Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167966.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_225, 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: 46882
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.20
File 1 of 2
Found at i:213 original size:25 final size:24
Alignment explanation
Indices: 158--214 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
148 TAAGAAAAGA
* *
158 ATAAAAATGAAAATACAAAAGATT
1 ATAAAAATAAAAATACAAAACATT
* *
182 ATGAAAATAAAAAATCCAAAACATT
1 ATAAAAAT-AAAAATACAAAACATT
*
207 CTAAAAAT
1 ATAAAAAT
215 TTATGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (24 bp):
ATAAAAATAAAAATACAAAACATT
Found at i:309 original size:22 final size:23
Alignment explanation
Indices: 284--331 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
274 AAAGAATATT
*
284 AAAGTA-AAACAAAAAG-ATAAAC
1 AAAGTACAAA-AAAAAGAAAAAAC
306 AAAGTACAAAAAAAAGAAAAAAC
1 AAAGTACAAAAAAAAGAAAAAAC
329 AAA
1 AAA
332 CAAAAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.06
Consensus pattern (23 bp):
AAAGTACAAAAAAAAGAAAAAAC
Found at i:397 original size:20 final size:21
Alignment explanation
Indices: 362--407 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
352 AAAAAGTAAG
362 AAAATAAAAAATAATT-AATCA
1 AAAATAAAAAATAATTGAAT-A
*
383 AAAATACAAAA-AATTGAATA
1 AAAATAAAAAATAATTGAATA
403 AAAAT
1 AAAAT
408 TTAGAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATAAAAAATAATTGAATA
Found at i:767 original size:25 final size:24
Alignment explanation
Indices: 713--768 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
703 AAAAAATATT
* * *
713 AAAACAATGAAATAATGGAAACAA
1 AAAAAAATGAAAGAATGGAAAAAA
* *
737 ATAAAAATGAAAGCATGTGAAAAAA
1 AAAAAAATGAAAGAATG-GAAAAAA
762 AAAAAAA
1 AAAAAAA
769 AAGCAAAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAAAATGAAAGAATGGAAAAAA
Found at i:1370 original size:24 final size:23
Alignment explanation
Indices: 1343--1398 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
1333 AAAGATATAA
1343 AAAATCAAAGACAAAAAATAAAAG
1 AAAATCAAAGACAAAAAAT-AAAG
* * *
1367 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAG
1390 AAAATCAAA
1 AAAATCAAA
1399 AGGAAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.07
23 9 0.33
24 14 0.52
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAG
Found at i:1851 original size:17 final size:16
Alignment explanation
Indices: 1829--1914 Score: 65
Period size: 17 Copynumber: 5.3 Consensus size: 16
1819 ACACAATTAA
1829 AAAAAAGTAAGAAAATG
1 AAAAAA-TAAGAAAATG
*
1846 AAAAAATGAGTCAAAA-G
1 AAAAAATAAG--AAAATG
*
1863 AAAAAATAAAAAAAT-
1 AAAAAATAAGAAAATG
1878 ACAAAAACTAATGAAAATG
1 A-AAAAA-TAA-GAAAATG
1897 -AAAAA-AAGAAAA-G
1 AAAAAATAAGAAAATG
1910 AAAAA
1 AAAAA
1915 GACAATAGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 1 0.02
14 9 0.16
15 7 0.12
16 8 0.14
17 23 0.40
18 9 0.16
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAAATAAGAAAATG
Found at i:1965 original size:20 final size:19
Alignment explanation
Indices: 1940--1986 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1930 TTTAGTTTAT
1940 AAAATACAAACAAAAAATAA
1 AAAATA-AAACAAAAAATAA
* *
1960 AAAATATAACAAACAATAA
1 AAAATAAAACAAAAAATAA
*
1979 GAAATAAA
1 AAAATAAA
1987 GATATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAATAAAACAAAAAATAA
Found at i:2032 original size:17 final size:17
Alignment explanation
Indices: 2006--2038 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1996 AATCAATGAT
2006 AAAAAATTAA-AAAAAG
1 AAAAAATTAATAAAAAG
2022 AAAAAAGTTAATAAAAA
1 AAAAAA-TTAATAAAAA
2039 ATAAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAATTAATAAAAAG
Found at i:2051 original size:30 final size:28
Alignment explanation
Indices: 2004--2059 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
1994 AAAATCAATG
*
2004 ATAAAAAATTAAAAAAAGAAAAAAGTTA
1 ATAAAAAATAAAAAAAAGAAAAAAGTTA
*
2032 ATAAAAAATAAAAACAAAAGAAAGAAGT
1 ATAAAAAAT-AAAA-AAAAGAAAAAAGT
2060 GTGGATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 3 0.12
30 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (28 bp):
ATAAAAAATAAAAAAAAGAAAAAAGTTA
Found at i:2706 original size:21 final size:21
Alignment explanation
Indices: 2682--2766 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
2672 AAATTGTATC
2682 AAATAAAAGATAAATATTATA
1 AAATAAAAGATAAATATTATA
* *
2703 AAATAAAAAAT-AATA-AATA
1 AAATAAAAGATAAATATTATA
*** * *
2722 AAAT--AATCCAAATTTTATT
1 AAATAAAAGATAAATATTATA
2741 AAATAAAAGATAAATATTATA
1 AAATAAAAGATAAATATTATA
*
2762 CAATA
1 AAATA
2767 TAATTTTGTT
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
17 2 0.04
18 3 0.07
19 13 0.28
20 4 0.09
21 24 0.52
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATAAAAGATAAATATTATA
Found at i:3083 original size:19 final size:19
Alignment explanation
Indices: 3061--3124 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
3051 AAAAAATCGT
*
3061 AAAAATACAAAAACT-AATA
1 AAAAATACAAAAA-TGAAGA
* *
3080 AAAATTTCAAAAATGAAGA
1 AAAAATACAAAAATGAAGA
*
3099 AAAAATGAC-AAAATAGAAAA
1 AAAAAT-ACAAAAAT-GAAGA
3119 AAAAAT
1 AAAAAT
3125 TAGTTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 1 0.03
19 24 0.67
20 11 0.31
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAATACAAAAATGAAGA
Found at i:3539 original size:18 final size:18
Alignment explanation
Indices: 3502--3540 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3492 AGAAAATTTT
*
3502 AAAACAAAGAAAAAAGTG
1 AAAACAAAGAAAAAAATG
3520 AAAACAAA-AAAAAATATG
1 AAAACAAAGAAAAAA-ATG
3538 AAA
1 AAA
3541 GCACATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAACAAAGAAAAAAATG
Found at i:3725 original size:25 final size:24
Alignment explanation
Indices: 3690--3740 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
3680 AAAATTTATG
*
3690 AAAATATAAATAAAGA-AAGAAATAA
1 AAAATAAAAATAAA-ATAAGAAA-AA
3715 AAAATAAAAATAAAATAAGAAAAA
1 AAAATAAAAATAAAATAAGAAAAA
3739 AA
1 AA
3741 TTAAAGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATAAAAATAAAATAAGAAAAA
Found at i:3767 original size:28 final size:27
Alignment explanation
Indices: 3735--3805 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
3725 TAAAATAAGA
3735 AAAAAATTAAAGCAAAACAAAAATACAAT
1 AAAAAATTAAA--AAAACAAAAATACAAT
* **
3764 AAAAAATATAAAAAGACAAAAATTGAAT
1 AAAAAAT-TAAAAAAACAAAAATACAAT
* *
3792 AAAAATTTCAAAAA
1 AAAAAATTAAAAAA
3806 TGAAAGGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.14
28 19 0.54
29 7 0.20
30 4 0.11
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (27 bp):
AAAAAATTAAAAAAACAAAAATACAAT
Found at i:3902 original size:22 final size:23
Alignment explanation
Indices: 3858--3917 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
3848 AAAAAATTGA
*
3858 AAAAC-ATATAAGAAATAATAAG
1 AAAACAATATAAAAAATAATAAG
*
3880 AAAACAATATAAAAAATCA-AAG
1 AAAACAATATAAAAAATAATAAG
*
3902 ACAAAAAAT-TAAAAAA
1 A-AAACAATATAAAAAA
3918 GAGAAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAACAATATAAAAAATAATAAG
Found at i:4232 original size:28 final size:29
Alignment explanation
Indices: 4168--4232 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
4158 AAGAATATTA
*
4168 AAGTAAAACAAAAAAGATAAACAAAGTAC
1 AAGTAAAACAAAAAAGATAAACAAAATAC
** *
4197 AAAAAAAAGAAAAAA-ATAAACAAAAATAC
1 AAGTAAAACAAAAAAGATAAAC-AAAATAC
4226 -AGTAAAA
1 AAGTAAAA
4233 ATATAAAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.09
Consensus pattern (29 bp):
AAGTAAAACAAAAAAGATAAACAAAATAC
Found at i:4241 original size:8 final size:7
Alignment explanation
Indices: 4228--4288 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 7
4218 AAAAATACAG
4228 TAAAAATA
1 TAAAAA-A
*
4236 TAAAAAG
1 TAAAAAA
4243 TAAGAAAA
1 TAA-AAAA
4251 TAAAAAA
1 TAAAAAA
**
4258 TAATTAA
1 TAAAAAA
*
4265 TCAAAAA
1 TAAAAAA
4272 TACAAAAA
1 TA-AAAAA
4280 TACAAAAA
1 TA-AAAAA
4288 T
1 T
4289 TGAATAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
7 17 0.40
8 26 0.60
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:4661 original size:25 final size:24
Alignment explanation
Indices: 4607--4662 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
4597 AAAAAATATT
* * *
4607 AAAACAATGAAATAATGGAAACAA
1 AAAAAAATGAAAGAATGGAAAAAA
* *
4631 ATAAAAATGAAAGCATGTGAAAAAA
1 AAAAAAATGAAAGAATG-GAAAAAA
4656 AAAAAAA
1 AAAAAAA
4663 AGCAAAAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAAAATGAAAGAATGGAAAAAA
Found at i:4777 original size:17 final size:18
Alignment explanation
Indices: 4755--4807 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
4745 TAAGAAAATG
*
4755 AAAATATAAAT-TAAGAA
1 AAAATATAAATAAAAGAA
4772 AAAATATTAATATAAAAGAA
1 AAAATA-TAA-ATAAAAGAA
*
4792 AAAATA-AAATAGAAGA
1 AAAATATAAATAAAAGA
4808 GTAAAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 13 0.42
18 5 0.16
19 2 0.06
20 11 0.35
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAATATAAATAAAAGAA
Found at i:5186 original size:233 final size:234
Alignment explanation
Indices: 4855--5343 Score: 594
Period size: 234 Copynumber: 2.0 Consensus size: 234
4845 AAAAGGGAGA
** *
4855 AAATAAAAAATTAGCTAATAAAAAAATATAAAAAGAGAAAATGAAGAAAAATTTGAAATATAAAA
1 AAATAAAAAATTAGAGAATAAAAAAATATAAAAAGAGAAAATGAAGAAAAATTTCAAATATAAAA
* *
4920 TAGAAAAAACTTTTAGTTTAGAATATACAAAG-AAAATATAACAAA-TATAATAAAAG-GACAAA
66 TAGAAAAAAC-TTTAGTTTAGAATATACAAAGAAAAATATAACAAAGTAGAAAAAAAGAGACAAA
* *
4982 TAATCAAAGATAAAAAATAAAATAAAAAGTCAATACAAAATATAAATAAAAGCAAAAGGGAAG-T
130 AAATCAAAGACAAAAAATAAAA-AAAAAGTCAATACAAAATATAAATAAAAGCAAAA-GGAAGTT
* * * * * *
5046 -ACACAAAAAGAGAAGTCTTGAGATTTTGAAATTGTAAAGAAG
193 AAAAAAAAAACAAAAGTC-TAAGATTTTAAAATTGTAAAGAAG
* * *
5088 AAATAAAAAATTAGAGAATAAAAAAAATATAAAACGATAAAATGAATAAAAATTTCAAATATAAA
1 AAATAAAAAATTAGAGAAT-AAAAAAATATAAAAAGAGAAAATGAAGAAAAATTTCAAATATAAA
*
5153 ATAGGAAAAAA-TTTCGTTTAGAATATACAAAGAAAAACAAAAAAATATAACAAATGTAGAAAAA
65 ATA-GAAAAAACTTTAGTTTAGAATATACAAAG--------AAAAATATAACAAA-GTAGAAAAA
* * * *
5217 AAGATATAAAAAATCAAAGACAAAAAATAAAAGAAAAGTCAATACAAAATATAAATAAAATCAAA
120 AAGAGACAAAAAATCAAAGACAAAAAATAAAAAAAAAGTCAATACAAAATATAAATAAAAGCAAA
5282 AGGAAGTTCAGAAAAAAAAACAAAAGTCTAAGATTTTAAAATTGTAAAGAAG
185 AGGAAGTT-A-AAAAAAAAACAAAAGTCTAAGATTTTAAAATTGTAAAGAAG
5334 AAATAAAAAA
1 AAATAAAAAA
5344 AAGTGCGAAC
Statistics
Matches: 217, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
233 37 0.17
234 44 0.20
235 7 0.03
242 13 0.06
243 5 0.02
244 42 0.19
245 24 0.11
246 32 0.15
247 13 0.06
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (234 bp):
AAATAAAAAATTAGAGAATAAAAAAATATAAAAAGAGAAAATGAAGAAAAATTTCAAATATAAAA
TAGAAAAAACTTTAGTTTAGAATATACAAAGAAAAATATAACAAAGTAGAAAAAAAGAGACAAAA
AATCAAAGACAAAAAATAAAAAAAAAGTCAATACAAAATATAAATAAAAGCAAAAGGAAGTTAAA
AAAAAAACAAAAGTCTAAGATTTTAAAATTGTAAAGAAG
Found at i:5253 original size:24 final size:23
Alignment explanation
Indices: 5226--5281 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
5216 AAAGATATAA
5226 AAAATCAAAGACAAAAAATAAAAG
1 AAAATCAAAGACAAAAAAT-AAAG
* * *
5250 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAG
5273 AAAATCAAA
1 AAAATCAAA
5282 AGGAAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.07
23 9 0.33
24 14 0.52
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAG
Found at i:5844 original size:19 final size:19
Alignment explanation
Indices: 5820--5863 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5810 TTTAGTTTAT
5820 AAAATACAAAAAAAAATAA
1 AAAATACAAAAAAAAATAA
* * *
5839 AAAATATAACAAACAATAA
1 AAAATACAAAAAAAAATAA
*
5858 GAAATA
1 AAAATA
5864 AAGATATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAATACAAAAAAAAATAA
Found at i:5846 original size:26 final size:24
Alignment explanation
Indices: 5817--5875 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
5807 AATTTTAGTT
5817 TATAAAATACAAAAAAAAATAAAAAA
1 TATAAAA-ACAAAAAAAAAT-AAAAA
* * *
5843 TATAACAAACAATAAGAAATAAAGA
1 TATAA-AAACAAAAAAAAATAAAAA
5868 TATAAAAA
1 TATAAAAA
5876 ATCAATGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 9 0.31
26 15 0.52
27 2 0.07
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (24 bp):
TATAAAAACAAAAAAAAATAAAAA
Found at i:5911 original size:17 final size:17
Alignment explanation
Indices: 5885--5917 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
5875 AATCAATGAT
5885 AAAAAATTAA-AAAAAG
1 AAAAAATTAATAAAAAG
5901 AAAAAAGTTAATAAAAA
1 AAAAAA-TTAATAAAAA
5918 ATAAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAATTAATAAAAAG
Found at i:5930 original size:30 final size:28
Alignment explanation
Indices: 5883--5938 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
5873 AAAATCAATG
*
5883 ATAAAAAATTAAAAAAAGAAAAAAGTTA
1 ATAAAAAATAAAAAAAAGAAAAAAGTTA
*
5911 ATAAAAAATAAAAACAAAAGAAAGAAGT
1 ATAAAAAAT-AAAA-AAAAGAAAAAAGT
5939 GTGGATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 3 0.12
30 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (28 bp):
ATAAAAAATAAAAAAAAGAAAAAAGTTA
Found at i:6587 original size:21 final size:21
Alignment explanation
Indices: 6563--6647 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
6553 AAATTGTATC
6563 AAATAAAAGATAAATATTATA
1 AAATAAAAGATAAATATTATA
* *
6584 AAATAAAAAAT-AATA-AATA
1 AAATAAAAGATAAATATTATA
*** * *
6603 AAAT--AATCCAAATTTTATT
1 AAATAAAAGATAAATATTATA
6622 AAATAAAAGATAAATATTATA
1 AAATAAAAGATAAATATTATA
*
6643 CAATA
1 AAATA
6648 TAATTTTGTT
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
17 2 0.04
18 3 0.07
19 13 0.28
20 4 0.09
21 24 0.52
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATAAAAGATAAATATTATA
Found at i:6963 original size:19 final size:19
Alignment explanation
Indices: 6941--6991 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
6931 AAAAAATCGT
*
6941 AAAAATACAAAAACT-AATA
1 AAAAATACAAAAA-TGAAGA
* *
6960 AAAATTTCAAAAATGAAGA
1 AAAAATACAAAAATGAAGA
6979 AAAAATGACAAAA
1 AAAAAT-ACAAAA
6992 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.04
19 19 0.76
20 5 0.20
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAATACAAAAATGAAGA
Found at i:7758 original size:23 final size:22
Alignment explanation
Indices: 7722--7773 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
7712 AGAAATGCCA
7722 AAAAAAAACCAAAAAATAAAAAG
1 AAAAAAAACCAAAAAA-AAAAAG
** *
7745 AAAAAAAATGAAAAAAATAAAG
1 AAAAAAAACCAAAAAAAAAAAG
*
7767 ATAAAAA
1 AAAAAAA
7774 GTAAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAAAACCAAAAAAAAAAAG
Found at i:9137 original size:18 final size:18
Alignment explanation
Indices: 9100--9138 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9090 AGAAAATTTT
*
9100 AAAACAAAGAAAAAAGTG
1 AAAACAAAGAAAAAAATG
9118 AAAACAAA-AAAAAATATG
1 AAAACAAAGAAAAAA-ATG
9136 AAA
1 AAA
9139 GCACATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAACAAAGAAAAAAATG
Found at i:9338 original size:29 final size:29
Alignment explanation
Indices: 9305--9367 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9295 TAAAGAAAGA
9305 AAAAAAAT-TAAAGCAA-ACAAAAATACAAT
1 AAAAAAATATAAA--AAGACAAAAATACAAT
**
9334 AAAAAAATATAAAAAGACAAAAATTGAAT
1 AAAAAAATATAAAAAGACAAAAATACAAT
9363 AAAAA
1 AAAAA
9368 TTTCAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (29 bp):
AAAAAAATATAAAAAGACAAAAATACAAT
Found at i:9798 original size:27 final size:27
Alignment explanation
Indices: 9737--9799 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
9727 AAGAATATTA
*
9737 AGTAAAACAAAAAAGATAAACAAAGTAC
1 AGTAAAA-AAAAAAGATAAACAAAATAC
* *
9765 A-AAAAAAAGAAAAAATAAACAAAATAC
1 AGTAAAAAA-AAAAGATAAACAAAATAC
9792 AGTAAAAA
1 AGTAAAAA
9800 TATAAAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 21 0.72
28 6 0.21
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (27 bp):
AGTAAAAAAAAAAGATAAACAAAATAC
Found at i:9807 original size:8 final size:7
Alignment explanation
Indices: 9767--9854 Score: 52
Period size: 7 Copynumber: 12.0 Consensus size: 7
9757 CAAAGTACAA
*
9767 AAAAAAG
1 AAAAAAT
9774 AAAAAAT
1 AAAAAAT
9781 AAACAAA-
1 AAA-AAAT
* * *
9788 ATACAGT
1 AAAAAAT
9795 AAAAATAT
1 AAAAA-AT
*
9803 AAAAAGT
1 AAAAAAT
9810 AAGAAAAT
1 AA-AAAAT
9818 AAAAAAT
1 AAAAAAT
**
9825 AATTAAT
1 AAAAAAT
*
9832 CAAAAATT
1 -AAAAAAT
9840 AAAAAAT
1 AAAAAAT
9847 ACAAAAAT
1 A-AAAAAT
9855 TGAATAAAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
6 1 0.02
7 34 0.57
8 25 0.42
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:10344 original size:17 final size:19
Alignment explanation
Indices: 10322--10368 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
10312 TAAGAAAATG
*
10322 AAAATATAAAT-TAAGA-A
1 AAAATATAAATATAAAAGA
*
10339 AAAATATTAATATAAAAGA
1 AAAATATAAATATAAAAGA
10358 AAAATA-AAATA
1 AAAATATAAATA
10369 GAAGAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 8 0.32
19 7 0.28
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAATATAAATATAAAAGA
Found at i:10984 original size:19 final size:19
Alignment explanation
Indices: 10957--11011 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
10947 ATTAAAGCAA
10957 AAGGAAAAAGATAAAAAAAGT
1 AAGG-AAAAGA-AAAAAAAGT
* *
10978 AA-TAAAAAAATAAAAAAGT
1 AAGGAAAAGAA-AAAAAAGT
10997 AAGGAAAAGAAAAAA
1 AAGGAAAAGAAAAAA
11012 TGAGTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 1 0.04
19 19 0.68
20 6 0.21
21 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (19 bp):
AAGGAAAAGAAAAAAAAGT
Found at i:11166 original size:114 final size:114
Alignment explanation
Indices: 11048--11267 Score: 279
Period size: 114 Copynumber: 1.9 Consensus size: 114
11038 AAAAACTAAT
11048 AAAAATGAAAAAAAATG-GCAAAATAGAAAAAAAAATTAAGTTTACAAAATACAAAC-AAAA-AA
1 AAAAATGAAAAAAAATGAG-AAAATAG-AAAAAAAATTAA-TTTACAAAATACAAACAAAAATAA
* *
11110 -TAATAAGATATAAAGATATAAAAAATCAAAGATA-AAAAATTAAAAGAAGTTC
63 GTAATAAGA-A-AAAAATAAAAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
*** * * *
11162 AAAAATGAAAAGGGATGAGAAAGTAGAAAAAAAATTAATTTAGAAAATACAAGCAAAAATAATGT
1 AAAAATGAAAAAAAATGAGAAAATAGAAAAAAAATTAATTTACAAAATACAAACAAAAATAA-GT
11227 AATAAGAAAAAAATAAAAAAAATCAAAGATACAAAAATTAA
65 AATAAGAAAAAAATAAAAAAAATCAAAGATACAAAAATTAA
11268 CAGAGGGAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
112 14 0.15
113 16 0.17
114 43 0.47
115 11 0.12
116 8 0.09
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (114 bp):
AAAAATGAAAAAAAATGAGAAAATAGAAAAAAAATTAATTTACAAAATACAAACAAAAATAAGTA
ATAAGAAAAAAATAAAAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
Found at i:11487 original size:18 final size:18
Alignment explanation
Indices: 11450--11488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11440 AGAAAATTTT
*
11450 AAAACAAAGAAAAAAGTG
1 AAAACAAAGAAAAAAATG
11468 AAAACAAA-AAAAAATATG
1 AAAACAAAGAAAAAA-ATG
11486 AAA
1 AAA
11489 GCACATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAACAAAGAAAAAAATG
Found at i:11622 original size:31 final size:29
Alignment explanation
Indices: 11584--11683 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 29
11574 CGACAATGAT
11584 AAATAAAAAAAGAAAAGAAAAAAAGATAGAA
1 AAATAAAAAAAGAAAAGAAAAAAA-ATA-AA
* * *
11615 AAATAAAAAAA-AAAA-ATAAAAATTATA
1 AAATAAAAAAAGAAAAGAAAAAAAATAAA
11642 AAATAAAATAAAG-AAAGAAATAAAAA-ATAA
1 AAATAAAA-AAAGAAAAGAAA-AAAAATA-AA
11672 AAATAAGAAAAA
1 AAATAA-AAAAA
11684 AAATATTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 9 0.16
28 8 0.14
29 9 0.16
30 18 0.32
31 13 0.23
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (29 bp):
AAATAAAAAAAGAAAAGAAAAAAAATAAA
Found at i:11634 original size:44 final size:43
Alignment explanation
Indices: 11584--11683 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
11574 CGACAATGAT
11584 AAATAAAAAAAGAAAAGAAAA-AAAGATAGAAAAATAAAAAAAAA
1 AAATAAAAAAAGAAAAGAAAATAAAGA-A-AAAAATAAAAAAAAA
* * * * *
11628 AAATAAAAATTATAAAATAAAATAAAGAAAGAAATAAAAAATAA
1 AAATAAAAA-AAGAAAAGAAAATAAAGAAAAAAATAAAAAAAAA
11672 AAATAAGAAAAA
1 AAATAA-AAAAA
11684 AAATATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
44 29 0.62
45 13 0.28
46 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (43 bp):
AAATAAAAAAAGAAAAGAAAATAAAGAAAAAAATAAAAAAAAA
Found at i:11714 original size:15 final size:15
Alignment explanation
Indices: 11696--11764 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
11686 ATATTAAAGC
*
11696 AAAACAAAAAAATAT
1 AAAATAAAAAAATAT
11711 AAAATAAACAAAA-AT
1 AAAATAAA-AAAATAT
*
11726 ACAATAAAAAAATAT
1 AAAATAAAAAAATAT
* *
11741 AAAAAGTAAGAAAATAA
1 -AAAA-TAAAAAAATAT
11758 AAAATAA
1 AAAATAA
11765 TGAAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 4 0.09
15 21 0.47
16 11 0.24
17 9 0.20
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAAATAT
Found at i:11774 original size:15 final size:15
Alignment explanation
Indices: 11613--11774 Score: 62
Period size: 15 Copynumber: 11.2 Consensus size: 15
11603 AAAAAGATAG
11613 AAAAATAA-AAAA-A
1 AAAAATAAGAAAATA
*
11626 AAAAATAA-AAATTA
1 AAAAATAAGAAAATA
* * *
11640 TAAAATAAAATAAAGA
1 AAAAATAAGA-AAATA
11656 AAGAAATAA-AAAAT-
1 AA-AAATAAGAAAATA
11670 AAAAATAAG--AA-A
1 AAAAATAAGAAAATA
** **
11682 AAAAATATTAAAGCA
1 AAAAATAAGAAAATA
*
11697 AAACA-AA-AAAATA
1 AAAAATAAGAAAATA
*
11710 TAAAATAA-ACAAA-A
1 AAAAATAAGA-AAATA
* *
11724 ATACAATAAAAAAATA
1 A-AAAATAAGAAAATA
11740 TAAAAAGTAAGAAAATA
1 -AAAAA-TAAGAAAATA
11757 AAAAATAATGAAAA-A
1 AAAAATAA-GAAAATA
11772 AAA
1 AAA
11775 GACAAAAATT
Statistics
Matches: 113, Mismatches: 19, Indels: 32
0.69 0.12 0.20
Matches are distributed among these distances:
12 9 0.08
13 24 0.21
14 16 0.14
15 28 0.25
16 20 0.18
17 16 0.14
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAATAAGAAAATA
Found at i:12198 original size:15 final size:14
Alignment explanation
Indices: 12177--12219 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
12167 AAGTAAAACA
12177 AAAAAAAATAAAAG
1 AAAAAAAATAAAAG
* *
12191 AAACAAAAATACAAT
1 AAA-AAAAATAAAAG
*
12206 AAAAAATATAAAAG
1 AAAAAAAATAAAAG
12220 GTAAGATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (14 bp):
AAAAAAAATAAAAG
Found at i:12199 original size:20 final size:19
Alignment explanation
Indices: 12172--12209 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
12162 TATTAAAGTA
12172 AAACAAAAAAAAATAAAAG
1 AAACAAAAAAAAATAAAAG
*
12191 AAACAAAAATACAATAAAA
1 AAACAAAAA-AAAATAAAA
12210 AATATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (19 bp):
AAACAAAAAAAAATAAAAG
Found at i:12209 original size:35 final size:35
Alignment explanation
Indices: 12125--12209 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 35
12115 GAAAGAAATA
** * *
12125 AAAAATAAACCAAAATAAAAATAAAATAAGAAAAC
1 AAAAATAAAGTAAAACAAAAATAAAATAAAAAAAC
* *
12160 AATATTAAAGTAAAACAAAAA-AAAATAAAAGAAAC
1 AAAAATAAAGTAAAACAAAAATAAAATAAAA-AAAC
12195 AAAAATACAA-TAAAA
1 AAAAATA-AAGTAAAA
12210 AATATAAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
34 8 0.20
35 30 0.75
36 2 0.05
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (35 bp):
AAAAATAAAGTAAAACAAAAATAAAATAAAAAAAC
Found at i:12244 original size:8 final size:7
Alignment explanation
Indices: 12120--12363 Score: 54
Period size: 8 Copynumber: 32.4 Consensus size: 7
12110 ATAAAGAAAG
12120 AAATAAA
1 AAATAAA
12127 AAATAAA
1 AAATAAA
12134 CCAAA-ATAA
1 --AAATA-AA
12143 AAATAAA
1 AAATAAA
*
12150 ATAAGAAA
1 A-AATAAA
*
12158 ACAATATTA
1 A-AATA-AA
*
12167 AAGTAAA
1 AAATAAA
*
12174 ACAAAAAA
1 A-AATAAA
12182 AAATAAA
1 AAATAAA
12189 AGAA-ACAA
1 A-AATA-AA
12197 AAAT--A
1 AAATAAA
*
12202 CAATAAA
1 AAATAAA
12209 AAATATAA
1 AAATA-AA
*
12217 AAGGTAAGA
1 AA-ATAA-A
*
12226 TAATAAA
1 AAATAAA
12233 AAATACAA
1 AAATA-AA
*
12241 AAATTGAA
1 AAA-TAAA
12249 AAA-AAA
1 AAATAAA
***
12255 TTTTAATA
1 AAATAA-A
12263 TAAATGAAA
1 -AAAT-AAA
12272 AAAT--A
1 AAATAAA
12277 AAATAAA
1 AAATAAA
*
12284 ATACTAAA
1 A-AATAAA
12292 AAA-ATAA
1 AAATA-AA
* *
12299 CAATTAA
1 AAATAAA
12306 AAATAAA
1 AAATAAA
*
12313 CAAAAACAA
1 -AAATA-AA
12322 AAAGTAAA
1 AAA-TAAA
12330 AAAGTAAGA
1 AAA-TAA-A
12339 AAATAAA
1 AAATAAA
*
12346 AAATTAGA
1 AAA-TAAA
*
12354 GAATAAA
1 AAATAAA
12361 AAA
1 AAA
12364 ATATAAAACG
Statistics
Matches: 171, Mismatches: 35, Indels: 62
0.64 0.13 0.23
Matches are distributed among these distances:
5 9 0.05
6 3 0.02
7 59 0.35
8 77 0.45
9 21 0.12
10 2 0.01
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:12347 original size:16 final size:15
Alignment explanation
Indices: 12321--12363 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
12311 AACAAAAACA
12321 AAAAGTAAAAAAGTAAG
1 AAAA-TAAAAAA-TAAG
*
12338 AAAATAAAAAATTAG
1 AAAATAAAAAATAAG
*
12353 AGAATAAAAAA
1 AAAATAAAAAA
12364 ATATAAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 7 0.29
17 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAATAAG
Found at i:12450 original size:13 final size:13
Alignment explanation
Indices: 12432--12476 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
12422 TAGAATATAC
12432 AAAAAAAACAAAA
1 AAAAAAAACAAAA
12445 AAAAAAAACAAATGA
1 AAAAAAAACAAA--A
*
12460 AAAAAAGACATAAA
1 AAAAAAAACA-AAA
12474 AAA
1 AAA
12477 TCAAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 12 0.43
14 4 0.14
15 10 0.36
16 2 0.07
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.04
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:12498 original size:23 final size:24
Alignment explanation
Indices: 12472--12526 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
12462 AAAAGACATA
12472 AAAAATCAAAGAAAAAATA-AAAT
1 AAAAATCAAAGAAAAAATATAAAT
* * *
12495 AAAAGTC-AATACAAAATATAAAT
1 AAAAATCAAAGAAAAAATATAAAT
12518 -AAAATCAAA
1 AAAAATCAAA
12527 AGAAGTTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAAATCAAAGAAAAAATATAAAT
Found at i:12549 original size:22 final size:22
Alignment explanation
Indices: 12535--12576 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12525 AAAGAAGTTC
*
12535 ACAAAAAAAAAAAAAAAAGTAA
1 ACAAAAAATAAAAAAAAAGTAA
*
12557 AGAAAAAATAAAAAAAAAGT
1 ACAAAAAATAAAAAAAAAGT
12577 GTGAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (22 bp):
ACAAAAAATAAAAAAAAAGTAA
Found at i:12562 original size:11 final size:11
Alignment explanation
Indices: 12544--12576 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12534 CACAAAAAAA
12544 AAAAAAAAAGT
1 AAAAAAAAAGT
12555 AAAGAAAAAA-T
1 AAA-AAAAAAGT
12566 AAAAAAAAAGT
1 AAAAAAAAAGT
12577 GTGAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.30
11 8 0.40
12 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAAAAAAGT
Found at i:13032 original size:62 final size:64
Alignment explanation
Indices: 12912--13034 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 64
12902 TAAGTACTAA
* ** *
12912 AAAAGAGAAAAATTAAAAATAAACAAAAACGCAATTAAAAAAAGTAAGAAAATTAAAAAGAGTT
1 AAAAGAGAAAAATTAAAAATAAACAAAAACGCAATAAAAAAAAAAAAGAAAATGAAAAAGAGTT
* *
12976 AAAAGA-AAAAATTAAAAA-ATACAAAAAC-TAATAAAAATGAAAAAAAGAAAA-GAAAAAGA
1 AAAAGAGAAAAATTAAAAATAAACAAAAACGCAATAAAAA--AAAAAAAGAAAATGAAAAAGA
13035 CAATAGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
61 7 0.14
62 16 0.31
63 22 0.43
64 6 0.12
ACGTcount: A:0.73, C:0.04, G:0.10, T:0.13
Consensus pattern (64 bp):
AAAAGAGAAAAATTAAAAATAAACAAAAACGCAATAAAAAAAAAAAAGAAAATGAAAAAGAGTT
Found at i:14083 original size:20 final size:18
Alignment explanation
Indices: 14046--14131 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 18
14036 ATTTTTATAA
14046 AAAAACAAAATAACAAAAATT
1 AAAAA-AAAA-AA-AAAAATT
* **
14067 AAAAATAAAAAATAAAAGG
1 AAAAA-AAAAAAAAAAATT
*
14086 AAAAAAGATAAAAAAAGCATT
1 AAAAAA-A-AAAAAAA-AATT
14107 AAAAAAAAGAAAAAAAAATT
1 -AAAAAAA-AAAAAAAAATT
14127 AAAAA
1 AAAAA
14132 GAGCACAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
18 1 0.02
19 15 0.29
20 11 0.22
21 18 0.35
22 6 0.12
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAATT
Found at i:14121 original size:31 final size:33
Alignment explanation
Indices: 14075--14157 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 33
14065 TTAAAAATAA
* *
14075 AAAATAAAAGGAAAAAAGA-TAAAAAAAGCATT
1 AAAATAAAAGAAAAAAAAATTAAAAAAAGCATT
* *
14107 AAAA-AAAAGAAAAAAAAATTAAAAAGAGCA-C
1 AAAATAAAAGAAAAAAAAATTAAAAAAAGCATT
14138 AAAATAGAAA-AAATAAAAAA
1 AAAATA-AAAGAAA-AAAAAA
14158 GTGAGGAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
31 16 0.37
32 18 0.42
33 9 0.21
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.10
Consensus pattern (33 bp):
AAAATAAAAGAAAAAAAAATTAAAAAAAGCATT
Found at i:14671 original size:19 final size:18
Alignment explanation
Indices: 14633--14672 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14623 AGAAAATTTT
* *
14633 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
14651 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
14670 AAA
1 AAA
14673 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:14859 original size:7 final size:7
Alignment explanation
Indices: 14828--14926 Score: 76
Period size: 7 Copynumber: 13.9 Consensus size: 7
14818 AAAATTTATG
*
14828 AAAATAT
1 AAAAAAT
*
14835 AAATAAAG
1 AAA-AAAT
14843 AAAGAAAT
1 AAA-AAAT
14851 AAAAAAT
1 AAAAAAT
14858 -AAAAAT
1 AAAAAAT
14864 AAGAAAA-
1 AA-AAAAT
*
14871 AAAATAT
1 AAAAAAT
*
14878 AAAAAGT
1 AAAAAAT
14885 AAGAAAAT
1 AA-AAAAT
14893 AAAAAAT
1 AAAAAAT
**
14900 AATGAAT
1 AAAAAAT
* *
14907 CAAAAAC
1 AAAAAAT
14914 AAAAAAT
1 AAAAAAT
14921 AAAAAA
1 AAAAAA
14927 AGACAAAAAT
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
6 9 0.13
7 41 0.58
8 21 0.30
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:14871 original size:61 final size:59
Alignment explanation
Indices: 14771--14949 Score: 155
Period size: 61 Copynumber: 2.9 Consensus size: 59
14761 AACAACGATA
* * * *
14771 AATAAAAAAAGAAAAGATAAAAAGATAAAAAAATCAAAAACATTATAAAAATTTATGAAAAT
1 AATAAATAAAGAAAAAATAAAAA-ATAAAAAAA-GAAAAA-ATTATAAAAATTTAAGAAAAT
* *
14833 -ATAAATAAAGAAAGAAATAAAAAATAAAAATAAGAAAAAAAATATAAAAA-GTAAGAAAAT
1 AATAAATAAAGAAA-AAATAAAAAATAAAAA-AAG-AAAAAATTATAAAAATTTAAGAAAAT
* * *
14893 AAAAAATAATGAATCAAAAACAAAAAATAAAAAAAGACAAAAATTGAATAAAAATTT
1 AATAAATAAAG-A--AAAAATAAAAAATAAAAAAAGA-AAAAATT--ATAAAAATTT
14950 CAAAAATGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
60 8 0.08
61 37 0.39
62 25 0.26
63 15 0.16
64 9 0.09
65 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (59 bp):
AATAAATAAAGAAAAAATAAAAAATAAAAAAAGAAAAAATTATAAAAATTTAAGAAAAT
Found at i:14873 original size:17 final size:17
Alignment explanation
Indices: 14835--14898 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
14825 ATGAAAATAT
*
14835 AAATAAAGAAAGAAATAAA
1 AAATAAAAAAAG-AA-AAA
14854 AAATAAAAATAAGAAAAA
1 AAATAAAAA-AAGAAAAA
* * *
14872 AAATATAAAAAGTAAGA
1 AAATAAAAAAAGAAAAA
14889 AAATAAAAAA
1 AAATAAAAAA
14899 TAATGAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 15 0.38
18 11 0.28
19 10 0.26
20 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (17 bp):
AAATAAAAAAAGAAAAA
Found at i:14875 original size:12 final size:13
Alignment explanation
Indices: 14828--14926 Score: 69
Period size: 13 Copynumber: 7.3 Consensus size: 13
14818 AAAATTTATG
*
14828 AAAATATAAATAA
1 AAAATAAAAATAA
* *
14841 AGAA-AGAAATAA
1 AAAATAAAAATAA
14853 AAAATAAAAATAA
1 AAAATAAAAATAA
14866 GAAAA-AAAATATAA
1 -AAAATAAAA-ATAA
*
14880 AAAGTAAGAAAATAA
1 AAAAT-A-AAAATAA
*
14895 AAAATAATGAATCAA
1 AAAATAA-AAAT-AA
14910 AAACA-AAAAATAA
1 AAA-ATAAAAATAA
14923 AAAA
1 AAAA
14927 AGACAAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.16
13 23 0.33
14 15 0.22
15 16 0.23
16 4 0.06
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:14875 original size:25 final size:26
Alignment explanation
Indices: 14828--14882 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
14818 AAAATTTATG
* *
14828 AAAATATAAATAAAGAAAGAAATA-A
1 AAAATAAAAATAAAGAAAAAAATATA
14853 AAAATAAAAAT-AAGAAAAAAAATATA
1 AAAATAAAAATAAAG-AAAAAAATATA
14879 AAAA
1 AAAA
14883 GTAAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 18 0.69
26 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAATAAAAATAAAGAAAAAAATATA
Found at i:14918 original size:36 final size:36
Alignment explanation
Indices: 14847--14936 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 36
14837 ATAAAGAAAG
*
14847 AAAT-AAAAAAT-AAAAATAAGAAAAAAAATATAAA
1 AAATAAAAAAATAAAAAATAAGAAAAAAAATACAAA
* * **
14881 AAGTAAGAAAATAAAAAATAATGAATCAAAA-ACAAA
1 AAATAAAAAAATAAAAAATAA-GAAAAAAAATACAAA
*
14917 AAATAAAAAAAGACAAAAAT
1 AAATAAAAAAATA-AAAAAT
14937 TGAATAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
34 3 0.07
35 6 0.14
36 22 0.50
37 13 0.30
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (36 bp):
AAATAAAAAAATAAAAAATAAGAAAAAAAATACAAA
Found at i:14919 original size:45 final size:41
Alignment explanation
Indices: 14828--14929 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 41
14818 AAAATTTATG
*
14828 AAAATATAAATAAAGAAAGAAATAAAAAATAAAAATAAGAAAA
1 AAAATAT-AA-AAAGAAAGAAATAAAAAATAAAAATAAAAAAA
* *
14871 AAAATATAAAAAGTAAGAAAATAAAAAATAATGAATCAAAAACAA
1 AAAATATAAAAAGAAAG-AAATAAAAAATAA-AAAT-AAAAA-AA
*
14916 AAAATAAAAAAAGA
1 AAAATATAAAAAGA
14930 CAAAAATTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.14
42 15 0.30
43 10 0.20
44 4 0.08
45 14 0.28
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (41 bp):
AAAATATAAAAAGAAAGAAATAAAAAATAAAAATAAAAAAA
Found at i:14927 original size:8 final size:8
Alignment explanation
Indices: 14770--14898 Score: 55
Period size: 8 Copynumber: 15.2 Consensus size: 8
14760 CAACAACGAT
14770 AAATAAAA
1 AAATAAAA
*
14778 AAA-GAAA
1 AAATAAAA
*
14785 AGATAAAA
1 AAATAAAA
*
14793 AGATAAAA
1 AAATAAAA
14801 AAATCAAAA
1 AAAT-AAAA
14810 ACATTATAAAA
1 A-A--ATAAAA
* *
14821 ATTTATGAAA
1 A--AATAAAA
* *
14831 ATATAAAT
1 AAATAAAA
* *
14839 AAAGAAAG
1 AAATAAAA
14847 AAAT-AAA
1 AAATAAAA
14854 AAATAAAA
1 AAATAAAA
*
14862 ATAAGAAAAA
1 A-AA-TAAAA
14872 AAATATAAA
1 AAATA-AAA
* *
14881 AAGTAAGA
1 AAATAAAA
14889 AAATAAAA
1 AAATAAAA
14897 AA
1 AA
14899 TAATGAATCA
Statistics
Matches: 91, Mismatches: 20, Indels: 20
0.69 0.15 0.15
Matches are distributed among these distances:
7 11 0.12
8 45 0.49
9 16 0.18
10 12 0.13
11 5 0.05
12 2 0.02
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (8 bp):
AAATAAAA
Found at i:15312 original size:39 final size:38
Alignment explanation
Indices: 15261--15340 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
15251 ATGAAAATTT
*
15261 AAATAAAGAAAGAA-ATAAAAAATAAACCAAATAAAAATA
1 AAATAAAGAAAGAATAT-AAAAATAAAACAAA-AAAAATA
* *
15300 AAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAAATA
1 AAATAAAG-AAAGAATATAAAAATAAAACAAAAAAAATA
15338 AAA
1 AAA
15341 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.36
39 21 0.58
40 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (38 bp):
AAATAAAGAAAGAATATAAAAATAAAACAAAAAAAATA
Found at i:15371 original size:38 final size:39
Alignment explanation
Indices: 15329--15409 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
15319 AAGTAAAACA
15329 AAAAAAATAA-AAAATAAACAAA-AATACAAT-AAAAATA-
1 AAAAAAATAAGAAAATAAA-AAATAAT-CAATCAAAAATAC
* * *
15366 TAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATAC
1 AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
15405 AAAAA
1 AAAAA
15410 TTGAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
37 14 0.39
38 18 0.50
39 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (39 bp):
AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
Found at i:15409 original size:8 final size:7
Alignment explanation
Indices: 15273--15410 Score: 84
Period size: 7 Copynumber: 18.6 Consensus size: 7
15263 ATAAAGAAAG
15273 AAATAAA
1 AAATAAA
15280 AAATAAA
1 AAATAAA
15287 CCAAAT-AA
1 --AAATAAA
15295 AAATAAA
1 AAATAAA
*
15302 ATAAGAAA
1 A-AATAAA
*
15310 AGAATATTA
1 A-AATA-AA
*
15319 AAGTAAA
1 AAATAAA
15326 ACAA-AAA
1 A-AATAAA
15333 AAATAAA
1 AAATAAA
15340 AAATAAA
1 AAATAAA
15347 CAAA-AATA
1 -AAATAA-A
*
15355 CAATAAA
1 AAATAAA
15362 AATATAAA
1 AA-ATAAA
*
15370 AAGTAAGA
1 AAATAA-A
15378 AAATAAA
1 AAATAAA
*
15385 AAATAAT
1 AAATAAA
* *
15392 TAATCAA
1 AAATAAA
15399 AAATACAA
1 AAATA-AA
15407 AAAT
1 AAAT
15411 TGAATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.06
7 49 0.49
8 40 0.40
9 6 0.06
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:15648 original size:24 final size:24
Alignment explanation
Indices: 15621--15694 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
15611 AACGCAAATA
15621 AGAAATAAAAAGAAAAGCAAGAAT
1 AGAAATAAAAAGAAAAGCAAGAAT
*
15645 AG-AATAAAAATGAAAAGACAAAAGATT
1 AGAAATAAAAA-GAAAAG-C--AAGAAT
*
15672 TGAAATAAAAAAGAAAA-CAAGAA
1 AGAAAT-AAAAAGAAAAGCAAGAA
15695 AGTAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
23 8 0.20
24 12 0.29
25 1 0.02
26 1 0.02
27 6 0.15
28 8 0.20
29 5 0.12
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
AGAAATAAAAAGAAAAGCAAGAAT
Found at i:15846 original size:8 final size:7
Alignment explanation
Indices: 15835--15969 Score: 67
Period size: 8 Copynumber: 17.7 Consensus size: 7
15825 AAAAAAAGAC
15835 AAAATAA
1 AAAATAA
15842 GAAAATGAA
1 -AAAAT-AA
15851 AAAATAAA
1 AAAAT-AA
15859 AAAGATTCAA
1 AAA-A-T-AA
15869 AAAATAA
1 AAAATAA
*
15876 AAATAAAA
1 AAA-ATAA
15884 ATAAATGAA
1 A-AAAT-AA
15893 AAAATAA
1 AAAATAA
* *
15900 ATTAAGAA
1 A-AAATAA
*
15908 AAAATATT
1 AAAATA-A
*
15916 AATATAA
1 AAAATAA
*
15923 AAGA-AA
1 AAAATAA
15929 AAAATAA
1 AAAATAA
*
15936 ACAA-AA
1 AAAATAA
15942 AAAATAA
1 AAAATAA
*
15949 AAAAGGAA
1 AAAA-TAA
15957 GAAAATAA
1 -AAAATAA
15965 AAAAT
1 AAAAT
15970 TAGCTAATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
6 10 0.10
7 30 0.31
8 39 0.40
9 13 0.13
10 6 0.06
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:15883 original size:13 final size:13
Alignment explanation
Indices: 15867--15952 Score: 56
Period size: 13 Copynumber: 6.5 Consensus size: 13
15857 AAAAAGATTC
15867 AAAAAATAAAAAT
1 AAAAAATAAAAAT
15880 -AAAAAT--AAAT
1 AAAAAATAAAAAT
*
15890 GAAAAAATAAATTAAG
1 -AAAAAATAAA--AAT
*
15906 AAAAAATATTAATAT
1 AAAAAATA--AAAAT
15921 AAAAGAA-AAAAAT
1 AAAA-AATAAAAAT
15934 AAACAAA-AAAAAT
1 AAA-AAATAAAAAT
15947 AAAAAA
1 AAAAAA
15953 GGAAGAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
10 4 0.07
12 15 0.25
13 18 0.31
14 2 0.03
15 14 0.24
16 4 0.07
17 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:16560 original size:19 final size:21
Alignment explanation
Indices: 16513--16560 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
16503 ATTAAAGCAA
*
16513 AAGGAAAAAGATAAAATAAGT
1 AAGGAAAAAGATAAAAGAAGT
* *
16534 AA-TAAAAAAAT-AAAGAAGT
1 AAGGAAAAAGATAAAAGAAGT
16553 AAGGAAAA
1 AAGGAAAA
16561 GAAAAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAGGAAAAAGATAAAAGAAGT
Found at i:16702 original size:112 final size:113
Alignment explanation
Indices: 16605--16818 Score: 251
Period size: 114 Copynumber: 1.9 Consensus size: 113
16595 AAAAACTAAT
16605 AAAAATGAAAA-AAATG-GCAAAATAG-AAAAAAATTAAGTTTACAAAATACAAAC-AAAA-AA-
1 AAAAATGAAAAGAAATGAG-AAAATAGAAAAAAAATTAA-TTTACAAAATACAAACAAAAATAAG
* * * *
16664 TAATAAGATATAAAGATATAAAAAATCAAAGATAAAAAATTAAAAGAAGTTC
64 TAATAAGA-A-AAAAATAAAAAAAATCAAAGATAAAAAAATAAAAGAACTTC
** * * *
16716 AAAAATGAAAAGGGATGAGAAAGTAGAAAAAAAATTAATTTAGAAAATACAAGCAAAAATAATGT
1 AAAAATGAAAAGAAATGAGAAAATAGAAAAAAAATTAATTTACAAAATACAAACAAAAATAA-GT
*
16781 AATAAGAAAAAAATAAAAAAAATCAAAGATACAAAAAT
65 AATAAGAAAAAAATAAAAAAAATCAAAGATAAAAAAAT
16819 TAACAGAGGG
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
111 11 0.13
112 23 0.26
113 16 0.18
114 28 0.32
115 1 0.01
116 8 0.09
ACGTcount: A:0.67, C:0.05, G:0.11, T:0.18
Consensus pattern (113 bp):
AAAAATGAAAAGAAATGAGAAAATAGAAAAAAAATTAATTTACAAAATACAAACAAAAATAAGTA
ATAAGAAAAAAATAAAAAAAATCAAAGATAAAAAAATAAAAGAACTTC
Found at i:17040 original size:19 final size:18
Alignment explanation
Indices: 17002--17041 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16992 AGAAAATTTT
* *
17002 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
17020 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
17039 AAA
1 AAA
17042 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:17179 original size:8 final size:8
Alignment explanation
Indices: 17137--17295 Score: 54
Period size: 8 Copynumber: 19.0 Consensus size: 8
17127 CAACAATGAT
17137 AAATAAAA
1 AAATAAAA
*
17145 AAAGAAAA
1 AAATAAAA
*
17153 GAA-AAAA
1 AAATAAAA
* *
17160 AGATAGAA
1 AAATAAAA
17168 AAATAAAA
1 AAATAAAA
17176 AAATCCAAAA
1 AAAT--AAAA
*
17186 CATTATAAAA
1 -A-AATAAAA
** *
17196 ATTTAAAT
1 AAATAAAA
* *
17204 AAAGAAAG
1 AAATAAAA
17212 AAAT-AAA
1 AAATAAAA
17219 AAATAAAA
1 AAATAAAA
*
17227 ATAAGAAAA
1 A-AATAAAA
**
17236 AAATATTA
1 AAATAAAA
**
17244 AAGCAAAA
1 AAATAAAA
17252 AAA-AAAA
1 AAATAAAA
*
17259 ATATAAAA
1 AAATAAAA
*
17267 TAAACAAAAA
1 -AAA-TAAAA
17277 TACAATAAAA
1 -A-AATAAAA
17287 AATATAAAA
1 AA-ATAAAA
17296 GTAAGAATAA
Statistics
Matches: 110, Mismatches: 29, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
7 17 0.15
8 53 0.48
9 17 0.15
10 18 0.16
11 3 0.03
12 2 0.02
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:17224 original size:19 final size:18
Alignment explanation
Indices: 17200--17261 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
17190 ATAAAAATTT
17200 AAATAAAGAAAGAAATAAA
1 AAATAAAGAAAGAAA-AAA
*
17219 AAATAAAAATAAGAAAAAA
1 AAATAAAGA-AAGAAAAAA
*
17238 ATATTAAAGCAAA-AAAAAA
1 A-AATAAAG-AAAGAAAAAA
17257 AAATA
1 AAATA
17262 TAAAATAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 3 0.08
19 19 0.53
20 13 0.36
21 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (18 bp):
AAATAAAGAAAGAAAAAA
Found at i:17234 original size:20 final size:20
Alignment explanation
Indices: 17208--17319 Score: 64
Period size: 21 Copynumber: 5.2 Consensus size: 20
17198 TTAAATAAAG
17208 AAAGAAATAAAAAATAAAAA
1 AAAGAAATAAAAAATAAAAA
* * *
17228 TAAGAAAAAAATATTAAAGCAAAAA
1 AAAG-AAATAA-A--AAA-TAAAAA
* *
17253 AAAAAAATATAAAATAAACAA
1 AAAGAAATAAAAAATAAA-AA
*
17274 AAATACAATAAAAAATATAAAA
1 AAAGA-AATAAAAAATA-AAAA
*
17296 GTAAG-AATAAAAAATAAGAAA
1 -AAAGAAATAAAAAATAA-AAA
17317 AAA
1 AAA
17320 AAAGACAAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 20
0.68 0.13 0.20
Matches are distributed among these distances:
20 9 0.13
21 28 0.41
22 13 0.19
23 5 0.07
24 7 0.10
25 7 0.10
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAGAAATAAAAAATAAAAA
Found at i:17259 original size:39 final size:38
Alignment explanation
Indices: 17203--17278 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
17193 AAAATTTAAA
*
17203 TAAAGAAAGAAATAAAAAATA-AAAATAAGAAAAAAATAT
1 TAAAG-AAGAAAAAAAAAATATAAAATAA-AAAAAAATAT
*
17242 TAAAGCAA-AAAAAAAAAATATAAAATAAACAAAAATA
1 TAAAG-AAGAAAAAAAAAATATAAAATAAAAAAAAATA
17279 CAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 19 0.58
39 14 0.42
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (38 bp):
TAAAGAAGAAAAAAAAAATATAAAATAAAAAAAAATAT
Found at i:17265 original size:40 final size:37
Alignment explanation
Indices: 17203--17278 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
17193 AAAATTTAAA
*
17203 TAAAGAAAGAAATAAAAAATAAAAATAAGAAAAAAATAT
1 TAAAGAAAGAAAAAAAAAAT-AAAATAA-AAAAAAATAT
*
17242 TAAAGCAAA-AAAAAAAAATATAAAATAAACAAAAATA
1 TAAAG-AAAGAAAAAAAAA-ATAAAATAAAAAAAAATA
17279 CAATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 8 0.24
39 20 0.61
40 5 0.15
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (37 bp):
TAAAGAAAGAAAAAAAAAATAAAATAAAAAAAAATAT
Found at i:17312 original size:19 final size:19
Alignment explanation
Indices: 17200--17312 Score: 50
Period size: 19 Copynumber: 6.3 Consensus size: 19
17190 ATAAAAATTT
*
17200 AAAT-AAAGAAAGAAATAAA
1 AAATAAAAGTAAG-AATAAA
*
17219 AAATAAAAATAAGAA-AAA
1 AAATAAAAGTAAGAATAAA
* *
17237 AATATTAAAGCAA-AA-AAA
1 AA-ATAAAAGTAAGAATAAA
*
17255 AAA-AATA-TAA-AAT-AA
1 AAATAAAAGTAAGAATAAA
* *
17270 ACA-AAAA-T-ACAATAAAA
1 AAATAAAAGTAAGAAT-AAA
17287 AATATAAAAGTAAGAATAAA
1 AA-ATAAAAGTAAGAATAAA
17307 AAATAA
1 AAATAA
17313 GAAAAAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 15 0.21
16 2 0.03
17 4 0.06
18 13 0.18
19 21 0.29
20 12 0.17
21 4 0.06
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AAATAAAAGTAAGAATAAA
Found at i:17787 original size:8 final size:8
Alignment explanation
Indices: 17669--17908 Score: 84
Period size: 8 Copynumber: 29.1 Consensus size: 8
17659 ATAAAGAAAG
17669 AAAT-AAA
1 AAATAAAA
17676 AAATAAACCA
1 AAATAAA--A
17686 AAAT--AA
1 AAATAAAA
17692 AAATAAAA
1 AAATAAAA
* *
17700 TAAGAAAA
1 AAATAAAA
* **
17708 CAATATTA
1 AAATAAAA
*
17716 AAGTAAAA
1 AAATAAAA
*
17724 CAA-AAAA
1 AAATAAAA
17731 AAA-AAAA
1 AAATAAAA
*
17738 AAACAAAA
1 AAATAAAA
17746 TACAATAAAA
1 -A-AATAAAA
*
17756 ATATAAAA
1 AAATAAAA
17764 GGTAAGATAAAA
1 ---AA-ATAAAA
17776 AAATACAAA
1 AAATA-AAA
*
17785 AATTAAAA
1 AAATAAAA
*
17793 AAATAATA
1 AAATAAAA
*
17801 AAATGAAA
1 AAATAAAA
17809 AAATAAAATA
1 AAAT-AAA-A
17819 AAATACTAAA
1 AAATA--AAA
*
17829 AAA-ATAA
1 AAATAAAA
* *
17836 CAAT-TAA
1 AAATAAAA
17843 AAATAAACA
1 AAATAAA-A
17852 AAA-ACAAA
1 AAATA-AAA
*
17860 AAGTAAAA
1 AAATAAAA
* *
17868 AAGTAAGA
1 AAATAAAA
17876 AAAT-AAA
1 AAATAAAA
* *
17883 AAATTAGA
1 AAATAAAA
*
17891 GAATAAAA
1 AAATAAAA
17899 AAATATAAA
1 AAATA-AAA
17908 A
1 A
17909 CGATAAAATG
Statistics
Matches: 174, Mismatches: 35, Indels: 46
0.68 0.14 0.18
Matches are distributed among these distances:
6 5 0.03
7 33 0.19
8 81 0.47
9 26 0.15
10 20 0.11
11 3 0.02
12 6 0.03
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:17793 original size:17 final size:17
Alignment explanation
Indices: 17771--17835 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 17
17761 AAAGGTAAGA
17771 TAAAAAAATACA-AAAAT
1 TAAAAAAATA-ATAAAAT
17788 TAAAAAAATAATAAAAT
1 TAAAAAAATAATAAAAT
* *
17805 GAAAAAATAAAATAAAAT
1 TAAAAAA-ATAATAAAAT
17823 ACTAAAAAAATAA
1 --TAAAAAAATAA
17836 CAATTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.52
18 9 0.22
19 3 0.08
20 6 0.15
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (17 bp):
TAAAAAAATAATAAAAT
Found at i:17794 original size:16 final size:15
Alignment explanation
Indices: 17773--17900 Score: 64
Period size: 17 Copynumber: 7.9 Consensus size: 15
17763 AGGTAAGATA
17773 AAAAAATACAAAAATT
1 AAAAAATA-AAAAATT
*
17789 AAAAAAATAATAAAATG
1 -AAAAAATAA-AAAATT
17806 AAAAAATAAAATAAAATACT
1 AAAAAAT--AA-AAAAT--T
*
17826 AAAAAA-ATAACAATT
1 AAAAAATA-AAAAATT
*
17841 -AAAAATAAACAAA-A
1 AAAAAATAAA-AAATT
*
17855 ACAAAAAGTAAAAAAGT
1 A-AAAAA-TAAAAAATT
17872 AAGAAAATAAAAAATT
1 AA-AAAATAAAAAATT
* *
17888 AGAGAATAAAAAA
1 AAAAAATAAAAAA
17901 ATATAAAACG
Statistics
Matches: 89, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
14 7 0.08
15 14 0.16
16 26 0.29
17 27 0.30
18 9 0.10
20 6 0.07
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAAATT
Found at i:17815 original size:13 final size:13
Alignment explanation
Indices: 17669--17829 Score: 57
Period size: 13 Copynumber: 12.2 Consensus size: 13
17659 ATAAAGAAAG
17669 AAATAAAA-AATA
1 AAATAAAATAATA
**
17681 AACCAAAAT-A-A
1 AAATAAAATAATA
*
17692 AAATAAAATAAGA
1 AAATAAAATAATA
* *
17705 AAACAATATTAAAGTA
1 AAATAA-AAT-AA-TA
* * *
17721 AAACAAAAAAAAA
1 AAATAAAATAATA
* *
17734 AAAAAAACAAAATA
1 AAATAAA-ATAATA
*
17748 CAATAAAA-ATATA
1 AAATAAAATA-ATA
* *
17761 AAAGGTAAGATAAAA
1 AAA--TAAAATAATA
*
17776 AAATACAAA-AATT
1 AAATA-AAATAATA
17789 AAA-AAAATAATA
1 AAATAAAATAATA
17801 AAATGAAAA-AATA
1 AAAT-AAAATAATA
*
17814 AAATAAAATACTA
1 AAATAAAATAATA
17827 AAA
1 AAA
17830 AAATAACAAT
Statistics
Matches: 111, Mismatches: 22, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
11 11 0.10
12 20 0.18
13 40 0.36
14 20 0.18
15 12 0.11
16 8 0.07
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:18039 original size:24 final size:23
Alignment explanation
Indices: 18012--18067 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
18002 AAAGACATAA
18012 AAAATCAAAGACAAAAAATAAAAT
1 AAAATCAAAGACAAAAAAT-AAAT
* *
18036 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAT
18059 AAAATCAAA
1 AAAATCAAA
18068 AGGAAGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 14 0.50
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAT
Found at i:19447 original size:22 final size:23
Alignment explanation
Indices: 19409--19471 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
19399 CAAATTTTAT
*
19409 TAAATAAAAGATAAATTACACGA
1 TAAATAAAAGATAAATTACAAGA
*
19432 TAAATAAAA-ATAAATTTCAAGA
1 TAAATAAAAGATAAATTACAAGA
* *
19454 TAAAATACAAGATGAATT
1 T-AAATAAAAGATAAATT
19472 TAATTAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 16 0.47
24 6 0.18
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATAAAAGATAAATTACAAGA
Found at i:20171 original size:19 final size:18
Alignment explanation
Indices: 20133--20172 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20123 AGAAAATTTT
* *
20133 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
20151 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
20170 AAA
1 AAA
20173 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:20313 original size:8 final size:8
Alignment explanation
Indices: 20271--20442 Score: 64
Period size: 8 Copynumber: 20.2 Consensus size: 8
20261 CAACAACGAT
20271 AAATAAAA
1 AAATAAAA
20279 AAA-AAGAA
1 AAATAA-AA
20287 AAGATAAAA
1 AA-ATAAAA
*
20296 AGATAAAA
1 AAATAAAA
20304 AAATAAAA
1 AAATAAAA
20312 AAATCCAAAA
1 AAAT--AAAA
*
20322 CATTATAAAA
1 -A-AATAAAA
** *
20332 ATTTATGAA
1 AAATA-AAA
* *
20341 ATATAAAT
1 AAATAAAA
* *
20349 AAAGAAAG
1 AAATAAAA
20357 AAAT-AAA
1 AAATAAAA
20364 AAATAAAA
1 AAATAAAA
*
20372 ATAAGAAAA
1 A-AATAAAA
20381 AAATATAAA
1 AAATA-AAA
**
20390 ATGTAAATA
1 AAATAAA-A
20399 AACA-AAAA
1 AA-ATAAAA
20407 TACAAT-AAA
1 -A-AATAAAA
20416 AAATATAAA
1 AAATA-AAA
* *
20425 AAGTAAGA
1 AAATAAAA
20433 AAATAAAA
1 AAATAAAA
20441 AA
1 AA
20443 TAATGAATCA
Statistics
Matches: 123, Mismatches: 23, Indels: 36
0.68 0.13 0.20
Matches are distributed among these distances:
7 11 0.09
8 57 0.46
9 41 0.33
10 11 0.09
11 1 0.01
12 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:20369 original size:7 final size:7
Alignment explanation
Indices: 20343--20469 Score: 59
Period size: 7 Copynumber: 18.1 Consensus size: 7
20333 TTTATGAAAT
20343 ATAAATAA
1 ATAAA-AA
*
20351 AGAAAGAA
1 ATAAA-AA
20359 ATAAAAA
1 ATAAAAA
20366 AT-AAAA
1 ATAAAAA
*
20372 ATAAGAA
1 ATAAAAA
*
20379 A-AAAAT
1 ATAAAAA
*
20385 ATAAAAT
1 ATAAAAA
*
20392 GTAAATAA
1 ATAAA-AA
*
20400 A-CAAAA
1 ATAAAAA
*
20406 AT--ACA
1 ATAAAAA
20411 ATAAAAA
1 ATAAAAA
20418 ATATAAAA
1 ATA-AAAA
20426 AGTAAGAAA
1 A-TAA-AAA
20435 ATAAAAA
1 ATAAAAA
**
20442 ATAATGA
1 ATAAAAA
*
20449 ATCAAAA
1 ATAAAAA
*
20456 A-CAAAA
1 ATAAAAA
20462 ATAAAAA
1 ATAAAAA
20469 A
1 A
20470 AGACAAAAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.04
6 19 0.21
7 42 0.46
8 20 0.22
9 6 0.07
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:20369 original size:19 final size:19
Alignment explanation
Indices: 20345--20478 Score: 59
Period size: 20 Copynumber: 7.0 Consensus size: 19
20335 TATGAAATAT
*
20345 AAATAAAGA-AAGAAATAAA
1 AAATAAAAATAAGAAA-AAA
20364 AAATAAAAATAAGAAAAAA
1 AAATAAAAATAAGAAAAAA
* * *
20383 ATAT-AAAAT--G-TAAAT
1 AAATAAAAATAAGAAAAAA
*
20398 AAACAAAAATACA-ATAAAAA
1 AAATAAAAATA-AGA-AAAAA
*
20418 ATATAAAAAGTAAGAAAATAAA
1 AAATAAAAA-TAAG-AAA-AAA
* *
20440 AAATAATGAATCAA-AAACAA
1 AAATAA-AAAT-AAGAAAAAA
20460 AAATAAAAA-AAGACAAAAA
1 AAATAAAAATAAGA-AAAAA
20479 TTGAATAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 30
0.65 0.12 0.23
Matches are distributed among these distances:
15 5 0.06
16 6 0.07
17 2 0.02
18 6 0.07
19 20 0.24
20 25 0.29
21 7 0.08
22 10 0.12
23 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (19 bp):
AAATAAAAATAAGAAAAAA
Found at i:20384 original size:24 final size:25
Alignment explanation
Indices: 20339--20469 Score: 108
Period size: 24 Copynumber: 5.1 Consensus size: 25
20329 AAAATTTATG
*
20339 AAATATAAATAAAGAAAGAAATAAA
1 AAATATAAATAAAGAAAAAAATAAA
* *
20364 AAATAAAAAT-AAGAAAAAAATATA
1 AAATATAAATAAAGAAAAAAATAAA
* *
20388 AAATGTAAATAAACAAAAATACAATAAA
1 AAATATAAATAAA-GAAAA-A-AATAAA
*
20416 AAATAT-AA-AAAGTAAGAAAATAAA
1 AAATATAAATAAAG-AAAAAAATAAA
*
20440 AAATAATGAATCAAA-AACAAAAATAAA
1 AAAT-ATAAAT-AAAGAA-AAAAATAAA
20467 AAA
1 AAA
20470 AGACAAAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
24 30 0.35
25 14 0.16
26 14 0.16
27 14 0.16
28 13 0.15
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (25 bp):
AAATATAAATAAAGAAAAAAATAAA
Found at i:20441 original size:35 final size:33
Alignment explanation
Indices: 20360--20441 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
20350 AAGAAAGAAA
*
20360 TAAAAAATAAAAATAAGAAAAAAATATAAAATG
1 TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
*
20393 TAAATAAACAAAAATACA-ATAAAAAATATAAAAAG
1 TAAA-AAATAAAAATA-AGA-AAAAAATATAAAAAG
20428 TAAGAAAATAAAAA
1 TAA-AAAATAAAAA
20442 ATAATGAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.10
34 11 0.26
35 26 0.62
36 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (33 bp):
TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
Found at i:20858 original size:39 final size:38
Alignment explanation
Indices: 20807--20886 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
20797 ATGAAAATTT
*
20807 AAATAAAGAAAGAA-ATAAAAAATAAACCAAATAAAAATA
1 AAATAAAGAAAGAATAT-AAAAATAAAACAAA-AAAAATA
* *
20846 AAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAAATA
1 AAATAAAG-AAAGAATATAAAAATAAAACAAAAAAAATA
20884 AAA
1 AAA
20887 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.36
39 21 0.58
40 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (38 bp):
AAATAAAGAAAGAATATAAAAATAAAACAAAAAAAATA
Found at i:20917 original size:38 final size:39
Alignment explanation
Indices: 20875--20955 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
20865 AAGTAAAACA
20875 AAAAAAATAA-AAAATAAACAAA-AATACAAT-AAAAATA-
1 AAAAAAATAAGAAAATAAA-AAATAAT-CAATCAAAAATAC
* * *
20912 TAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATAC
1 AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
20951 AAAAA
1 AAAAA
20956 TTGAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
37 14 0.39
38 18 0.50
39 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (39 bp):
AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
Found at i:20955 original size:8 final size:7
Alignment explanation
Indices: 20819--20956 Score: 84
Period size: 7 Copynumber: 18.6 Consensus size: 7
20809 ATAAAGAAAG
20819 AAATAAA
1 AAATAAA
20826 AAATAAA
1 AAATAAA
20833 CCAAAT-AA
1 --AAATAAA
20841 AAATAAA
1 AAATAAA
*
20848 ATAAGAAA
1 A-AATAAA
*
20856 AGAATATTA
1 A-AATA-AA
*
20865 AAGTAAA
1 AAATAAA
20872 ACAA-AAA
1 A-AATAAA
20879 AAATAAA
1 AAATAAA
20886 AAATAAA
1 AAATAAA
20893 CAAA-AATA
1 -AAATAA-A
*
20901 CAATAAA
1 AAATAAA
20908 AATATAAA
1 AA-ATAAA
*
20916 AAGTAAGA
1 AAATAA-A
20924 AAATAAA
1 AAATAAA
*
20931 AAATAAT
1 AAATAAA
* *
20938 TAATCAA
1 AAATAAA
20945 AAATACAA
1 AAATA-AA
20953 AAAT
1 AAAT
20957 TGAATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.06
7 49 0.49
8 40 0.40
9 6 0.06
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:21437 original size:23 final size:24
Alignment explanation
Indices: 21394--21454 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
21384 AAGAAAATGA
*
21394 AAAAATAAAAA-AGATTCAAAAAT
1 AAAAATAAAAATAGAATCAAAAAT
*
21417 AAAAATAAAAATA-AATGAAAAAT
1 AAAAATAAAAATAGAATCAAAAAT
21440 AAATTAATAAAAATA
1 AAA--AATAAAAATA
21455 TTAATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 22 0.67
24 1 0.03
25 10 0.30
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (24 bp):
AAAAATAAAAATAGAATCAAAAAT
Found at i:21511 original size:6 final size:6
Alignment explanation
Indices: 21411--21495 Score: 54
Period size: 6 Copynumber: 13.8 Consensus size: 6
21401 AAAAAGATTC
*
21411 AAAAAT AAAAAT AAAAAT --AAAT GAAAAAT AAATTAAT AAAAAT ATTAATAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAA--AAT AAAAAT A--AAAAT
*
21462 AAAAGA- AAAAAT AAACAA- AAACA- AAAAAT AAAAA
1 AAAA-AT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAA
21496 AGGAAGAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
4 4 0.06
5 6 0.09
6 36 0.56
7 7 0.11
8 11 0.17
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:21808 original size:26 final size:26
Alignment explanation
Indices: 21789--21841 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
21779 AAAAAGCAAG
21789 AAAAAAT-AAAAAAATTAAAATACAA
1 AAAAAATAAAAAAAATTAAAATACAA
* *
21814 AACATATAAAAAAAATT-AAA-ACAA
1 AAAAAATAAAAAAAATTAAAATACAA
21838 AAAA
1 AAAA
21842 GAGAAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAAATAAAAAAAATTAAAATACAA
Found at i:22621 original size:19 final size:18
Alignment explanation
Indices: 22583--22622 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22573 AGAAAATTTT
* *
22583 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
22601 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
22620 AAA
1 AAA
22623 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:22819 original size:25 final size:27
Alignment explanation
Indices: 22784--22864 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 27
22774 AAAATTTATG
* *
22784 AAAATATAAATAAAG-AAAGAA-ATTA
1 AAAATAAAAATAAAGAAAAAAATATTA
22809 AAAATAAAAAT-AAGAAAAAAATATTA
1 AAAATAAAAATAAAGAAAAAAATATTA
22835 AAGAA-AAAAATAAA-ATAAAAAATA-TA
1 AA-AATAAAAATAAAGA-AAAAAATATTA
22861 AAAA
1 AAAA
22865 GTAAGAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
24 3 0.06
25 17 0.35
26 17 0.35
27 12 0.24
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (27 bp):
AAAATAAAAATAAAGAAAAAAATATTA
Found at i:22843 original size:26 final size:27
Alignment explanation
Indices: 22784--22864 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
22774 AAAATTTATG
* * *
22784 AAAATATAAAT-AAAGAAAGAA-ATTA
1 AAAATAAAAATAAAATAAAAAATATTA
*
22809 AAAATAAAAATAAGA-AAAAAATATTA
1 AAAATAAAAATAAAATAAAAAATATTA
22835 AAGAA-AAAAATAAAATAAAAAATA-TA
1 AA-AATAAAAATAAAATAAAAAATATTA
22861 AAAA
1 AAAA
22865 GTAAGAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
25 17 0.35
26 21 0.44
27 10 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (27 bp):
AAAATAAAAATAAAATAAAAAATATTA
Found at i:22848 original size:12 final size:12
Alignment explanation
Indices: 22791--22858 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 12
22781 ATGAAAATAT
22791 AAATAAAGAAAGA
1 AAATAAAGAAA-A
*
22804 AATTAAA-AATAA
1 AAATAAAGAA-AA
22816 AAAT-AAGAAAAA
1 AAATAAAG-AAAA
22828 AATATTAAAGAAAA
1 AA-A-TAAAGAAAA
22842 AAATAAA-ATAAA
1 AAATAAAGA-AAA
22854 AAATA
1 AAATA
22859 TAAAAAGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
11 3 0.07
12 22 0.48
13 11 0.24
14 7 0.15
15 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAATAAAGAAAA
Found at i:22861 original size:14 final size:14
Alignment explanation
Indices: 22795--22863 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 14
22785 AAATATAAAT
22795 AAAGAAAGAAAT-TA
1 AAAGAAA-AAATATA
*
22809 AAA-ATAAAA-ATA
1 AAAGAAAAAATATA
* *
22821 AGA-AAAAAATATT
1 AAAGAAAAAATATA
22834 AAAGAAAAAA-ATA
1 AAAGAAAAAATATA
*
22847 AAATAAAAAATATA
1 AAAGAAAAAATATA
22861 AAA
1 AAA
22864 AGTAAGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
12 12 0.27
13 17 0.39
14 15 0.34
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAGAAAAAATATA
Found at i:22879 original size:14 final size:14
Alignment explanation
Indices: 22808--22878 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 14
22798 GAAAGAAATT
22808 AAAAATAAAAATAAG
1 AAAAA-AAAAATAAG
* *
22823 AAAAAAATATTAAAG
1 AAAAAAAAAAT-AAG
22838 AAAAAAATAAAATAA-
1 -AAAAAA-AAAATAAG
22853 AAAATATAAAAAGTAAG
1 AAAA-A-AAAAA-TAAG
22870 AAAAAAAAA
1 AAAAAAAAA
22879 GGCAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
14 8 0.18
15 17 0.38
16 13 0.29
17 7 0.16
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAAAAATAAG
Found at i:23363 original size:8 final size:8
Alignment explanation
Indices: 23350--23471 Score: 67
Period size: 8 Copynumber: 15.4 Consensus size: 8
23340 ATAATTAATC
23350 AAAAATAA
1 AAAAATAA
23358 AAAAATTGAA
1 AAAAA-T-AA
23368 AAAAA-AA
1 AAAAATAA
23375 AAAAATAA
1 AAAAATAA
* *
23383 AATACTAA
1 AAAAATAA
23391 AAAAAT--
1 AAAAATAA
* *
23397 AACAAT-T
1 AAAAATAA
23404 AAAAATAA
1 AAAAATAA
23412 ACAAAA-ACA
1 A-AAAATA-A
*
23421 AAAAGTAA
1 AAAAATAA
*
23429 AAAAGTAA
1 AAAAATAA
*
23437 GAAAAT-A
1 AAAAATAA
*
23444 AAAAATTA
1 AAAAATAA
* *
23452 GAGAATAA
1 AAAAATAA
23460 AAAAATATA
1 AAAAATA-A
23469 AAA
1 AAA
23472 CGATAAAATG
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
6 5 0.06
7 18 0.20
8 46 0.52
9 12 0.14
10 7 0.08
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:23392 original size:23 final size:21
Alignment explanation
Indices: 23227--23464 Score: 68
Period size: 23 Copynumber: 10.5 Consensus size: 21
23217 ATAAAGAAAG
*
23227 AAATAAAAAATAAACCAAAATAA
1 AAATAAAAAA-AAA-AAAAATAA
* *
23250 AAATAAAATAAGAAAACAATATTA
1 AAATAAAA-AA-AAAA-AAAATAA
* *
23274 AAGT-AAAACAAAAAAAATAA
1 AAATAAAAAAAAAAAAAATAA
** * *
23294 AAA-AAACGAAAATACAATAA
1 AAATAAAAAAAAAAAAAATAA
** * *
23314 AAATATAAAAGGTAAGATAATAAA
1 AAATA-AAAA-AAAAAAAAAT-AA
* *
23338 AAATAATTAATCAAAAATAAA-AA
1 AAATAA--AA-AAAAAAAAAATAA
*
23361 AATTGAAAAAAAAAAAAAATAA
1 AAAT-AAAAAAAAAAAAAATAA
* * *
23383 AATACTAAAAAAATAACAATTAA
1 AA-A-TAAAAAAAAAAAAAATAA
*
23406 AAATAAACAAAAACAAAAAGTAAA
1 AAATAAA-AAAAA-AAAAAAT-AA
* *
23430 AAAGTAAGAAAATAAAAAATTAGA
1 AAA-TAA-AAAAAAAAAAAATA-A
*
23454 GAATAAAAAAA
1 AAATAAAAAAA
23465 TATAAAACGA
Statistics
Matches: 155, Mismatches: 40, Indels: 41
0.66 0.17 0.17
Matches are distributed among these distances:
20 21 0.14
21 17 0.11
22 18 0.12
23 48 0.31
24 37 0.24
25 13 0.08
26 1 0.01
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (21 bp):
AAATAAAAAAAAAAAAAATAA
Found at i:23458 original size:15 final size:16
Alignment explanation
Indices: 23421--23463 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23411 AACAAAAACA
23421 AAAAGTAAAAAAGTAAG
1 AAAA-TAAAAAAGTAAG
*
23438 AAAATAAAAAA-TTAG
1 AAAATAAAAAAGTAAG
*
23453 AGAATAAAAAA
1 AAAATAAAAAA
23464 ATATAAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 7 0.29
17 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAGTAAG
Found at i:23605 original size:24 final size:23
Alignment explanation
Indices: 23578--23633 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
23568 AAAGACATAA
23578 AAAATCAAAGACAAAAAATAAAAT
1 AAAATCAAAGACAAAAAAT-AAAT
* *
23602 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAT
23625 AAAATCAAA
1 AAAATCAAA
23634 AGGAAGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 14 0.50
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAT
Found at i:24963 original size:34 final size:38
Alignment explanation
Indices: 24902--24970 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 38
24892 CAAATTTTAT
* *
24902 TAAATAAAAGATAAATATTATACAGATAAATTACACGA
1 TAAATAAAAGATAAATATTACACAGATAAAATACACGA
24940 TAAATAAAA-ATAAAT-TT-CA-AGATAAAATACA
1 TAAATAAAAGATAAATATTACACAGATAAAATACA
24971 AGATGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.38
35 1 0.03
36 2 0.07
37 6 0.21
38 9 0.31
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.26
Consensus pattern (38 bp):
TAAATAAAAGATAAATATTACACAGATAAAATACACGA
Found at i:25125 original size:19 final size:19
Alignment explanation
Indices: 25089--25152 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
25079 AATTTTTATA
* * *
25089 AAAAAAAAAATAACAAAAAT
1 AAAAATAAAA-AATAAAAAG
*
25109 AAAAATAAAAAATAAAAGG
1 AAAAATAAAAAATAAAAAG
*
25128 AAAAATAAAAGATAAAAAG
1 AAAAATAAAAAATAAAAAG
25147 AGAAAA
1 A-AAAA
25153 ATTAAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.09
Consensus pattern (19 bp):
AAAAATAAAAAATAAAAAG
Found at i:25710 original size:19 final size:18
Alignment explanation
Indices: 25672--25711 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25662 AGAAAATTTT
* *
25672 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
25690 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
25709 AAA
1 AAA
25712 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:25904 original size:19 final size:19
Alignment explanation
Indices: 25882--26016 Score: 61
Period size: 20 Copynumber: 7.0 Consensus size: 19
25872 ATGAAAATAT
*
25882 AAATAAAGA-AAGAAATAAA
1 AAATAAAAATAAGAAA-AAA
25901 AAATAAAAATAAGAAAAAA
1 AAATAAAAATAAGAAAAAA
* * *
25920 ATAT-AAAAT--G-TAAAT
1 AAATAAAAATAAGAAAAAA
*
25935 AAACAAAAATACA-ATAAAAA
1 AAATAAAAATA-AGA-AAAAA
*
25955 ATATAAAAAGTAAGAAAATAAA
1 AAATAAAAA-TAAG-AAA-AAA
*
25977 AAATAATGAATCAA-AAACAAA
1 AAATAA-AAAT-AAGAAA-AAA
25998 AAATAAAAA-AAGACAAAAA
1 AAATAAAAATAAGA-AAAAA
26017 TTGAATAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
15 5 0.06
16 6 0.07
18 7 0.08
19 18 0.21
20 21 0.24
21 16 0.18
22 10 0.11
23 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (19 bp):
AAATAAAAATAAGAAAAAA
Found at i:25906 original size:7 final size:7
Alignment explanation
Indices: 25875--26007 Score: 69
Period size: 7 Copynumber: 18.9 Consensus size: 7
25865 AAAATTTATG
*
25875 AAAATAT
1 AAAAAAT
*
25882 AAATAAAG
1 AAA-AAAT
25890 AAAGAAAT
1 AAA-AAAT
25898 AAAAAAT
1 AAAAAAT
25905 -AAAAAT
1 AAAAAAT
*
25911 AAGAAA-
1 AAAAAAT
*
25917 AAAATAT
1 AAAAAAT
**
25924 AAAATGT
1 AAAAAAT
25931 AAATAAA-
1 AAA-AAAT
*
25938 CAAAAAT
1 AAAAAAT
*
25945 --ACAAT
1 AAAAAAT
25950 AAAAAAT
1 AAAAAAT
25957 ATAAAAAGT
1 A-AAAAA-T
25966 AAGAAAAT
1 AA-AAAAT
25974 AAAAAAT
1 AAAAAAT
**
25981 AATGAAT
1 AAAAAAT
* *
25988 CAAAAAC
1 AAAAAAT
25995 AAAAAAT
1 AAAAAAT
26002 AAAAAA
1 AAAAAA
26008 AGACAAAAAT
Statistics
Matches: 95, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
5 4 0.04
6 13 0.14
7 51 0.54
8 21 0.22
9 6 0.06
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:25914 original size:24 final size:23
Alignment explanation
Indices: 25875--25982 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
25865 AAAATTTATG
* *
25875 AAAATATAAATAAAGAAAGAAAT
1 AAAAAATAAAAAAAGAAAGAAAT
*
25898 AAAAAATAAAAATAAGAAAAAAAT
1 AAAAAATAAAAA-AAGAAAGAAAT
* * *
25922 ATAAAATGTAAATAAACAAAAATACAAT
1 A-AAAA-ATAAA-AAA-AGAAAGA-AAT
* *
25950 AAAAAATATAAAAAGTAAGAAAAT
1 AAAAAATAAAAAAAGAAAG-AAAT
25974 AAAAAATAA
1 AAAAAATAA
25983 TGAATCAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
23 10 0.15
24 25 0.38
25 8 0.12
26 8 0.12
27 11 0.17
28 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAAAATAAAAAAAGAAAGAAAT
Found at i:25978 original size:35 final size:33
Alignment explanation
Indices: 25897--25978 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
25887 AAGAAAGAAA
*
25897 TAAAAAATAAAAATAAGAAAAAAATATAAAATG
1 TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
*
25930 TAAATAAACAAAAATACA-ATAAAAAATATAAAAAG
1 TAAA-AAATAAAAATA-AGA-AAAAAATATAAAAAG
25965 TAAGAAAATAAAAA
1 TAA-AAAATAAAAA
25979 ATAATGAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.10
34 11 0.26
35 26 0.62
36 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (33 bp):
TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
Found at i:26008 original size:8 final size:8
Alignment explanation
Indices: 25809--25979 Score: 62
Period size: 8 Copynumber: 20.2 Consensus size: 8
25799 CAACAACGAT
25809 AAATAAAA
1 AAATAAAA
*
25817 AAA-GAAA
1 AAATAAAA
*
25824 AGATAAAA
1 AAATAAAA
*
25832 AGATAAAA
1 AAATAAAA
25840 AAATAAAA
1 AAATAAAA
25848 AAATCCAAAA
1 AAAT--AAAA
*
25858 CATTATAAAA
1 -A-AATAAAA
* *
25868 ATTTATGAAA
1 A--AATAAAA
* *
25878 ATATAAAT
1 AAATAAAA
* *
25886 AAAGAAAG
1 AAATAAAA
25894 AAAT-AAA
1 AAATAAAA
25901 AAATAAAA
1 AAATAAAA
*
25909 ATAAGAAAA
1 A-AATAAAA
25918 AAATATAAA
1 AAATA-AAA
**
25927 ATGTAAATA
1 AAATAAA-A
25936 AACA-AAAA
1 AA-ATAAAA
25944 TACAAT-AAA
1 -A-AATAAAA
25953 AAATATAAA
1 AAATA-AAA
* *
25962 AAGTAAGA
1 AAATAAAA
25970 AAATAAAA
1 AAATAAAA
25978 AA
1 AA
25980 TAATGAATCA
Statistics
Matches: 124, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
7 14 0.11
8 59 0.48
9 31 0.25
10 17 0.14
11 1 0.01
12 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:26396 original size:39 final size:38
Alignment explanation
Indices: 26345--26424 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
26335 ATGAAAATTT
*
26345 AAATAAAGAAAGAA-ATAAAAAATAAACCAAATAAAAATA
1 AAATAAAGAAAGAATAT-AAAAATAAAACAAA-AAAAATA
* *
26384 AAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAAATA
1 AAATAAAG-AAAGAATATAAAAATAAAACAAAAAAAATA
26422 AAA
1 AAA
26425 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.36
39 21 0.58
40 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (38 bp):
AAATAAAGAAAGAATATAAAAATAAAACAAAAAAAATA
Found at i:26455 original size:38 final size:39
Alignment explanation
Indices: 26413--26493 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
26403 AAGTAAAACA
26413 AAAAAAATAA-AAAATAAACAAA-AATACAAT-AAAAATA-
1 AAAAAAATAAGAAAATAAA-AAATAAT-CAATCAAAAATAC
* * *
26450 TAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATAC
1 AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
26489 AAAAA
1 AAAAA
26494 TTGAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
37 14 0.39
38 18 0.50
39 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (39 bp):
AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
Found at i:26493 original size:8 final size:7
Alignment explanation
Indices: 26357--26494 Score: 84
Period size: 7 Copynumber: 18.6 Consensus size: 7
26347 ATAAAGAAAG
26357 AAATAAA
1 AAATAAA
26364 AAATAAA
1 AAATAAA
26371 CCAAAT-AA
1 --AAATAAA
26379 AAATAAA
1 AAATAAA
*
26386 ATAAGAAA
1 A-AATAAA
*
26394 AGAATATTA
1 A-AATA-AA
*
26403 AAGTAAA
1 AAATAAA
26410 ACAA-AAA
1 A-AATAAA
26417 AAATAAA
1 AAATAAA
26424 AAATAAA
1 AAATAAA
26431 CAAA-AATA
1 -AAATAA-A
*
26439 CAATAAA
1 AAATAAA
26446 AATATAAA
1 AA-ATAAA
*
26454 AAGTAAGA
1 AAATAA-A
26462 AAATAAA
1 AAATAAA
*
26469 AAATAAT
1 AAATAAA
* *
26476 TAATCAA
1 AAATAAA
26483 AAATACAA
1 AAATA-AA
26491 AAAT
1 AAAT
26495 TGAATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.06
7 49 0.49
8 40 0.40
9 6 0.06
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:26904 original size:476 final size:468
Alignment explanation
Indices: 26004--26856 Score: 1027
Period size: 476 Copynumber: 1.8 Consensus size: 468
25994 CAAAAAATAA
*
26004 AAAAAGACAAAAATTGAATAAAAATTTCAAAAATGAAAGGAAATGACAAAATAGAAAAAAAATAT
1 AAAAAGACAAAAATTGAATAAAAATTTCAAAAATGAAAAGAAATGACAAAATAGAAAAAAAATAT
* *
26069 TTTAAAAAATACAAAAAATTGAAAAACATATAAGAAATAATAAGAAAACAATATAAAAAATCAAA
66 TTTAAAAAATACAAAAAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATCAAA
*
26134 GACAAAAGATTAAAAAAGAGAAAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGCA
131 GACAAAAAATTAAAAAAGAG-AAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGCA
* * * *
26199 ACAAAAAAACTATAAGAATTTGAAAATGAAAATAAGAAATAAAAAGAAATTTGTGAAAAAATTAA
195 ACAAAAAAACTACAAGAATTTAAAAACGAAAATAAGAAATAAAAAGAAA--T-AGAAAAAATTAA
** * * ** *
26264 GAAAATAATAAAAATGAAAAGACAAAAGATGATTTATGAAAAATAAAAAATCCAAAACATTCTAA
257 G---A-AATAAAAATGAAAAGACAAAAGATGAAATATAAAAAAAAAAAAATAAAAAACATTCAAA
** ** * *
26329 ACATTTATGAAAATTTAAATAAAGAAAGAAATAAAAAATAAACCAAATAAAAATAAAATAAGAAA
318 ACATAAATGAAAATAAAAATAAAGAAAGAAATAAAAAAAAAACCAAATAAAAAGAAAATAAGAAA
*
26394 AGAATATTAAAGTAAAACAAAAAAAATAAAAAATAAACAAAAATACAATAAAAATATAAAAAGTA
383 AGAATATTAAAG-AAAACAAAAAAAACAAAAAATAAACAAAAATACAATAAAAATATAAAAAGTA
26459 AGAAAATAAAAAATAATTAATC
447 AGAAAATAAAAAATAATTAATC
* *
26481 AAAAATACAAAAATTGAATAAAAATTT-AGAAAGTGAAAA-AGAATGACAAAATA-AAAAAAAAT
1 AAAAAGACAAAAATTGAATAAAAATTTCA-AAAATGAAAAGA-AATGACAAAATAGAAAAAAAAT
**
26543 AGTTTT-AAAAATACAAAAAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAGGTC
64 A-TTTTAAAAAATACAAAAAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATC
* * *
26607 AAAGACAAAAAATTAAAAAAGAG-AAGTTATTGCAAAATAAAAATGAAAACCAAAGGAGAAATTG
128 AAAGACAAAAAATTAAAAAAGAGAAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATG
* * * * *
26671 -AA-AAAAAAAGTACGAGAATTTAAAAACGCAAATAAGAAATAAAAAGAAA-AGCAAGAA-T-AG
193 CAACAAAAAAACTACAAGAATTTAAAAACGAAAATAAGAAATAAAAAGAAATAGAAAAAATTAAG
*
26731 -AATAAAAATGAAAAGACAAAAGATTTGAAATA-AAAAAGAAAACGAGAAAGTAAAAAATATT-A
258 AAATAAAAATGAAAAGACAAAAGA--TGAAATATAAAAA-AAAA--A-AAA-TAAAAAACATTCA
** *
26793 AAACAATGAAAT-AAAATAAAAATGAAAGCATGTGAAA-AAAAAAAAAAGCAAA-AAGAAAGAAA
316 AAAC-AT-AAATGAAAATAAAAAT-AAAG-A-AAGAAATAAAAAAAAAACCAAATAA-AAAGAAA
26855 AT
375 AT
26857 TTTGATGGAA
Statistics
Matches: 323, Mismatches: 37, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
461 23 0.07
462 4 0.01
463 8 0.02
465 1 0.00
466 9 0.03
467 20 0.06
468 13 0.04
469 22 0.07
470 4 0.01
472 41 0.13
473 2 0.01
474 38 0.12
476 88 0.27
477 50 0.15
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.17
Consensus pattern (468 bp):
AAAAAGACAAAAATTGAATAAAAATTTCAAAAATGAAAAGAAATGACAAAATAGAAAAAAAATAT
TTTAAAAAATACAAAAAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATCAAA
GACAAAAAATTAAAAAAGAGAAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGCAA
CAAAAAAACTACAAGAATTTAAAAACGAAAATAAGAAATAAAAAGAAATAGAAAAAATTAAGAAA
TAAAAATGAAAAGACAAAAGATGAAATATAAAAAAAAAAAAATAAAAAACATTCAAAACATAAAT
GAAAATAAAAATAAAGAAAGAAATAAAAAAAAAACCAAATAAAAAGAAAATAAGAAAAGAATATT
AAAGAAAACAAAAAAAACAAAAAATAAACAAAAATACAATAAAAATATAAAAAGTAAGAAAATAA
AAAATAATTAATC
Found at i:26964 original size:10 final size:10
Alignment explanation
Indices: 26951--26979 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
26941 AAAAAGATTC
26951 AAAAATAAAT
1 AAAAATAAAT
26961 AAAAATAAA-
1 AAAAATAAAT
26970 AAAAATAAAT
1 AAAAATAAAT
26980 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:26971 original size:17 final size:17
Alignment explanation
Indices: 26927--27030 Score: 72
Period size: 17 Copynumber: 5.9 Consensus size: 17
26917 ACAAAATAAG
26927 AAAATGAAAAAATAAA-A
1 AAAAT-AAAAAATAAATA
* *
26944 AAGATTCAAAAATAAATA
1 AA-AATAAAAAATAAATA
26962 AAAAT-AAAAA-AAATA
1 AAAATAAAAAATAAATA
26977 AATTAATAAAAATATTAATATA
1 AA--AATAAAAA-A-TAA-ATA
*
26999 AAAGA-AAAAAATAAACA
1 AAA-ATAAAAAATAAATA
*
27016 AAAACAAAAAATAAA
1 AAAATAAAAAATAAA
27031 AAAGGAAGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 22
0.73 0.04 0.22
Matches are distributed among these distances:
15 7 0.10
16 6 0.08
17 31 0.43
18 12 0.17
19 2 0.03
20 6 0.08
21 3 0.04
22 5 0.07
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAAAATAAATA
Found at i:26975 original size:44 final size:44
Alignment explanation
Indices: 26919--27034 Score: 107
Period size: 44 Copynumber: 2.6 Consensus size: 44
26909 AAAAAAAGAC
* *
26919 AAAAT-AAGAAAATGAAAAAATAAAAAAGATTCAA-A-AATAA-ATA
1 AAAATAAAAAAAAT-AAAAAATAAAAAAGATT-AATATAA-AAGAAA
* *
26962 AAAATAAAAAAAATAAATTAAT-AAAAATATTAATATAAAAGAAA
1 AAAATAAAAAAAATAAA-AAATAAAAAAGATTAATATAAAAGAAA
*
27006 AAAATAAACAAAAACAAAAAATAAAAAAG
1 AAAATAAA-AAAAATAAAAAATAAAAAAG
27035 GAAGAAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.03
43 19 0.32
44 25 0.42
45 13 0.22
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (44 bp):
AAAATAAAAAAAATAAAAAATAAAAAAGATTAATATAAAAGAAA
Found at i:27050 original size:8 final size:8
Alignment explanation
Indices: 26919--27074 Score: 80
Period size: 8 Copynumber: 18.4 Consensus size: 8
26909 AAAAAAAGAC
*
26919 AAAATAAG
1 AAAATAAA
*
26927 AAAATGAA
1 AAAATAAA
26935 AAAATAAA
1 AAAATAAA
**
26943 AAAGATTCA
1 AAA-ATAAA
26952 AAAATAAATA
1 AAAAT-AA-A
26962 AAAATAAAA
1 AAAAT-AAA
26971 AAAATAAA
1 AAAATAAA
**
26979 TTAATAAA
1 AAAATAAA
*
26987 AATATTAATA
1 AA-AATAA-A
*
26997 TAAAAGAAA
1 -AAAATAAA
27006 AAAATAAA
1 AAAATAAA
27014 CAAAA-ACAA
1 -AAAATA-AA
27023 AAAATAAA
1 AAAATAAA
** *
27031 AAAGGAAG
1 AAAATAAA
27039 AAAATAAA
1 AAAATAAA
* *
27047 AAAATTAG
1 AAAATAAA
**
27055 CTAATAAA
1 AAAATAAA
27063 AAAATATAA
1 AAAATA-AA
27072 AAA
1 AAA
27075 GACGAAGTGA
Statistics
Matches: 109, Mismatches: 29, Indels: 19
0.69 0.18 0.12
Matches are distributed among these distances:
8 65 0.60
9 29 0.27
10 13 0.12
11 2 0.02
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Done.