Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168272.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_500, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24815
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:2532 original size:18 final size:17
Alignment explanation
Indices: 2511--2557 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
2501 TTAAAATTAA
2511 ATAATTAAATAATTA-ATT
1 ATAATTAAATAA--AGATT
*
2529 ATAATTAATTAAAGATT
1 ATAATTAAATAAAGATT
2546 ATAAATTAAATA
1 AT-AATTAAATA
2558 GATTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.04
17 5 0.20
18 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAATTAAATAAAGATT
Found at i:2770 original size:16 final size:16
Alignment explanation
Indices: 2751--2784 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2741 ATTAATATAC
* *
2751 TAATTTTATAATTAAT
1 TAATTTAATAATAAAT
2767 TAATTTAATAATAAAT
1 TAATTTAATAATAAAT
2783 TA
1 TA
2785 TTAAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTAATAATAAAT
Found at i:2808 original size:34 final size:34
Alignment explanation
Indices: 2756--2834 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
2746 TATACTAATT
2756 TTATAATTAATTAATTTAATAATAAATT-ATTAAA
1 TTATAATTAATTAATTTAATAATAAATTGA-TAAA
* *
2790 TTATAATTATATT-GTTTAATATTAAATTGATAAA
1 TTATAATTA-ATTAATTTAATAATAAATTGATAAA
2824 TTATAA-TAATT
1 TTATAATTAATT
2835 TAAATACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 3 0.07
33 2 0.05
34 32 0.78
35 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TTATAATTAATTAATTTAATAATAAATTGATAAA
Found at i:2845 original size:23 final size:22
Alignment explanation
Indices: 2819--2886 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
2809 TATTAAATTG
2819 ATAAATTATAATAATTTAAATA
1 ATAAATTATAATAATTTAAATA
* * *
2841 CATAAACTAAAATAATTT-ATTA
1 -ATAAATTATAATAATTTAAATA
*
2863 ATATAGTTATAATAA-TTAAATA
1 ATA-AATTATAATAATTTAAATA
2885 AT
1 AT
2887 TTATATTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 5 0.14
22 16 0.44
23 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
ATAAATTATAATAATTTAAATA
Found at i:2976 original size:14 final size:15
Alignment explanation
Indices: 2943--3006 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
2933 AATAATATTT
*
2943 TTATAATTT-ATCAA
1 TTATAATTTAATAAA
2957 TT-TAATATT-AT-AA
1 TTATAAT-TTAATAAA
2970 TTATAATTTAAT-AA
1 TTATAATTTAATAAA
2984 TGT-TAATATTAATAAA
1 T-TATAAT-TTAATAAA
3000 TTATAAT
1 TTATAAT
3007 GTATTAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.23
14 19 0.44
15 7 0.16
16 7 0.16
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TTATAATTTAATAAA
Found at i:2979 original size:19 final size:21
Alignment explanation
Indices: 2943--2982 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
2933 AATAATATTT
2943 TTATAATTTATCAATTTAATA
1 TTATAATTTATCAATTTAATA
2964 TTATAA-TTAT-AATTTAATA
1 TTATAATTTATCAATTTAATA
2983 ATGTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATTTATCAATTTAATA
Found at i:3019 original size:25 final size:26
Alignment explanation
Indices: 2962--3023 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 26
2952 ATCAATTTAA
*
2962 TATT-ATAATT-ATAATTTAATAATG
1 TATTAATAATTAATAAATTAATAATG
2986 --TTAAT-ATTAATAAATT-ATAATG
1 TATTAATAATTAATAAATTAATAATG
3008 TATTAATAATTAATAA
1 TATTAATAATTAATAA
3024 TTGAACCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 11 0.34
23 8 0.25
24 5 0.16
25 8 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TATTAATAATTAATAAATTAATAATG
Found at i:3469 original size:21 final size:21
Alignment explanation
Indices: 3402--3479 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
3392 ACTATTAATA
3402 ATATAAATATAAATTAATTATT
1 ATATAAATA-AAATTAATTATT
* * * * *
3424 ATTTAATTATACTTCAA--ATG
1 ATATAAATAAAATT-AATTATT
3444 ATATAAATAAAATTAATTATT
1 ATATAAATAAAATTAATTATT
3465 ATATAACA-AAAATTA
1 ATATAA-ATAAAATTA
3480 TGAAATAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
21 18 0.43
22 10 0.24
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATAAATAAAATTAATTATT
Found at i:3663 original size:13 final size:13
Alignment explanation
Indices: 3645--3676 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3635 TATTAACAAT
3645 TATAATAAATATA
1 TATAATAAATATA
3658 TATAATAAATATA
1 TATAATAAATATA
3671 TATAAT
1 TATAAT
3677 TATACATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAAATATA
Found at i:3760 original size:29 final size:27
Alignment explanation
Indices: 3692--3760 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
3682 ATAATATAGT
* * *
3692 TTATTATAATATTATAATATTAATTGC
1 TTATTATATTATAAAAATATTAATTGC
*
3719 TTATTCTTAATTATAAAAATATTAATTGAAC
1 TTATT-AT-ATTATAAAAATATTAATTG--C
3750 TTATTATATTA
1 TTATTATATTA
3761 ATTTATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 5 0.15
28 1 0.03
29 20 0.61
30 1 0.03
31 6 0.18
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (27 bp):
TTATTATATTATAAAAATATTAATTGC
Found at i:3982 original size:16 final size:16
Alignment explanation
Indices: 3956--3996 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3946 ATTCTTAATT
*
3956 ATATAATATAATATTGA
1 ATAT-ATATAATATTCA
3973 ATATATATAATATTCA
1 ATATATATAATATTCA
*
3989 TTATATAT
1 ATATATAT
3997 TCAAATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATATATAATATTCA
Found at i:4663 original size:13 final size:14
Alignment explanation
Indices: 4618--4661 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4608 GAATGTTAAT
4618 AATTCAAAAT-TTTA
1 AATT-AAAATATTTA
*
4632 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
4647 AATTAAAATATTTA
1 AATTAAAATATTTA
4661 A
1 A
4662 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:4663 original size:28 final size:29
Alignment explanation
Indices: 4618--4675 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
4608 GAATGTTAAT
4618 AATTCAAAATTTTAAATTTTAAATATTTA
1 AATTCAAAATTTTAAATTTTAAATATTTA
* *
4647 AATT-AAAATATTT-AATTTTTATTATTTA
1 AATTCAAAAT-TTTAAATTTTAAATATTTA
4675 A
1 A
4676 TTATCGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
AATTCAAAATTTTAAATTTTAAATATTTA
Found at i:6048 original size:16 final size:16
Alignment explanation
Indices: 6027--6077 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
6017 TGAAATTTAA
6027 TATATTATTAACTATT
1 TATATTATTAACTATT
*
6043 TATATTATTAAATA-T
1 TATATTATTAACTATT
*
6058 TATATTCAATAACATATT
1 TATATT-ATTAAC-TATT
6076 TA
1 TA
6078 GATAATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 7 0.24
16 17 0.59
17 2 0.07
18 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATTATTAACTATT
Found at i:6968 original size:179 final size:181
Alignment explanation
Indices: 6664--7104 Score: 454
Period size: 179 Copynumber: 2.5 Consensus size: 181
6654 TTATTGAAAC
** * * * *
6664 CAGTTCAAATAGTTAAAATTA-TTATAATAATTATCTATTTCAAATCATTCTAACCTTTTG-TTT
1 CAGTTCAAATAGTTATGACTATTTA-AACAATTATCTATTTAAAATCATTATAACCTTTTGTTTT
* * * * * *
6727 AGTCATAAAATAATTG-TTCAATTCATACATGCTTATTCGAAATAAAATAACACCATTTTATTAA
65 A-TCATAAAACAATTGTTTCAATTCATAAAAGCTTATCCAAAATAAAATAACACCACTTTATTAA
* *
6791 CA-TTTAGAAAATTAATAAGCAAGGA-A-TTAGAAA-ATAAATC-TGTTTACCAAA-
129 CACTTCA-AAAATTAAGAAG-AAGGAGATTTA-AAACATAAATCAT-TTTACCAAAT
* * *
6842 CAAGTTTAAATAGTTATGACTATTTAAACAATTA-C-ATTTTAAAATCGTTATGACCTTTTGTTT
1 C-AGTTCAAATAGTTATGACTATTTAAACAATTATCTA-TTTAAAATCATTATAACCTTTTGTTT
* * **
6905 TATCATAAAACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAA
64 TATCATAAAACAATTGTTTCAATTCATAAAAGCTTATCCAAAATAAAATAACACCACTTTATTAA
* ** *
6970 TACTTCAAAAATTAAGAAGTTGGAGATTTAAAACATAAATCATTTTATCAAAT
129 CACTTCAAAAATTAAGAAGAAGGAGATTTAAAACATAAATCATTTTACCAAAT
* * * * * *
7023 CAGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTTTAAACTTTTGTTTTG
1 CAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTAAAATCATTATAACCTTTTGTTTTA
7088 TCATAAAACAATTGTTT
66 TCATAAAACAATTGTTT
7105 TTCCATCATA
Statistics
Matches: 216, Mismatches: 34, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
177 1 0.00
178 37 0.17
179 82 0.38
180 53 0.25
181 42 0.19
182 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (181 bp):
CAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTAAAATCATTATAACCTTTTGTTTTA
TCATAAAACAATTGTTTCAATTCATAAAAGCTTATCCAAAATAAAATAACACCACTTTATTAACA
CTTCAAAAATTAAGAAGAAGGAGATTTAAAACATAAATCATTTTACCAAAT
Found at i:7164 original size:182 final size:177
Alignment explanation
Indices: 6485--7172 Score: 574
Period size: 182 Copynumber: 3.8 Consensus size: 177
6475 ATCGGACCAA
* * * * *
6485 TTCAAATAGTTATGACTATTTGAATAATTATCTATCTCAAAT--TGATATGATTTTTGTTTTGTC
1 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATA-AACTTTTGTTTTGTC
* * * * * ** *
6548 ATAAAATAATTGTTTC-TGTCCATACAAACTTATTCGAAGTAAAATATTGCTAAACTAATAATA-
65 ATAAAACAATTGTTTCAT-T-CATACAAGCTTATTAGAA-TAAAATAATACTAATTTATTAATAT
* * *
6611 TTCTAAAAATTAATAAGTAAGAGATTTAAAAATATAAATGTATTTATTGAAACCAG
127 TTC-AAAAATTAATAAGTAGGAGATTT-AAAA-ATAAATCTATTTA-TCAAA-CAG
** * * * * *
6667 TTCAAATAGTTAAAATTATTAT-AATAATTATCTATTTCAAATCATTCTAACCTTTTGTTTAGTC
1 TTCAAATAGTTATGACTATT-TGAACAATTATCTATTTCAAATCATTATAAACTTTTGTTTTGTC
* * * * * * *
6731 ATAAAATAATTG-TTCAATTCATACATGCTTATTCGAAATAAAATAACACCATTTTATTAACATT
65 ATAAAACAATTGTTTC-ATTCATACAAGCTTATTAG-AATAAAATAATACTAATTTATTAATATT
* * *
6795 T-AGAAAATTAATAAGCAAGGA-A-TTAGAAAATAAATCTGTTTACCAAACAAG
128 TCA-AAAATTAATAAG-TAGGAGATTTA-AAAATAAATCTATTTATCAAAC-AG
* * * * * * *
6846 TTTAAATAGTTATGACTATTTAAACAATTA-C-ATTTTAAAATCGTTATGACCTTTTGTTTTATC
1 TTCAAATAGTTATGACTATTTGAACAATTATCTA-TTTCAAATCATTATAAACTTTTGTTTTGTC
* * * * * *
6909 ATAAAACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATACT
65 ATAAAACAATTGTTTCA-TTCATACAAGCTTAT-TAGAATAAAATAATACTAATTTATTAATATT
* *
6974 TCAAAAATTAAGAAGTTGGAGATTTAAAACATAAATC-ATTTTATCAAATCAG
128 TCAAAAATTAATAAGTAGGAGATTTAAAA-ATAAATCTA-TTTATCAAA-CAG
* *
7026 TTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTTTAAACTTTTGTTTTGTCA
1 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATAAACTTTTGTTTTGTCA
* * *
7091 TAAAACAATTGTTTTTCCA-TCATACAAGCCTAATTAGAATAAAAGAATACTAGTTTATTAATAT
66 TAAAACAATTG--TTT-CATTCATACAAG-CTTATTAGAATAAAATAATACTAATTTATTAATAT
7155 TTCAAAAATTAATAAGTA
127 TTCAAAAATTAATAAGTA
7173 TGATATTTTC
Statistics
Matches: 404, Mismatches: 74, Indels: 56
0.76 0.14 0.10
Matches are distributed among these distances:
177 1 0.00
178 42 0.10
179 82 0.20
180 60 0.15
181 44 0.11
182 130 0.32
183 39 0.10
184 6 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (177 bp):
TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATAAACTTTTGTTTTGTCA
TAAAACAATTGTTTCATTCATACAAGCTTATTAGAATAAAATAATACTAATTTATTAATATTTCA
AAAATTAATAAGTAGGAGATTTAAAAATAAATCTATTTATCAAACAG
Found at i:7547 original size:31 final size:32
Alignment explanation
Indices: 7490--7562 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
7480 TTAAATACTA
*
7490 TATTATTT-TAATATTAACTATATTTATTA-T
1 TATTATTTATAATAGTAACTATATTTATTAGT
*
7520 TATTATTTATAATAGTAATTCAT-TTTATTAGT
1 TATTATTTATAATAGTAACT-ATATTTATTAGT
*
7552 TA-TAATTATAA
1 TATTATTTATAA
7563 AAATTATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 8 0.22
31 24 0.65
32 5 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
TATTATTTATAATAGTAACTATATTTATTAGT
Found at i:8219 original size:11 final size:11
Alignment explanation
Indices: 8203--8245 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
8193 ATTAATTAAT
8203 TTATATAATTA
1 TTATATAATTA
8214 TTATATAATTA
1 TTATATAATTA
*
8225 TTAATATTATTA
1 TT-ATATAATTA
8237 TTATATAAT
1 TTATATAAT
8246 AATAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATATAATTA
Found at i:8236 original size:23 final size:24
Alignment explanation
Indices: 8195--8415 Score: 84
Period size: 23 Copynumber: 8.7 Consensus size: 24
8185 ACCAACTAAT
*
8195 TAATTAATTTATATAATTATTATA
1 TAATTAATTAATATAATTATTATA
*
8219 TAATT-ATTAATATTATTATTATA
1 TAATTAATTAATATAATTATTATA
*
8242 TAA-TAA-TAAAAT-ATTATATATGA
1 TAATTAATTAATATAATTAT-TAT-A
*
8265 TATTTAAACTTAAAGTTATAATTATTAAACTA
1 TAATT-AA-TT-AA--TATAATTATT--A-TA
*
8297 TCAATATAAATT--TATAATTTATAATA
1 T-AAT-T-AATTAATATAA-TTATTATA
*
8323 -AATT-ATTATATATAATAATTATTA
1 TAATTAATTA-ATATAATTATTA-TA
*
8347 TAATTAATTAAT-TATATTATAATTA
1 TAATTAATTAATATA-ATTATTA-TA
* *
8372 TTATTTAATATAACTAAAATTATTAATA
1 -TAATTAAT-TAA-TATAATTATT-ATA
*
8400 TAA-TAATAAATATAAT
1 TAATTAATTAATATAAT
8416 AATACTAATT
Statistics
Matches: 151, Mismatches: 17, Indels: 58
0.67 0.08 0.26
Matches are distributed among these distances:
21 8 0.05
22 9 0.06
23 28 0.19
24 23 0.15
25 18 0.12
26 17 0.11
27 7 0.05
28 15 0.10
29 6 0.04
30 3 0.02
31 5 0.03
32 3 0.02
33 5 0.03
34 4 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (24 bp):
TAATTAATTAATATAATTATTATA
Found at i:8352 original size:22 final size:20
Alignment explanation
Indices: 8308--8372 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
8298 CAATATAAAT
8308 TTATAATT-TA-TAATAA-A
1 TTATAATTATATTAATAATA
*
8325 TTATTA-TATA-TAATAATTA
1 TTATAATTATATTAATAA-TA
*
8344 TTATAATTA-ATTAATTATA
1 TTATAATTATATTAATAATA
8363 TTATAATTAT
1 TTATAATTAT
8373 TATTTAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.03
17 13 0.33
19 18 0.46
20 7 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATAATTATATTAATAATA
Found at i:8371 original size:28 final size:28
Alignment explanation
Indices: 8191--8375 Score: 100
Period size: 28 Copynumber: 7.0 Consensus size: 28
8181 AATAACCAAC
8191 TAATTAATTAATT-TA-TATAATTATTA
1 TAATTAATTAATTATATTATAATTATTA
*
8217 T-A-TAATT-ATTAATATTATTATTA-TA
1 TAATTAATTAATT-ATATTATAATTATTA
* *
8242 TAA-TAA-TAA-AATATTAT-A-TATGA
1 TAATTAATTAATTATATTATAATTATTA
* * *
8265 TATTTAA--ACTTAAAGTTATAATTATTA
1 TAATTAATTAATTATA-TTATAATTATTA
* * *
8292 -AACT-ATCAATATAAATTTATAA-T-TTA
1 TAATTAATTAAT-TATA-TTATAATTATTA
*
8318 TAATAAATT-ATTATATATAATAATTATTA
1 TAATTAATTAATTATAT-T-ATAATTATTA
8347 TAATTAATTAATTATATTATAATTATTA
1 TAATTAATTAATTATATTATAATTATTA
8375 T
1 T
8376 TTAATATAAC
Statistics
Matches: 121, Mismatches: 17, Indels: 40
0.68 0.10 0.22
Matches are distributed among these distances:
22 2 0.02
23 8 0.07
24 17 0.14
25 13 0.11
26 23 0.19
27 15 0.12
28 24 0.20
29 12 0.10
30 7 0.06
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TAATTAATTAATTATATTATAATTATTA
Found at i:8393 original size:28 final size:27
Alignment explanation
Indices: 8337--8394 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
8327 ATTATATATA
* *
8337 ATAATTATTATAATTAATTAATTATATT
1 ATAATTATTAT-ATTAATTAATAAAATT
8365 ATAATTATTAT-TTAATATAACTAAAATT
1 ATAATTATTATATTAAT-TAA-TAAAATT
8393 AT
1 AT
8395 TAATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
27 3 0.12
28 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATAATTATTATATTAATTAATAAAATT
Found at i:8559 original size:21 final size:21
Alignment explanation
Indices: 8512--8564 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
8502 TCAATAAATA
* *
8512 ATTA-TATTAATATAATTTAT
1 ATTATTATTATTATAATTAAT
8532 -TTAATTATTATTATAATTAAT
1 ATT-ATTATTATTATAATTAAT
8553 ATTATTAATTAT
1 ATTATT-ATTAT
8565 CTTAGATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 17 0.63
22 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATTATTATAATTAAT
Found at i:8656 original size:13 final size:15
Alignment explanation
Indices: 8638--8683 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8628 CAAATTTAAA
8638 ATTAATA-AATTA-T
1 ATTAATATAATTATT
8651 ATTAATATTAATTATT
1 ATTAATA-TAATTATT
* *
8667 ATTAACATAATAATT
1 ATTAATATAATTATT
8682 AT
1 AT
8684 CATTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.25
15 14 0.50
16 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATATAATTATT
Found at i:9025 original size:19 final size:19
Alignment explanation
Indices: 9001--9068 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
8991 TAAATTGTTT
*
9001 TAATATAATTATTATATTA
1 TAATATTATTATTATATTA
*
9020 TAATATTATTGTTATA--A
1 TAATATTATTATTATATTA
*
9037 T-ATATTATTAATAGTATTA
1 TAATATTATTATTA-TATTA
9056 TAA-ATTATTATTA
1 TAATATTATTATTA
9069 ACAAATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
16 10 0.25
17 4 0.10
19 25 0.62
20 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATTATTATTATATTA
Found at i:9038 original size:33 final size:32
Alignment explanation
Indices: 8994--9089 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 32
8984 TAAGGTTTAA
8994 ATTGTTTTAATATAATTATTATATTATAATATT
1 ATTG-TTTAATATAATTATTATATTATAATATT
*
9027 ATTGTTATAATATATTATTAATAGTATTATAA-ATT
1 ATTGTT-TAATATA--ATTATTA-TATTATAATATT
* *
9062 ATT-ATTAACA-AATTATTAATATTATAAT
1 ATTGTTTAATATAATTATT-ATATTATAAT
9090 TATAAATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
30 13 0.25
31 1 0.02
32 3 0.06
33 15 0.28
34 1 0.02
35 12 0.23
36 8 0.15
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (32 bp):
ATTGTTTAATATAATTATTATATTATAATATT
Found at i:9303 original size:25 final size:26
Alignment explanation
Indices: 9224--9309 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 26
9214 TATTAAAATT
* *
9224 ATATTAATATTAATATAATTTAAGTATTA
1 ATATTAA-ATTAAT-TAATATAA-TCTTA
* *
9253 ATAAT-AATT-ACTAA-ATAA-CTTA
1 ATATTAAATTAATTAATATAATCTTA
9275 ATATTAAATTAATTAATATAATCTT-
1 ATATTAAATTAATTAATATAATCTTA
9300 ATATTAAATT
1 ATATTAAATT
9310 GATAATACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
22 7 0.15
23 4 0.09
24 7 0.15
25 17 0.36
26 4 0.09
27 3 0.06
28 1 0.02
29 4 0.09
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (26 bp):
ATATTAAATTAATTAATATAATCTTA
Found at i:9327 original size:25 final size:25
Alignment explanation
Indices: 9232--9309 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 25
9222 TTATATTAAT
*
9232 ATTAATATAAT-TTAAGTATTAATAATA
1 ATTAATATAATCTT-A-TATTAA-ATTA
*
9259 ATTACTA-AATAACTTAATATTAAATTA
1 ATTAATATAAT--CTT-ATATTAAATTA
9286 ATTAATATAATCTTATATTAAATT
1 ATTAATATAATCTTATATTAAATT
9310 GATAATACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 10 0.23
26 6 0.14
27 15 0.34
28 9 0.20
29 4 0.09
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (25 bp):
ATTAATATAATCTTATATTAAATTA
Found at i:9330 original size:14 final size:13
Alignment explanation
Indices: 9311--9359 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
9301 TATTAAATTG
*
9311 ATAATACTATTGTT
1 ATAATA-TATTGAT
9325 ATAATATATT-AT
1 ATAATATATTGAT
9337 ATAATATATTGA-
1 ATAATATATTGAT
9349 ATTAATATATT
1 A-TAATATATT
9360 AAATTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.38
13 14 0.44
14 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (13 bp):
ATAATATATTGAT
Found at i:9346 original size:25 final size:26
Alignment explanation
Indices: 9311--9360 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
9301 TATTAAATTG
*
9311 ATAATACTATTG-TTATAATATATTAT
1 ATAATACTATTGAAT-TAATATATTAT
9337 ATAATA-TATTGAATTAATATATTA
1 ATAATACTATTGAATTAATATATTA
9361 AATTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (26 bp):
ATAATACTATTGAATTAATATATTAT
Found at i:9364 original size:13 final size:13
Alignment explanation
Indices: 9326--9370 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9316 ACTATTGTTA
*
9326 TAATATATTATA-
1 TAATATATTAAAT
*
9338 TAATATATTGAAT
1 TAATATATTAAAT
9351 TAATATATTAAAT
1 TAATATATTAAAT
*
9364 TATTATA
1 TAATATA
9371 ATCTATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TAATATATTAAAT
Found at i:9415 original size:31 final size:29
Alignment explanation
Indices: 9336--9421 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 29
9326 TAATATATTA
* *
9336 TATAATATATTGAATTAATATATTAAATTAT
1 TATAATCTA-TGAA-TAATATATTAAATAAT
*
9367 TATAATCTATTATATAATATTATTAAATAAT
1 TATAATCTATGA-ATAATA-TATTAAATAAT
* * *
9398 TATTATTTAATGAATAATAAATTA
1 TATAATCT-ATGAATAATATATTA
9422 TTCATATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
30 11 0.24
31 31 0.69
32 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (29 bp):
TATAATCTATGAATAATATATTAAATAAT
Found at i:9482 original size:26 final size:25
Alignment explanation
Indices: 9443--9493 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
9433 CGTCTCCATT
*
9443 TAAATATTAAATTATTTAATTAATA
1 TAAATATTAAATTATATAATTAATA
*
9468 TAAATATTACTATTATATAATTAATA
1 TAAATATTA-AATTATATAATTAATA
9494 GTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATATTAAATTATATAATTAATA
Found at i:9509 original size:53 final size:56
Alignment explanation
Indices: 9452--9566 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 56
9442 TTAAATATTA
*
9452 AATTATTT-AATTAATATAAAT-A-TTACTATTATATA-AT-TAATAGTTATTTTAA-T
1 AATTATTTAAATTAAT-TAAATAATTTA--ATTATATATATATAATAGTTATTATAATT
9505 AATTATTTAAATTAATTAAATAATTTAATTATATATTATATAATAGTTATTATAATT
1 AATTATTTAAATTAATTAAATAATTTAATTATATA-TATATAATAGTTATTATAATT
9562 AATTA
1 AATTA
9567 ATAATACTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
53 21 0.39
54 8 0.15
55 5 0.09
56 14 0.26
57 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (56 bp):
AATTATTTAAATTAATTAAATAATTTAATTATATATATATAATAGTTATTATAATT
Found at i:10058 original size:180 final size:179
Alignment explanation
Indices: 9566--10068 Score: 442
Period size: 180 Copynumber: 2.8 Consensus size: 179
9556 ATAATTAATT
* * * * *
9566 AATAATACTAATTCATTAACA-TTAAAAAATT-A-AAGCAAGAGATTTAAAAAAATAAA--TTTG
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAGAGATTT-AAAAAATAAAGCTAT-
* * * * * *
9626 TTTACTGAA-CAATTTCAAATAGA-TATGACTATTTAAACAATTATCTGTTTAAAATTATTTTGA
64 TTTAC-AAAGC-AGTTCAAATA-ATTATAACTATTTAAACAATTATCTATTTCAAATCATTTTGA
* *
9689 CATTTTGTTTTGTCATAAAACAATTGTTTCAGTTAATAAAAACTTATCTGAACTAA
126 CCTTTTGTTTTGTCATAAAACAATTGTTT-AGTTAATAAAAACTTATCAGAAC-AA
* * * *
9745 AATAATACTATTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTATTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAAGCTATTT
* * * * * * *
9810 TTCAAAGCAGTTCTAATAGTTATAACTATTTAAACAAATAT-TAATCTCAAATCATTATGATC-T
66 TACAAAGCAGTTCAAATAATTATAACTATTTAAACAATTATCT-ATTTCAAATCATTTTGACCTT
* * *
9873 TTGTTTTGTCATAAAACAATTGTTT-TTTATCATATAAGCTTATTCAGATA-AA
130 TTGTTTTGTCATAAAACAATTGTTTAGTTA--ATAAAAACTTA-TCAGA-ACAA
* * *
9925 AATAATACTAATTTAATAATATTTTAAAACTTAATAAGTAAGAGATTTAAAAAATAAATG-TA-T
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAA-GCTATT
* * * *
9988 TTACCAATCAGTTCAAATAATTA-AGATTA-TTAGAATAATTATCTATTTCAAATCATTTTGACC
65 TTACAAAGCAGTTCAAATAATTATA-ACTATTTA-AACAATTATCTATTTCAAATCATTTTGACC
**
10051 TTTTGTTTAATCATAAAA
128 TTTTGTTTTGTCATAAAA
10069 TTATTAATTT
Statistics
Matches: 262, Mismatches: 45, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
178 7 0.03
179 63 0.24
180 116 0.44
181 55 0.21
182 19 0.07
183 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (179 bp):
AATAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAAGCTATTT
TACAAAGCAGTTCAAATAATTATAACTATTTAAACAATTATCTATTTCAAATCATTTTGACCTTT
TGTTTTGTCATAAAACAATTGTTTAGTTAATAAAAACTTATCAGAACAA
Found at i:10092 original size:17 final size:17
Alignment explanation
Indices: 10070--10131 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
10060 ATCATAAAAT
10070 TATTAATTTGATTATAC
1 TATTAATTTGATTATAC
* *
10087 TATTAAATTAGATTGATATTGT
1 TATT-AATTTGATT-ATA---C
10109 TATTAATTTGATTATAC
1 TATTAATTTGATTATAC
10126 TATTAA
1 TATTAA
10132 ATCTAATTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 10 0.28
18 8 0.22
19 3 0.08
20 3 0.08
21 8 0.22
22 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (17 bp):
TATTAATTTGATTATAC
Found at i:10102 original size:22 final size:21
Alignment explanation
Indices: 10071--10143 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
10061 TCATAAAATT
10071 ATTAATTTGATTATACTATTAA
1 ATTAA-TTGATTATACTATTAA
*
10093 ATTAGATTGA-TAT--TGTT--
1 ATTA-ATTGATTATACTATTAA
10110 ATTAATTTGATTATACTATTAA
1 ATTAA-TTGATTATACTATTAA
10132 ATCTAATTGATT
1 AT-TAATTGATT
10144 TAACTGTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
16 1 0.02
17 8 0.20
18 3 0.07
19 3 0.07
20 3 0.07
21 3 0.07
22 16 0.39
23 4 0.10
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTAATTGATTATACTATTAA
Found at i:10651 original size:19 final size:19
Alignment explanation
Indices: 10627--10665 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10617 AATATATTTG
*
10627 TTATAATTATTAAAAAATA
1 TTATAATTATCAAAAAATA
*
10646 TTATAATTATCCAAAAATA
1 TTATAATTATCAAAAAATA
10665 T
1 T
10666 ATATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATAATTATCAAAAAATA
Found at i:10752 original size:28 final size:25
Alignment explanation
Indices: 10688--10774 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 25
10678 AATATTACTT
10688 ATTAATATAT--TATAATAAATTAA
1 ATTAATATATAATATAATAAATTAA
10711 ATTTAATA-ATTAATATAACTAAAATTATA
1 A-TTAATATA-TAATATAA-T-AAATTA-A
10740 ATTAATATATAATA-AAT-AATT-A
1 ATTAATATATAATATAATAAATTAA
*
10762 ATTAATTTATAAT
1 ATTAATATATAAT
10775 TATATATATA
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
22 13 0.24
23 2 0.04
24 11 0.20
26 6 0.11
27 3 0.05
28 17 0.31
29 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTAATATATAATATAATAAATTAA
Found at i:10763 original size:22 final size:22
Alignment explanation
Indices: 10716--10798 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 22
10706 ATTAAATTTA
* *
10716 ATAATTAATATA-ACTAAAATT
1 ATAATTAATATATAATAAAAAT
10737 ATAATTAATATATAATAAATAAT
1 ATAATTAATATATAATAAA-AAT
* * *
10760 -TAATTAATTTATAATTATATAT
1 ATAATTAATATATAA-TAAAAAT
*
10782 ATACTTAATATTATAAT
1 ATAATTAATA-TATAAT
10799 TTAAGTAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 12 0.24
22 20 0.40
23 13 0.26
24 5 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATTAATATATAATAAAAAT
Found at i:10888 original size:18 final size:18
Alignment explanation
Indices: 10875--10980 Score: 63
Period size: 18 Copynumber: 5.3 Consensus size: 18
10865 TAATATTTTG
*
10875 ATAATTTATAATATAATT
1 ATAAATTATAATATAATT
10893 ATAAATTATAATATAAAATT
1 ATAAATTATAATAT--AATT
10913 A-ATAATT-TAATATAAATT
1 ATA-AATTATAATAT-AATT
10931 ATTATTAACTTATAATAATTAATT
1 A-TA--AA-TTATAAT-A-TAATT
* *
10955 AATAAATTTTATATATTATT
1 -ATAAATTATA-ATATAATT
10975 ATAAAT
1 ATAAAT
10981 AATTATTAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
18 19 0.26
19 13 0.18
20 14 0.19
21 8 0.11
22 6 0.08
23 4 0.05
24 7 0.10
25 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAAATTATAATATAATT
Found at i:10892 original size:12 final size:11
Alignment explanation
Indices: 10875--10997 Score: 51
Period size: 11 Copynumber: 10.5 Consensus size: 11
10865 TAATATTTTG
10875 ATAATTTATAAT
1 ATAA-TTATAAT
10887 ATAATTATAAATT
1 ATAATTAT-AA-T
*
10900 ATAATATAAAATT
1 ATAAT-TATAA-T
10913 AATAATT-TAAT
1 -ATAATTATAAT
*
10924 ATAAATTATTAT
1 AT-AATTATAAT
10936 -TAACTTAT-A-
1 ATAA-TTATAAT
10945 ATAATTAATTAAT
1 ATAATT-A-TAAT
*
10958 A-AATTTTATAT
1 ATAATTATA-AT
*
10969 ATTATTATAA-
1 ATAATTATAAT
10979 ATAATTATTAAT
1 ATAATTA-TAAT
10991 ATTAATT
1 A-TAATT
10998 TTTAGATATA
Statistics
Matches: 87, Mismatches: 7, Indels: 33
0.69 0.06 0.26
Matches are distributed among these distances:
9 2 0.02
10 17 0.20
11 22 0.25
12 22 0.25
13 17 0.20
14 7 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (11 bp):
ATAATTATAAT
Found at i:10934 original size:21 final size:22
Alignment explanation
Indices: 10875--10997 Score: 70
Period size: 19 Copynumber: 5.8 Consensus size: 22
10865 TAATATTTTG
10875 ATAATTT-ATAATATAATTA-T-
1 ATAATTTAAT-ATATAATTATTA
10895 A-AATTATAATATA-AA--ATTA
1 ATAATT-TAATATATAATTATTA
10914 ATAATTTAATATA-AATTATTA
1 ATAATTTAATATATAATTATTA
* *
10935 TTAACTT-ATA-ATAATTAATTA
1 ATAATTTAATATATAATT-ATTA
* * *
10956 ATAAATTTTATATATTATTATAA
1 AT-AATTTAATATATAATTATTA
10979 ATAATTATTAATAT-TAATT
1 ATAA-T-TTAATATATAATT
10998 TTTAGATATA
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 17 0.21
20 16 0.20
21 16 0.20
22 6 0.07
23 13 0.16
24 11 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATTTAATATATAATTATTA
Found at i:10944 original size:42 final size:41
Alignment explanation
Indices: 10879--10980 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
10869 ATTTTGATAA
*
10879 TTTATAATATAATTA-TAAATTATAAT-ATAAAATTAAT-AAT
1 TTTATAA-ATTATTATTAAATTATAATAAT-AAATTAATAAAT
* *
10919 TTAATATAAATTATTATTAACTTATAATAATTAATTAATAAAT
1 TT--TATAAATTATTATTAAATTATAATAATAAATTAATAAAT
*
10962 TTTATATATTATTA-TAAAT
1 TTTATAAATTATTATTAAAT
10981 AATTATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
40 6 0.12
41 17 0.33
42 22 0.42
43 7 0.13
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (41 bp):
TTTATAAATTATTATTAAATTATAATAATAAATTAATAAAT
Found at i:11494 original size:14 final size:13
Alignment explanation
Indices: 11471--11501 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11461 AAATATATTT
11471 ATTATTATTAATA
1 ATTATTATTAATA
11484 ATTAGTTATTAATA
1 ATTA-TTATTAATA
11498 ATTA
1 ATTA
11502 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
ATTATTATTAATA
Found at i:12121 original size:23 final size:20
Alignment explanation
Indices: 12066--12122 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
12056 ATTAGTGTTG
12066 TATAACA-TATATTTTAATA
1 TATAACATTATATTTTAATA
*
12085 TA-AATATTATATTTATAATAA
1 TATAACATTATATTT-TAAT-A
12106 TATAACATTATAATTTT
1 TATAACATTAT-ATTTT
12123 TAGTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 4 0.13
21 3 0.10
22 8 0.26
23 4 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAACATTATATTTTAATA
Found at i:12314 original size:27 final size:24
Alignment explanation
Indices: 12270--12320 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
12260 AATTTTATTA
12270 AATTTAAATTTATAAATAATAAAAT
1 AATTTAAATTTATAAAT-ATAAAAT
*
12295 AATTTAATACTTTATTAATATAAAAT
1 AATTTAA-A-TTTATAAATATAAAAT
12321 TGTTTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTTAAATTTATAAATATAAAAT
Found at i:13368 original size:179 final size:180
Alignment explanation
Indices: 12786--13614 Score: 914
Period size: 180 Copynumber: 4.6 Consensus size: 180
12776 ATAAACATAA
* * *
12786 TATTT-AACAA-TATCTATTTCAAATCA-TTCTGA-C-TATGTTTTGTCAT-AAACAATTGTATC
1 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC
* * * * * *
12845 AATTCATATAGGCTTATTC-GAATAAAAT-ATTACTAATTTATTAATATTCTAAAAATTAATGAG
65 TATTCATACAAGCTTATTCTGAATAAAATAATTAC-AATTTATTAATATTCCAAAATTTAATAAG
* * * *
12908 TAAGAGATTTGAAAAAATGAATTTGTTTACTGAACAAGTTTAAATAGTAATGAC
129 TAA-AAATTT-AAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
*
12962 TATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * * *
13027 GTTCATACAAGCTCATTTTGAATAAAATAATTA-AATTAATTAATATTCCAAAATTTAATAAGTA
66 ATTCATACAAGCTTATTCTGAATAAAATAATTACAATTTATTAATATTCCAAAATTTAATAAGTA
** * * *
13091 AAAATTTTAAAAAATAAATTTGTTTTTTGAACATGTTCGAATAGTTCTGAC
131 AAAA-TTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * * * *
13142 TATTTGAATAATTATTTATTTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTTTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* *
13207 ATCCATACAAGCTTATTCTGAATAAAGTAATTA-AATTTATTAATATTCCAAAATTTAATAAGTA
66 ATTCATACAAGCTTATTCTGAATAAAATAATTACAATTTATTAATATTCCAAAATTTAATAAGTA
* ** * * *
13271 AAAATTTAAAAAATAAATTTATTTTTTGAACATGTTCAAATAGATCTGAC
131 AAAATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * *
13321 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTGATGAACCAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * ** *
13386 -GTCTATATAAGCTTATTCAAAATAAAATAA-TACTAATTTAATAATATTCCAACAA-TTAATAA
66 ATTC-ATACAAGCTTATTCTGAATAAAATAATTAC-AATTTATTAATATTCCAA-AATTTAATAA
* ** * * *
13448 GTAAAAGATTTAAAAAATAAATCTT-TTTACCGAGTAAGCTCAAATAGTTATAAT
128 GTAAAA-ATTTAAAAAATAAAT-TTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * * * * *
13502 TGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTAGTTTTGTCATAAAACAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* ** *
13567 ATTCATACAAGTTTATTCAAAATAAAATAA-TACTACTTTATTAATATT
66 ATTCATACAAGCTTATTCTGAATAAAATAATTAC-AATTTATTAATATT
13615 TTGTAAATTA
Statistics
Matches: 563, Mismatches: 74, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
176 5 0.01
177 5 0.01
178 22 0.04
179 127 0.23
180 200 0.36
181 187 0.33
182 13 0.02
183 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (180 bp):
TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
ATTCATACAAGCTTATTCTGAATAAAATAATTACAATTTATTAATATTCCAAAATTTAATAAGTA
AAAATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
Found at i:13598 original size:181 final size:180
Alignment explanation
Indices: 12786--13657 Score: 928
Period size: 181 Copynumber: 4.9 Consensus size: 180
12776 ATAAACATAA
* * *
12786 TATTT-AACAA-TATCTATTTCAAATCA-TTCTGA-C-TATGTTTTGTCAT-AAACAATTGTATC
1 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC
* * * * * *
12845 AATTCATATAGGCTTATTC-GAATAAAATATTACTAATTTATTAATATTCTAAAAATTAATGAGT
65 TATTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTC-CAAAATTAATAAGT
* * * *
12909 AAGAGATTTGAAAAAATGAATTTGTTTACTGAACAAGTTTAAATAGTAATGAC
129 AAAAGATTT-AAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
*
12962 TATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * ** *
13027 GTTCATACAAGCTCATTTTGAATAAAATAAT--TAAATTAATTAATATTCCAAAATTTAATAAGT
66 ATTCATACAAGCTTATTCAGAATAAAATAATACT-AATTTATTAATATTCCAAAA-TTAATAAGT
** * * *
13090 AAAA-ATTTTAAAAAATAAATTTGTTTTTTGAACATGTTCGAATAGTTCTGAC
129 AAAAGA-TTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * * * *
13142 TATTTGAATAATTATTTATTTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTTTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * *
13207 ATCCATACAAGCTTATTCTGAATAAAGTAAT--TAAATTTATTAATATTCCAAAATTTAATAAGT
66 ATTCATACAAGCTTATTCAGAATAAAATAATACT-AATTTATTAATATTCCAAAA-TTAATAAGT
* ** * * *
13270 AAAA-ATTTAAAAAATAAATTTATTTTTTGAACATGTTCAAATAGATCTGAC
129 AAAAGATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * *
13321 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTGATGAACCAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * * *
13386 -GTCTATATAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTCCAACAATTAATAAGT
66 ATTC-ATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTCCAA-AATTAATAAGT
* ** * * *
13450 AAAAGATTTAAAAAATAAATCTT-TTTACCGAGTAAGCTCAAATAGTTATAAT
129 AAAAGATTTAAAAAATAAAT-TTGTTTACTGAACAAGTTCAAATAGTTATGAC
* * * * * *
13502 TGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTAGTTTTGTCATAAAACAATTGTTTCT
1 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * * *** *
13567 ATTCATACAAGTTTATTCAAAATAAAATAATACTACTTTATTAATATTTTGTAAATTAATAGGTA
66 ATTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATA-TTCCAAAATTAATAAGTA
** *
13632 GGAGATTTAAAAAATAAATCTGTTTA
130 AAAGATTTAAAAAATAAATTTGTTTA
13658 TCAAACAATT
Statistics
Matches: 596, Mismatches: 81, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
176 5 0.01
177 5 0.01
178 20 0.03
179 128 0.21
180 205 0.34
181 215 0.36
182 18 0.03
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (180 bp):
TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
ATTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTCCAAAATTAATAAGTAA
AAGATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGAC
Found at i:13743 original size:153 final size:149
Alignment explanation
Indices: 13508--13806 Score: 379
Period size: 153 Copynumber: 2.0 Consensus size: 149
13498 TAATTGTTTG
* * *
13508 AACAATTTTTTATTTCTAATAGTTATGATCTTTAGTTTTGTCATAAAACAATTGTTTCTATTCAT
1 AACAATTATCTATTTCAAATAGTTATGATCTTTAGTTTTGTCATAAAACAATTGTTTCTATTCAT
* *
13573 ACAAGTTTATTCAAAATAAAATAATACT-ACTTTATTAATATTTTGTAAATTAATAGGTAGGAGA
66 ACAAGATTATTCAAAATAAAATAATACTGA-TTTATTAATATTTTGAAAATTAATA---A-GAGA
*
13637 TTTAAAAAATAAATCTGTTTATCA
126 TTTAAAAAATAAATCTATTTATCA
* * * * *
13661 AACAATTATCTATTTCAAATTGTTATGA-CTTTTTGTTTTGTCATAAAATAATTGTTTTTGTTCA
1 AACAATTATCTATTTCAAATAGTTATGATC-TTTAGTTTTGTCATAAAACAATTGTTTCTATTCA
* **
13725 TAC-AGAATTATTCAAAATACAATAATTTTGATTTATTAATATTTTGAAAATTAATAAGAGATTT
65 TACAAG-ATTATTCAAAATAAAATAATACTGATTTATTAATATTTTGAAAATTAATAAGAGATTT
*
13789 AAAAACTAAATCTATTTA
129 AAAAAATAAATCTATTTA
13807 CTAAATCAGT
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
149 23 0.18
150 1 0.01
152 3 0.02
153 100 0.78
154 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (149 bp):
AACAATTATCTATTTCAAATAGTTATGATCTTTAGTTTTGTCATAAAACAATTGTTTCTATTCAT
ACAAGATTATTCAAAATAAAATAATACTGATTTATTAATATTTTGAAAATTAATAAGAGATTTAA
AAAATAAATCTATTTATCA
Found at i:14372 original size:22 final size:22
Alignment explanation
Indices: 14341--14389 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14331 ATATCCCAAT
* *
14341 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
14363 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
14385 TATTA
1 TATTA
14390 GTTAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:14718 original size:30 final size:31
Alignment explanation
Indices: 14676--14735 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
14666 ACTGCTTGGA
14676 TAAATTTAAATAAATAATTTACT-AATTTAT
1 TAAATTTAAATAAATAATTTACTAAATTTAT
* *
14706 TAAAGTTT-AATAAGTAATTTATTAAATTTA
1 TAAA-TTTAAATAAATAATTTACTAAATTTA
14736 ATTGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAATTTAAATAAATAATTTACTAAATTTAT
Found at i:16721 original size:16 final size:17
Alignment explanation
Indices: 16687--16747 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
16677 TAGTAAATTG
*
16687 TTATTATG-TATTTATAA
1 TTATTATGTTA-TAATAA
16704 TTATTAT-TTATAATAA
1 TTATTATGTTATAATAA
*
16720 TTA-TATGTTATAATTA
1 TTATTATGTTATAATAA
16736 TTATATATGTTA
1 TTAT-TATGTTA
16748 ATAAATTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.08
16 19 0.50
17 9 0.24
18 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTATTATGTTATAATAA
Found at i:17467 original size:181 final size:179
Alignment explanation
Indices: 16876--17467 Score: 474
Period size: 180 Copynumber: 3.3 Consensus size: 179
16866 GTTCAATTAG
* * * * ** * * * *
16876 TTATAACTATTTCAACAATTATTTATTTCAAATCATTATGACCATTTGTATTATCATAAAATAAT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCACAAAACAAT
* * * * * * *
16941 TATTTCTGT-TCATAC-AGTCTTA-TTCGGAATAAAGTAATACTAATTTATCAATATTTTGAAAT
66 TGTTTATGTCT-ATACAAG-CTTATTTC-AAATAAAATAATACAAATTTATTAATATTCT-AAA-
* * * *** * * * *
17003 TAATAAGTAATAGATTTAAAAAATG-AATCAATTGGCCTG-GCCAGTGC-AAATAG
126 AAATAA-TAAAAGATTTAAAAAATGAAATCCATTTATC-GAACAAGTACTAAATAA
* * * * *
17056 TTATGATTGTTTAAATAATTATCTATTTTAAATTATTATGACCTTTTGTTTTATCACAAAACAAT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCACAAAACAAT
* * * * * * *
17121 TGTTTATGTCTATACTAGCTTATTTGAAATAATATAATTCTATTTTATTAATATTCTAAAAATTA
66 TGTTTATGTCTATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCTAAAAAATA
* * * *
17186 ATAAGAGATTTAAAAAATGAATTTCGTTTATCGAACAAGTACT-AATAA
131 ATAAAAGATTTAAAAAATGAAATCCATTTATCGAACAAGTACTAAATAA
* * *
17234 TTATGGACTATTTGAATAATTATCTATTTCTAATTGTTATAACCTTTTGTTTTGTC-CTAAAACA
1 TTAT-GACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCAC-AAAAC-
*
17298 AAATT-TTCTAT-T-TATACAAGCTTATTTCAAATAAAATTATACAAATTTATTAATATTC-AGA
63 -AATTGTT-TATGTCTATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCTA-A
* *
17359 CAACTAATAAGTAAAAGATTTAAAAAAT-AAATCCATTTATCGAATAAGT-TTAAATAA
125 -AA--AATAA-TAAAAGATTTAAAAAATGAAATCCATTTATCGAACAAGTACTAAATAA
* *
17416 TTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGACTTTTTGTTTT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTT
17468 CTAATGACAA
Statistics
Matches: 333, Mismatches: 62, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
177 18 0.05
178 24 0.07
179 91 0.27
180 97 0.29
181 57 0.17
182 30 0.09
183 16 0.05
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (179 bp):
TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCACAAAACAAT
TGTTTATGTCTATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCTAAAAAATA
ATAAAAGATTTAAAAAATGAAATCCATTTATCGAACAAGTACTAAATAA
Found at i:18026 original size:19 final size:20
Alignment explanation
Indices: 17986--18031 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17976 TTAGTTTAAA
17986 ATATAATATAATATTAAGTT
1 ATATAATATAATATTAAGTT
*
18006 AT-TAATATAAT-TTATGTTT
1 ATATAATATAATATTAAG-TT
18025 ATATAAT
1 ATATAAT
18032 TGTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
ATATAATATAATATTAAGTT
Found at i:18784 original size:18 final size:18
Alignment explanation
Indices: 18761--18795 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18751 GCCCAATTAA
18761 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
18779 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
18796 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:18796 original size:25 final size:25
Alignment explanation
Indices: 18763--18838 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
18753 CCAATTAAAT
*
18763 TATATAATAAATAATTATTATATA-A
1 TATATAATAAATAATTATAAT-TACA
* *
18788 TATATAATATACAATTATAATTACA
1 TATATAATAAATAATTATAATTACA
*
18813 TATTATAATAATTAA-TATAATT-CA
1 TA-TATAATAAATAATTATAATTACA
18837 TA
1 TA
18839 AAATATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.14
25 28 0.65
26 9 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:18808 original size:13 final size:14
Alignment explanation
Indices: 18776--18822 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
18766 ATAATAAATA
*
18776 ATTATTATATA-AT
1 ATTATAATATACAT
18789 A-TATAATATACA-
1 ATTATAATATACAT
18801 ATTATAAT-TACAT
1 ATTATAATATACAT
18814 ATTATAATA
1 ATTATAATA
18823 ATTAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATATACAT
Found at i:18844 original size:47 final size:44
Alignment explanation
Indices: 18754--18844 Score: 103
Period size: 47 Copynumber: 2.0 Consensus size: 44
18744 TATATATGCC
* *
18754 CAATTAAATTATATAATAAATAATTATTATATAATATATAATATA
1 CAATTAAATTACATAATAAATAATTA-TATATAATATAAAATATA
*
18799 CAATTATAATTACATATTATAATAATTA-ATATAATTCATAAAATAT
1 CAATTA-AATTACATAATA-AATAATTATATATAA-T-ATAAAATAT
18845 TATTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 12 0.31
46 11 0.28
47 16 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (44 bp):
CAATTAAATTACATAATAAATAATTATATATAATATAAAATATA
Found at i:18936 original size:18 final size:19
Alignment explanation
Indices: 18913--18948 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18903 AATTATTATA
18913 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
18931 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
18949 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:19646 original size:22 final size:21
Alignment explanation
Indices: 19605--19647 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
19595 AATTTATTAG
**
19605 TAATTTATTAATAAGTAAAAT
1 TAATTTATTAATAACAAAAAT
19626 TAATATTATTAATAACAAAAAT
1 TAAT-TTATTAATAACAAAAAT
19648 ATTTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAACAAAAAT
Found at i:19678 original size:10 final size:10
Alignment explanation
Indices: 19653--19693 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
19643 AAAATATTTG
19653 TAATAATAA-
1 TAATAATAAT
19662 T-ATAATAAT
1 TAATAATAAT
19671 TAATAATAAT
1 TAATAATAAT
* *
19681 TATTAATAGT
1 TAATAATAAT
19691 TAA
1 TAA
19694 CATTAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.26
9 2 0.07
10 18 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:19899 original size:24 final size:24
Alignment explanation
Indices: 19867--19912 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19857 ATTTAGGTAA
* *
19867 TAAAATATTTAGTATTATTTATAC
1 TAAAATATTTAATATTAGTTATAC
*
19891 TAAATTATTTAATATTAGTTAT
1 TAAAATATTTAATATTAGTTAT
19913 TTATAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TAAAATATTTAATATTAGTTATAC
Found at i:20004 original size:16 final size:16
Alignment explanation
Indices: 19983--20016 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19973 ATAATGATTT
*
19983 ATTTATTATTAATTAA
1 ATTTATTAATAATTAA
19999 ATTTATTAATAATTAA
1 ATTTATTAATAATTAA
20015 AT
1 AT
20017 AATTATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTATTAATAATTAA
Found at i:20187 original size:15 final size:16
Alignment explanation
Indices: 20162--20201 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20152 TATATTTTTG
20162 TTAATTCAATTTAATA-
1 TTAATT-AATTTAATAT
20178 TTAATTAA-TTAATAT
1 TTAATTAATTTAATAT
20193 TTAATTAAT
1 TTAATTAAT
20202 AAACAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAATTTAATAT
Found at i:20866 original size:181 final size:180
Alignment explanation
Indices: 20318--20867 Score: 508
Period size: 181 Copynumber: 3.0 Consensus size: 180
20308 AATAAATTCA
* * * * * * *
20318 AAATTGTTATGACCTTTTCTTTTA-ACGTAAAACAATTGTTTTGT-TCGTACAAGCTTATTTGGA
1 AAATTGTTTTGACCTTTT-GTTTAGTCATAAAACAATTGTTTTTTATCATACAAGCTTATTCGGA
* * * * *
20381 TTAAAATAATATTAATTTAATAATATTTAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTT
65 ATAAAATAATACTAATTTATTAATCTTTAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCT
* * ** ** *
20446 GTTTCCTGAATCAATTCAAAT-GATTAAAATTATTAGAATAATTATCTATTTC
130 ATTTACAAAATCAATTCAAATAG-TTATGACTATTAG-ATAATTATCTATTTC
* ** * * *
20498 ATATCATTTTGATCTTTTGTTTAGTCATAAAACAA-T-TTTTTCAGTTCATACAAGCTTATTC-A
1 AAATTGTTTTGACCTTTTGTTTAGTCATAAAACAATTGTTTTTTA--TCATACAAGCTTATTCGG
** * *
20560 AATAAAATCAATACTAATTTATTAA-CATTTGGAAAATTAATATGAAAGAGATTTTAAAAAATAA
64 AATAAAAT-AATACTAATTTATTAATC-TTTAAAAAATTAATAAGTAAGAGA-TTTAAAAAATAA
* * * * * *
20624 ATCTATTTACCAAATTAGTTCAAATAATTATGGCCT-TTCA-ATAATTATCTATTTT
126 ATCTATTTACAAAATCAATTCAAATAGTTAT-GACTATT-AGATAATTATCTATTTC
* *
20679 AAATTGTTCTT-ACCTTTTGTTTGGTCATAAGACAATTGTTTTTTATCATACAAGCTTATTCGGA
1 AAATTGTT-TTGACCTTTTGTTTAGTCATAAAACAATTGTTTTTTATCATACAAGCTTATTCGGA
* * *
20743 ATAAAATAATACTAATTTATTAATCTTTCAAAAATTAATAAGTAAGAGGTTTAAAAATTAAATCT
65 ATAAAATAATACTAATTTATTAATCTTTAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCT
* * * * * *
20808 ATTTAGAAAACCAATTCAAATAGTTATGACTATTAGAGTAGTTGTATACTTC
130 ATTTACAAAATCAATTCAAATAGTTATGACTATTAGA-TAATTATCTATTTC
20860 AAATTGTT
1 AAATTGTT
20868 ATTCAAAGTA
Statistics
Matches: 292, Mismatches: 60, Indels: 35
0.75 0.16 0.09
Matches are distributed among these distances:
178 4 0.01
179 9 0.03
180 68 0.23
181 156 0.53
182 47 0.16
183 8 0.03
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (180 bp):
AAATTGTTTTGACCTTTTGTTTAGTCATAAAACAATTGTTTTTTATCATACAAGCTTATTCGGAA
TAAAATAATACTAATTTATTAATCTTTAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTA
TTTACAAAATCAATTCAAATAGTTATGACTATTAGATAATTATCTATTTC
Found at i:20976 original size:19 final size:20
Alignment explanation
Indices: 20952--21002 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
20942 AAATAATAAT
20952 TTATAAATTATTA-TAATTA
1 TTATAAATTATTATTAATTA
20971 TTAT-AATATATTATTAATTA
1 TTATAAAT-TATTATTAATTA
20991 TATATATAATTA
1 T-TATA-AATTA
21003 AATAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
20 7 0.26
21 3 0.11
22 2 0.07
23 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAAATTATTATTAATTA
Found at i:20976 original size:29 final size:29
Alignment explanation
Indices: 20944--21026 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
20934 TAATTAATAA
20944 ATAATAATTTATAAATTATTATAATTATT
1 ATAATAATTTATAAATTATTATAATTATT
* *
20973 ATAAT-ATATTATTAATTA-TATATATAATT
1 ATAATAAT-TTATAAATTATTATA-ATTATT
* *
21002 A-AATAATATATCAA-TATTA-AATTAT
1 ATAATAATTTATAAATTATTATAATTAT
21027 AATCAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
26 4 0.09
27 3 0.07
28 16 0.36
29 22 0.49
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
ATAATAATTTATAAATTATTATAATTATT
Found at i:20986 original size:16 final size:16
Alignment explanation
Indices: 20963--21029 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
20953 TATAAATTAT
20963 TATAATTATTATAATA
1 TATAATTATTATAATA
*
20979 TATTATTAATTAT-ATA
1 TATAATT-ATTATAATA
*
20995 TATAATTA-AATAATA
1 TATAATTATTATAATA
21010 TATCAA-TATTA-AAT-
1 TAT-AATTATTATAATA
21024 TATAAT
1 TATAAT
21030 CAAATTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.05
14 5 0.12
15 12 0.29
16 18 0.43
17 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATTATTATAATA
Found at i:20992 original size:17 final size:17
Alignment explanation
Indices: 20970--21043 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 17
20960 TATTATAATT
20970 ATTATAATATATTATTA
1 ATTATAATATATTATTA
*
20987 ATTAT-ATATATAATTA
1 ATTATAATATATTATTA
21003 A--ATAATATATCAATATTAA
1 ATTATAATATAT---TATT-A
*
21022 ATTATAATCAAATTA-TA
1 ATTATAAT-ATATTATTA
21039 ATTAT
1 ATTAT
21044 CATAATGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
14 2 0.04
15 6 0.13
16 11 0.24
17 11 0.24
18 4 0.09
19 4 0.09
21 5 0.11
22 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATAATATATTATTA
Found at i:20993 original size:14 final size:13
Alignment explanation
Indices: 20958--20995 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
20948 TAATTTATAA
20958 ATTATTATA-ATT
1 ATTATTATATATT
*
20970 ATTATAATATATT
1 ATTATTATATATT
20983 ATTAATTATATAT
1 ATT-ATTATATAT
20996 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:21022 original size:18 final size:16
Alignment explanation
Indices: 20998--21036 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
20988 TTATATATAT
20998 AATTAAATAATATATCA
1 AATTAAATAATA-ATCA
*
21015 ATATTAAATTATAATCA
1 A-ATTAAATAATAATCA
21032 AATTA
1 AATTA
21037 TAATTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 6 0.30
18 10 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAAATAATAATCA
Found at i:21239 original size:37 final size:38
Alignment explanation
Indices: 21159--21243 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 38
21149 TTATTCATAT
*
21159 TATAATATTAATTATATTAATTATTGATTAGATTTATGAA
1 TATAATATT-ATTATATTAATTATAGATTAGATTTA-GAA
*
21199 TATAATATT-TTATATTAA-TATAGATTATATTGTA-ACA
1 TATAATATTATTATATTAATTATAGATTAGATT-TAGA-A
21236 TATAATAT
1 TATAATAT
21244 GAAACAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 1 0.02
37 20 0.49
38 11 0.27
40 9 0.22
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (38 bp):
TATAATATTATTATATTAATTATAGATTAGATTTAGAA
Found at i:21594 original size:176 final size:175
Alignment explanation
Indices: 21326--21818 Score: 437
Period size: 176 Copynumber: 2.8 Consensus size: 175
21316 TTTGATAAAT
* * ** * *
21326 AGATTTATTATTTAAATCTGTTACCTATT-ATTTTTGAAATATTAATCAATTAGT-GTATTTTAT
1 AGATTTATTTTTTAAA-CT-TT-CTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTA-
*
21389 TTCGAATAAGCTTGTATGATAA-AAAACAATTGTATTATGACAAAATAAAAGGTCATAATATTTG
62 TTCGAATAAGCTTGTAT--TAATAAAACAATTGTTTTATGACAAAATAAAAGGTCATAATATTTG
** * * * * *
21453 AAATAGATAATTATCCAAATGGCCATAATTATTTTAA-TTGATTTGGTAAAC
125 AAATAGATAATTATCCAAATAACAATAACTATTTGAACTTG-TTCGGCAAAC
* *
21504 ATATTTATTTTTTAAA-TTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTCC
1 AGATTTATTTTTTAAACTTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTCG
* * * * *
21568 ATCTAAGCTTGTATTAACTGAAACAATTGTTTTATGACAAATTAAAA-GTTATAACGT-TTTTAA
66 A-ATAAGCTTGTATTAA-TAAAACAATTGTTTTATGACAAAATAAAAGGTCATAA--TATTTGAA
* * * * *
21631 ATAGACAATTGTTCAAATAATAATAACTATTTGAACTTGTTCGGCAAGC
127 ATAGATAATTATCCAAATAACAATAACTATTTGAACTTGTTCGGCAAAC
* *** * * *
21680 AGATTTATTTTTTAAATCTTTCTTTTTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATTT
1 AGATTTATTTTTTAAA-CTTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTC
* * * * * *
21745 GAATAAGCTTGTGTGAATTAAAACAA-TGTTTTATGACTAAA-AAATGGTCAAAATGATTTGAAG
65 GAATAAGCTTGTATTAA-TAAAACAATTGTTTTATGACAAAATAAAAGGTCATAAT-ATTTGAAA
*
21808 TATATAATTAT
128 TAGATAATTAT
21819 TCTAATAGTC
Statistics
Matches: 252, Mismatches: 50, Indels: 28
0.76 0.15 0.08
Matches are distributed among these distances:
174 9 0.04
175 37 0.15
176 128 0.51
177 23 0.09
178 55 0.22
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (175 bp):
AGATTTATTTTTTAAACTTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTCG
AATAAGCTTGTATTAATAAAACAATTGTTTTATGACAAAATAAAAGGTCATAATATTTGAAATAG
ATAATTATCCAAATAACAATAACTATTTGAACTTGTTCGGCAAAC
Found at i:22016 original size:13 final size:13
Alignment explanation
Indices: 21998--22022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21988 AGTAAAATAT
21998 TAATAATTTTATC
1 TAATAATTTTATC
22011 TAATAATTTTAT
1 TAATAATTTTAT
22023 AATAAATCCT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATAATTTTATC
Found at i:22070 original size:18 final size:19
Alignment explanation
Indices: 22041--22076 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22031 CTAAATACAA
*
22041 TTATTAATTAATATTATAT
1 TTATTAATTAATAATATAT
22060 TTATT-ATTAATAATATA
1 TTATTAATTAATAATATA
22077 ATTAATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTAATTAATAATATAT
Found at i:22417 original size:17 final size:16
Alignment explanation
Indices: 22394--22437 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
22384 TTTAAATTTT
22394 AATATTAATAATAG-AA
1 AATATTAATAAT-GTAA
22410 ATATATTAAT-ATGTAA
1 A-ATATTAATAATGTAA
22426 AATATTAATAAT
1 AATATTAATAAT
22438 TAAGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATTAATAATGTAA
Found at i:22435 original size:23 final size:22
Alignment explanation
Indices: 22392--22440 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
22382 AATTTAAATT
22392 TTAATATTAATAATAGAAATATA
1 TTAATATTAATAATAGAAATA-A
**
22415 TTAATATGTAA-AATATTAATAA
1 TTAATAT-TAATAATAGAAATAA
22437 TTAA
1 TTAA
22441 GATTGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATATTAATAATAGAAATAA
Found at i:22842 original size:12 final size:13
Alignment explanation
Indices: 22797--22874 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 13
22787 TAGTTACAAT
22797 ATTATAATATATAA
1 ATTATAATAT-TAA
* *
22811 ATAATTAATGTTATA
1 ATTA-TAATATTA-A
22826 A--ATAATATT-A
1 ATTATAATATTAA
22836 ATTATAATATTAA
1 ATTATAATATTAA
*
22849 ATTAT-ATTTTAA
1 ATTATAATATTAA
*
22861 ATAATAATAATTAA
1 ATTATAAT-ATTAA
22875 TGATTTTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
10 2 0.04
12 24 0.47
13 9 0.18
14 9 0.18
15 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (13 bp):
ATTATAATATTAA
Found at i:22872 original size:34 final size:39
Alignment explanation
Indices: 22797--22873 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 39
22787 TAGTTACAAT
*
22797 ATTATAATATATAAATAATTAATGTTATAAATAATATTA
1 ATTATAATATATAAATAATTAATGTTATAAATAATAATA
*
22836 ATTATAATAT-TAAATTA-T-AT-TT-TAAATAATAATA
1 ATTATAATATATAAATAATTAATGTTATAAATAATAATA
22870 ATTA
1 ATTA
22874 ATGATTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 15 0.42
35 2 0.06
36 2 0.06
37 1 0.03
38 6 0.17
39 10 0.28
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (39 bp):
ATTATAATATATAAATAATTAATGTTATAAATAATAATA
Found at i:23287 original size:20 final size:20
Alignment explanation
Indices: 23216--23288 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
23206 GATGATAATT
*
23216 TTAATAATATATTTATCCT-TA
1 TTAATAAT-TATTTA-ACTATA
*
23237 ATAATAATTATTTAACTATA
1 TTAATAATTATTTAACTATA
* *
23257 TTATTATTTATTATAA-TA-A
1 TTAATAATTATT-TAACTATA
23276 TTTAATAATTATT
1 -TTAATAATTATT
23289 GACATATTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.07
20 29 0.69
21 10 0.24
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATAATTATTTAACTATA
Found at i:23388 original size:29 final size:27
Alignment explanation
Indices: 23356--23421 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
23346 ACAGTTTGAA
*
23356 ATTATAATATTATATTTATAATAATTAAT
1 ATTATAATATT-TATTAAT-ATAATTAAT
* *
23385 ATTA-ATTAATTATTAATATAATTAAT
1 ATTATAATATTTATTAATATAATTAAT
23411 A-TATAATATTT
1 ATTATAATATTT
23422 GAATTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 15 0.48
27 6 0.19
28 4 0.13
29 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATAATATTTATTAATATAATTAAT
Found at i:23401 original size:21 final size:22
Alignment explanation
Indices: 23358--23406 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
23348 AGTTTGAAAT
*
23358 TATAATATTATATTTATAATAA
1 TATAATATTATATTAATAATAA
*
23380 T-TAATATTA-ATTAATTATTAA
1 TATAATATTATATTAA-TAATAA
23401 TATAAT
1 TATAAT
23407 TAATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATATTATATTAATAATAA
Found at i:23832 original size:10 final size:10
Alignment explanation
Indices: 23817--23851 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
23807 TATAAATTAT
23817 TTATTAATAA
1 TTATTAATAA
23827 TTATTAATAA
1 TTATTAATAA
23837 -T-TTAATAA
1 TTATTAATAA
23845 TTATTAA
1 TTATTAA
23852 AAAGTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 2 0.09
10 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATTAATAA
Found at i:24727 original size:26 final size:24
Alignment explanation
Indices: 24665--24747 Score: 80
Period size: 24 Copynumber: 3.3 Consensus size: 24
24655 ACAAATTATT
24665 ATATAAATTATTTATAATTTAATAA
1 ATAT-AATTATTTATAATTTAATAA
24690 ATATAATTATTTATAATTATAACTAA
1 ATATAATTATTTATAATT-TAA-TAA
* *
24716 AT-TTATTAATTTAT-ATTAAATATA
1 ATATAATT-ATTTATAATTTAATA-A
24740 AGTATAAT
1 A-TATAAT
24748 ATATATATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
23 2 0.04
24 18 0.37
25 15 0.31
26 14 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
ATATAATTATTTATAATTTAATAA
Done.