TTTTTATATGTTTATATA
1 TTTTTATAAATTTATATA
*
37649625 TTTTTAT-AATTTTTA-A
1 TTTTTATAAATTTATATA
* * *
37649641 TTTTCATAAACTTATAAA
1 TTTTTATAAATTTATATA
* * * *
37649659 TTTTAATTATTTTA-AAA
1 TTTTTATAAATTTATATA
* *
37649676 ATATTATAAGCA-TTATATA
1 TTTTTATAA--ATTTATATA
37649695 TTTTTATAAATTTATAT
1 TTTTTATAAATTTATAT
37649712 TTCATATATT
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
16 7 0.11
17 20 0.32
18 27 0.43
19 9 0.14
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATAAATTTATATA
Found at i:37652000 original size:18 final size:20
Alignment explanation
Indices: 37651963--37652000 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37651953 ATTTTAATCC
37651963 CATTTGAAAATCTAAGTTGG
1 CATTTGAAAATCTAAGTTGG
37651983 CATTT-AAAATCT-AGTTGG
1 CATTTGAAAATCTAAGTTGG
37652001 ATTGCCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (20 bp):
CATTTGAAAATCTAAGTTGG
Found at i:37652675 original size:18 final size:19
Alignment explanation
Indices: 37652654--37652697 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
37652644 CCAAAATTTA
37652654 ATTTTAATATTT-TTAT-AC
1 ATTTTAAT-TTTATTATCAC
37652672 ATTTTAATTTTATTATGCAC
1 ATTTTAATTTTATTAT-CAC
37652692 ATTTTA
1 ATTTTA
37652698 TTACTTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTAATTTTATTATCAC
Found at i:37653119 original size:6 final size:6
Alignment explanation
Indices: 37653108--37653134 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37653098 ATCCTCAACT
37653108 CCATTC CCATTC CCATTC CCATTC CCA
1 CCATTC CCATTC CCATTC CCATTC CCA
37653135 ATACCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.30
Consensus pattern (6 bp):
CCATTC
Found at i:37659966 original size:19 final size:19
Alignment explanation
Indices: 37659939--37659991 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
37659929 ATCATTAAGG
* * *
37659939 TTAAGTTAATTAGGTTTAA
1 TTAAATTAATTAAGATTAA
37659958 TTAAATTAATTAAGATTAA
1 TTAAATTAATTAAGATTAA
*
37659977 TTAGATTTAATTAAG
1 TTA-AATTAATTAAG
37659992 GTATAAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TTAAATTAATTAAGATTAA
Found at i:37663787 original size:15 final size:16
Alignment explanation
Indices: 37663762--37663792 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37663752 TACCCATAGA
37663762 AAAGAGAAGAGAAGAG
1 AAAGAGAAGAGAAGAG
37663778 AAAG-GAAGAGAAGAG
1 AAAGAGAAGAGAAGAG
37663793 GAATGGGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
AAAGAGAAGAGAAGAG
Found at i:37664885 original size:17 final size:17
Alignment explanation
Indices: 37664865--37664899 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37664855 ATACAAATTT
*
37664865 TAAAAATATATGTATAA
1 TAAAAATATATATATAA
*
37664882 TAAAATTATATATATAA
1 TAAAAATATATATATAA
37664899 T
1 T
37664900 TTAATATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TAAAAATATATATATAA
Found at i:37671922 original size:29 final size:29
Alignment explanation
Indices: 37671890--37671981 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
37671880 CAAAATCAGG
37671890 ATTTT-GTAAAGTTCAAGGGTAAAATGGTA
1 ATTTTAGTAAAGTTC-AGGGTAAAATGGTA
* * *
37671919 ATTTTTGGTAAA-ATCGGGGTTAAAATGG-A
1 A-TTTTAGTAAAGTTCAGGG-TAAAATGGTA
*
37671948 ATTTTAG-AAAGTTTGAGGGTAAAATGGTA
1 ATTTTAGTAAAG-TTCAGGGTAAAATGGTA
37671977 ATTTT
1 ATTTT
37671982 GGTGAAATCG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.06
28 13 0.25
29 16 0.31
30 14 0.27
31 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
ATTTTAGTAAAGTTCAGGGTAAAATGGTA
Found at i:37671967 original size:58 final size:59
Alignment explanation
Indices: 37671905--37672040 Score: 188
Period size: 58 Copynumber: 2.3 Consensus size: 59
37671895 GTAAAGTTCA
* **
37671905 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGT-TAAAATGGAATTTTAGAAAGTTTG
1 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAACTTG
* *
37671963 AGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAACTTG
1 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAACTTG
*
37672021 GGGGTAAAAAT-GTAATTTTT
1 AGGGT-AAAATGGTAATTTTT
37672041 AGGAAGTATT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
57 17 0.25
58 43 0.62
59 9 0.13
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAACTTG
Found at i:37672000 original size:29 final size:27
Alignment explanation
Indices: 37671906--37672012 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 27
37671896 TAAAGTTCAA
*
37671906 GGGTAAAATGGTAATTTTTGGTAAAATCG
1 GGGTAAAATGG-AA-TTTTGGTGAAATCG
* *
37671935 GGGTTAAAATGGAATTTT--AGAAAGTTTG
1 GGG-TAAAATGGAATTTTGGTGAAA--TCG
37671963 AGGGTAAAATGGTAATTTTGGTGAAATCG
1 -GGGTAAAATGG-AATTTTGGTGAAATCG
37671992 GGGTCAAAAATGGAATTTTGG
1 GGGT--AAAATGGAATTTTGG
37672013 AAAACTTGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
26 3 0.05
28 18 0.28
29 24 0.38
30 15 0.23
31 4 0.06
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (27 bp):
GGGTAAAATGGAATTTTGGTGAAATCG
Found at i:37672023 original size:29 final size:26
Alignment explanation
Indices: 37671906--37672099 Score: 100
Period size: 30 Copynumber: 6.7 Consensus size: 26
37671896 TAAAGTTCAA
*
37671906 GGGTAAAATGGTAATTTTTGGTAAAATCG
1 GGGTAAAATGG-AA-TTTTGG-AAAATTG
* *
37671935 GGGTTAAAATGGAATTTTAGAAAGTTTG
1 GGG-TAAAATGGAATTTTGGAAA-ATTG
* *
37671963 AGGGTAAAATGGTAATTTTGGTGAAATCG
1 -GGGTAAAATGG-AATTTTGG-AAAATTG
37671992 GGGTCAAAAATGGAATTTTGGAAAACTTGG
1 GGGT--AAAATGGAATTTTGGAAAA-TT-G
* *
37672022 GGGTAAAAATGTAATTTTTAGGAAGTATTG
1 GGGT-AAAATGGAA-TTTT-GGAA-AATTG
** *
37672052 GGGTCAAAATTTAATTTTGGAGAAGTTTAG
1 GGGT-AAAATGGAATTTTGGA-AA-ATT-G
*
37672082 GGGTCAAAATGTAATTTT
1 GGGT-AAAATGGAATTTT
37672100 CAAAAAGTTT
Statistics
Matches: 134, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.02
28 25 0.19
29 42 0.31
30 57 0.43
31 6 0.04
32 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (26 bp):
GGGTAAAATGGAATTTTGGAAAATTG
Found at i:37672061 original size:30 final size:29
Alignment explanation
Indices: 37672021--37672188 Score: 133
Period size: 30 Copynumber: 5.6 Consensus size: 29
37672011 GGAAAACTTG
*
37672021 GGGGTAAAAATGTAATTTTTAGGAAGTATT
1 GGGGTCAAAATGTAATTTTTAGGAAGT-TT
* *
37672051 GGGGTCAAAATTTAA-TTTTGGAGAAGTTT
1 GGGGTCAAAATGTAATTTTTAG-GAAGTTT
* **
37672080 AGGGGTCAAAATGTAATTTTCAAAAAGTTTT
1 -GGGGTCAAAATGTAATTTTTAGGAAG-TTT
* * *
37672111 AGGGTTAAAATATAA-TTTTAGAGAAGTTT
1 GGGGTCAAAATGTAATTTTTAG-GAAGTTT
* **
37672140 ATGGGTCAAAATGTAATTTTTAAAAAGTTTT
1 -GGGGTCAAAATGTAATTTTTAGGAAG-TTT
* *
37672171 GAGGTCAAAATATAATTT
1 GGGGTCAAAATGTAATTT
37672189 CTAGACAATT
Statistics
Matches: 108, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
29 14 0.13
30 80 0.74
31 14 0.13
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTTTAGGAAGTTT
Found at i:37672091 original size:60 final size:60
Alignment explanation
Indices: 37672021--37672203 Score: 242
Period size: 60 Copynumber: 3.0 Consensus size: 60
37672011 GGAAAACTTG
* ** * * *
37672021 GGGGTAAAAATGTAATTTTTAGGAAGTATTGGGGTCAAAATTTAATTTTGGAGAAGTTTA
1 GGGGTCAAAATGTAATTTTTAAAAAGTTTTGGGGTCAAAATATAATTTTAGAGAAGTTTA
* * *
37672081 GGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATAATTTTAGAGAAGTTTA
1 GGGGTCAAAATGTAATTTTTAAAAAGTTTTGGGGTCAAAATATAATTTTAGAGAAGTTTA
* * *
37672141 TGGGTCAAAATGTAATTTTTAAAAAGTTTTGAGGTCAAAATATAATTTCTAGACAA-TTTA
1 GGGGTCAAAATGTAATTTTTAAAAAGTTTTGGGGTCAAAATATAATTT-TAGAGAAGTTTA
37672201 GGG
1 GGG
37672204 ACCTTTAATG
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 100 0.94
61 6 0.06
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (60 bp):
GGGGTCAAAATGTAATTTTTAAAAAGTTTTGGGGTCAAAATATAATTTTAGAGAAGTTTA
Found at i:37672127 original size:90 final size:90
Alignment explanation
Indices: 37672022--37672188 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
37672012 GAAAACTTGG
* * * * *
37672022 GGGTAAAAATGTAATTTTTAG-GAAGTATT-GGGGTCAAAATTTAATTTTGGAGAAGTTTAGGGG
1 GGGTAAAAATATAA-TTTTAGAGAAGT-TTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAGAGG
*
37672085 TCAAAATGTAATTTTCAAAAAGTTTTA
64 TCAAAATATAATTTTCAAAAAGTTTTA
* * * *
37672112 GGGTTAAAATATAATTTTAGAGAAGTTTATGGGTCAAAATGTAATTTTTAAAAAGTTTTGAGGTC
1 GGGTAAAAATATAATTTTAGAGAAGTTTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAGAGGTC
37672177 AAAATATAATTT
66 AAAATATAATTT
37672189 CTAGACAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 8 0.12
90 57 0.88
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (90 bp):
GGGTAAAAATATAATTTTAGAGAAGTTTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAGAGGTC
AAAATATAATTTTCAAAAAGTTTTA
Found at i:37678070 original size:29 final size:29
Alignment explanation
Indices: 37678037--37678189 Score: 100
Period size: 29 Copynumber: 5.2 Consensus size: 29
37678027 CAAAAACGGG
37678037 ATTTTGGAAAGTTCGAGGGTAAAATGGTA
1 ATTTTGGAAAGTTCGAGGGTAAAATGGTA
* * *
37678066 ATTTTGGTAAA-ATCAAGGTTAAAAATGG-A
1 ATTTTGG-AAAGTTCGAGGGT-AAAATGGTA
* * * * *
37678095 TTTTTTAGCAAGTTTGGGGGTAAAATGGTA
1 -ATTTTGGAAAGTTCGAGGGTAAAATGGTA
*
37678125 ATTTTGGTGAAA--TCGAGGGCAAAATTGG-A
1 ATTTT-G-GAAAGTTCGAGGGTAAAA-TGGTA
* * *
37678154 ATTTTAGAAAGTTTGGGGGGTAAAATGGTA
1 ATTTTGGAAAG-TTCGAGGGTAAAATGGTA
37678184 ATTTTG
1 ATTTTG
37678190 ATGAAATCGA
Statistics
Matches: 90, Mismatches: 22, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
27 4 0.04
29 45 0.50
30 38 0.42
31 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
ATTTTGGAAAGTTCGAGGGTAAAATGGTA
Found at i:37678237 original size:29 final size:28
Alignment explanation
Indices: 37678205--37678274 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
37678195 ATCGAAGTTA
* *
37678205 AAAATGAAATTTT-GTAAAACTTGGGGGTC
1 AAAATGTAATTTTGGTAAAA-TT-GAGGTC
37678234 AAAATGTAATTTTGGTAAAATTGAGGTC
1 AAAATGTAATTTTGGTAAAATTGAGGTC
37678262 AAAATGTAATTTT
1 AAAATGTAATTTT
37678275 CACAAAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 18 0.47
29 14 0.37
30 6 0.16
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTGGTAAAATTGAGGTC
Found at i:37678296 original size:58 final size:58
Alignment explanation
Indices: 37678044--37678284 Score: 231
Period size: 59 Copynumber: 4.1 Consensus size: 58
37678034 GGGATTTTGG
* * * * *
37678044 AAAGTTCGAGGGTAAAATGGTAATTTTGGTAAAATCAAGGTTAAAAATGGATTTTTTAGC
1 AAAGTTTGGGGGTAAAATGGTAATTTTGGTAAAATCGAGG-TCAAAATGGAATTTTTA-C
* * *
37678104 -AAGTTTGGGGGTAAAATGGTAATTTTGGTGAAATCGAGGGCAAAATTGGAA-TTTTAG
1 AAAGTTTGGGGGTAAAATGGTAATTTTGGTAAAATCGAGGTCAAAA-TGGAATTTTTAC
* * * * *
37678161 AAAGTTTGGGGGGTAAAATGGTAATTTTGATGAAATCGAAGTTAAAAATGAAATTTTGTA-
1 AAAGTTT-GGGGGTAAAATGGTAATTTTGGTAAAATCG-AGGTCAAAATGGAATTTT-TAC
* * * *
37678221 AAA-CTTGGGGGTCAAAAT-GTAATTTTGGTAAAATTGAGGTCAAAATGTAATTTTCAC
1 AAAGTTTGGGGGT-AAAATGGTAATTTTGGTAAAATCGAGGTCAAAATGGAATTTTTAC
37678278 AAAGTTT
1 AAAGTTT
37678285 TGGAGTCAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 20
0.78 0.11 0.10
Matches are distributed among these distances:
56 1 0.01
57 18 0.12
58 38 0.25
59 79 0.53
60 12 0.08
61 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (58 bp):
AAAGTTTGGGGGTAAAATGGTAATTTTGGTAAAATCGAGGTCAAAATGGAATTTTTAC
Found at i:37678350 original size:30 final size:29
Alignment explanation
Indices: 37678205--37678356 Score: 125
Period size: 30 Copynumber: 5.2 Consensus size: 29
37678195 ATCGAAGTTA
* *
37678205 AAAATGAAATTTTGTAAAA-CTTGGGGGTC
1 AAAATGTAATTTTG-AAAAGTTTGGGGGTC
*
37678234 AAAATGTAATTTTGGTAAAA--TT-GAGGTC
1 AAAATGTAATTTT-G-AAAAGTTTGGGGGTC
* * *
37678262 AAAATGTAATTTTCACAAAGTTTTGGAGTC
1 AAAATGTAATTTTGA-AAAGTTTGGGGGTC
* *
37678292 AAAATATAATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTT-GAAAAGTTTGGGGGTC
*
37678322 AAAATGTAATCTTGAAAA-TAATTGGGGGTC
1 AAAATGTAATTTTGAAAAGT--TTGGGGGTC
37678352 AAAAT
1 AAAAT
37678357 ATTATTTTTG
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 19 0.18
29 21 0.20
30 58 0.56
31 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (29 bp):
AAAATGTAATTTTGAAAAGTTTGGGGGTC
Found at i:37678353 original size:60 final size:58
Alignment explanation
Indices: 37678225--37678364 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 58
37678215 TTTGTAAAAC
* * *
37678225 TTGGGGGTCAAAATGTAATTTTGGTAAAATTGAGGTCAAAATGTAATTTTCACAAAGT
1 TTGGGGGTCAAAATATAATTTTAGTAAAATTGAGGTCAAAATGTAATCTTCACAAAGT
* * * *
37678283 TTTGGAGTCAAAATATAATTTTAG-AAAAGTTTAGGGGTCAAAATGTAATCTTGA-AAA-T
1 TTGGGGGTCAAAATATAATTTTAGTAAAA--TT-GAGGTCAAAATGTAATCTTCACAAAGT
*
37678341 AATTGGGGGTCAAAATATTATTTT
1 --TTGGGGGTCAAAATATAATTTT
37678365 TGGATAGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
57 4 0.06
58 21 0.31
59 5 0.07
60 37 0.55
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (58 bp):
TTGGGGGTCAAAATATAATTTTAGTAAAATTGAGGTCAAAATGTAATCTTCACAAAGT
Found at i:37679131 original size:20 final size:20
Alignment explanation
Indices: 37679099--37679137 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37679089 TCCTTTTCAC
*
37679099 TTCTTTTCTTTTCCTTTTTT
1 TTCTTTTCTTTTCATTTTTT
37679119 TTCTTTT-TGTTTCATTTTT
1 TTCTTTTCT-TTTCATTTTT
37679138 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (20 bp):
TTCTTTTCTTTTCATTTTTT
Found at i:37679530 original size:3 final size:3
Alignment explanation
Indices: 37679522--37679551 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37679512 ATTAAAACGT
37679522 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37679552 AAAGATTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37679534 original size:25 final size:26
Alignment explanation
Indices: 37679481--37679539 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
37679471 TAAAATAATA
* *
37679481 TATTTATCAAAACCATTTATTATCCT
1 TATTTATTAAAACCATTTATTATCAT
* *
37679507 TATTTATTAAAA-CGTTTATTATTAT
1 TATTTATTAAAACCATTTATTATCAT
37679532 TA-TTATTA
1 TATTTATTA
37679540 TTATTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 6 0.21
25 12 0.41
26 11 0.38
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTTATTAAAACCATTTATTATCAT
Found at i:37680078 original size:25 final size:25
Alignment explanation
Indices: 37680046--37680101 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
37680036 ACAACGGCGA
* *
37680046 TGGCAGGGCAGGTTGGAGCTGGTGG
1 TGGCAGGGCAAGTTGAAGCTGGTGG
*
37680071 TGGCAGGGTAAGTTGAAGCTGGTGG
1 TGGCAGGGCAAGTTGAAGCTGGTGG
37680096 TGGCAG
1 TGGCAG
37680102 AGTACAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.11, G:0.52, T:0.21
Consensus pattern (25 bp):
TGGCAGGGCAAGTTGAAGCTGGTGG
Found at i:37680261 original size:12 final size:12
Alignment explanation
Indices: 37680244--37680277 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
37680234 TAATAATATT
37680244 AAATTAAAATTA
1 AAATTAAAATTA
37680256 AAATTAAAATTA
1 AAATTAAAATTA
37680268 AAATTAAAAT
1 AAATTAAAAT
37680278 AAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAAAATTA
Found at i:37686303 original size:31 final size:31
Alignment explanation
Indices: 37686268--37686331 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
37686258 CTTGTGAATA
37686268 ATGTTGAGGAAATAAAAAACTTATATACTAC
1 ATGTTGAGGAAATAAAAAACTTATATACTAC
* *
37686299 ATGTTGAGGAAATAAAAAGCTTATATCCTAC
1 ATGTTGAGGAAATAAAAAACTTATATACTAC
37686330 AT
1 AT
37686332 TGGTTAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (31 bp):
ATGTTGAGGAAATAAAAAACTTATATACTAC
Found at i:37691095 original size:11 final size:11
Alignment explanation
Indices: 37691079--37691105 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37691069 TCAAACACAC
37691079 TTTTTTCTTTT
1 TTTTTTCTTTT
37691090 TTTTTTCTTTT
1 TTTTTTCTTTT
37691101 TTTTT
1 TTTTT
37691106 CTCAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:37692087 original size:5 final size:5
Alignment explanation
Indices: 37692077--37692126 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
37692067 AGTGCATAAT
*
37692077 TAAAA TAAAA TTAAAAA TAAAA TAAAA TAAAA -ATAA -AAAA TGAAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
37692123 TAAA
1 TAAA
37692127 TATACTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 6 0.15
5 22 0.56
6 7 0.18
7 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:37692090 original size:11 final size:11
Alignment explanation
Indices: 37692074--37692114 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
37692064 AATAGTGCAT
37692074 AATTAAAATAA
1 AATTAAAATAA
37692085 AATTAAAAATAA
1 AATT-AAAATAA
37692097 AA-TAAAATAA
1 AATTAAAATAA
*
37692107 AAATAAAA
1 AATTAAAA
37692115 AATGAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.32
11 10 0.36
12 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AATTAAAATAA
Found at i:37692097 original size:6 final size:6
Alignment explanation
Indices: 37692078--37692126 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
37692068 GTGCATAATT
* *
37692078 AAAATA AAATTA AAAAT- AAAAT- AAAATA AAAATAA AAAATG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
37692125 AA
1 AA
37692127 TATACTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 10 0.27
6 21 0.57
7 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:37692115 original size:17 final size:17
Alignment explanation
Indices: 37692078--37692126 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
37692068 GTGCATAATT
37692078 AAAATAAAATTAAAAAT-
1 AAAATAAAA-TAAAAATA
37692095 AAAATAAAATAAAAATAA
1 AAAATAAAATAAAAAT-A
37692113 AAAATGAAAATAAA
1 AAAAT-AAAATAAA
37692127 TATACTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 5 0.17
19 8 0.28
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:37692127 original size:17 final size:17
Alignment explanation
Indices: 37692072--37692128 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
37692062 AAAATAGTGC
37692072 ATAATTAAAATAAAATTAA
1 ATAA-TAAAATAAAA-TAA
37692091 A-AATAAAATAAAATAA
1 ATAATAAAATAAAATAA
37692107 A-AATAAAAAATGAAAATAA
1 ATAAT--AAAAT-AAAATAA
37692126 ATA
1 ATA
37692129 TACTAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.21
17 10 0.29
18 7 0.21
19 9 0.26
20 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
ATAATAAAATAAAATAA
Found at i:37695014 original size:22 final size:22
Alignment explanation
Indices: 37694972--37695020 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
37694962 ATAAAAGAGA
* *
37694972 AAAAAAATTAAAATAGAAAAAT
1 AAAAAAATGAAAATAGAAAAAC
*
37694994 AAAAAAATGCAAATA-ATAAAAC
1 AAAAAAATGAAAATAGA-AAAAC
37695016 AAAAA
1 AAAAA
37695021 TAAAAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAAATGAAAATAGAAAAAC
Found at i:37696138 original size:23 final size:24
Alignment explanation
Indices: 37696096--37696140 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
37696086 GTTTGATCCA
37696096 AATTAAATTCTAAAAGATAATTAG
1 AATTAAATTCTAAAAGATAATTAG
37696120 AATTAAA-TCTAAACA-ATAATT
1 AATTAAATTCTAAA-AGATAATT
37696141 CTCTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
AATTAAATTCTAAAAGATAATTAG
Found at i:37696169 original size:12 final size:12
Alignment explanation
Indices: 37696141--37696172 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37696131 AACAATAATT
37696141 CTCT-AATTAAA
1 CTCTAAATTAAA
37696152 -TCTAAATTAAA
1 CTCTAAATTAAA
37696163 CTCTAAATTA
1 CTCTAAATTA
37696173 TAAAGCGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 7 0.37
12 9 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (12 bp):
CTCTAAATTAAA
Found at i:37696830 original size:20 final size:20
Alignment explanation
Indices: 37696764--37696832 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
37696754 TTTTTTAAAA
37696764 TATAAAT-TTTT-ATTTT-T
1 TATAAATATTTTGATTTTGT
37696781 TATAAATATTTTGAATATTTG-
1 TATAAATATTTTG-AT-TTTGT
37696802 -A-AAATTATTTTGATTTTGT
1 TATAAA-TATTTTGATTTTGT
37696821 TATAAATATTTT
1 TATAAATATTTT
37696833 ATTAAGTGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
17 7 0.16
18 8 0.19
19 5 0.12
20 17 0.40
21 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TATAAATATTTTGATTTTGT
Found at i:37703712 original size:18 final size:16
Alignment explanation
Indices: 37703689--37703722 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
37703679 AACTTAACTT
37703689 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
37703707 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
37703723 CTATAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:37703929 original size:27 final size:27
Alignment explanation
Indices: 37703899--37703971 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
37703889 CCTAAATCTC
* *
37703899 AAGGTTTAAGATTTGAGTT-TGGGGTTT
1 AAGGTTTAAGGTTTGAGTTAT-GAGTTT
37703926 AAGGTTT-AGGTTTGGAGTTATGAGTTT
1 AAGGTTTAAGGTTT-GAGTTATGAGTTT
37703953 -AGGATTTAAGGTTTGAGTT
1 AAGG-TTTAAGGTTTGAGTT
37703972 CAAGTGTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 8 0.20
27 25 0.62
28 7 0.17
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (27 bp):
AAGGTTTAAGGTTTGAGTTATGAGTTT
Found at i:37703980 original size:28 final size:28
Alignment explanation
Indices: 37703949--37704008 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
37703939 GGAGTTATGA
37703949 GTTTAGGATTTAAG-GTT-TGAGTTCAAG
1 GTTTAGG-TTTAAGAGTTATGAGTTCAAG
*
37703976 TGTTTAGGTTTACGAGTTATGAGTTCAAG
1 -GTTTAGGTTTAAGAGTTATGAGTTCAAG
37704005 GTTT
1 GTTT
37704009 GAGTTTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.17
28 14 0.48
29 10 0.34
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.43
Consensus pattern (28 bp):
GTTTAGGTTTAAGAGTTATGAGTTCAAG
Found at i:37703987 original size:27 final size:25
Alignment explanation
Indices: 37703900--37704008 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 25
37703890 CTAAATCTCA
* **
37703900 AGGTTTAAGATTTGAGTTTGGGGTTT
1 AGGTTTAAGGTTTGAG-TTAAGGTTT
*
37703926 AAGGTTT-AGGTTTGGAGTTATGAGTTT
1 -AGGTTTAAGGTTT-GAGTTAAG-GTTT
37703953 AGGATTTAAGGTTTGAGTTCAAGTGTTT
1 AGG-TTTAAGGTTTGAGTT-AAG-GTTT
*
37703981 AGGTTTACGAGTTATGAGTTCAAGGTTT
1 AGGTTTAAG-GTT-TGAGTT-AAGGTTT
37704009 GAGTTTATGA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
26 11 0.16
27 26 0.38
28 22 0.32
29 10 0.14
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.43
Consensus pattern (25 bp):
AGGTTTAAGGTTTGAGTTAAGGTTT
Found at i:37704024 original size:49 final size:48
Alignment explanation
Indices: 37703928--37704029 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 48
37703918 TGGGGTTTAA
* * *
37703928 GGTTTAGGTTTGGAGTTATGAGTTTAGGATTTAAGGTTTGAGTTCAAG
1 GGTTTAGGTTTCGAGTTATGAGTTAAGGATTTAAGGTTTGAGCTCAAG
* * *
37703976 TGTTTAGGTTTACGAGTTATGAGTTCAAGG-TTTGAGTTTATGA-CTCAAG
1 GGTTTAGGTTT-CGAGTTATGAGTT-AAGGATTTAAGGTT-TGAGCTCAAG
37704025 GGTTT
1 GGTTT
37704030 GTATTTAGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
48 10 0.23
49 28 0.64
50 6 0.14
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.42
Consensus pattern (48 bp):
GGTTTAGGTTTCGAGTTATGAGTTAAGGATTTAAGGTTTGAGCTCAAG
Found at i:37704569 original size:18 final size:18
Alignment explanation
Indices: 37704520--37704570 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
37704510 ATTATAAATA
*
37704520 TATTGGTGTCTAAAATTT
1 TATTAGTGTCTAAAATTT
* * *
37704538 GATGA-TGTATTAAAATTT
1 TATTAGTGT-CTAAAATTT
37704556 TATTAGTGTCTAAAA
1 TATTAGTGTCTAAAA
37704571 AATAATTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 4
0.69 0.20 0.11
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (18 bp):
TATTAGTGTCTAAAATTT
Found at i:37707638 original size:2 final size:2
Alignment explanation
Indices: 37707631--37707667 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37707621 TTAAGCTTAG
37707631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37707668 AAAGACTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37708524 original size:72 final size:72
Alignment explanation
Indices: 37708436--37708604 Score: 216
Period size: 72 Copynumber: 2.3 Consensus size: 72
37708426 TGGATTCTTT
* * * *
37708436 GAAGCTTGTGTGAGCAGCATC-AAGTCATTCTTTATCGATGGCTTGAGAT-TCAAAACGTATTGC
1 GAAGCTCGTGTGAGCAGCATCGAA-TCATTCTCTATCGATGGCTTAAGATCT-AAAACATATTGC
*
37708499 GAATTCTCC
64 AAATTCTCC
* * * *
37708508 GAAGCTCGTGTAAGCAGCATCGAATCATTCTCTATTGATGGCTTAAGATCTAACACATGTTGCAA
1 GAAGCTCGTGTGAGCAGCATCGAATCATTCTCTATCGATGGCTTAAGATCTAAAACATATTGCAA
*
37708573 ATTCTCT
66 ATTCTCC
37708580 GAAGCTCGTGTGAGCAGCATCGAAT
1 GAAGCTCGTGTGAGCAGCATCGAAT
37708605 AAAGCTTGTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 81 0.96
73 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (72 bp):
GAAGCTCGTGTGAGCAGCATCGAATCATTCTCTATCGATGGCTTAAGATCTAAAACATATTGCAA
ATTCTCC
Found at i:37715750 original size:2 final size:2
Alignment explanation
Indices: 37715743--37715773 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37715733 AACTATAAAC
37715743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37715774 CTATCAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37739975 original size:27 final size:27
Alignment explanation
Indices: 37739942--37740064 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 27
37739932 TATAAGATTT
*
37739942 GCCACAAAAGCTTTCATTTCTTAGATC
1 GCCACAAAGGCTTTCATTTCTTAGATC
* *
37739969 GCCACAAAGGCTTCCATTTCTTAGATT
1 GCCACAAAGGCTTTCATTTCTTAGATC
* * * * *
37739996 GTCACAAAGACTTCCATTTTTTAGATT
1 GCCACAAAGGCTTTCATTTCTTAGATC
* *
37740023 GCCGCAAAGGC-TTCAATTTCTTAAATC
1 GCCACAAAGGCTTTC-ATTTCTTAGATC
*
37740050 ACCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
37740065 GTTTTTTCGA
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
26 2 0.03
27 74 0.94
28 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (27 bp):
GCCACAAAGGCTTTCATTTCTTAGATC
Found at i:37740070 original size:54 final size:54
Alignment explanation
Indices: 37739943--37740071 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
37739933 ATAAGATTTG
* * * * **
37739943 CCACAAAAGCTTTCATTTCTTAGATCGCCACAAAGGCTTCCATTTCTTAGATTG
1 CCACAAAGGCTTTCATTTTTTAGATCGCCACAAAGGCTTCAATTTCTTAAATCA
* * * * *
37739997 TCACAAAGACTTCCATTTTTTAGATTGCCGCAAAGGCTTCAATTTCTTAAATCA
1 CCACAAAGGCTTTCATTTTTTAGATCGCCACAAAGGCTTCAATTTCTTAAATCA
*
37740051 CCACAAAGGCTTTCGTTTTTT
1 CCACAAAGGCTTTCATTTTTT
37740072 CGACATGTTT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (54 bp):
CCACAAAGGCTTTCATTTTTTAGATCGCCACAAAGGCTTCAATTTCTTAAATCA
Found at i:37745316 original size:69 final size:66
Alignment explanation
Indices: 37745225--37745355 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 66
37745215 CCAAATAAGA
* * * *
37745225 AAAGGTAAAACTACGTCGTTTTGATAAATGTTTACCCTTTCTAAAGTTAAAAGTCAAAACCATTA
1 AAAGGTAAAACTACGTCATTTTGATAAATGTTTACCC-AT-T-AAGGTAAAAGGCAAAACCATTA
37745290 AGTT
63 AGTT
* *
37745294 AAAGGTAAAATTATGTCATTTTGATAAATGTTTACCCATTAAGGTAAAAGGCAAAACCATTA
1 AAAGGTAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGGTAAAAGGCAAAACCATTA
37745356 TATTGTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
66 20 0.36
67 1 0.02
68 1 0.02
69 34 0.61
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (66 bp):
AAAGGTAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGGTAAAAGGCAAAACCATTAAGT
T
Found at i:37749245 original size:28 final size:28
Alignment explanation
Indices: 37749213--37749267 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
37749203 TTTTCGTTTA
* *
37749213 ATTTAGAGTTAAATTGATTTTTAATTTT
1 ATTTAAAGTTAAATTGATTTTAAATTTT
* *
37749241 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
37749268 AAATTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
ATTTAAAGTTAAATTGATTTTAAATTTT
Found at i:37749250 original size:6 final size:6
Alignment explanation
Indices: 37749241--37749345 Score: 70
Period size: 6 Copynumber: 17.2 Consensus size: 6
37749231 TTTTAATTTT
*
37749241 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* ** ** * * *
37749289 CTTTGG ATTTAA ATTTAA ATAAAA ATTAAA ACATTAA ATTTAA CATTAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA -ATTTAA
*
37749339 AATTAA A
1 ATTTAA A
37749346 GTCCATTTAC
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
5 8 0.10
6 54 0.70
7 9 0.12
8 6 0.08
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:37749262 original size:17 final size:16
Alignment explanation
Indices: 37749232--37749305 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
37749222 TAAATTGATT
*
37749232 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
37749248 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
37749265 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
**
37749279 TTTAAATTTACTTTGGA
1 TTTAAATTTA-TTTAAA
37749296 TTTAAATTTA
1 TTTAAATTTA
37749306 AATAAAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 11 0.22
17 27 0.53
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:37749327 original size:19 final size:19
Alignment explanation
Indices: 37749303--37749345 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37749293 GGATTTAAAT
37749303 TTAAA-TAAAAATTAAAACA
1 TTAAATTAAAAATTAAAA-A
* *
37749322 TTAAATTTAACATTAAAAA
1 TTAAATTAAAAATTAAAAA
37749341 TTAAA
1 TTAAA
37749346 GTCCATTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAATTAAAAATTAAAAA
Found at i:37750315 original size:16 final size:16
Alignment explanation
Indices: 37750294--37750324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37750284 CAAAATGTTT
*
37750294 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
37750310 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
37750325 GAAAAGTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:37751117 original size:162 final size:163
Alignment explanation
Indices: 37750937--37751276 Score: 495
Period size: 163 Copynumber: 2.1 Consensus size: 163
37750927 GCTTTTCAAT
* *
37750937 TTAGTCCTTTGACTGTTTGACTATACTA-GAGGCTGCCACGTGTCA-TTTTTTGGATTATTTTTG
1 TTAGTCCTTTGACTGTTTGACTATACCAGGA-GCTGCCACGTGTCACTTTTTTGGATTATTTATG
* * *
37751000 CATTTAGTCCCTGACATTTTTGATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTAT
65 CACTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTAC
* * * *
37751065 GAAATTTGCCCAAGAATTTTTCATGGTTTATAAA
130 GAAATTGGCCCAAGAATTTTTCAAGATTTACAAA
* *
37751099 TTAGTCCTTTGACTGTTTGACTGTACCAGGAGCTGCCACGTGTCACTTTTTTGGCTTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTATACCAGGAGCTGCCACGTGTCACTTTTTTGGATTATTTATGC
* *** *
37751164 ACTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
66 ACTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
*
37751229 AAATTGGCCCAAGAATTTTTCAAGATTTACAAC
131 AAATTGGCCCAAGAATTTTTCAAGATTTACAAA
*
37751262 TTAATCCTTTGACTG
1 TTAGTCCTTTGACTG
37751277 CTGGATGCCT
Statistics
Matches: 158, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 40 0.25
163 118 0.75
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (163 bp):
TTAGTCCTTTGACTGTTTGACTATACCAGGAGCTGCCACGTGTCACTTTTTTGGATTATTTATGC
ACTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
AAATTGGCCCAAGAATTTTTCAAGATTTACAAA
Found at i:37751396 original size:30 final size:30
Alignment explanation
Indices: 37751362--37751419 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
37751352 ATTACATTTC
*
37751362 GACCCCAAAAATTTTAGAAAATT-CCATTCT
1 GACCCCAAAAATTCTA-AAAATTGCCATTCT
* *
37751392 GACCCCGAAACTTCTAAAAATTGCCATT
1 GACCCCAAAAATTCTAAAAATTGCCATT
37751420 TTACCCCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (30 bp):
GACCCCAAAAATTCTAAAAATTGCCATTCT
Found at i:37751436 original size:30 final size:27
Alignment explanation
Indices: 37751379--37751635 Score: 131
Period size: 29 Copynumber: 8.7 Consensus size: 27
37751369 AAAATTTTAG
* *
37751379 AAAATTCCATTCTGACCCCGAAACTTCT
1 AAAATTCCATT-TTACCCCGAATCTTCT
37751407 AAAAATTGCCATTTTACCCCTGAATCTTCT
1 -AAAATT-CCATTTTACCCC-GAATCTTCT
* *
37751437 AAAATTCCATTTTTAACCCCG-ATTTTACCA
1 AAAATTCCA-TTTT-ACCCCGAATCTT--CT
37751467 AAAATTACCATTTTACCCCTGAATCTTCT
1 AAAATT-CCATTTTACCCC-GAATCTTCT
* ** *
37751496 AAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTCCA-TTTT-ACCCCGA-ATCTTCT
* ** *
37751526 AAAATTACCATTTTGCCCCTGGGT-ATCT
1 AAAATT-CCATTTTACCCC-GAATCTTCT
* * ** *
37751554 AAAAGTCCCATTTTTCACCCCGATTTCACCA
1 AAAA-TTCCA-TTTT-ACCCCGA-ATCTTCT
*
37751585 AAAATTACCATTTAACCCCTGAATCTTCT
1 AAAATT-CCATTTTACCCC-GAATCTTCT
37751614 AAAATTCCATTTTTAACCCCGA
1 AAAATTCCA-TTTT-ACCCCGA
37751636 TTTCATCGTT
Statistics
Matches: 177, Mismatches: 28, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
28 22 0.12
29 71 0.40
30 65 0.37
31 19 0.11
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCGAATCTTCT
Found at i:37751639 original size:59 final size:59
Alignment explanation
Indices: 37751407--37751640 Score: 362
Period size: 59 Copynumber: 4.0 Consensus size: 59
37751397 CGAAACTTCT
* *
37751407 AAAAATTGCCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
37751466 AAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * ** * * *
37751525 GAAAATTACCATTTTGCCCCTGGGT-ATCTAAAAGTCCCATTTTTCACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTGAATCTTCTAAAA-TTCCATTTTTAACCCCGATTTCACC
*
37751584 AAAAATTACCATTTAACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 AAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCA
37751641 TCGTTTATTA
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
58 7 0.04
59 142 0.91
60 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:37755592 original size:42 final size:43
Alignment explanation
Indices: 37755502--37755707 Score: 135
Period size: 42 Copynumber: 4.9 Consensus size: 43
37755492 ATTGGGCAAG
37755502 CCGAAGCAATTATACTGACACATGAGGTGCATCATCAGATGAA
1 CCGAAGCAATTATACTGACACATGAGGTGCATCATCAGATGAA
37755545 CCGAAGCAATTATACT-AGCACAAT-A-GTGCATCATC-GAAT-AA
1 CCGAAGCAATTATACTGA-CAC-ATGAGGTGCATCATCAG-ATGAA
* * * * * ** *
37755586 GTCGAAGCAATCAT-GTCGACACGT-AAGTGCATCATTGGATGTA
1 -CCGAAGCAATTATACT-GACACATGAGGTGCATCATCAGATGAA
* * * * *
37755629 CCGAAACAAATATACTAACACGT-AAGTGCATCATCAGAT-ATA
1 CCGAAGCAATTATACTGACACATGAGGTGCATCATCAGATGA-A
* * * *
37755671 CTGAAGCAATTATAATGGCACAT-AAGTGCATCATCAG
1 CCGAAGCAATTATACTGACACATGAGGTGCATCATCAG
37755708 CTAAACGAAG
Statistics
Matches: 130, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
41 6 0.05
42 98 0.75
43 24 0.18
44 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (43 bp):
CCGAAGCAATTATACTGACACATGAGGTGCATCATCAGATGAA
Found at i:37755697 original size:84 final size:84
Alignment explanation
Indices: 37755503--37755707 Score: 211
Period size: 84 Copynumber: 2.4 Consensus size: 84
37755493 TTGGGCAAGC
* * * * *
37755503 CGAAGCAATTATACTGACACATGAGGTGCATCATCAGATGAACCGAAGCAATTATACTAGCACAA
1 CGAAGCAATTATAATGACACAT-AAGTGCATCATCAGATGAACCGAAACAAATATACTAACACAA
*
37755568 TAGTGCATCATCGAATAAGT
65 TAGTGCATCATCGAATAACT
* * * ** * *
37755588 CGAAGCAATCAT-GTCGACACGTAAGTGCATCATTGGATGTACCGAAACAAATATACTAACAC-G
1 CGAAGCAATTATAAT-GACACATAAGTGCATCATCAGATGAACCGAAACAAATATACTAACACAA
37755651 TAAGTGCATCATC-AGATATACT
65 T-AGTGCATCATCGA-ATA-ACT
*
37755673 -GAAGCAATTATAATGGCACATAAGTGCATCATCAG
1 CGAAGCAATTATAATGACACATAAGTGCATCATCAG
37755708 CTAAACGAAG
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
83 2 0.02
84 75 0.77
85 20 0.21
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (84 bp):
CGAAGCAATTATAATGACACATAAGTGCATCATCAGATGAACCGAAACAAATATACTAACACAAT
AGTGCATCATCGAATAACT
Found at i:37768094 original size:29 final size:30
Alignment explanation
Indices: 37768039--37768097 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
37768029 ATCTCAAAAT
*
37768039 TATACATGAACTTTAATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-AGGTGCAATTG
*
37768070 TATACATGAATTTTAATTT-GGTGCAATT
1 TATACATGAACTTTAATTTAGGTGCAATT
37768098 ATACACGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTG
Found at i:37768108 original size:29 final size:29
Alignment explanation
Indices: 37768036--37768108 Score: 71
Period size: 31 Copynumber: 2.5 Consensus size: 29
37768026 TAAATCTCAA
*
37768036 AATTATACA-TGAACTTTAATTTAATGTGC
1 AATTATACACTGAACTTTAATTT-AGGTGC
*
37768065 AATTGTATACA-TGAATTTTAATTT-GGTGC
1 AA-T-TATACACTGAACTTTAATTTAGGTGC
37768094 AATTATACACGTGAA
1 AATTATACAC-TGAA
37768109 ACTCTGATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 6 0.16
28 1 0.03
29 12 0.32
30 1 0.03
31 18 0.47
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (29 bp):
AATTATACACTGAACTTTAATTTAGGTGC
Found at i:37768316 original size:30 final size:29
Alignment explanation
Indices: 37768282--37768344 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
37768272 AATTTACAAG
37768282 AATTGAATC-AAATCAAAATTTCATGTATAC
1 AATTGAA-CAAAATCAAAATTTC-TGTATAC
* *
37768312 AATTGCACAAAATCAAAGTTTCTGTATAC
1 AATTGAACAAAATCAAAATTTCTGTATAC
37768341 AATT
1 AATT
37768345 TCACATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.33
Consensus pattern (29 bp):
AATTGAACAAAATCAAAATTTCTGTATAC
Found at i:37768338 original size:29 final size:30
Alignment explanation
Indices: 37768291--37768349 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
37768281 GAATTGAATC
37768291 AAATCAAAATTTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
* *
37768321 AAATCAAAGTTTC-TGTATACAATTTCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
37768350 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATACAATTGCACA
Found at i:37768874 original size:13 final size:13
Alignment explanation
Indices: 37768856--37768880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37768846 GCTCGCCCCT
37768856 ATTATTTTTTTAG
1 ATTATTTTTTTAG
37768869 ATTATTTTTTTA
1 ATTATTTTTTTA
37768881 TAAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTTAG
Found at i:37769758 original size:39 final size:39
Alignment explanation
Indices: 37769693--37769790 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
37769683 GTGTGCATGT
* * * * *
37769693 ACTCAACTTTGTAATCAAATAT-TAAAATTATTATTGGAA
1 ACTCAATTTTGAAACCAAAT-TCTAAAATTACTATTGAAA
* * *
37769732 ACTCAATTTTGAAACTAAATTCTAAAATTCCTATTTAAA
1 ACTCAATTTTGAAACCAAATTCTAAAATTACTATTGAAA
*
37769771 ACTCAATTTTGTAACCAAAT
1 ACTCAATTTTGAAACCAAAT
37769791 ACTTTGTAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (39 bp):
ACTCAATTTTGAAACCAAATTCTAAAATTACTATTGAAA
Found at i:37770051 original size:14 final size:14
Alignment explanation
Indices: 37770032--37770063 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37770022 GAGAATAAAT
37770032 ATTTAATTAATTAA
1 ATTTAATTAATTAA
37770046 ATTTAATTAATTAA
1 ATTTAATTAATTAA
37770060 ATTT
1 ATTT
37770064 TTTAAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTAATTAATTAA
Found at i:37778121 original size:28 final size:28
Alignment explanation
Indices: 37778081--37778134 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
37778071 ATGGTTTTGG
*
37778081 AAAAACTAATTTTGACAAGATGAGTTCT
1 AAAAAATAATTTTGACAAGATGAGTTCT
**
37778109 AAAAAATAATTTTGATGAGATGAGTT
1 AAAAAATAATTTTGACAAGATGAGTT
37778135 TTGTTTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (28 bp):
AAAAAATAATTTTGACAAGATGAGTTCT
Found at i:37778274 original size:27 final size:27
Alignment explanation
Indices: 37778222--37778274 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
37778212 TTTTAGTACT
* * *
37778222 GATGCTTCTGAAAAATAAATTTGAGAA
1 GATGATTCTGAAAAATAAACTCGAGAA
37778249 GATGATTCTGAAAAA-ATAACTCGAGA
1 GATGATTCTGAAAAATA-AACTCGAGA
37778275 TTCTCGAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (27 bp):
GATGATTCTGAAAAATAAACTCGAGAA
Found at i:37778604 original size:25 final size:25
Alignment explanation
Indices: 37778556--37778605 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37778546 AAGTTGCAAC
* *
37778556 AATAGAAATTGAAGAAATTTAGAAG
1 AATAAAAATTGAAGAAATTGAGAAG
37778581 AATAAAAATTGAA-AAAGTTGAGAAG
1 AATAAAAATTGAAGAAA-TTGAGAAG
37778606 GTATAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (25 bp):
AATAAAAATTGAAGAAATTGAGAAG
Found at i:37782463 original size:16 final size:16
Alignment explanation
Indices: 37782442--37782473 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37782432 AGTAATTTTT
*
37782442 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
37782458 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
37782474 TTTGTAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:37783280 original size:120 final size:120
Alignment explanation
Indices: 37783122--37783354 Score: 331
Period size: 120 Copynumber: 1.9 Consensus size: 120
37783112 ACAGATACCG
** * * * *
37783122 TATCGATTTCTGGGGTATCACATATGTTGCGAGACCTCGATAGCTCGTGTGAGCAGCATTGTATA
1 TATCGATGGCTGGGGTACCACATATGTTGCGAGACCTCGACAACTCGTGTGAGCAGCATCGTATA
* * * *
37783187 CTGGTGACAGAGTTGATACAGACATGAGAATGAAATTCTAGATTATAGCATATCA
66 CTGGTAACAAAGTTGAAACAGACATGAGAATGAAAATCTAGATTATAGCATATCA
* *
37783242 TATCGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCGTATA
1 TATCGATGGCTGGGGTACCACATATGTTGCGAGACCTCGACAACTCGTGTGAGCAGCATCGTATA
* * *
37783307 TTGGTAACAAAGTTGAAACAGACATGAGGATGAAAATCTGGATTATAG
66 CTGGTAACAAAGTTGAAACAGACATGAGAATGAAAATCTAGATTATAG
37783355 TTTGTGGAAG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (120 bp):
TATCGATGGCTGGGGTACCACATATGTTGCGAGACCTCGACAACTCGTGTGAGCAGCATCGTATA
CTGGTAACAAAGTTGAAACAGACATGAGAATGAAAATCTAGATTATAGCATATCA
Found at i:37784302 original size:33 final size:30
Alignment explanation
Indices: 37784243--37784303 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 30
37784233 TCTAAATAGA
37784243 TTGTGTTGTTATTTAAGTTTATAATTATTT
1 TTGTGTTGTTATTTAAGTTTATAATTATTT
37784273 TTGTGTATGTTATATTAA-TTTAGTTAATTAT
1 TTGTGT-TGTTAT-TTAAGTTTA--TAATTAT
37784304 ATTAATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 6 0.22
31 10 0.37
32 4 0.15
33 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTGTTGTTATTTAAGTTTATAATTATTT
Found at i:37785194 original size:43 final size:43
Alignment explanation
Indices: 37785081--37785283 Score: 255
Period size: 43 Copynumber: 4.7 Consensus size: 43
37785071 CAAATCTTTC
* * * *
37785081 TTTAAACATAATCTCATGTTCATCTCGAGTCACGAGTCTTCC-
1 TTTAAACATAACCTCATGCTCATCCCGAGACACGAGTCTTCCT
** * * * *
37785123 TTTAAACATAATATCATACTCTTTCCGAGTCACGAGTCTTCCT
1 TTTAAACATAACCTCATGCTCATCCCGAGACACGAGTCTTCCT
*
37785166 TTTAAACATAACCTCATGCTCATCCCGAGACATGAGTCTTCCT
1 TTTAAACATAACCTCATGCTCATCCCGAGACACGAGTCTTCCT
** **
37785209 TTTAAACATAACCTCATGCTCATCTTGAGACATAAGTCTTCCT
1 TTTAAACATAACCTCATGCTCATCCCGAGACACGAGTCTTCCT
*
37785252 TTTAAACATAACATCATGCTCATCCCGAGACA
1 TTTAAACATAACCTCATGCTCATCCCGAGACA
37785284 TGACCTTCCA
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
42 36 0.26
43 105 0.74
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (43 bp):
TTTAAACATAACCTCATGCTCATCCCGAGACACGAGTCTTCCT
Found at i:37786121 original size:20 final size:19
Alignment explanation
Indices: 37786077--37786121 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
37786067 ATCATTAAGC
*
37786077 TTAATTAACCTATTTTACC
1 TTAATTAACCTATTTTACA
37786096 TTAATTAATCCTA-TTTACA
1 TTAATTAA-CCTATTTTACA
37786115 TTCAATT
1 TT-AATT
37786122 CATCTCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATTAACCTATTTTACA
Found at i:37787633 original size:59 final size:59
Alignment explanation
Indices: 37787561--37787757 Score: 306
Period size: 59 Copynumber: 3.3 Consensus size: 59
37787551 CAAAAATCAC
* * *
37787561 AATGTGCAGAAAAAGATCCAAAAGAACTTCTATTTTATTAAATGATAGAATATAAAAAG
1 AATGTGTACAAAAAGATTCAAAAGAACTTCTATTTTATTAAATGATAGAATATAAAAAG
37787620 AATGTGTACAAAAAGATTCAAAAGAACTTCTATTTTATTAAATGATAGAATATAAAAAG
1 AATGTGTACAAAAAGATTCAAAAGAACTTCTATTTTATTAAATGATAGAATATAAAAAG
* * * *
37787679 AATGTGTACAAAAATATTTAAAAGAACATT-TATTTTATTAAATAATACAATATAAAAAG
1 AATGTGTACAAAAAGATTCAAAAGAAC-TTCTATTTTATTAAATGATAGAATATAAAAAG
*
37787738 AATGTGTACAAAAATATTCA
1 AATGTGTACAAAAAGATTCA
37787758 TCAATGCATA
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
59 127 0.98
60 2 0.02
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (59 bp):
AATGTGTACAAAAAGATTCAAAAGAACTTCTATTTTATTAAATGATAGAATATAAAAAG
Found at i:37789831 original size:17 final size:18
Alignment explanation
Indices: 37789800--37789834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37789790 AATAAAAATA
*
37789800 ATAAAAAGTATAATTTAG
1 ATAAAAAGTAAAATTTAG
37789818 ATAAAAA-TAAAATTTAG
1 ATAAAAAGTAAAATTTAG
37789835 GAAACTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAAAAAGTAAAATTTAG
Found at i:37791486 original size:78 final size:78
Alignment explanation
Indices: 37791387--37791536 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
37791377 TTAATCTTGG
* * * *
37791387 TGTACTCAACTTTCTAACCAAATACTAAAACTCCTATTGGAAA-CTCAATTTTGTAACCAAAAAC
1 TGTACTCAAATTTCTAACCAAATACTAAAACTCCTATTGCAAACCT-AAATTTGCAACCAAAAAC
37791451 TTTGTAATCGTGCA
65 TTTGTAATCGTGCA
* * * * *
37791465 TGTACTCAAATTTGTAACCAAATACTATAATTCTTATTGCAAACCTAAATTTGCAACCAAATACT
1 TGTACTCAAATTTCTAACCAAATACTAAAACTCCTATTGCAAACCTAAATTTGCAACCAAAAACT
37791530 TTGTAAT
66 TTGTAAT
37791537 TGTGTGTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 60 0.97
79 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (78 bp):
TGTACTCAAATTTCTAACCAAATACTAAAACTCCTATTGCAAACCTAAATTTGCAACCAAAAACT
TTGTAATCGTGCA
Found at i:37791729 original size:17 final size:18
Alignment explanation
Indices: 37791707--37791741 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37791697 ATGCCAAAAA
*
37791707 ATGA-TTTTGTAATTTTT
1 ATGATTTTTATAATTTTT
37791724 ATGATTTTTATAATTTTT
1 ATGATTTTTATAATTTTT
37791742 TATTTCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
ATGATTTTTATAATTTTT
Found at i:37797712 original size:10 final size:9
Alignment explanation
Indices: 37797697--37797796 Score: 56
Period size: 9 Copynumber: 10.7 Consensus size: 9
37797687 ATATATATAA
*
37797697 ATAAAAGTT
1 ATAAAAATT
37797706 ATAAAAATT
1 ATAAAAATT
**
37797715 ATTAAATTTT
1 A-TAAAAATT
*
37797725 AATAAAAAAT
1 -ATAAAAATT
*
37797735 ATTAAAATT
1 ATAAAAATT
** *
37797744 CGAAAAAAT
1 ATAAAAATT
37797753 ATAAAAACTT
1 ATAAAAA-TT
* *
37797763 GTAAAATTTT
1 ATAAAA-ATT
*
37797773 ATAAAAATC
1 ATAAAAATT
*
37797782 ATAAAAAAT
1 ATAAAAATT
37797791 ATAAAA
1 ATAAAA
37797797 TGCATCAAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
9 40 0.62
10 24 0.37
11 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37798130 original size:19 final size:19
Alignment explanation
Indices: 37798071--37798151 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
37798061 TTTCTATATA
*
37798071 TTTTATATTTTTTTACGAT
1 TTTTATAATTTTTTACGAT
* **
37798090 TTGTATAAAATTTTAC-ACT
1 TTTTATAATTTTTTACGA-T
37798109 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
* *
37798128 TTTAATAATTTTTTA-TAT
1 TTTTATAATTTTTTACGAT
37798146 TTTTAT
1 TTTTAT
37798152 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.16
19 41 0.82
20 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:37798142 original size:38 final size:37
Alignment explanation
Indices: 37798071--37798151 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 37
37798061 TTTCTATATA
*
37798071 TTTTATATTTTTTTACGATTTGTATAAAATTTTACACT
1 TTTTATAATTTTTTACGATTTGTATAAAATTTTACA-T
** *
37798109 TTTTATAATTTTTTACGATTT-TAATAATTTTTTATAT
1 TTTTATAATTTTTTACGATTTGT-ATAAAATTTTACAT
37798146 TTTTAT
1 TTTTAT
37798152 TAAAATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.21
38 30 0.79
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (37 bp):
TTTTATAATTTTTTACGATTTGTATAAAATTTTACAT
Found at i:37798394 original size:59 final size:59
Alignment explanation
Indices: 37798296--37798410 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
37798286 TTGCTTTTTT
***
37798296 AAAAAAGTTTAAGAGTCTTTTTAATACATTTTTGTAGTTCAAGTACCCAATTGAGTCCA
1 AAAAAAGTTTAAGAGTCTTTTTAATACATTTTAAAAGTTCAAGTACCCAATTGAGTCCA
* * * **
37798355 AAAAAAGTTTAATGA-TCTTTTTGATGCATTTTAAAAGTTCGAGTACTTAATTGAGT
1 AAAAAAGTTTAA-GAGTCTTTTTAATACATTTTAAAAGTTCAAGTACCCAATTGAGT
37798411 GTAATAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 45 0.96
60 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (59 bp):
AAAAAAGTTTAAGAGTCTTTTTAATACATTTTAAAAGTTCAAGTACCCAATTGAGTCCA
Found at i:37798568 original size:26 final size:26
Alignment explanation
Indices: 37798521--37798571 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
37798511 CCAAAACGGG
*
37798521 TTTTGAAGCCCAAACCATAAATAAAT
1 TTTTGAAACCCAAACCATAAATAAAT
37798547 TTTTGAAACCCTAAACCA-AAATAAA
1 TTTTGAAACCC-AAACCATAAATAAA
37798572 ACAATACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (26 bp):
TTTTGAAACCCAAACCATAAATAAAT
Found at i:37806435 original size:4 final size:4
Alignment explanation
Indices: 37806426--37806456 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
37806416 TTGATTTATA
37806426 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
37806457 ATGGCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:37808051 original size:21 final size:22
Alignment explanation
Indices: 37808025--37808065 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37808015 CTGTCGGCTA
37808025 TGTCGCGACATGGA-TCCTGAG
1 TGTCGCGACATGGACTCCTGAG
*
37808046 TGTCGCGACATTGACTCCTG
1 TGTCGCGACATGGACTCCTG
37808066 GACATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTCGCGACATGGACTCCTGAG
Found at i:37809678 original size:161 final size:161
Alignment explanation
Indices: 37809413--37809736 Score: 468
Period size: 161 Copynumber: 2.0 Consensus size: 161
37809403 GACCTTTTGG
* * * *
37809413 ATACAGTGAGTGACGTTGTGACATCAGGCCCTTCATATCGCGATGAGGAATCGATAGTGGGTTAC
1 ATACAGTGAGTGACGTTGTGACATCAGGCCCTTCACATCGCAATGAAGAATCGATAGTGAGTTAC
* * * * * * *
37809478 GTTATGACGTGAAATCCCCGAAGTCGTGATGTCAACTTGATAAATTGAAATTTTTTCATTTTAAT
66 GTCATGACCTGAAACCCCCAAAATCGTGATGTCAACTTGATAAATTAAAATTTTTACATTTTAAT
* **
37809543 CCTTATTCGATCTTGAGTTATTAAAAGAGTT
131 CCTTATTCAATCCCGAGTTATTAAAAGAGTT
* * *
37809574 ATACAGTGAGTGACGTTGTGACGTCAGGCCCTTCACGTCGCAATGAAGAATCGATAGTGAGTTGC
1 ATACAGTGAGTGACGTTGTGACATCAGGCCCTTCACATCGCAATGAAGAATCGATAGTGAGTTAC
** *
37809639 GTCATGACCTGAAACCCCCAAAATCGTGATGTCAACTTGATAGTTTAAAATTTTTACATTTTAGT
66 GTCATGACCTGAAACCCCCAAAATCGTGATGTCAACTTGATAAATTAAAATTTTTACATTTTAAT
37809704 CCTTATTCAATCCCGAGTTATTAAAAGAGTT
131 CCTTATTCAATCCCGAGTTATTAAAAGAGTT
37809735 AT
1 AT
37809737 CTTAAGCTCG
Statistics
Matches: 143, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
161 143 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (161 bp):
ATACAGTGAGTGACGTTGTGACATCAGGCCCTTCACATCGCAATGAAGAATCGATAGTGAGTTAC
GTCATGACCTGAAACCCCCAAAATCGTGATGTCAACTTGATAAATTAAAATTTTTACATTTTAAT
CCTTATTCAATCCCGAGTTATTAAAAGAGTT
Found at i:37810001 original size:55 final size:55
Alignment explanation
Indices: 37809922--37810030 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
37809912 ATATATCATG
37809922 ATCAAGTTTATAGTAATAAAGTAAAAATTCTAAACCAAAAAACTTGATATCTTTA
1 ATCAAGTTTATAGTAATAAAGTAAAAATTCTAAACCAAAAAACTTGATATCTTTA
* * *
37809977 ATCAGGTTTATAGTAATAATGTAAAAATTTTAAACCAAAAAACTTGATATCTTT
1 ATCAAGTTTATAGTAATAAAGTAAAAATTCTAAACCAAAAAACTTGATATCTTT
37810031 GCGTGTCGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (55 bp):
ATCAAGTTTATAGTAATAAAGTAAAAATTCTAAACCAAAAAACTTGATATCTTTA
Found at i:37811830 original size:19 final size:20
Alignment explanation
Indices: 37811806--37811844 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37811796 TCATCACACA
*
37811806 TATTTTTTGAA-TTCTTTTT
1 TATTTTATGAACTTCTTTTT
37811825 TATTTTATGAACTTCTTTTT
1 TATTTTATGAACTTCTTTTT
37811845 AAAGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (20 bp):
TATTTTATGAACTTCTTTTT
Found at i:37818968 original size:20 final size:21
Alignment explanation
Indices: 37818932--37818981 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
37818922 ATTGGCATGG
*
37818932 TTTATATTAAGTGTAAATA-GA
1 TTTA-ATTAAGTGTAAAAATGA
37818953 TTTAATTAAGAT-TAAAAATGA
1 TTTAATTAAG-TGTAAAAATGA
37818974 -TTAATTAA
1 TTTAATTAA
37818982 AGCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTAATTAAGTGTAAAAATGA
Found at i:37819022 original size:20 final size:20
Alignment explanation
Indices: 37818993--37819039 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37818983 GCTTAATGAT
37818993 AAAA-GTCTCAATAATTACA
1 AAAATGTCTCAATAATTACA
37819012 AAAATGTCTCAATAATTACA
1 AAAATGTCTCAATAATTACA
37819032 AAAATGTC
1 AAAATGTC
37819040 ATTACTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAATGTCTCAATAATTACA
Found at i:37820788 original size:32 final size:32
Alignment explanation
Indices: 37820752--37820816 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
37820742 TCAGTAATAT
37820752 GTAAGCTTATATCGGTAGAAGTTACAAGGTGA
1 GTAAGCTTATATCGGTAGAAGTTACAAGGTGA
* *
37820784 GTAAGCTTATATCGGTAGAAGTTATAGGGTGA
1 GTAAGCTTATATCGGTAGAAGTTACAAGGTGA
37820816 G
1 G
37820817 GATTTTTGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (32 bp):
GTAAGCTTATATCGGTAGAAGTTACAAGGTGA
Found at i:37820884 original size:21 final size:21
Alignment explanation
Indices: 37820860--37820912 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
37820850 GTTGCATGAT
37820860 TTGTATTGGTAAAAACCATAC
1 TTGTATTGGTAAAAACCATAC
37820881 TTGTATTGGTAAAAACCATAC
1 TTGTATTGGTAAAAACCATAC
*
37820902 TTGTATCGGTA
1 TTGTATTGGTA
37820913 GAACTAGCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (21 bp):
TTGTATTGGTAAAAACCATAC
Found at i:37830807 original size:33 final size:33
Alignment explanation
Indices: 37830768--37830832 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
37830758 TATCAGTGGG
*
37830768 GTATGGTTCAGATTGTATTCCATTGTAGGCTAT
1 GTATGGTTCAGATAGTATTCCATTGTAGGCTAT
*
37830801 GTATGGTTTAGATAGTATTCCATTGTAGGCTA
1 GTATGGTTCAGATAGTATTCCATTGTAGGCTA
37830833 GATTCTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (33 bp):
GTATGGTTCAGATAGTATTCCATTGTAGGCTAT
Found at i:37833095 original size:32 final size:32
Alignment explanation
Indices: 37833059--37833123 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37833049 TCCAAGGGTT
37833059 TGGGTTTAAGGAGGTGTAAATCCATCCTAATC
1 TGGGTTTAAGGAGGTGTAAATCCATCCTAATC
37833091 TGGGTTTAAGGAGGTGTAAATCCATCCTAATC
1 TGGGTTTAAGGAGGTGTAAATCCATCCTAATC
37833123 T
1 T
37833124 TTCTCTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (32 bp):
TGGGTTTAAGGAGGTGTAAATCCATCCTAATC
Found at i:37839577 original size:98 final size:97
Alignment explanation
Indices: 37839391--37839567 Score: 239
Period size: 98 Copynumber: 1.8 Consensus size: 97
37839381 AATAATTTTC
* * * * * *
37839391 ATTAATAAATTTTTTTATGTTAATGATAATAAAAGTAATTAATATTTTCTTTTATTAAAAAAGTA
1 ATTAATAAATTTTTTAATGCTAATGATAATAAAAATAATTAAGATTTTCTTTGAATAAAAAAGTA
*
37839456 AGATACATAATTATTGTTCAAAAAATTAAATA
66 AGATAAATAATTATTGTTCAAAAAATTAAATA
*
37839488 ATTAATAAATATTTTTAATGCTAATGATAATAAAAATAATTAAGATTTTCTTTGAATAGGAAAA-
1 ATTAATAAAT-TTTTTAATGCTAATGATAATAAAAATAATTAAGATTTTCTTTGAATA-AAAAAG
*
37839552 TAATATTAAATAATTA
64 TAAGA-TAAATAATTA
37839568 ATTTTAAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 10 0.15
98 45 0.66
99 13 0.19
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (97 bp):
ATTAATAAATTTTTTAATGCTAATGATAATAAAAATAATTAAGATTTTCTTTGAATAAAAAAGTA
AGATAAATAATTATTGTTCAAAAAATTAAATA
Found at i:37853842 original size:10 final size:11
Alignment explanation
Indices: 37853815--37853855 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
37853805 AAAAAGGAAA
37853815 AAGAAAATGAG
1 AAGAAAATGAG
37853826 AAGAAAATGAG
1 AAGAAAATGAG
*
37853837 -AGAAAATGAA
1 AAGAAAATGAG
37853847 AACGAAAAT
1 AA-GAAAAT
37853856 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 12 0.44
12 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.10
Consensus pattern (11 bp):
AAGAAAATGAG
Found at i:37861625 original size:49 final size:49
Alignment explanation
Indices: 37861563--37861660 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
37861553 AATATCTATA
* *
37861563 TTTAATGTCTTAATTCAACTCATATTTGCACATAGCCATTTCACATAAC
1 TTTAATGTCTTAATTCAACACATATTTGCACATAACCATTTCACATAAC
*
37861612 TTTATTGTCTTAATTCAACACATATTTGCACATAACCATTTCACATAAC
1 TTTAATGTCTTAATTCAACACATATTTGCACATAACCATTTCACATAAC
37861661 CATTACATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (49 bp):
TTTAATGTCTTAATTCAACACATATTTGCACATAACCATTTCACATAAC
Found at i:37861658 original size:13 final size:14
Alignment explanation
Indices: 37861635--37861664 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37861625 TTCAACACAT
37861635 ATTTGCACATAACC
1 ATTTGCACATAACC
37861649 ATTT-CACATAACC
1 ATTTGCACATAACC
37861662 ATT
1 ATT
37861665 ACATAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (14 bp):
ATTTGCACATAACC
Found at i:37862262 original size:19 final size:18
Alignment explanation
Indices: 37862224--37862258 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37862214 TTTATTTGTT
37862224 TTATTAATTTACAATTTA
1 TTATTAATTTACAATTTA
37862242 TTATTAAATTTA-AATTT
1 TTATT-AATTTACAATTT
37862259 TATTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTAATTTACAATTTA
Found at i:37863686 original size:71 final size:71
Alignment explanation
Indices: 37863570--37863726 Score: 244
Period size: 71 Copynumber: 2.2 Consensus size: 71
37863560 ATACCTGCCT
* *
37863570 GACTTCTACCGATACAACCATGACTTATACTGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTG
1 GACTTCTACCGATACAACCATGACTTATACCGGTAGAACAAACTCCAGAGAGAAAAGAAGTTGTG
37863635 G-TCTGG
66 GCT-TGG
* * *
37863641 GACTTCTATCGATACAACCATGACTTCTACCGGTAGAACAAACTCCAGAGAGAAAATAAGTTGTG
1 GACTTCTACCGATACAACCATGACTTATACCGGTAGAACAAACTCCAGAGAGAAAAGAAGTTGTG
37863706 GCTTGG
66 GCTTGG
*
37863712 GACTTCTACTGATAC
1 GACTTCTACCGATAC
37863727 CTTGAAGGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 77 0.99
72 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (71 bp):
GACTTCTACCGATACAACCATGACTTATACCGGTAGAACAAACTCCAGAGAGAAAAGAAGTTGTG
GCTTGG
Found at i:37865852 original size:102 final size:102
Alignment explanation
Indices: 37865703--37865900 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
37865693 GTGGTGTGTG
* * *
37865703 AGCCCAGCTCTAGTTGGATTATCCAACGATTTGCGCCCAACGGTAGTCGGATAAA-TCAACGATT
1 AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAACGCTAGTCAGATAAACT-AACGATT
*
37865767 ATGGCATCCAGTGCCTAGCCGATAAACCGCGATATGTA
65 ATGGCACCCAGTGCCTAGCCGATAAACCGCGATATGTA
* * * * * *
37865805 AGCCCAGCTCTGGTTGGATTAACCAACGTTTTGTGTCCAGCGCTAGTCAGATAAACTAACGGTTA
1 AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAACGCTAGTCAGATAAACTAACGATTA
*
37865870 TGGCACCCAGTGCCTAGCGGATAAACCGCGA
66 TGGCACCCAGTGCCTAGCCGATAAACCGCGA
37865901 GAATGAGCCC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 83 0.99
103 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (102 bp):
AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAACGCTAGTCAGATAAACTAACGATTA
TGGCACCCAGTGCCTAGCCGATAAACCGCGATATGTA
Found at i:37866341 original size:102 final size:102
Alignment explanation
Indices: 37866203--37866502 Score: 433
Period size: 102 Copynumber: 2.9 Consensus size: 102
37866193 GCGGTGTGTG
* * * * *
37866203 AGCCCAGCTCTAGTTGGATTATCCAACAATTTGCGCCCAACGGTAGTCGGATAAA-TCGACAGTT
1 AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAGCGCTAGTCAGATAAACT-GACAGTT
*
37866267 ATGGCATCCAGTGCCTAGCCGATAAACCGCGATATGTA
65 ATGGCACCCAGTGCCTAGCCGATAAACCGCGATATGTA
* * *
37866305 AGCCCAGCTCTGGTTGGATTAACCAACGGTTTGCGCCCAGCGCTAGTCAGATAAACTGACGGTTA
1 AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAGCGCTAGTCAGATAAACTGACAGTTA
* *
37866370 TGGTACCCAGTGCCTAGCGGATAAACCGCGATATGTA
66 TGGCACCCAGTGCCTAGCCGATAAACCGCGATATGTA
* * * *
37866407 AGCCCAGCTCTAGTTGGATTAACCAACGTTTTGTGTCCAGCGCTAGTCAGATAAACTAACAGTTA
1 AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAGCGCTAGTCAGATAAACTGACAGTTA
37866472 TGGCACCCAGTGCCTAG-CGTATAAACCGCGA
66 TGGCACCCAGTGCCTAGCCG-ATAAACCGCGA
37866503 GAATGAGCCC
Statistics
Matches: 177, Mismatches: 19, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 175 0.99
103 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (102 bp):
AGCCCAGCTCTAGTTGGATTAACCAACGATTTGCGCCCAGCGCTAGTCAGATAAACTGACAGTTA
TGGCACCCAGTGCCTAGCCGATAAACCGCGATATGTA
Found at i:37867073 original size:132 final size:132
Alignment explanation
Indices: 37866836--37867204 Score: 639
Period size: 132 Copynumber: 2.8 Consensus size: 132
37866826 TTCTTGCTCT
* *
37866836 ATATATATAACAATTCAAATATTTCATTAATCCTTTGTATTCAACTCGTTTCAACAATCCAAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
** *
37866901 GTTCAATATAATTCACACGGCAAAAAGCATTTATTTATTTATTTCCAGCCACCAAATATGCATAT
66 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTTATTTCCAACCACCAAATATGCATAT
37866966 CA
131 CA
* *
37866968 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCTACTCATTTCAACAATCCGAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
*
37867033 GTTCAATATAATTCGCATAGCAAAAAGCATTTATTTATTTATTTCCAACCACCAAATATGCATAT
66 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTTATTTCCAACCACCAAATATGCATAT
*
37867098 TA
131 CA
* *
37867100 ATTTATATAAAAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
37867165 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTT
66 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTT
37867205 TTGTTAATGA
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 223 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (132 bp):
ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTTATTTCCAACCACCAAATATGCATAT
CA
Found at i:37884894 original size:27 final size:28
Alignment explanation
Indices: 37884864--37884917 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
37884854 CCCAATTTTG
*
37884864 AAATT-AAGCAAATTAGTCCCTCTCAAA
1 AAATTGAAGCAAATTAATCCCTCTCAAA
* *
37884891 AAATTGGAGCAAATTAATCCCTGTCAA
1 AAATTGAAGCAAATTAATCCCTCTCAA
37884918 TTTTGAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (28 bp):
AAATTGAAGCAAATTAATCCCTCTCAAA
Found at i:37886532 original size:24 final size:22
Alignment explanation
Indices: 37886505--37886551 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
37886495 ATTACTCTAC
*
37886505 TTTTAAAATGTTTAAAATTATATT
1 TTTTAAAATGTCT--AATTATATT
*
37886529 TTTTAAACTGTCTAATTATATT
1 TTTTAAAATGTCTAATTATATT
37886551 T
1 T
37886552 GGTATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (22 bp):
TTTTAAAATGTCTAATTATATT
Found at i:37889961 original size:16 final size:16
Alignment explanation
Indices: 37889940--37889971 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37889930 GCGTTATCAA
37889940 AGGATTAAGAAAGTAT
1 AGGATTAAGAAAGTAT
*
37889956 AGGATTAAGGAAGTAT
1 AGGATTAAGAAAGTAT
37889972 GAACAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (16 bp):
AGGATTAAGAAAGTAT
Found at i:37903523 original size:11 final size:12
Alignment explanation
Indices: 37903505--37903538 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
37903495 AAAATTATTA
37903505 ATATTTATTTAT
1 ATATTTATTTAT
37903517 A-ATTTATTTAT
1 ATATTTATTTAT
*
37903528 ATTTTTATTTA
1 ATATTTATTTA
37903539 ATTTAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTTATTTAT
Found at i:37911407 original size:15 final size:14
Alignment explanation
Indices: 37911387--37911425 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
37911377 TAATTAACAT
*
37911387 TATTATTTATATTTA
1 TATTATTT-TATTAA
37911402 TATTATTTTATTAA
1 TATTATTTTATTAA
37911416 TAATTATTTT
1 T-ATTATTTT
37911426 TAAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTTTATTAA
Found at i:37912887 original size:25 final size:25
Alignment explanation
Indices: 37912787--37912905 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 25
37912777 ACAAATTTCA
* *
37912787 TGGAAAGCCTTTGTGGTGAGTTCTC
1 TGGAAAGCCTTTGTGGCGAATTCTC
* * * * *
37912812 TAGAAAACATTTGTGGCAAATTCTT
1 TGGAAAGCCTTTGTGGCGAATTCTC
* * * *
37912837 TGAAAAGCTTTTGTGGTGAATCCTC
1 TGGAAAGCCTTTGTGGCGAATTCTC
* *
37912862 TGGAAAGCCTTTGTGGCCAACTCTC
1 TGGAAAGCCTTTGTGGCGAATTCTC
**
37912887 TTTAGAAGCCTTTGTGGCG
1 TGGA-AAGCCTTTGTGGCG
37912906 TGTTACCTTG
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
25 56 0.81
26 13 0.19
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (25 bp):
TGGAAAGCCTTTGTGGCGAATTCTC
Found at i:37918092 original size:41 final size:41
Alignment explanation
Indices: 37918035--37918291 Score: 322
Period size: 41 Copynumber: 6.3 Consensus size: 41
37918025 AGCGGCACTT
*
37918035 TTAGCGGCGCTTATAGAAAAGCGCCACTAAAGGTCGGGTCA
1 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCGGGTCA
**
37918076 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAAATCGGGTCA
1 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCGGGTCA
**
37918117 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCTTGTCA
1 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCGGGTCA
**
37918158 TTAGCGGCGCTTATA-AAAATGCGCCGCTAAAGGTCTTGTCA
1 TTAGCGGCGCTTATAGAAAA-GCGCCGCTAAAGGTCGGGTCA
* ** * ** *
37918199 TTAGCGGCGCTTTTTTATAAGCGCCGCTAAAGGTTAGGTCT
1 TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCGGGTCA
* * *
37918240 TTAGCGGCGCTTATTAGAAAAGCGCCACTAAAGGT-GTG-AA
1 TTAGCGGCGCTTA-TAGAAAAGCGCCGCTAAAGGTCGGGTCA
37918280 TTAGCGGCGCTT
1 TTAGCGGCGCTT
37918292 TCCCATAAGC
Statistics
Matches: 190, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
40 16 0.08
41 154 0.81
42 20 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTATAGAAAAGCGCCGCTAAAGGTCGGGTCA
Found at i:37919581 original size:13 final size:13
Alignment explanation
Indices: 37919563--37919588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37919553 TACGTACCAA
37919563 AATCAGCCAAAAT
1 AATCAGCCAAAAT
37919576 AATCAGCCAAAAT
1 AATCAGCCAAAAT
37919589 CTGAGAAAAA
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:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
AATCAGCCAAAAT
Found at i:37922865 original size:65 final size:65
Alignment explanation
Indices: 37922760--37922926 Score: 237
Period size: 65 Copynumber: 2.6 Consensus size: 65
37922750 CAAATTGCTC
**
37922760 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATGCTGAACCCCATCTAA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATGAAGAACCCCATCTAA
* * * *
37922825 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAATATGAAGAACTCCATCTAC
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATGAAGAACCCCATCTAA
* * *
37922890 AACTTAAAGTGGAGGCAGCAGCGA-AGCAAGCGGAGGC
1 AACTTAAAGAGGAGGCTGCAGCGAGAG-AAGCAGAGGC
37922927 AGCAGCGAGG
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 2 0.02
65 88 0.98
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATGAAGAACCCCATCTAA
Found at i:37922926 original size:21 final size:21
Alignment explanation
Indices: 37922900--37922952 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
37922890 AACTTAAAGT
37922900 GGAGGCAGCAGCGAAGCAAGC
1 GGAGGCAGCAGCGAAGCAAGC
*
37922921 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAAGCAAGC
* *
37922942 GAAGGAAGCAG
1 GGAGGCAGCAG
37922953 AGGCTACAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.45, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCGAAGCAAGC
Found at i:37923173 original size:15 final size:15
Alignment explanation
Indices: 37923153--37923181 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37923143 ATTTGAAGTT
37923153 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
37923168 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
37923182 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Done.