Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168286.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_513, 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: 24422
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Found at i:705 original size:19 final size:20
Alignment explanation
Indices: 665--737 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 20
655 TACGTTATAA
665 AATAATATTTTATTAATTTATT
1 AATAATA-TTTATTAA-TTATT
687 AATAATATTTATTAA-TATT
1 AATAATATTTATTAATTATT
* ** *
706 AATTATATTTTATTTGTTACT
1 AATAATA-TTTATTAATTATT
727 AAT-ATATTTAT
1 AATAATATTTAT
738 ATTATATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 15 0.33
20 9 0.20
21 14 0.31
22 7 0.16
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
AATAATATTTATTAATTATT
Found at i:950 original size:27 final size:26
Alignment explanation
Indices: 915--965 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
905 ATAATATTTG
915 ATTTATAGTATAATATAATATTATATA
1 ATTTATAGTATAATATAA-ATTATATA
*
942 ATTTATAGTTTAATATAAATTATA
1 ATTTATAGTATAATATAAATTATA
966 AGCAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTTATAGTATAATATAAATTATATA
Found at i:1014 original size:18 final size:18
Alignment explanation
Indices: 991--1026 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
981 TATGATAATT
*
991 ATTAATTAATATTTTATA
1 ATTAATTAATAATTTATA
*
1009 ATTAATTTATAATTTATA
1 ATTAATTAATAATTTATA
1027 TTATAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATTAATAATTTATA
Found at i:1065 original size:28 final size:29
Alignment explanation
Indices: 1016--1081 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
1006 ATAATTAATT
1016 TATAAT-TTATATTATAAATTATT-A-AA
1 TATAATATTATATTATAAATTATTAATAA
* *
1042 TATAATATATATATTATGATTTATTAATAA
1 TATAATAT-TATATTATAAATTATTAATAA
1072 TATAATATTA
1 TATAATATTA
1082 ATAATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 1 0.03
28 14 0.41
29 3 0.09
30 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TATAATATTATATTATAAATTATTAATAA
Found at i:1082 original size:14 final size:14
Alignment explanation
Indices: 1063--1095 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1053 TATTATGATT
1063 TATTAATAATATAA
1 TATTAATAATATAA
*
1077 TATTAATAATATTA
1 TATTAATAATATAA
1091 TATTA
1 TATTA
1096 TTTTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAATAATATAA
Found at i:1369 original size:19 final size:20
Alignment explanation
Indices: 1329--1369 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1319 TAAATAAATT
* *
1329 TTTTTAAAATTTCTTATTAA
1 TTTTTAAAATTTCTAATAAA
1349 TTTTTAAAATTT-TAATAAA
1 TTTTTAAAATTTCTAATAAA
1368 TT
1 TT
1370 AGTATTACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTTCTAATAAA
Found at i:1879 original size:178 final size:182
Alignment explanation
Indices: 1515--2011 Score: 442
Period size: 179 Copynumber: 2.8 Consensus size: 182
1505 TTTTTAAATC
* ** * ** *
1515 CTTATTAATTTTTGAAA-AAGTAATAAATTGATATTATTTTA-TTCTGAATAATTTTGTATGAAT
1 CTTATTAATTTTAGAAATAA-TAATAAATAAATATTATTTTAGTTC-AAATAAACTTGTATAAAT
* * * * * * * **
1578 AGAAACAATAT--TTTCTAATAAAACAAAATG-TCATAACGATTTGAAATA-AATAACAGTTCAA
64 AAAAACAAT-TGGTTTATGACAAAAGAAAA-GATCATAAAGATTTGAAATAGGATAATTGTTCAA
* * * * * * *
1639 ATGGGCAATGACTATTTAAACTTGTTCGGTAAACATATTTATTTTTTAAATCTCTAA
127 ATAGTC-ATAACTATTTAAACTTGCTCGGTAAAAAAATTTATTATTTAAATCTCTAA
* * * * *
1696 CTTATTAATTTTA-AGAATAATAAT-AATTAGTATTATTTTATTTCAAATAAACTTGTGTGAAT-
1 CTTATTAATTTTAGA-AATAATAATAAATAAATATTATTTTAGTTCAAATAAACTTGTATAAATA
* * *
1758 AGAACAATTGTTTTTATGACAAAAGAAAAGATCATAAAGATTTG-AATA-TATAATTGTTCAAAT
65 AAAACAATTG-GTTTATGACAAAAGAAAAGATCATAAAGATTTGAAATAGGATAATTGTTCAAAT
* * * *
1821 AGT-ATAACTATTTGAACTTGCTCGTTAAAAAAATTTATTATTTAAATCTTTTA
129 AGTCATAACTATTTAAACTTGCTCGGTAAAAAAATTTATTATTTAAATCTCTAA
* * *
1874 CTTATTAATTTTAGAAATATTAATAAATAAATATTATTTTAGTTCGAATAAGCTTGTATAAATAA
1 CTTATTAATTTTAGAAATAATAATAAATAAATATTATTTTAGTTCAAATAAACTTGTATAAATAA
* * ** * * *
1939 AAATAATTGGTTTATGACAAAATAAATTATCGTAACGATTTGAAATAGGATAATTGTTCAAATAT
66 AAACAATTGGTTTATGACAAAAGAAAAGATCATAAAGATTTGAAATAGGATAATTGTTCAAATAG
2004 TCATAACT
131 TCATAACT
2012 GTTGAATGTG
Statistics
Matches: 257, Mismatches: 46, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
178 63 0.25
179 65 0.25
180 59 0.23
181 62 0.24
182 8 0.03
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (182 bp):
CTTATTAATTTTAGAAATAATAATAAATAAATATTATTTTAGTTCAAATAAACTTGTATAAATAA
AAACAATTGGTTTATGACAAAAGAAAAGATCATAAAGATTTGAAATAGGATAATTGTTCAAATAG
TCATAACTATTTAAACTTGCTCGGTAAAAAAATTTATTATTTAAATCTCTAA
Found at i:2313 original size:25 final size:26
Alignment explanation
Indices: 2232--2327 Score: 63
Period size: 25 Copynumber: 3.7 Consensus size: 26
2222 TTAGTATATA
*
2232 ATTATATACT-ATATTACTAGTTATAAT
1 ATTATATA-TAATATTA-TAGTAATAAT
* * * * *
2259 ATAACTATATAAT-TAATATTATTAAA
1 ATTA-TATATAATATTATAGTAATAAT
2285 ATTATATATAATATTATA-TAATAAT
1 ATTATATATAATATTATAGTAATAAT
* * *
2310 ATTAAATAGATTATTATA
1 ATTATATATAATATTATA
2328 TATAATTAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
25 28 0.53
26 13 0.25
27 6 0.11
28 6 0.11
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATATATAATATTATAGTAATAAT
Found at i:2336 original size:53 final size:53
Alignment explanation
Indices: 2231--2336 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 53
2221 TTTAGTATAT
* * * *
2231 AATTATATACTATATTACTAGTTATAATATAACTATATAATTAATATTATTAA
1 AATTATATACTATATTACTAGTAATAATATAAATAGATAATTAATATAATTAA
*
2284 AATTATATA-TAATATTA-TA-TAATAATATTAAATAGATTATTATATATAATTAA
1 AATTATATACT-ATATTACTAGTAATAATA-TAAATAGATAATTA-ATATAATTAA
2337 TAAGTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
51 7 0.16
52 14 0.31
53 24 0.53
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (53 bp):
AATTATATACTATATTACTAGTAATAATATAAATAGATAATTAATATAATTAA
Found at i:2338 original size:31 final size:29
Alignment explanation
Indices: 2264--2349 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
2254 ATAATATAAC
*
2264 TATATAATTAATATTATTAAAATTATATA
1 TATATAATTAATAATATTAAAATTATATA
*
2293 TAATATTATATAATAATATTAAATAGATTAT-TA
1 T-ATATAAT-TAATAATATT-AA-A-ATTATATA
*
2326 TATATAATTAATAA-GTTAAAATTA
1 TATATAATTAATAATATTAAAATTA
2350 AGTCTCTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 3 0.06
30 8 0.17
31 15 0.31
32 8 0.17
33 4 0.08
34 5 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
TATATAATTAATAATATTAAAATTATATA
Found at i:2458 original size:20 final size:21
Alignment explanation
Indices: 2429--2468 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2419 TTTAATAACT
2429 AATATAAGTTAT-TATTTATA
1 AATATAAGTTATATATTTATA
*
2449 AATATTAGTTATATATTTAT
1 AATATAAGTTATATATTTAT
2469 TTATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AATATAAGTTATATATTTATA
Found at i:2481 original size:12 final size:12
Alignment explanation
Indices: 2441--2487 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
2431 TATAAGTTAT
2441 TATTTATAAATA
1 TATTTATAAATA
* * *
2453 TTAGTTATATATT
1 -TATTTATAAATA
2466 TATTTATAAATA
1 TATTTATAAATA
2478 TATTT-TAAAT
1 TATTTATAAAT
2488 CTCCTACTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 5 0.18
12 14 0.50
13 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:2894 original size:19 final size:19
Alignment explanation
Indices: 2839--2895 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
2829 TGAATAAGCT
*
2839 TGAATATAACGTGAAATAA
1 TGAATATAACGTAAAATAA
* * * *
2858 TTAATAATAA-TTATAATAC
1 TGAAT-ATAACGTAAAATAA
2877 TGAATATAACGTAAAATAA
1 TGAATATAACGTAAAATAA
2896 ATTTATTTAC
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (19 bp):
TGAATATAACGTAAAATAA
Found at i:3467 original size:21 final size:22
Alignment explanation
Indices: 3443--3493 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3433 ATTAGTTAAA
*
3443 TAATTATACTA-ATTATAATTT
1 TAATTATAATACATTATAATTT
*
3464 TAATTA-AATACATTATATTTT
1 TAATTATAATACATTATAATTT
*
3485 TAGTTATAA
1 TAATTATAA
3494 CAATTAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTATAATACATTATAATTT
Found at i:3499 original size:21 final size:20
Alignment explanation
Indices: 3443--3499 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
3433 ATTAGTTAAA
*
3443 TAATTATACTAATTATAATTT
1 TAATTAAAC-AATTATAATTT
* *
3464 TAATTAAATACATTATATTTT
1 TAATTAAACA-ATTATAATTT
*
3485 TAGTTATAACAATTA
1 TAATTA-AACAATTA
3500 AACAATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTAAACAATTATAATTT
Found at i:3771 original size:35 final size:34
Alignment explanation
Indices: 3683--3772 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 34
3673 TTTTAAACTA
*
3683 ATACT-ATTAATTGTTTATT-ATTTAGAATAATT
1 ATACTAATTAATTATTTATTAATTTAGAATAATT
* * * *
3715 AAACTAA-TAATTATTTTTTAATTTATACTAATT
1 ATACTAATTAATTATTTATTAATTTAGAATAATT
3748 ATTACTAATTAATTATTTATTAATT
1 A-TACTAATTAATTATTTATTAATT
3773 AATATTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 14 0.30
33 13 0.28
34 5 0.11
35 15 0.32
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (34 bp):
ATACTAATTAATTATTTATTAATTTAGAATAATT
Found at i:3801 original size:11 final size:11
Alignment explanation
Indices: 3722--3810 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
3712 ATTAAACTAA
* *
3722 TAATTATTTTT
1 TAATTATATAT
*
3733 TAATT-TATAC
1 TAATTATATAT
3743 TAATTATTACTAAT
1 TAATTA-TA-T-AT
*
3757 TAATTATTTAT
1 TAATTATATAT
3768 TAATTA-ATAT
1 TAATTATATAT
3778 T-ATT-TGATGAT
1 TAATTAT-AT-AT
*
3789 TATTTATATAT
1 TAATTATATAT
*
3800 TAATAATATAT
1 TAATTATATAT
3811 AATGAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
9 3 0.05
10 13 0.22
11 27 0.45
12 7 0.12
13 3 0.05
14 7 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TAATTATATAT
Found at i:3815 original size:28 final size:28
Alignment explanation
Indices: 3759--3815 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
3749 TTACTAATTA
* * *
3759 ATTATTTATTAATTAATATTATTTGATG
1 ATTATTTATTAATTAATAATATATAATG
3787 ATTATTTA-TATATTAATAATATATAATG
1 ATTATTTATTA-ATTAATAATATATAATG
3815 A
1 A
3816 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTATTTATTAATTAATAATATATAATG
Found at i:4140 original size:15 final size:15
Alignment explanation
Indices: 4089--4144 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
4079 TAGATAATTG
4089 TATTTAATATTTTAA
1 TATTTAATATTTTAA
* * *
4104 TATGAAATAATATTATAT
1 TAT---TTAATATTTTAA
4122 TATTTAATATTTTAA
1 TATTTAATATTTTAA
4137 TA-TTAATA
1 TATTTAATA
4145 GATAATTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
18 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATATTTTAA
Found at i:5133 original size:10 final size:11
Alignment explanation
Indices: 5112--5151 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
5102 ATGTTTAACA
*
5112 TAATTCATAAT
1 TAATTAATAAT
5123 TAATT-ATAAT
1 TAATTAATAAT
5133 TAATTAATAA-
1 TAATTAATAAT
5143 T-ATTAATAA
1 TAATTAATAA
5152 ATAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:5149 original size:13 final size:14
Alignment explanation
Indices: 5119--5161 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
5109 ACATAATTCA
*
5119 TAATTAATTATAAT
1 TAATTAATAATAAT
5133 TAATTAATAAT-AT
1 TAATTAATAATAAT
*
5146 TAATAAATAAATAAT
1 TAATTAAT-AATAAT
5161 T
1 T
5162 TATATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 13 0.52
15 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATTAATAATAAT
Found at i:5168 original size:17 final size:17
Alignment explanation
Indices: 5138--5170 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5128 ATAATTAATT
5138 AATAATATTAATAAATA
1 AATAATATTAATAAATA
5155 AATAAT-TTATATAAAT
1 AATAATATTA-ATAAAT
5171 TATTTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATATTAATAAATA
Found at i:5797 original size:18 final size:19
Alignment explanation
Indices: 5755--5797 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5745 TATAAGTTGC
*
5755 TATTTAGACTTAATATAAT
1 TATTTAAACTTAATATAAT
*
5774 TA-TTAAACTTAAT-TTAT
1 TATTTAAACTTAATATAAT
5791 TATTTAA
1 TATTTAA
5798 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTAAACTTAATATAAT
Found at i:6239 original size:11 final size:12
Alignment explanation
Indices: 6176--6253 Score: 60
Period size: 11 Copynumber: 7.0 Consensus size: 12
6166 ATTAAACAAA
6176 TAATTTTATAAT
1 TAATTTTATAAT
* *
6188 TAAATATATAA-
1 TAATTTTATAAT
* *
6199 T-ATTTAATAAA
1 TAATTTTATAAT
6210 TAA--TTATAAT
1 TAATTTTATAAT
**
6220 TGTTTTTAT-AT
1 TAATTTTATAAT
6231 TAATTTTATAAT
1 TAATTTTATAAT
6243 TAA-TTTATAAT
1 TAATTTTATAAT
6254 AAGATTACAA
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
10 12 0.24
11 19 0.38
12 19 0.38
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATTTTATAAT
Found at i:7267 original size:22 final size:22
Alignment explanation
Indices: 7239--7283 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7229 TTTATTACAA
**
7239 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
7261 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
7283 T
1 T
7284 TCGCACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:7510 original size:12 final size:12
Alignment explanation
Indices: 7485--7551 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
7475 AAAGATAATC
7485 ATTATT-AG-TA
1 ATTATTAAGATA
7495 ATTATTAAGATA
1 ATTATTAAGATA
* *
7507 ATTA-TAATATT
1 ATTATTAAGATA
* **
7518 ATTAGTATTATAA
1 ATTATTAAGAT-A
*
7531 ATTATTAAAATA
1 ATTATTAAGATA
7543 ATTATTAAG
1 ATTATTAAG
7552 CTTTAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 6 0.13
11 11 0.24
12 20 0.44
13 8 0.18
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (12 bp):
ATTATTAAGATA
Found at i:8022 original size:14 final size:14
Alignment explanation
Indices: 7975--8029 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
7965 GTTAAAAATA
7975 TTAATT-ATTAATT
1 TTAATTAATTAATT
* *
7988 TCTATTTTATT-ATT
1 T-TAATTAATTAATT
*
8002 ATAATTAATTAATT
1 TTAATTAATTAATT
8016 TTAATTAATTAATT
1 TTAATTAATTAATT
8030 AATCAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.24
14 23 0.68
15 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTAATTAATT
Found at i:8053 original size:22 final size:22
Alignment explanation
Indices: 8002--8053 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
7992 TTTTATTATT
* *
8002 ATAATTAATTAATTTTAATTAA
1 ATAATTAATCAATATTAATTAA
*
8024 TTAATTAATCAATATTAATTAA
1 ATAATTAATCAATATTAATTAA
*
8046 ATATTTAA
1 ATAATTAA
8054 ATGTTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATTAATCAATATTAATTAA
Found at i:10093 original size:13 final size:13
Alignment explanation
Indices: 10077--10101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10067 AATACAAATA
10077 AATCTAATTATTT
1 AATCTAATTATTT
10090 AATCTAATTATT
1 AATCTAATTATT
10102 AATAAAGTAT
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:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATCTAATTATTT
Found at i:10157 original size:21 final size:22
Alignment explanation
Indices: 10127--10181 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
10117 AGTTTATTAT
10127 ATAAACTATTGTTAT-AAGTATA
1 ATAAACTATTGTTATGAA-TATA
*
10149 ATAAA-TATTG-CATGAATATA
1 ATAAACTATTGTTATGAATATA
*
10169 ATAAATTATTGTT
1 ATAAACTATTGTT
10182 TATTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 11 0.39
21 12 0.43
22 5 0.18
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
ATAAACTATTGTTATGAATATA
Found at i:10188 original size:20 final size:19
Alignment explanation
Indices: 10118--10199 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 19
10108 GTATTAATTA
10118 GTTTATTAT-ATAAACTATT
1 GTTTATTATAATAAA-TATT
*
10137 GTTATAAGTATAATAAATATT
1 GTT-T-ATTATAATAAATATT
* * *
10158 GCATGAATATAATAAATTATT
1 G-TTTATTATAATAAA-TATT
10179 GTTTATTATAAATTAAATATT
1 GTTTATTAT-AA-TAAATATT
10200 AATTTAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
19 3 0.06
20 16 0.33
21 20 0.41
22 10 0.20
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (19 bp):
GTTTATTATAATAAATATT
Found at i:10540 original size:18 final size:18
Alignment explanation
Indices: 10498--10540 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10488 GGTTAAGGAG
*
10498 AATTATATTATTATAATA
1 AATTATATAATTATAATA
* * *
10516 TAGTATATAATTATTATA
1 AATTATATAATTATAATA
10534 AATTATA
1 AATTATA
10541 ATTAATATAT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTATATAATTATAATA
Found at i:10603 original size:19 final size:19
Alignment explanation
Indices: 10547--10596 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
10537 TATAATTAAT
*
10547 ATATAATTTATTAATATTA
1 ATATAATTTATTAACATTA
10566 ATATAA-TTATTAACATTA
1 ATATAATTTATTAACATTA
10584 A-ATAATTATATTA
1 ATATAATT-TATTA
10597 TAATTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 13 0.46
19 11 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATAATTTATTAACATTA
Found at i:10664 original size:19 final size:20
Alignment explanation
Indices: 10636--10674 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10626 CAATATCTGC
10636 TTCAAGTTA-TTATATATTTA
1 TTCAAGTTATTTATA-ATTTA
10656 TTCAA-TTATTTATAATTTA
1 TTCAAGTTATTTATAATTTA
10675 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
TTCAAGTTATTTATAATTTA
Found at i:11108 original size:13 final size:11
Alignment explanation
Indices: 11078--11102 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11068 TGACTATTAT
11078 TTATAAATATA
1 TTATAAATATA
11089 TTATAAATATA
1 TTATAAATATA
11100 TTA
1 TTA
11103 ACTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTATAAATATA
Found at i:11365 original size:19 final size:19
Alignment explanation
Indices: 11341--11398 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
11331 ATTATTATTT
11341 ATAATTATAAAATAATTAA
1 ATAATTATAAAATAATTAA
*
11360 ATAATTATAATAATAAATATA
1 ATAATTATAA-AATAATTA-A
* *
11381 TTAATTA-ATAATAATTAA
1 ATAATTATAAAATAATTAA
11399 TTATTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 8 0.24
21 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATTATAAAATAATTAA
Found at i:11368 original size:25 final size:25
Alignment explanation
Indices: 11339--11397 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
11329 CAATTATTAT
11339 TTATAATTATAAA-ATAATTAAATAA
1 TTATAATTATAAATAT-ATTAAATAA
* *
11364 TTATAATAATAAATATATTAATTAA
1 TTATAATTATAAATATATTAAATAA
*
11389 TAATAATTA
1 TTATAATTA
11398 ATTATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATAATTATAAATATATTAAATAA
Found at i:11399 original size:14 final size:14
Alignment explanation
Indices: 11351--11409 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
11341 ATAATTATAA
*
11351 AATAATTAAATAAT
1 AATAATTAATTAAT
* *
11365 TATAA-TAATAAAT
1 AATAATTAATTAAT
11378 -AT-ATTAATTAAT
1 AATAATTAATTAAT
*
11390 AATAATTAATTATT
1 AATAATTAATTAAT
11404 AATAAT
1 AATAAT
11410 ACTATAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 1 0.03
12 9 0.24
13 8 0.22
14 19 0.51
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAATTAATTAAT
Found at i:11410 original size:17 final size:17
Alignment explanation
Indices: 11341--11410 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 17
11331 ATTATTATTT
*
11341 ATAATTATAAAATAATTAA
1 ATAATTAT-TAATAA-TAA
11360 ATAATTA-TAATAATAA
1 ATAATTATTAATAATAA
11376 ATATATTAATTAATAATAA
1 ATA-ATT-ATTAATAATAA
*
11395 TTAATTATTAATAATA
1 ATAATTATTAATAATA
11411 CTATAGTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.13
17 18 0.39
18 4 0.09
19 18 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTATTAATAATAA
Found at i:11562 original size:20 final size:19
Alignment explanation
Indices: 11503--11585 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
11493 TTTTAAGATT
11503 ATAATATTCATAATTATTT-
1 ATAATATT-ATAATTATTTA
*
11522 CTAATAGTTATATATTA-TTA
1 ATAATA-TTATA-ATTATTTA
11542 ATAATATTAATAATTATTTA
1 ATAATATT-ATAATTATTTA
* *
11562 ATGA-ATTAT-ATTATATGA
1 ATAATATTATAATTAT-TTA
11580 ATAATA
1 ATAATA
11586 CTATTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 7 0.13
19 20 0.38
20 20 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
ATAATATTATAATTATTTA
Found at i:11902 original size:17 final size:17
Alignment explanation
Indices: 11880--11914 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11870 CACATTAATT
*
11880 AATTATTAAAAATTATA
1 AATTATAAAAAATTATA
11897 AATTATAAAAAATTATA
1 AATTATAAAAAATTATA
11914 A
1 A
11915 CAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTATAAAAAATTATA
Found at i:12126 original size:19 final size:18
Alignment explanation
Indices: 12101--12137 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12091 TATTATAGTA
*
12101 TTATATA-AATCATTAAG
1 TTATATATAATAATTAAG
12118 TTATATATAATAATTAAG
1 TTATATATAATAATTAAG
12136 TT
1 TT
12138 TCAAATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATATAATAATTAAG
Found at i:12564 original size:27 final size:27
Alignment explanation
Indices: 12518--12572 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12508 AAGTTTATTA
* *
12518 AATAATCATTAAAATAATATTTTAATT
1 AATAATAATTAAAATAATATATTAATT
* *
12545 AATAATAATTAATATTATATATTAATT
1 AATAATAATTAAAATAATATATTAATT
12572 A
1 A
12573 CAATTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AATAATAATTAAAATAATATATTAATT
Found at i:12577 original size:23 final size:22
Alignment explanation
Indices: 12532--12589 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
12522 ATCATTAAAA
* *
12532 TAATATTTTAATTAATAATAAT
1 TAATATTATAATTAATAACAAT
*
12554 TAATATTATATATTAATTACAAT
1 TAATATTATA-ATTAATAACAAT
12577 TAATTAATTATAA
1 TAA-T-ATTATAA
12590 AATAATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.30
23 13 0.43
24 2 0.07
25 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATTATAATTAATAACAAT
Found at i:13422 original size:23 final size:23
Alignment explanation
Indices: 13380--13425 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13370 TTAAAAAATT
*
13380 ATATATTATTTATAATTATATAA
1 ATATATTACTTATAATTATATAA
13403 ATATA-TACTTATAATATATATAA
1 ATATATTACTTATAAT-TATATAA
13426 TTATCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATTACTTATAATTATATAA
Found at i:14089 original size:25 final size:24
Alignment explanation
Indices: 14041--14090 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
14031 GTTTATTAAT
* * *
14041 ATAATTAATTATTAATTATGATAA
1 ATAATTAAATATAAATTATAATAA
14065 ATAATTAAATACTAAATTATAATAA
1 ATAATTAAATA-TAAATTATAATAA
14090 A
1 A
14091 ATGTTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATAATTAAATATAAATTATAATAA
Found at i:14162 original size:16 final size:18
Alignment explanation
Indices: 14131--14165 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
14121 TTAATTTGTA
14131 TACAATTATAAATATTAT
1 TACAATTATAAATATTAT
14149 TACAA-TAT-AATATTAT
1 TACAATTATAAATATTAT
14165 T
1 T
14166 GTAAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TACAATTATAAATATTAT
Found at i:14385 original size:24 final size:25
Alignment explanation
Indices: 14345--14395 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
14335 TAACAATTAA
*
14345 TAATTTAACTTATTATAAATTATAT
1 TAATATAACTTATTATAAATTATAT
* *
14370 TAATATAA-TTATTATATATTTTAT
1 TAATATAACTTATTATAAATTATAT
14394 TA
1 TA
14396 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATAACTTATTATAAATTATAT
Found at i:14512 original size:20 final size:19
Alignment explanation
Indices: 14489--14544 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
14479 TAATATTTCT
*
14489 ATAATATCAATATATTATTA
1 ATAATAT-AATATATTATAA
14509 ATAAT-TAATATTATATATAA
1 ATAATATAATA-TAT-TATAA
14529 ATAATTATAATATATT
1 ATAA-TATAATATATT
14545 TAGATAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 14 0.45
21 4 0.13
22 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATAATATATTATAA
Found at i:14680 original size:22 final size:22
Alignment explanation
Indices: 14653--14702 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14643 TAAATTAATT
* *
14653 ATATTACTAATTAATTTAA-CAA
1 ATATTA-TAATAAAATTAATCAA
14675 ATATTATAATAAAATTAATCAA
1 ATATTATAATAAAATTAATCAA
*
14697 TTATTA
1 ATATTA
14703 ATTAACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTATAATAAAATTAATCAA
Found at i:14918 original size:25 final size:25
Alignment explanation
Indices: 14878--14958 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
14868 TGTTATAATT
14878 AAATATATATTA-TATTAATTAAATA
1 AAATAT-TATTACTATTAATTAAATA
* *
14903 AAATATTATTACTATT--TTTATTA
1 AAATATTATTACTATTAATTAAATA
* *
14926 ATAATATTTAATACTA-TAATTATATA
1 A-AATA-TTATTACTATTAATTAAATA
14952 AAATATT
1 AAATATT
14959 TGAATAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
23 6 0.13
24 12 0.27
25 22 0.49
26 5 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATATTATTACTATTAATTAAATA
Found at i:14959 original size:25 final size:25
Alignment explanation
Indices: 14893--14979 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
14883 TATATTATAT
* *
14893 TAATTAAATAAAATA-TTATTACTA
1 TAATTATATAAAATATTTAATACTA
**
14917 TTTTTAT-TAATAATATTTAATACTA
1 TAATTATATAA-AATATTTAATACTA
*
14942 TAATTATATAAAATATTTGA-A-TA
1 TAATTATATAAAATATTTAATACTA
14965 -AATTCATATAAAATA
1 TAATT-ATATAAAATA
14980 AAATTTATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
22 4 0.08
23 15 0.29
24 9 0.17
25 21 0.40
26 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (25 bp):
TAATTATATAAAATATTTAATACTA
Found at i:15024 original size:20 final size:20
Alignment explanation
Indices: 14987--15025 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14977 ATAAAATTTA
*
14987 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
15007 TAATTTATATATAT-TAATT
1 TAATTTAT-TATATGTAATT
15026 AATTAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:15955 original size:24 final size:24
Alignment explanation
Indices: 15928--15975 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15918 CTACTTAAAA
* * *
15928 TAAAAAGAATAGTTTGAATAATAT
1 TAAAAACAATAGTATAAATAATAT
*
15952 TAAAAACAATTGTATAAATAATAT
1 TAAAAACAATAGTATAAATAATAT
15976 ATTGTATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (24 bp):
TAAAAACAATAGTATAAATAATAT
Found at i:16064 original size:24 final size:26
Alignment explanation
Indices: 16017--16064 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16007 CAGTATAACC
*
16017 AATATACTTAAGAGTTAATCTTAAAT
1 AATATACTTAAGAGTTAATATTAAAT
*
16043 AATATATTTAA-AG-TAATATTAA
1 AATATACTTAAGAGTTAATATTAA
16065 TTATTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 2 0.10
26 10 0.50
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AATATACTTAAGAGTTAATATTAAAT
Found at i:16563 original size:19 final size:18
Alignment explanation
Indices: 16539--16585 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
16529 ATTATCAGAG
16539 CAATAATAT-ATCAATATT
1 CAATAATATAAT-AATATT
16557 ACAATAATTATAATAATATT
1 -CAATAA-TATAATAATATT
*
16577 TAATAATAT
1 CAATAATAT
16586 TAATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 9 0.36
21 2 0.08
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
CAATAATATAATAATATT
Found at i:16596 original size:19 final size:19
Alignment explanation
Indices: 16574--16613 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16564 TTATAATAAT
*
16574 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
16593 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
16612 AT
1 AT
16614 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:16695 original size:21 final size:21
Alignment explanation
Indices: 16656--16695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16646 ATTTATTAGT
* * *
16656 TAAATTAATTATAATAATATG
1 TAAATTAAATAAAAAAATATG
16677 TAAATTAAATAAAAAAATA
1 TAAATTAAATAAAAAAATA
16696 ATTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAATTAAATAAAAAAATATG
Found at i:16935 original size:16 final size:16
Alignment explanation
Indices: 16877--16935 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
16867 TATTTGATAA
*
16877 TATAATTATCA-ATAT
1 TATAATTATAATATAT
16892 TACTAATT-TAATACTA-
1 TA-TAATTATAATA-TAT
* *
16908 TATTATTCTAATATAT
1 TATAATTATAATATAT
16924 TATAATTATAAT
1 TATAATTATAAT
16936 TATAATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 10 0.29
16 23 0.66
17 2 0.06
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAATTATAATATAT
Found at i:17071 original size:17 final size:17
Alignment explanation
Indices: 17044--17118 Score: 78
Period size: 17 Copynumber: 4.9 Consensus size: 17
17034 TAAATACACA
17044 ATAATTA-TAATATTTG
1 ATAATTAGTAATATTTG
17060 ATAATTAGTAATATTTG
1 ATAATTAGTAATATTTG
17077 ATAA-T--T-ATA-TT-
1 ATAATTAGTAATATTTG
17088 A-AACTT-GTAATATTTG
1 ATAA-TTAGTAATATTTG
17104 ATAATTAGTAATATT
1 ATAATTAGTAATATT
17119 ATTTGATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
10 2 0.04
11 1 0.02
12 3 0.06
13 4 0.08
14 4 0.08
15 2 0.04
16 11 0.22
17 23 0.46
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (17 bp):
ATAATTAGTAATATTTG
Found at i:17079 original size:44 final size:44
Alignment explanation
Indices: 17026--17118 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
17016 ATTTAATAAT
17026 ATATTTGATAAATACA-CAATAATTATAATATTTGATAATTAGTA
1 ATATTTGATAAATACATCAA-AATTATAATATTTGATAATTAGTA
* * * * *
17070 ATATTTGATAATTATATTAAACTTGTAATATTTGATAATTAGTA
1 ATATTTGATAAATACATCAAAATTATAATATTTGATAATTAGTA
17114 ATATT
1 ATATT
17119 ATTTGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (44 bp):
ATATTTGATAAATACATCAAAATTATAATATTTGATAATTAGTA
Found at i:17132 original size:11 final size:11
Alignment explanation
Indices: 17098--17139 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
17088 AAACTTGTAA
17098 TATTTGATAAT
1 TATTTGATAAT
* *
17109 TA-GTAAT-AT
1 TATTTGATAAT
17118 TATTTGATAAT
1 TATTTGATAAT
17129 TATTTGATAAT
1 TATTTGATAAT
17140 ATAATATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (11 bp):
TATTTGATAAT
Found at i:17511 original size:182 final size:180
Alignment explanation
Indices: 17309--17657 Score: 479
Period size: 182 Copynumber: 1.9 Consensus size: 180
17299 TTTACCAATC
* **
17309 AAGTTCAAATAGTCATGACTAT-TTCAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTT
1 AAGTTCAAATAGTCATGACTATCTT-AATAATTATCTACTTCAAAACATTACAACATTTTGTTTT
* * *
17373 GTAATAAAACAATTGTTTCAAATCATGT-TAGCTTATTTGAAATAAAATAATACT-AATTTATTA
65 GTAATAAAACAATTGGTTCAAATCAT-TCAAGCTTATTTCAAATAAAATAATA-TAAATTTATTA
17436 ATATTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAATAAATCTTTTTATCGAAG
128 ATATTCCAAAAATTAAAAAGTAA-A-AATTAAAAAAATAAATCTTTTTATCGAAG
* * *
17491 AAGTTCAAATAGTTATGACTATCTTAATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTG
1 AAGTTCAAATAGTCATGACTATCTTAATAATTATCTACTTCAAAACATTACAACATTTTGTTTTG
* * * * *
17556 TCATAAAACGATTGGTTCTATTCATTCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATG
66 TAATAAAACAATTGGTTCAAATCATTCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATA
* **
17621 TTCCAAAAATTAATAAGTAAAAATTTCAAAAATAAAT
131 TTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAAT
17658 TTATTTAAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
180 14 0.10
181 3 0.02
182 128 0.87
183 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (180 bp):
AAGTTCAAATAGTCATGACTATCTTAATAATTATCTACTTCAAAACATTACAACATTTTGTTTTG
TAATAAAACAATTGGTTCAAATCATTCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATA
TTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAATCTTTTTATCGAAG
Found at i:18583 original size:26 final size:24
Alignment explanation
Indices: 18554--18621 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
18544 TAATTAAACT
18554 TTAATTAAATATAAATTAAATAATA
1 TTAATTAAATATAAATTAAATAA-A
* * * *
18579 GTTAATTAGATATTAGTTTAATAAA
1 -TTAATTAAATATAAATTAAATAAA
*
18604 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
18622 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 10 0.30
25 4 0.12
26 19 0.58
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAA
Found at i:18682 original size:22 final size:21
Alignment explanation
Indices: 18651--18699 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
18641 ACAAAACTAT
18651 TTAATATATAATAATTATAATA
1 TTAATATATAATAATTA-AATA
* * *
18673 TTAATTTATAATTATTAACTA
1 TTAATATATAATAATTAAATA
18694 TTAATA
1 TTAATA
18700 ATGATAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATATATAATAATTAAATA
Found at i:18796 original size:22 final size:22
Alignment explanation
Indices: 18764--18806 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18754 TATAAACAAT
*
18764 TATTATTGTATTAATTT-AATAA
1 TATTATAGTATT-ATTTGAATAA
18786 TATTATAGTATTATTTGAATA
1 TATTATAGTATTATTTGAATA
18807 TAACTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTATAGTATTATTTGAATAA
Found at i:19856 original size:28 final size:28
Alignment explanation
Indices: 19834--19887 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19824 CTATTTTATT
19834 TATATATAATAATTAATAATATTAATTAA
1 TATA-ATAATAATTAATAATATTAATTAA
* *
19863 TATAATAGTAATTAAT-ATAATAATT
1 TATAATAATAATTAATAATATTAATT
19888 CCAATAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
TATAATAATAATTAATAATATTAATTAA
Found at i:19946 original size:11 final size:12
Alignment explanation
Indices: 19923--19964 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
19913 ATTCCAAATA
*
19923 ATTATAATAATT
1 ATTATAATTATT
19935 ATT-TAATTATT
1 ATTATAATTATT
19946 ATTATAA-TATT
1 ATTATAATTATT
*
19957 AATATAAT
1 ATTATAAT
19965 AATATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATAATTATT
Found at i:19996 original size:17 final size:16
Alignment explanation
Indices: 19949--20008 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
19939 AATTATTATT
*
19949 ATAATAT-TAATA-TA
1 ATAATATATAAAATTA
*
19963 ATAATATATAATCATTA
1 ATAATATATAA-AATTA
19980 ATAATATCATAAAATT-
1 ATAATAT-ATAAAATTA
19996 ATAA-ATATAAAAT
1 ATAATATATAAAAT
20009 AATGATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 14 0.35
15 5 0.12
16 5 0.12
17 12 0.30
18 4 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATATATAAAATTA
Found at i:20745 original size:182 final size:180
Alignment explanation
Indices: 20307--20917 Score: 532
Period size: 182 Copynumber: 3.4 Consensus size: 180
20297 AATAATTAAA
* * * * **
20307 AATTAATTAATATTCC-AATTTAATAAGTGAAA-ATTT-AAAAATAAATTCTGTTTTTTTGAAC-
1 AATTTATTAATATTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAA-TATG-TTTACTGAACA
* * *
20368 ATGTTGGAATATACGTTCTGACTATTTGAAAAATTATTTATTT-TAATAGTTATGACCTTTT-TT
64 AGGTT--AA-ATA-GTTATGACTATTTGAACAATTATTTATTTCTAATAGTTATGACCTTTTGTT
* * *
20431 TTGTTTG-TGTAACCAATTGTTTCCTGTCCATTACAAGCTTTATACCAAATAAACAT-A-ATT
125 TTG--TGATG-AATCAATTGTTTCCTGT-C-TTACAAGC-TTATTCAAAATAAA-ATAATATT
* ** *
20491 AATTTATTAATATTCCAAAATTTAATAAGTAAAA-ATTTAAAAAATAAATTTGTTTTTTGAACAT
1 AATTTATTAATATTCCAAAA-TTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTGAACAA
* * *
20555 GTTTAAATAGATT-TGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGT
65 GGTTAAATAG-TTATGACTATTTGAACAATTATTTATTTCTAATAGTTATGACCTTTTGTTTTGT
* *
20619 GATGAATCAATTGTTTTCTGTCTGTATAAGCTTATTCAAAATAAAATAATATT
129 GATGAATCAATTGTTTCCTGTCT-TACAAGCTTATTCAAAATAAAATAATATT
* * * **
20672 AATTTAATAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTGAGTAA
1 AATTTATTAATATTCCAA-AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTGAACAA
* * * **
20737 GGTTAAATAGTTATAACTGTTTGAACAATTTTTTATTTCTAATAGTTTAT-AATTTTTGTTTTGT
65 GGTTAAATAGTTATGACTATTTGAACAATTATTTATTTCTAATAG-TTATGACCTTTTGTTTTGT
* * * * * *
20801 CATAAAAT-AATTGTTTCCTATTCATACAAGTTTATTAAAAAT-AAATAATATT
129 GAT-GAATCAATTGTTTCCT-GTCTTACAAGCTTATTCAAAATAAAATAATATT
* * * **
20853 ACTTTATTAATATTTTGC-AAATTAATAGGTAGGCAGATTTAAAAAATAAATATGTTTACTGAAC
1 AATTTATTAATA--TTCCAAAATTAATAAGTA-AAAGATTTAAAAAATAAATATGTTTACTGAAC
20917 A
63 A
20918 GTTCAAATAG
Statistics
Matches: 358, Mismatches: 49, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
179 2 0.01
180 14 0.04
181 73 0.20
182 169 0.47
183 36 0.10
184 22 0.06
185 12 0.03
186 21 0.06
187 9 0.03
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (180 bp):
AATTTATTAATATTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTGAACAAG
GTTAAATAGTTATGACTATTTGAACAATTATTTATTTCTAATAGTTATGACCTTTTGTTTTGTGA
TGAATCAATTGTTTCCTGTCTTACAAGCTTATTCAAAATAAAATAATATT
Found at i:21351 original size:18 final size:18
Alignment explanation
Indices: 21338--21393 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
21328 AAATAAGTTA
21338 ATTATAATTTATAATATTAT
1 ATTATAATTTAT-A-ATTAT
*
21358 AATATAATATTATAATTAT
1 ATTATAAT-TTATAATTAT
*
21377 ATTATTATTTATAATTA
1 ATTATAATTTATAATTA
21394 ACTTATTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.28
19 11 0.34
20 8 0.25
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATAATTTATAATTAT
Found at i:22147 original size:20 final size:21
Alignment explanation
Indices: 22102--22162 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
22092 AATATAGAGC
*
22102 ATTTGTTT-ATAATATAAATTTA
1 ATTTGTTTAATTATATAAA--TA
22124 ATTTGTTTAATTATATAAAT-
1 ATTTGTTTAATTATATAAATA
22144 ATTTGTTTAATTA-ATAAAT
1 ATTTGTTTAATTATATAAAT
22163 TGTTGTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.16
20 13 0.35
21 1 0.03
22 8 0.22
23 9 0.24
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTGTTTAATTATATAAATA
Found at i:22469 original size:18 final size:19
Alignment explanation
Indices: 22443--22488 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
22433 GAATATAACA
*
22443 TTTAAAATTATATT-CTAT
1 TTTATAATTATATTACTAT
*
22461 TTTATAATT-TATTATTAT
1 TTTATAATTATATTACTAT
*
22479 ATTATAATTA
1 TTTATAATTA
22489 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAATTATATTACTAT
Found at i:22497 original size:18 final size:18
Alignment explanation
Indices: 22462--22505 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
22452 ATATTCTATT
*
22462 TTATAATTTATTATTATA
1 TTATAATTAATTATTATA
22480 TTATAATTAA-TA-TATA
1 TTATAATTAATTATTATA
22496 TATATAATTA
1 T-TATAATTA
22506 GCAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATAATTAATTATTATA
Found at i:23745 original size:537 final size:539
Alignment explanation
Indices: 22795--23797 Score: 1354
Period size: 537 Copynumber: 1.9 Consensus size: 539
22785 AAATTAGTTA
** * ** *
22795 CTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTA
1 CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAACTTTTATAAACTA
* * ** * *
22860 AAACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGC
66 AAACAATTATTTTATGACAAAACAAAAGGTCATAACGAATTTAAATAAATAATTGTTCAAATAAC
* *
22925 CGTAATTATTCAAACTTGTCGGTAAACAAATTTATTATTTTTAAATCTCATGATTATTAATTTTT
131 CG-AATTATTCAAACTTGTCGATAAACAAATTTATTATTTTTAAATCTAATGATTATTAATTTTT
* * * *
22990 TGAAAATTAATAAATTAGTATTATTTTCTTTCAAATAAGCTTTGTATAAACTGAAGCAATTTATT
195 TGAAAATTAATAAATTAGCATTAATTTATTTCAAATAAGCTTTGTATAAACTGAAACAATTTATT
* * * * *
23055 ACACGACTAAAGAAAAGGTCATAATGATTTGAAATTGATAATTATTCTAATAGTCTTAACTATTT
260 ACACGACTAAACAAAAGGTCAAAATGATATGAAATAGATAATTATCCTAATAGTCTTAACTATTT
* * * *
23120 AAACTAGTTTGGTAAACGCATTTATTTTTTGAATCTCTTATTAATTTTTGAAATATTATTAAATT
325 AAACTAGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTAATTTTTGAAATATTATTAAATT
* * * * ** * *
23185 AGTAATATTTTTATCTAAATAAGCTTGTATGATCAGAAATAATTATTTTATGAGAAAACAAAGAT
390 AGTAATACTTTAATATAAATAAGCTTATATGAAAAGAAACAATTATTTTATGACAAAACAAAGAT
23250 CAAAACAATTTGAGATTGATATTTATTCAAATAGCCATAATTATTGAACTGATTTAGAAAACAAT
455 CAAAACAATTTGAGATTGATATTTATTCAAATAGCCATAATTATTGAACTGATTTAGAAAACAAT
23315 TTTAGTTTTTAAAAATCTTG
520 TTTAGTTTTTAAAAATCTTG
**
23335 CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTATAAACTA
1 CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAACTTTTATAAACTA
* *
23400 AAACAATTATTTTATGACAAAACAAAAGGTCATAACGAATTTAAATAGATAATTGTTCAAATAAT
66 AAACAATTATTTTATGACAAAACAAAAGGTCATAACGAATTTAAATAAATAATTGTTCAAATAAC
** * * * * * *
23465 C-AATCTATTTTAATTTATTTGATAAATAGATTTATT-TTTTTAAATCTAATGCTTATTAATTTT
131 CGAAT-TATTCAAACTT-GTCGATAAACAAATTTATTATTTTTAAATCTAATGATTATTAATTTT
** * * *
23528 TTGAATGTTAATAAATTAGCATTAATTTA-TTCTAAATAAGC-TTGTATGAATTGAAATAATTGT
194 TTGAAAATTAATAAATTAGCATTAATTTATTTC-AAATAAGCTTTGTATAAACTGAAACAATT-T
***
23591 -TT-TGTGACTAAACAAAAGGTCAAAATGATATGAAATAGATAATTATCCTAATAGTCTTAACTA
257 ATTACACGACTAAACAAAAGGTCAAAATGATATGAAATAGATAATTATCCTAATAGTCTTAACTA
23654 TTTAAACTAGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTAATTTTT-AGAATATTATTA
322 TTTAAACTAGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTAATTTTTGA-AATATTATTA
* * * *
23718 AATTAGTATTACTTTAATATGAATAAGCTTATATGAAAAGAAACAATTCTTTTATGACAAAATAA
386 AATTAGTAATACTTTAATATAAATAAGCTTATATGAAAAGAAACAATTATTTTATGACAAAACAA
**
23783 AGATCGTAACAATTT
451 AGATCAAAACAATTT
23798 TGATATAATA
Statistics
Matches: 397, Mismatches: 61, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
536 1 0.00
537 177 0.45
538 24 0.06
539 66 0.17
540 129 0.32
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (539 bp):
CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAACTTTTATAAACTA
AAACAATTATTTTATGACAAAACAAAAGGTCATAACGAATTTAAATAAATAATTGTTCAAATAAC
CGAATTATTCAAACTTGTCGATAAACAAATTTATTATTTTTAAATCTAATGATTATTAATTTTTT
GAAAATTAATAAATTAGCATTAATTTATTTCAAATAAGCTTTGTATAAACTGAAACAATTTATTA
CACGACTAAACAAAAGGTCAAAATGATATGAAATAGATAATTATCCTAATAGTCTTAACTATTTA
AACTAGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTAATTTTTGAAATATTATTAAATTA
GTAATACTTTAATATAAATAAGCTTATATGAAAAGAAACAATTATTTTATGACAAAACAAAGATC
AAAACAATTTGAGATTGATATTTATTCAAATAGCCATAATTATTGAACTGATTTAGAAAACAATT
TTAGTTTTTAAAAATCTTG
Found at i:24146 original size:16 final size:17
Alignment explanation
Indices: 24125--24157 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24115 TTATATTTAT
24125 GTATTA-AATTTTAATA
1 GTATTATAATTTTAATA
*
24141 GTATTATATTTTTAATA
1 GTATTATAATTTTAATA
24158 ACTATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
GTATTATAATTTTAATA
Found at i:24231 original size:15 final size:14
Alignment explanation
Indices: 24213--24254 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
24203 AATTTAATAT
24213 TATATTAATTAATTC
1 TATATTAA-TAATTC
24228 TATATTAATAATT-
1 TATATTAATAATTC
24241 TGATATATAATAAT
1 T-ATAT-TAATAAT
24255 ATAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 15 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TATATTAATAATTC
Found at i:24342 original size:15 final size:14
Alignment explanation
Indices: 24321--24415 Score: 60
Period size: 13 Copynumber: 7.0 Consensus size: 14
24311 TATTCTAAGT
24321 ATTATATAATTATA
1 ATTATATAATTATA
24335 ATTTATATAATGT-T-
1 A-TTATATAAT-TATA
*
24349 ATTATATTATT-TA
1 ATTATATAATTATA
* *
24362 A-AATATATTTATA
1 ATTATATAATTATA
* *
24375 ATTTATTTATTTATA
1 A-TTATATAATTATA
24390 A-TATATAATTAT-
1 ATTATATAATTATA
24402 A-TATATAGATTATA
1 ATTATATA-ATTATA
24416 TATATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
12 15 0.23
13 26 0.40
14 2 0.03
15 21 0.32
16 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTATATAATTATA
Done.