Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006731.1 Hibiscus syriacus cultivar Beakdansim tig00016879_pilon, 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: 159805
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:3303 original size:18 final size:18
Alignment explanation
Indices: 3280--3314 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3270 AAAGTAAACT
3280 TCAGAAGGATTTGATTTA
1 TCAGAAGGATTTGATTTA
3298 TCAGAAGGATTTGATTT
1 TCAGAAGGATTTGATTT
3315 GCTCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
TCAGAAGGATTTGATTTA
Found at i:3742 original size:28 final size:28
Alignment explanation
Indices: 3693--3810 Score: 148
Period size: 28 Copynumber: 4.2 Consensus size: 28
3683 CAAATGCCCT
* * * *
3693 TAGTCGGGGATCATTCTATAACTTTTAA
1 TAGTCGAGGATCATTTTGTAACTTTCAA
* *
3721 TAATC-AGGGATCATTTTGTAACTTTTAA
1 TAGTCGA-GGATCATTTTGTAACTTTCAA
*
3749 TAGTCGAGTATCATTTTGTAACTTTCAA
1 TAGTCGAGGATCATTTTGTAACTTTCAA
*
3777 TAGTCGAGTATCATTTTGTAACTTTCAA
1 TAGTCGAGGATCATTTTGTAACTTTCAA
3805 TAGTCG
1 TAGTCG
3811 GGAACTTAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
28 80 0.99
29 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (28 bp):
TAGTCGAGGATCATTTTGTAACTTTCAA
Found at i:5209 original size:2 final size:2
Alignment explanation
Indices: 5202--5231 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5192 CATCCCAAAC
5202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5232 CTAATCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10838 original size:23 final size:23
Alignment explanation
Indices: 10807--10874 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
10797 CATTTTATAT
*
10807 GGCATTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
10830 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
10853 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
10875 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:11091 original size:3 final size:3
Alignment explanation
Indices: 11069--11118 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
11059 TCATTATGGC
*
11069 ATT ATC ATT A-T ATT -TT ATT ATT ATT ATTT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT
11114 ATT AT
1 ATT AT
11119 GCCTCACTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 31 0.74
4 7 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:20224 original size:28 final size:28
Alignment explanation
Indices: 20184--20241 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20174 AGTCCTAAGC
20184 TAAGGTGAGTTAGTTTCCTTTGGTTAAT
1 TAAGGTGAGTTAGTTTCCTTTGGTTAAT
*
20212 TAAGGTGAGTTAGTTTTCTTTGGTTAAT
1 TAAGGTGAGTTAGTTTCCTTTGGTTAAT
20240 TA
1 TA
20242 TTGAGATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.48
Consensus pattern (28 bp):
TAAGGTGAGTTAGTTTCCTTTGGTTAAT
Found at i:21507 original size:23 final size:23
Alignment explanation
Indices: 21481--21543 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
21471 TATATGGCAT
*
21481 TTCGGTGTATTTCTACGCGACAC
1 TTCGGTGCATTTCTACGCGACAC
* * *
21504 TTCGGTGCAATTCTACGTGGCAC
1 TTCGGTGCATTTCTACGCGACAC
* *
21527 TTAGGTGCATTTATACG
1 TTCGGTGCATTTCTACG
21544 AGTTGTGGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (23 bp):
TTCGGTGCATTTCTACGCGACAC
Found at i:21759 original size:3 final size:3
Alignment explanation
Indices: 21738--21793 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
21728 TCATTATGGC
*
21738 ATT ATC ATT A-T ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21783 ATT ATT ATT AT
1 ATT ATT ATT AT
21794 GCCTCACTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:34427 original size:17 final size:18
Alignment explanation
Indices: 34397--34430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34387 AAAAACACAC
*
34397 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
34415 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
34431 TACTCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:36789 original size:3 final size:3
Alignment explanation
Indices: 36781--36838 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
36771 CAAAAATTTG
* * **
36781 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36825 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
36839 CGAAAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 5 0.11
3 39 0.83
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:37150 original size:40 final size:42
Alignment explanation
Indices: 37028--37325 Score: 218
Period size: 46 Copynumber: 7.0 Consensus size: 42
37018 AGGTCTGGTC
* * *
37028 ATCTAAGGG-TGACAAGGCTCCTACGTGATGAGGACGGCTGG
1 ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
* * ** ***
37069 TTATCTA-GGG-TGACACGGCTCATACGTGATGAAAAAAACTGG
1 --ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
* *
37111 -TC-GGGGGATGACACGGTTCCTACGTGATGAGGACGACTGG
1 ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
* * *
37151 CCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGG
1 --ATC--TAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
* * *
37197 TTATCTAGGGG-TGACACGGCTCCTACGTGATGAAGA-GATCTGG
1 --ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACG-GCTGG
* *
37240 -TCGA-GGGATGGCACGGTTCCTACGTGATGAGGACGGCTGG
1 ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
* *
37280 CCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGG
1 --ATC--TAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
37326 TTATCTATGG
Statistics
Matches: 202, Mismatches: 36, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
39 8 0.04
40 55 0.27
41 1 0.00
42 29 0.14
43 34 0.17
44 5 0.02
45 1 0.00
46 69 0.34
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
ATCTAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGG
Found at i:37242 original size:129 final size:128
Alignment explanation
Indices: 37046--37332 Score: 493
Period size: 129 Copynumber: 2.2 Consensus size: 128
37036 GTGACAAGGC
37046 TCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAAAAAACTGG
1 TCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAAAAAACTGG
*
37111 TCGGGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATAACACGGT
66 TCGAGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATAACACGGT
* * * * *
37174 TCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTG
1 TCCTACGTGATGAGGACGGCTGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAAAAAACTG
* *
37239 GTCGAGGGATGGCACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGT
65 GTCGAGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATAACACGGT
37303 TCCTACGTGATGAGGACGGCTGGTTATCTA
1 TCCTACGTGATGAGGACGGCTGGTTATCTA
37333 TGGAGTTATG
Statistics
Matches: 149, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
128 29 0.19
129 120 0.81
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (128 bp):
TCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAAAAAACTGG
TCGAGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATAACACGGT
Found at i:37383 original size:28 final size:28
Alignment explanation
Indices: 37363--37424 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
37353 AAACCAAATT
37363 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
37391 AAAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
37419 AAAGAT
1 AAAGAT
37425 GATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:37579 original size:67 final size:63
Alignment explanation
Indices: 37442--37616 Score: 185
Period size: 67 Copynumber: 2.7 Consensus size: 63
37432 TTAAAAAAAC
37442 TGTCTCGAAA-GAGACAAAATTCGTTTCAAAGGAAACGACTCAAATATGGCATTTAAAGGGAAT
1 TGTCTC-AAATGAGACAAAATTCGTTTCAAAGGAAACGACTCAAATATGGCATTTAAAGGGAAT
* * * * * * *
37505 TGTCTCAAGTGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATGG-ATGTTTCATGGGA
1 TGTCTCAAATGAGACAAAATTCG-TTTCAAAGGAAACG-ACTCAAATATGGCA--TTTAAAGGG-
37569 AAT
61 AAT
*
37572 TGTCTCAAATGAGACAAAATTCATTTC-AAGAGAAACGATCTCAAA
1 TGTCTCAAATGAGACAAAATTCGTTTCAAAG-GAAACGA-CTCAAA
37617 GATGTTTATT
Statistics
Matches: 91, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
62 2 0.02
63 18 0.20
64 13 0.14
65 13 0.14
66 22 0.24
67 23 0.25
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (63 bp):
TGTCTCAAATGAGACAAAATTCGTTTCAAAGGAAACGACTCAAATATGGCATTTAAAGGGAAT
Found at i:37636 original size:35 final size:36
Alignment explanation
Indices: 37595--37690 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
37585 ACAAAATTCA
**
37595 TTTCAAGAGAAACGATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTTG
*
37630 TTTCAAGGGAAACAGAT-TCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAAC-GATCTCAAAGATGGTAAATTTTG
* *
37666 TTTCCAA-AGAAACAAACTCAAAGAT
1 TTT-CAAGAGAAACGATCTCAAAGAT
37691 TTTTCTCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
35 21 0.41
36 27 0.53
37 3 0.06
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (36 bp):
TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTTG
Found at i:38149 original size:63 final size:63
Alignment explanation
Indices: 38052--38178 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
38042 TCAAAGATGT
* *
38052 TTTTTTCAAAAGAAGTTGTCTCAAGAGACAAAAATTTTGTTTCAAAGGAAACAAACTCAAAGA
1 TTTTTTCAAAAGAAATTGTCTCAAGAGACAAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
* * *
38115 TTTTTTCAAAAGAAATTGTCTTTAAGAGA-TAAAATTTTGTTTCAAAAGAAACATACTCAAAGA
1 TTTTTTCAAAAGAAATTGTC-TCAAGAGACAAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
38178 T
1 T
38179 GGATCACATC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 51 0.88
64 7 0.12
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (63 bp):
TTTTTTCAAAAGAAATTGTCTCAAGAGACAAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
Found at i:38518 original size:30 final size:30
Alignment explanation
Indices: 38455--38517 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
38445 AGAGACAAAA
*
38455 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAAAAACAAACTCAAAGAT
*
38485 TTTTGTTT-CAAAAAAACAATCTCAAAGAT
1 TTTTGTTTCCAAAAAAACAAACTCAAAGAT
38514 TTTT
1 TTTT
38518 TCACGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (30 bp):
TTTTGTTTCCAAAAAAACAAACTCAAAGAT
Found at i:38578 original size:52 final size:52
Alignment explanation
Indices: 38505--38661 Score: 287
Period size: 52 Copynumber: 3.0 Consensus size: 52
38495 AAAAAACAAT
* *
38505 CTCAAAGATTTTTTCACGAAATTGTCTCAAGAGAGACAACACTTTGTTTCAGA
1 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
38558 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
38610 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
38662 ATAAATAGAC
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 94 0.92
53 8 0.08
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (52 bp):
CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
Found at i:38685 original size:27 final size:27
Alignment explanation
Indices: 38655--38781 Score: 130
Period size: 29 Copynumber: 4.6 Consensus size: 27
38645 CAAAACTTTG
* * *
38655 TTTCAAAATAAATAGACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
38682 TTTCAAAAGAAAC-AACTCAACGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
* *
38708 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAACAAACTCAAAGA-TTT
*
38737 TATTCAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAACAAACTCAAAGA-TTT
* *
38766 TTTCAAGAGAGACAAA
1 TTTCAAAAGAAACAAA
38782 AATCGTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.14
27 22 0.26
28 20 0.23
29 32 0.37
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:38781 original size:28 final size:28
Alignment explanation
Indices: 38670--38771 Score: 145
Period size: 29 Copynumber: 3.7 Consensus size: 28
38660 AAATAAATAG
*
38670 ACTCAAAGA-TTTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
* *
38696 ACTCAACGATTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
*
38724 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
38753 ACTCAAAGATTTTTTTCAA
1 ACTCAAAGATTTTTTTCAA
38772 GAGAGACAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 14 0.21
28 17 0.26
29 27 0.41
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:39111 original size:36 final size:36
Alignment explanation
Indices: 39000--39118 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
38990 AGAAAATGAT
* * * *
39000 GTCTCAAGCGAGACGAACTTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** **
39034 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
39070 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
39105 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
39119 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 18 0.26
35 12 0.18
36 38 0.56
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:39130 original size:36 final size:36
Alignment explanation
Indices: 39034--39118 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
39024 TTAAGATATA
* **
39034 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
39070 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
39105 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
39119 TCAACTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:39249 original size:105 final size:101
Alignment explanation
Indices: 39070--39302 Score: 276
Period size: 105 Copynumber: 2.3 Consensus size: 101
39060 TAGAGAAATT
*
39070 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
*
39134 GTGAAACAAATTCGAA-ATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTC-AAGATTTGGATCTCAAAGGAAAAAG
* *
39172 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * * *
39236 TAA-GTGAATCAAATTCAAGGTTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAGATTTGGATCTCAAAGGAAAAAG
*
39277 GTCTCAAGCGAGACGAAGTTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
39303 AAGAGAATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 6 0.05
105 75 0.66
106 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAGATTTGGATCTCAAAGGAAAAAG
Found at i:39365 original size:36 final size:36
Alignment explanation
Indices: 39276--39370 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
39266 AAAGGAAAAA
* * * *
39276 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAAACAAAATTTGTTTTAAGAGAAAT
* * * *
39312 TGTCTTAAGTGATACAAACTTTGTTTTTAA-AGAAAT
1 TGTCTCAAGCGAAACAAAATTTG-TTTTAAGAGAAAT
*
39348 TGTCTCAAGCAAAACAAAATTTG
1 TGTCTCAAGCGAAACAAAATTTG
39371 AGAAAACGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
36 41 0.87
37 6 0.13
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGCGAAACAAAATTTGTTTTAAGAGAAAT
Found at i:39500 original size:36 final size:35
Alignment explanation
Indices: 39460--39577 Score: 148
Period size: 36 Copynumber: 3.3 Consensus size: 35
39450 AGTGAGGCGG
39460 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAACGAGACAA
* *
39496 AATTTGTTTTT-AGAAAGCTGTCTCAATCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAACGAGACAA
** *
39531 AATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTG-TTTTTAAGAAATTGTCTCAAACGAGAC-AA
39568 AATTTGTTTT
1 AATTTGTTTT
39578 AAAATTCTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
34 5 0.07
35 22 0.31
36 31 0.44
37 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAACGAGACAA
Found at i:39950 original size:16 final size:16
Alignment explanation
Indices: 39929--39975 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
39919 TTTATATATT
39929 ATGTATGTATGTGTAC
1 ATGTATGTATGTGTAC
* **
39945 ATGTATGTATGAGTTG
1 ATGTATGTATGTGTAC
*
39961 ATGTATGTTTGTGTA
1 ATGTATGTATGTGTA
39976 TACTTTTCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (16 bp):
ATGTATGTATGTGTAC
Found at i:41198 original size:17 final size:17
Alignment explanation
Indices: 41155--41206 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
41145 ACTTTCTGTT
* *
41155 CTTTTTTTTTCACTTTG
1 CTTTTCTTTTCTCTTTG
41172 --TTTC-TTTCTCTTTG
1 CTTTTCTTTTCTCTTTG
*
41186 CTTTTCTTTTCTCTTCG
1 CTTTTCTTTTCTCTTTG
41203 CTTT
1 CTTT
41207 AATATGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.31
15 3 0.10
16 4 0.14
17 13 0.45
ACGTcount: A:0.02, C:0.23, G:0.06, T:0.69
Consensus pattern (17 bp):
CTTTTCTTTTCTCTTTG
Found at i:45615 original size:17 final size:18
Alignment explanation
Indices: 45585--45618 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45575 AAAAACACAC
*
45585 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
45603 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
45619 TACTCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:47970 original size:3 final size:3
Alignment explanation
Indices: 47962--48025 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
47952 CAAAAATTTG
* * **
47962 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48006 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
48026 CGAAAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 45 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:53101 original size:18 final size:19
Alignment explanation
Indices: 53060--53098 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
53050 TTGGTTCACA
*
53060 GAATGTAAGATTATCAGTGG
1 GAATGTAAGATTACCAG-GG
53080 GAATGTAAGATTACCAGGG
1 GAATGTAAGATTACCAGGG
53099 AATATGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.26
Consensus pattern (19 bp):
GAATGTAAGATTACCAGGG
Found at i:53293 original size:2 final size:2
Alignment explanation
Indices: 53288--53323 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
53278 TAAATTCATA
53288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53324 TTACAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54310 original size:34 final size:30
Alignment explanation
Indices: 54272--54340 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
54262 TTGATATAAC
54272 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
54306 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
54335 AATTTA
1 AATTTA
54341 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:54351 original size:29 final size:30
Alignment explanation
Indices: 54281--54340 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
54271 CAATTTAAGG
54281 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
54312 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
54341 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:54470 original size:22 final size:19
Alignment explanation
Indices: 54439--54498 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
54429 CATGAACCCC
*
54439 TGCAGTGCATCCATGCACC
1 TGCAGTGCATCCATGCACA
*
54458 TGCACTAGTGCATCGATGCATCA
1 TG--C-AGTGCATCCATGCA-CA
54481 TGCAGTGCATCCATGCAC
1 TGCAGTGCATCCATGCAC
54499 TCAAACACCG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 3 0.09
20 13 0.38
21 2 0.06
22 13 0.38
23 3 0.09
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (19 bp):
TGCAGTGCATCCATGCACA
Found at i:54489 original size:20 final size:19
Alignment explanation
Indices: 54464--54574 Score: 61
Period size: 20 Copynumber: 5.8 Consensus size: 19
54454 CACCTGCACT
54464 AGTGCATCGATGCATCATGC
1 AGTGCATCGATGCATCAT-C
*
54484 AGTGCATCCATGCA-C-TC
1 AGTGCATCGATGCATCATC
** * *
54501 A-AACACCGAATGCA--ATT
1 AGTGCATCG-ATGCATCATC
*
54518 AGTGCATCGATGCATCCTTC
1 AGTGCATCGATGCAT-CATC
* *
54538 TGTGCATCGATGCATCAAGGC
1 AGTGCATCGATGCATC-A-TC
*
54559 TGTGCATCGATGCATC
1 AGTGCATCGATGCATC
54575 CTACTATGCA
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
16 3 0.04
17 14 0.20
18 5 0.07
19 2 0.03
20 28 0.41
21 17 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (19 bp):
AGTGCATCGATGCATCATC
Found at i:54563 original size:21 final size:20
Alignment explanation
Indices: 54519--54574 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
54509 AATGCAATTA
***
54519 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCAGGCT
54539 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-AGGCT
54560 GTGCATCGATGCATC
1 GTGCATCGATGCATC
54575 CTACTATGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCAGGCT
Found at i:54566 original size:41 final size:41
Alignment explanation
Indices: 54519--54601 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
54509 AATGCAATTA
* * *
54519 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCCTACTATGCATCCATGCATCAAGGCT
*
54560 GTGCATCGATGCATCCTACTATGCATCCATGCATGAAGGCT
1 GTGCATCGATGCATCCTACTATGCATCCATGCATCAAGGCT
54601 G
1 G
54602 CAACGGCTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (41 bp):
GTGCATCGATGCATCCTACTATGCATCCATGCATCAAGGCT
Found at i:54586 original size:20 final size:20
Alignment explanation
Indices: 54519--54593 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
54509 AATGCAATTA
*
54519 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTACT
*
54539 GTGCATCGATGCAT-CAAGGCT
1 GTGCATCGATGCATCCTA--CT
54560 GTGCATCGATGCATCCTACT
1 GTGCATCGATGCATCCTACT
* *
54580 ATGCATCCATGCAT
1 GTGCATCGATGCAT
54594 GAAGGCTGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 16 0.34
22 2 0.04
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:57863 original size:34 final size:30
Alignment explanation
Indices: 57825--57893 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
57815 TTGATATAAC
57825 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTA
1 AATTTAA--CAAAAT-GTTTTTGGACTTG-ATTA
*
57859 AATTT-ACAAAATGTTTTTGGACTTGATTG
1 AATTTAACAAAATGTTTTTGGACTTGATTA
57888 AATTTA
1 AATTTA
57894 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 8 0.24
30 13 0.39
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTGATTA
Found at i:57892 original size:29 final size:31
Alignment explanation
Indices: 57834--57893 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
57824 CAATTTAAGG
57834 CAAAATGGTTTTTGGACTTGAATTAAATTTA
1 CAAAATGGTTTTTGGACTTGAATTAAATTTA
*
57865 CAAAAT-GTTTTTGGACTTG-ATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTAAATTTA
57894 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTAAATTTA
Found at i:57999 original size:21 final size:21
Alignment explanation
Indices: 57973--58071 Score: 132
Period size: 21 Copynumber: 4.7 Consensus size: 21
57963 AGGGTGTCAA
57973 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
57994 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
58015 AGTGCATCCATGCA--CCTGCAC
1 AGTGCATCCATGCACCCCTG--C
* *
58036 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
58057 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
58072 TCAAACACCG
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.06
20 13 0.19
21 37 0.53
22 13 0.19
23 3 0.04
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:58136 original size:21 final size:21
Alignment explanation
Indices: 58092--58168 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
58082 AATGCAATTA
***
58092 GTGCATCGATGCATC-CTTCT
1 GTGCATCGATGCATCAAGGCT
58112 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCAAGGCT
*
58133 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATCAAGGCT
58154 GTGCATCGATGCATC
1 GTGCATCGATGCATC
58169 CTACTATGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 15 0.29
21 37 0.71
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.29
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGGCT
Found at i:58597 original size:34 final size:32
Alignment explanation
Indices: 58556--58623 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 32
58546 TTGTAAAAGA
* *
58556 GAAAGGTTCTAGCTTATCCCGTGTAAAAGCTAGG
1 GAAAGGTTCTAGCTTAGCCCG-G-AAAAACTAGG
*
58590 GAAAGGTTCTAGTTTAGCCCGGAAAAACTAGG
1 GAAAGGTTCTAGCTTAGCCCGGAAAAACTAGG
58622 GA
1 GA
58624 GTTGTAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 11 0.35
33 1 0.03
34 19 0.61
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (32 bp):
GAAAGGTTCTAGCTTAGCCCGGAAAAACTAGG
Found at i:58934 original size:36 final size:35
Alignment explanation
Indices: 58894--58995 Score: 87
Period size: 35 Copynumber: 3.1 Consensus size: 35
58884 AAATTAAATA
58894 TTAATTTTTTATTATTATATTATATATATATTAATT
1 TTAATTTTTTATTATTATATTATA-ATATATTAATT
* *
58930 TTAA-----TATTATT-T-TTA-AATAAATTAAATA
1 TTAATTTTTTATTATTATATTATAATATATT-AATT
*
58958 TTAATTTTTTAATATTATATTATAGATAT-TTAATT
1 TTAATTTTTTATTATTATATTATA-ATATATTAATT
58993 TTA
1 TTA
58996 TATCATATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 21
0.66 0.06 0.27
Matches are distributed among these distances:
27 6 0.12
28 8 0.16
29 3 0.06
30 1 0.02
31 7 0.14
33 6 0.12
34 1 0.02
35 9 0.18
36 7 0.14
37 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (35 bp):
TTAATTTTTTATTATTATATTATAATATATTAATT
Found at i:58941 original size:11 final size:12
Alignment explanation
Indices: 58860--58995 Score: 64
Period size: 14 Copynumber: 10.6 Consensus size: 12
58850 AAATCCCAAC
58860 AATTTTAATATT
1 AATTTTAATATT
58872 AATGTTTTAA-A-T
1 AA--TTTTAATATT
* *
58884 AAATTAAATATT
1 AATTTTAATATT
*
58896 AATTTTTTATTATT
1 AA--TTTTAATATT
58910 ATATTATATATATATT
1 A-ATT-T-TA-ATATT
58926 AATTTTAATATT
1 AATTTTAATATT
*
58938 ATTTTTAA-A-T
1 AATTTTAATATT
* *
58948 AAATTAAATATT
1 AATTTTAATATT
58960 AATTTTTTAATATT
1 AA--TTTTAATATT
*
58974 ATATTATAGATATTT
1 A-ATTTTA-ATA-TT
58989 AATTTTA
1 AATTTTA
58996 TATCATATAA
Statistics
Matches: 93, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
10 10 0.11
11 3 0.03
12 23 0.25
13 9 0.10
14 33 0.35
15 10 0.11
16 5 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (12 bp):
AATTTTAATATT
Found at i:58961 original size:64 final size:65
Alignment explanation
Indices: 58860--58995 Score: 231
Period size: 64 Copynumber: 2.1 Consensus size: 65
58850 AAATCCCAAC
* *
58860 AATTTTAATATTAATGTTTTAAATAAATTAAATATTAATTTTTTATTATTATATTATATATATAT
1 AATTTTAATATTAATGTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATAT-T
58925 T
65 T
58926 AATTTTAATATT-AT-TTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTT
1 AATTTTAATATTAATGTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTT
58989 AATTTTA
1 AATTTTA
58996 TATCATATAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
63 9 0.13
64 45 0.66
65 2 0.03
66 12 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (65 bp):
AATTTTAATATTAATGTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTT
Found at i:59050 original size:20 final size:19
Alignment explanation
Indices: 58990--59051 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
58980 TAGATATTTA
*
58990 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
59009 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
59027 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
59047 ATTTT
1 ATTTT
59052 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:59350 original size:24 final size:27
Alignment explanation
Indices: 59299--59351 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 27
59289 TAAAAATATC
**
59299 ATATAATTATAAAAATAAATTATGAGT
1 ATATAATTATAAAAATAAATTAAAAGT
59326 ATAT-ATT-TAAAAA-AAATTAAAAGT
1 ATATAATTATAAAAATAAATTAAAAGT
59350 AT
1 AT
59352 TACATAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
25 6 0.25
26 3 0.12
27 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (27 bp):
ATATAATTATAAAAATAAATTAAAAGT
Found at i:62879 original size:29 final size:28
Alignment explanation
Indices: 62846--62999 Score: 132
Period size: 29 Copynumber: 5.4 Consensus size: 28
62836 ACCCTACCCA
*
62846 GTGACATTATGGGAATTATTTTGAAAAAT
1 GTGACATTTTGGGAATTATTTT-AAAAAT
* * *
62875 GTGACATTTTGGGAAATGTTTTAAAAACA
1 GTGACATTTTGGGAATTATTTTAAAAA-T
* * *
62904 GCGACATTCTGGTAATTATTTT-AAAAT
1 GTGACATTTTGGGAATTATTTTAAAAAT
*
62931 ATGACATTTTGGGAATTA-TTTATAAAAT
1 GTGACATTTTGGGAATTATTTTA-AAAAT
* * *
62959 GGTGATATTTTGGTAATTATTTTTAATAAAG
1 -GTGACATTTTGGGAATTA-TTTTAA-AAAT
*
62990 GTGATATTTT
1 GTGACATTTT
63000 TGTAATTTTC
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.03
27 14 0.14
28 14 0.14
29 51 0.51
30 11 0.11
31 7 0.07
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (28 bp):
GTGACATTTTGGGAATTATTTTAAAAAT
Found at i:64865 original size:5 final size:5
Alignment explanation
Indices: 64855--64943 Score: 53
Period size: 5 Copynumber: 17.4 Consensus size: 5
64845 TTTCTCATTT
* *
64855 TTATA TTATA TTATA TTATA TTATA -TATA CATATA TT-T- TTCT- TTCATAA
1 TTATA TTATA TTATA TTATA TTATA TTATA -TTATA TTATA TTATA TT-AT-A
*
64904 CTTAT- TTATT TTATA TTATA TTTATA CTTATA TATATA TT
1 -TTATA TTATA TTATA TTATA -TTATA -TTATA T-TATA TT
64944 TAAATATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
3 2 0.03
4 12 0.17
5 33 0.47
6 19 0.27
7 2 0.03
8 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:65086 original size:20 final size:22
Alignment explanation
Indices: 65063--65112 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
65053 TTCCCTTTAC
65063 TTATTTTCTATATTTTA-C-C-T
1 TTATTTTCTAT-TTTTATCACGT
65083 TTATTTT-TATTTTTATCACGT
1 TTATTTTCTATTTTTATCACGT
65104 TTATTTTCT
1 TTATTTTCT
65113 TTATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 8 0.31
21 8 0.31
22 1 0.04
ACGTcount: A:0.18, C:0.12, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATTTTCTATTTTTATCACGT
Found at i:69296 original size:95 final size:95
Alignment explanation
Indices: 69132--69310 Score: 279
Period size: 95 Copynumber: 1.9 Consensus size: 95
69122 ATATTGTTTA
* * * *
69132 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAACTTTATGGATAAT
1 TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCAACTTTATGAATAAG
*
69197 ATTCAGCTAGCCTGATAAATGTGATTATAC
66 ATTCAGCTAACCTGATAAATGTGATTATAC
*
69227 TATACAATAAAGCTTGAGCTATCCCTCTA-AGGCAATTGGTTAAACGCCCCAGCTTTATGAATAA
1 TATACAATAAAGCTTGAGCTATCCCTCTAGA-GCAATTGGTTAAACGCCCCAACTTTATGAATAA
*
69291 GATTCAGGTAACCTGATAAA
65 GATTCAGCTAACCTGATAAA
69311 GGTATTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 75 0.99
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCAACTTTATGAATAAG
ATTCAGCTAACCTGATAAATGTGATTATAC
Found at i:70644 original size:36 final size:35
Alignment explanation
Indices: 70599--70709 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 35
70589 GTCTCGCTCA
70599 AGACTAATTTACTC-AAAACAAAATTTTGTCTCTCTTG
1 AGAC-AATTT-CTCTAAAAC-AAATTTTGTCTCTCTTG
*
70636 AGACAATTTCTCTTAAAACGAATTTTGTCTCTCTTG
1 AGACAATTTCTC-TAAAACAAATTTTGTCTCTCTTG
** *
70672 AGACGTTTTCTCTTAAAACAAATTTTTTCTCTCTTG
1 AGACAATTTCTC-TAAAACAAATTTTGTCTCTCTTG
70708 AG
1 AG
70710 TCAGTTTCCC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
35 3 0.04
36 55 0.82
37 9 0.13
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (35 bp):
AGACAATTTCTCTAAAACAAATTTTGTCTCTCTTG
Found at i:70705 original size:38 final size:36
Alignment explanation
Indices: 70613--70709 Score: 149
Period size: 36 Copynumber: 2.7 Consensus size: 36
70603 TAATTTACTC
70613 AAAACAAAATTTTGTCTCTCTTGAGACAATTTCTCTT
1 AAAAC-AAATTTTGTCTCTCTTGAGACAATTTCTCTT
* **
70650 AAAACGAATTTTGTCTCTCTTGAGACGTTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTT
*
70686 AAAACAAATTTTTTCTCTCTTGAG
1 AAAACAAATTTTGTCTCTCTTGAG
70710 TCAGTTTCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 50 0.91
37 5 0.09
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTT
Found at i:71027 original size:102 final size:102
Alignment explanation
Indices: 70642--71023 Score: 561
Period size: 102 Copynumber: 3.7 Consensus size: 102
70632 CTTGAGACAA
* * * * ** * *
70642 TTTCTCTTAAAACGAATTTTGTCTCTCTTGAGAC-GTTTTCTCTTAAAAC-AAATTTTTTCTCTC
1 TTTC-CTTAAAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTC
* *
70705 TTGAGTCAGTTTCCCTTGAAATAAAATCTTTGAATCTGT
64 TTGAGACAATTTCCCTTGAAATAAAATCTTTGAATCTGT
* *
70744 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTT
1 TTTCCTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
*
70809 GAGACAGTTTCCCTTGAAATAAAATCTTTGAATCTGT
66 GAGACAATTTCCCTTGAAATAAAATCTTTGAATCTGT
*
70846 TTTCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
1 TTTCCTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
* *
70911 GAGACAATTTCTCTTGAAATAAAATCTTTGAATTTGT
66 GAGACAATTTCCCTTGAAATAAAATCTTTGAATCTGT
* *
70948 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGTAACTAAGTTTTGTCTCTCTT
1 TTTCCTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
*
71013 GATACAATTTC
66 GAGACAATTTC
71024 TCTTAAAGCA
Statistics
Matches: 257, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
101 35 0.14
102 222 0.86
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (102 bp):
TTTCCTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
GAGACAATTTCCCTTGAAATAAAATCTTTGAATCTGT
Found at i:71077 original size:34 final size:33
Alignment explanation
Indices: 71039--71165 Score: 125
Period size: 37 Copynumber: 3.7 Consensus size: 33
71029 AAGCACCAAT
*
71039 CTTTGAAATGGTTTCTATTGAAACACAAAAAAAC
1 CTTTGAAAT-GTTTCTCTTGAAACACAAAAAAAC
* *
71073 CTTTGAAACAGTTTTTCTTGAAACACAAACAAAAAAC
1 CTTTGAAA-TGTTTCTCTTGAAACAC--A-AAAAAAC
71110 CTTTGAAAATGTTTCTCTTGAAACAC---AAAAC
1 CTTTG-AAATGTTTCTCTTGAAACACAAAAAAAC
* *
71141 CTTTGAGATTGTTTCCCTTGAAACA
1 CTTTGA-AATGTTTCTCTTGAAACA
71166 AATTTTGTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
30 1 0.01
31 26 0.32
34 22 0.28
36 1 0.01
37 27 0.34
38 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (33 bp):
CTTTGAAATGTTTCTCTTGAAACACAAAAAAAC
Found at i:71114 original size:37 final size:37
Alignment explanation
Indices: 71039--71138 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
71029 AAGCACCAAT
*
71039 CTTTG-AAATGGTTTCTATTGAAACAC--A-AAAAAAC
1 CTTTGAAAAT-GTTTCTCTTGAAACACAAACAAAAAAC
*
71073 CTTTGAAACA-GTTTTTCTTGAAACACAAACAAAAAAC
1 CTTTGAAA-ATGTTTCTCTTGAAACACAAACAAAAAAC
71110 CTTTGAAAATGTTTCTCTTGAAACACAAA
1 CTTTGAAAATGTTTCTCTTGAAACACAAA
71139 ACCTTTGAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
34 19 0.33
35 2 0.04
36 3 0.05
37 33 0.58
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (37 bp):
CTTTGAAAATGTTTCTCTTGAAACACAAACAAAAAAC
Found at i:71140 original size:31 final size:31
Alignment explanation
Indices: 71099--71167 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
71089 CTTGAAACAC
*
71099 AAACAAAAAACCTTTGAAAATGTTTCTCTTG
1 AAACAAAAAACCTTTGAAAATGTTTCCCTTG
* * *
71130 AAACACAAAACCTTTGAGATTGTTTCCCTTG
1 AAACAAAAAACCTTTGAAAATGTTTCCCTTG
71161 AAACAAA
1 AAACAAA
71168 TTTTGTCTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
AAACAAAAAACCTTTGAAAATGTTTCCCTTG
Found at i:71212 original size:67 final size:67
Alignment explanation
Indices: 71120--71307 Score: 227
Period size: 67 Copynumber: 2.8 Consensus size: 67
71110 CTTTGAAAAT
* *
71120 GTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTATCTCCCTTGAGA
71185 CA
66 CA
* * * * *
71187 GTTTTTCTTGAAACACAAAATCTTTGA-ATTTATTTCCCTTAAAACAAAACTTTATTTCCCTTGA
1 GTTTCTCTTGAAACACAAAATCTTTGAGA-TTGTTTCCCTTGAAAC-AAATTTTATCTCCCTTGA
*
71251 GACC
64 GACA
* * *
71255 GTTTCTCATGAAACAACAAATATCTTTGAGATCGTTT-CCTTGAAACGAATTTT
1 GTTTCTCTTGAAAC-ACAAA-ATCTTTGAGATTGTTTCCCTTGAAACAAATTTT
71308 CTATTTTGAG
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
66 1 0.01
67 39 0.39
68 35 0.35
69 13 0.13
70 12 0.12
71 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (67 bp):
GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTATCTCCCTTGAGA
CA
Found at i:72858 original size:12 final size:11
Alignment explanation
Indices: 72829--72877 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
72819 CTTTCTTAAC
72829 TTAT-TTAT-T
1 TTATATTATAT
72838 TTATATTATAT
1 TTATATTATAT
72849 TTATACTTATAT
1 TTATA-TTATAT
* *
72861 ATATATT-TAA
1 TTATATTATAT
72871 TTATATT
1 TTATATT
72878 TTTTCTACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.35
11 8 0.24
12 10 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTATAT
Found at i:73665 original size:14 final size:14
Alignment explanation
Indices: 73646--73673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
73636 ACAGAAATGT
73646 AAAATATTTTTCAG
1 AAAATATTTTTCAG
73660 AAAATATTTTTCAG
1 AAAATATTTTTCAG
73674 TGTTTGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATATTTTTCAG
Found at i:73856 original size:16 final size:17
Alignment explanation
Indices: 73827--73858 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
73817 TATATAATTA
73827 TATTTTATAAAAATATG
1 TATTTTATAAAAATATG
73844 TATTTTA-AAAAATAT
1 TATTTTATAAAAATAT
73859 TAATAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATTTTATAAAAATATG
Found at i:78402 original size:445 final size:446
Alignment explanation
Indices: 77573--78467 Score: 1657
Period size: 445 Copynumber: 2.0 Consensus size: 446
77563 TTACTTAGGG
**
77573 GTCAAAATGTGCGCCAAAACCTTAAAGGGTAATGTAAAAGTATTTCAAGAGGCGAATCATTTAGT
1 GTCAAAATGTGCAACAAAACCTTAAAGGGTAATGTAAAAGTATTTCAAGAGGCGAATCATTTAGT
*
77638 AATTACGAACAGAATGCACATTAATCTTTTAATTTAAATAAGCCTGCAGAAACCAGCACCACGTC
66 AATTACGAACAGAATGCACATTAATCTTTTAATTTAAATAAGCCTGCAGAAACCAGCACCACATC
77703 CAATACGTAAGGAAGCAGATTCACGTTCACATAAGACATAAATATAAATGGTGCTGTAACATTTC
131 CAATACGTAAGGAAGCAGATTCACGTTCACATAAGACATAAATATAAATGGTGCTGTAACATTTC
77768 AAAACAAAGGACGGCACTTGCGATAGACGGTAAGAATTCCTCTACATATAAACATATTATGGATT
196 AAAACAAAGGACGGCACTTGCGATAGACGGTAAGAATTCCTCTACATATAAACATATTATGGATT
*
77833 TTCAATAGTCAGCTCAAGAATAAAATGAAATGTACAAACAAATCAAGATCATTTCTACGTTCAAT
261 TTCAATAGTCAGCTCAAGAATAAAATGAAATGTACAAACAAATCAAGATCATTTCTAAGTTCAAT
77898 GCATACTCCTCCATAATCATTTCAAAAATCTTACATATATCCGCTGTATATATACACACACAGTG
326 GCATACTCCTCCATAATCATTTCAAAAATCTTACATATATCCGCTGTATATATACACACACAGTG
77963 TGTG-TGTGTATCATGTATATTGGCAGTGAGCAAATCATTGCAGGATTGAAACTAC
391 TGTGATGTGTATCATGTATATTGGCAGTGAGCAAATCATTGCAGGATTGAAACTAC
* *
78018 GTCAAAATGTGCAACAAAACCTTAAAGGGTAATGTAGAAGTATTTCAAGAGGTGAATCATTTAGT
1 GTCAAAATGTGCAACAAAACCTTAAAGGGTAATGTAAAAGTATTTCAAGAGGCGAATCATTTAGT
* *
78083 AATTACGAATAGAATGCACATTAATCTTTTAATTTAAATAAGCCTGCAGAAACCAGTACCACATC
66 AATTACGAACAGAATGCACATTAATCTTTTAATTTAAATAAGCCTGCAGAAACCAGCACCACATC
* *
78148 CTATACGTAAGGAAGCAGATTCACGTTCACATAAGACATAAATATAAATGGTGTTGTAACATTTC
131 CAATACGTAAGGAAGCAGATTCACGTTCACATAAGACATAAATATAAATGGTGCTGTAACATTTC
*
78213 AAAACAAAGGACGGCACTTGCGATAGACGGTAAGAATTCCTCTACATATAAACATATTATGTATT
196 AAAACAAAGGACGGCACTTGCGATAGACGGTAAGAATTCCTCTACATATAAACATATTATGGATT
78278 TTCAATAGTCAGCTCAAGAATAAAATGAAATGTACAAACAAATCAAGATCATTTCTAAGTTCAAT
261 TTCAATAGTCAGCTCAAGAATAAAATGAAATGTACAAACAAATCAAGATCATTTCTAAGTTCAAT
*
78343 GCATACTCCTCCATAATCATTTCAAAAATCTTACATATATCCGCTGTATATATACACACACATTG
326 GCATACTCCTCCATAATCATTTCAAAAATCTTACATATATCCGCTGTATATATACACACACAGTG
*
78408 TGTGCATGTGTATCATGTATATTGGCAGTGAGCAAATCATTGCAGGATTGAAGCTAC
391 TGTG-ATGTGTATCATGTATATTGGCAGTGAGCAAATCATTGCAGGATTGAAACTAC
78465 GTC
1 GTC
78468 CAAGAGATGA
Statistics
Matches: 435, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
445 382 0.88
447 53 0.12
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (446 bp):
GTCAAAATGTGCAACAAAACCTTAAAGGGTAATGTAAAAGTATTTCAAGAGGCGAATCATTTAGT
AATTACGAACAGAATGCACATTAATCTTTTAATTTAAATAAGCCTGCAGAAACCAGCACCACATC
CAATACGTAAGGAAGCAGATTCACGTTCACATAAGACATAAATATAAATGGTGCTGTAACATTTC
AAAACAAAGGACGGCACTTGCGATAGACGGTAAGAATTCCTCTACATATAAACATATTATGGATT
TTCAATAGTCAGCTCAAGAATAAAATGAAATGTACAAACAAATCAAGATCATTTCTAAGTTCAAT
GCATACTCCTCCATAATCATTTCAAAAATCTTACATATATCCGCTGTATATATACACACACAGTG
TGTGATGTGTATCATGTATATTGGCAGTGAGCAAATCATTGCAGGATTGAAACTAC
Found at i:80447 original size:37 final size:36
Alignment explanation
Indices: 80372--80448 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
80362 TTTTTATATT
*
80372 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
80408 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
80445 TTTA
1 TTTA
80449 TAATATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:80468 original size:18 final size:18
Alignment explanation
Indices: 80424--80471 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
80414 TTTTTAAAGA
*
80424 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
80443 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
80460 AAATATATAATA
1 AAATATATAATA
80472 AGGACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:81501 original size:94 final size:94
Alignment explanation
Indices: 81335--81544 Score: 312
Period size: 94 Copynumber: 2.2 Consensus size: 94
81325 AAGGAAAAAT
* * * * *
81335 ATTTATTTGAAAATTATTAATCGAACCAAATTAACAGATTTTTTTTCTTTAACATTAATTGAACC
1 ATTTATTTGAAAATTATTAACCAAACCAAATTAACAGAATTTTTTTCTTTAAAATTAATCGAACC
* *
81400 GAAATTATTTGACCGTTAATCGAACCGAT
66 GAAATTATTTGACCGTTAATCGAAACGAA
* * **
81429 TTTTTTTTGAAAATTATTAACCAAACCAAATTAACCTAATTTTTTTCTTTAAAATTAATCGAACC
1 ATTTATTTGAAAATTATTAACCAAACCAAATTAACAGAATTTTTTTCTTTAAAATTAATCGAACC
81494 GAAATTATTTGACCGTTAATCGAAACGAA
66 GAAATTATTTGACCGTTAATCGAAACGAA
*
81523 ATTTATATGAAAATTATTAACC
1 ATTTATTTGAAAATTATTAACC
81545 GAATTTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 102 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (94 bp):
ATTTATTTGAAAATTATTAACCAAACCAAATTAACAGAATTTTTTTCTTTAAAATTAATCGAACC
GAAATTATTTGACCGTTAATCGAAACGAA
Found at i:81512 original size:26 final size:26
Alignment explanation
Indices: 81482--81611 Score: 84
Period size: 26 Copynumber: 4.8 Consensus size: 26
81472 TTTCTTTAAA
81482 ATTAATCGAACCGAAATTATTTGACC
1 ATTAATCGAACCGAAATTATTTGACC
* * * **
81508 GTTAATCGAAACGAAATTTATATGAAA
1 ATTAATCGAACCGAAA-TTATTTGACC
* * * *
81535 ATT-AT-TAACCGAATTTTTTTCTTTAACC
1 ATTAATCGAACCGAA----ATTATTTGACC
*
81563 ATTAATCGAACCAAAATTATTTGACC
1 ATTAATCGAACCGAAATTATTTGACC
* *
81589 GTTAATCGAACCCAAATTTATTT
1 ATTAATCGAACCGAAA-TTATTT
81612 TATTCAGTTA
Statistics
Matches: 75, Mismatches: 21, Indels: 15
0.68 0.19 0.14
Matches are distributed among these distances:
25 6 0.08
26 38 0.51
27 15 0.20
28 8 0.11
29 2 0.03
30 6 0.08
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (26 bp):
ATTAATCGAACCGAAATTATTTGACC
Found at i:81550 original size:80 final size:81
Alignment explanation
Indices: 81458--81609 Score: 252
Period size: 81 Copynumber: 1.9 Consensus size: 81
81448 ACCAAACCAA
* * *
81458 ATTAACCTAATTTTTTTCTTTAA-AATTAATCGAACCGAAATTATTTGACCGTTAATCGAAACGA
1 ATTAACCGAATTTTTTTCTTTAACAATTAATCGAACCAAAATTATTTGACCGTTAATCGAAACCA
81522 AATTTATATGAAAATT
66 AATTTATATGAAAATT
* *
81538 ATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCGAATTTTTTTCTTTAACAATTAATCGAACCAAAATTATTTGACCGTTAATCGAAACCA
81603 AATTTAT
66 AATTTAT
81610 TTTATTCAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 22 0.33
81 44 0.67
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (81 bp):
ATTAACCGAATTTTTTTCTTTAACAATTAATCGAACCAAAATTATTTGACCGTTAATCGAAACCA
AATTTATATGAAAATT
Found at i:81824 original size:37 final size:37
Alignment explanation
Indices: 81710--81834 Score: 105
Period size: 36 Copynumber: 3.4 Consensus size: 37
81700 TGATTTGGTT
*
81710 CGGTT-AATAATTTTCAATAAATTTCAGTTCAATTAA
1 CGGTTAAATAATTTTCAATAAATTTCAGTTCGATTAA
* *** ** * *
81746 CGGTTAAAGAAAAAT-AATCTATTTTA-TTCGGTTAA
1 CGGTTAAATAATTTTCAATAAATTTCAGTTCGATTAA
*
81781 TTCGGTT-AATAATTTTCAAATAAATTTGAGTTCGATTAA
1 --CGGTTAAATAATTTTC-AATAAATTTCAGTTCGATTAA
81820 CGGTTAAATAATTTT
1 CGGTTAAATAATTTT
81835 GGTTCGATTA
Statistics
Matches: 65, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
35 7 0.11
36 18 0.28
37 15 0.23
38 17 0.26
39 8 0.12
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
CGGTTAAATAATTTTCAATAAATTTCAGTTCGATTAA
Found at i:81872 original size:81 final size:80
Alignment explanation
Indices: 81779--82034 Score: 280
Period size: 81 Copynumber: 3.0 Consensus size: 80
81769 TTATTCGGTT
* *
81779 AATTCGGTTAATAATTTTCAAATAAA-TTTGAGTTCGATTAACGGTTAAATAATTTTGGTTCGAT
1 AATTCGGTTAATAATTTTCAAATAAATTTTG-GTTCGATTAACGGTCAAATAATTTCGGTTCGAT
*
81843 TAATGGTTAAATAAAAA
65 TAAT-GTTAAAGAAAAA
*
81860 AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAATGGTCAAATAATTTCGGTTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
81925 AATGTTAAAGAAAAA
66 AATGTTAAAGAAAAA
* * ** *
81940 AATTCGATTAATTTGGTTCGGTTAATAATTTTTAAATAAATTTTGGTTCGTTTAACGGTCAAATA
1 AATTCGGTTAA-----------TAAT-TTTCA--AATAAATTTTGGTTCGATTAACGGTCAAATA
82005 ATTTCGGTTCGATTAATGTTAAAGAAAAA
52 ATTTCGGTTCGATTAATGTTAAAGAAAAA
82034 A
1 A
82035 TAATTTATTT
Statistics
Matches: 150, Mismatches: 10, Indels: 17
0.85 0.06 0.10
Matches are distributed among these distances:
80 21 0.14
81 60 0.40
82 4 0.03
91 4 0.03
92 2 0.01
94 59 0.39
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (80 bp):
AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
AATGTTAAAGAAAAA
Found at i:81920 original size:26 final size:27
Alignment explanation
Indices: 81796--81928 Score: 114
Period size: 26 Copynumber: 5.0 Consensus size: 27
81786 TTAATAATTT
*
81796 TCAAATAAATTT-GAGTTCGATTAACGG
1 TCAAATAAATTTCG-GTTCGATTAATGG
* *
81823 TTAAAT-AATTTTGGTTCGATTAATGG
1 TCAAATAAATTTCGGTTCGATTAATGG
* * * **
81849 TTAAATAAAAAAATTCGGTT--AATAATTT
1 TCAAAT---AAATTTCGGTTCGATTAATGG
*
81877 TCAAATAAATTTTGGTTCGATTAATGG
1 TCAAATAAATTTCGGTTCGATTAATGG
81904 TCAAAT-AATTTCGGTTCGATTAATG
1 TCAAATAAATTTCGGTTCGATTAATG
81929 TTAAAGAAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
25 9 0.11
26 41 0.48
27 17 0.20
28 10 0.12
30 8 0.09
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (27 bp):
TCAAATAAATTTCGGTTCGATTAATGG
Found at i:82023 original size:94 final size:94
Alignment explanation
Indices: 81862--82034 Score: 319
Period size: 94 Copynumber: 1.8 Consensus size: 94
81852 AATAAAAAAA
*
81862 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAATGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
81927 TGTTAAAGAAAAAAATTCGATTAATTTGG
66 TGTTAAAGAAAAAAATTCGATTAATTTGG
* *
81956 TTCGGTTAATAATTTTTAAATAAATTTTGGTTCGTTTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
82021 TGTTAAAGAAAAAA
66 TGTTAAAGAAAAAA
82035 TAATTTATTT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (94 bp):
TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TGTTAAAGAAAAAAATTCGATTAATTTGG
Found at i:83780 original size:2 final size:2
Alignment explanation
Indices: 83769--83807 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
83759 TTCGAATTGT
83769 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83808 AGGTAATTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85143 original size:18 final size:19
Alignment explanation
Indices: 85120--85155 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85110 TAGTTTCTTT
*
85120 TGTATTTG-TTGATGGAAG
1 TGTATTTGCATGATGGAAG
85138 TGTATTTGCATGATGGAA
1 TGTATTTGCATGATGGAA
85156 ATTTTGTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.03, G:0.31, T:0.42
Consensus pattern (19 bp):
TGTATTTGCATGATGGAAG
Found at i:85849 original size:6 final size:6
Alignment explanation
Indices: 85838--85869 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
85828 AATCAACCCT
85838 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CC
85870 CACTTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTTCC
Found at i:87675 original size:22 final size:21
Alignment explanation
Indices: 87650--87691 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87640 AAACATAAGG
87650 GAAAT-AAATATTAAATAAAAAT
1 GAAATAAAATA-T-AATAAAAAT
87672 GAAATAAAATATAATAAAAA
1 GAAATAAAATATAATAAAAA
87692 CAACATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
GAAATAAAATATAATAAAAAT
Found at i:87688 original size:32 final size:32
Alignment explanation
Indices: 87664--87727 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
87654 TAAATATTAA
*
87664 ATAAAAATGAAATAAAATATAATAAAAACAAC
1 ATAAAAATGAAATAAAATAAAATAAAAACAAC
* *
87696 ATACAAATGAAATGAAATAAAATAAAAA-AAC
1 ATAAAAATGAAATAAAATAAAATAAAAACAAC
87727 A
1 A
87728 CAACATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.14
32 25 0.86
ACGTcount: A:0.72, C:0.06, G:0.05, T:0.17
Consensus pattern (32 bp):
ATAAAAATGAAATAAAATAAAATAAAAACAAC
Found at i:87936 original size:19 final size:19
Alignment explanation
Indices: 87896--87963 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
87886 TAGCATACAA
87896 AAAATAAACATTACAAACT
1 AAAATAAACATTACAAACT
87915 AAAATGAAATCATTA-AAA-T
1 AAAAT-AAA-CATTACAAACT
* *
87934 AAAA-ATA-TTTACAAGACT
1 AAAATAAACATTACAA-ACT
87952 AAAATAAA-ATTA
1 AAAATAAACATTA
87964 ACATAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 3 0.08
18 5 0.13
19 15 0.38
20 6 0.15
21 5 0.13
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAATAAACATTACAAACT
Found at i:88024 original size:30 final size:30
Alignment explanation
Indices: 87990--88085 Score: 78
Period size: 30 Copynumber: 3.4 Consensus size: 30
87980 CTAAAATAAT
87990 AAAAACAGAAACTAAAGGGACTAAAATGGC
1 AAAAACAGAAACTAAAGGGACTAAAATGGC
* * * *
88020 --AAA-A-AAACT-TAGGGAATAAAATAGT
1 AAAAACAGAAACTAAAGGGACTAAAATGGC
* *
88045 AAAAACAGAAACCTAGA-GGACTAAAATGTC
1 AAAAACAGAAA-CTAAAGGGACTAAAATGGC
*
88075 AACAACAGAAA
1 AAAAACAGAAA
88086 TTTACATGGC
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
25 12 0.24
26 5 0.10
27 4 0.08
28 4 0.08
29 3 0.06
30 21 0.42
31 1 0.02
ACGTcount: A:0.58, C:0.12, G:0.17, T:0.12
Consensus pattern (30 bp):
AAAAACAGAAACTAAAGGGACTAAAATGGC
Found at i:89509 original size:12 final size:12
Alignment explanation
Indices: 89470--89524 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
89460 AAAATGTAAT
89470 ATAAT-ATATTA
1 ATAATAATATTA
*
89481 ATAAAAATAATT-
1 ATAATAAT-ATTA
89493 A-AATAA-ATGTA
1 ATAATAATAT-TA
89504 ATAATAATATTA
1 ATAATAATATTA
89516 ATAATAATA
1 ATAATAATA
89525 ATAGATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
9 2 0.06
10 1 0.03
11 9 0.25
12 19 0.53
13 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAATAATATTA
Found at i:89802 original size:40 final size:42
Alignment explanation
Indices: 89695--89806 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 42
89685 TTGGTTGTTG
*
89695 GGGATGACACTGCTCATACGTGATGAAGAGTCTGGGTCATCTAA
1 GGGATGACACTGCTCATACGTGATGAAGAATCTGGG--ATCTAA
* * * * * *
89739 GGG-TGACACGGTTCCTACATGATGAGGAAATCT-GG-TC-GA
1 GGGATGACACTGCTCATACGTGATGAAG-AATCTGGGATCTAA
89778 GGGATGACACTGCTCATACGTGATGAAGA
1 GGGATGACACTGCTCATACGTGATGAAGA
89807 GTTCTTGGTC
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
39 5 0.09
40 21 0.39
43 21 0.39
44 7 0.13
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (42 bp):
GGGATGACACTGCTCATACGTGATGAAGAATCTGGGATCTAA
Found at i:89909 original size:43 final size:43
Alignment explanation
Indices: 89843--90114 Score: 181
Period size: 43 Copynumber: 6.3 Consensus size: 43
89833 ATAACTCAGT
** *
89843 TCCTACGCAATGAGGACGGCTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
* * * *
89886 TCCTACGCGATGAGGA-GATCTGG---TC-GGGGGACGACACGAC
1 TCCTACGTGATGAGGACG-TCTGGTTATCTAGGGG-TGACACGGC
* * ** * *
89926 TCATACGTGATGAAGA-GTTCTGGCCATCTTTAGGAAGGGAGATAACACGGT
1 TCCTACGTGATGAGGACG-TCTGGTTATC--T----AGGG-G-TGACACGGC
*
89977 TCCTACGTGATGAGGACGTCTGGTTATCT-GGGGTGACACAGC
1 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
90019 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
* * *
90062 TCCTATGTGATGAAGA-GATCTGG---TC-AGGAGATGACACGGC
1 TCCTACGTGATGAGGACG-TCTGGTTATCTAGG-GGTGACACGGC
*
90102 TCATACGTGATGA
1 TCCTACGTGATGA
90115 AGAGTTCTGG
Statistics
Matches: 185, Mismatches: 27, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
39 7 0.04
40 51 0.28
42 37 0.20
43 53 0.29
44 3 0.02
49 1 0.01
50 3 0.02
51 29 0.16
52 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
Found at i:90036 original size:42 final size:43
Alignment explanation
Indices: 89977--90074 Score: 171
Period size: 42 Copynumber: 2.3 Consensus size: 43
89967 ATAACACGGT
89977 TCCTACGTGATGAGGACGTCTGGTTATCT-GGGGTGACACAGC
1 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACAGC
*
90019 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACAGC
*
90062 TCCTATGTGATGA
1 TCCTACGTGATGA
90075 AGAGATCTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
42 29 0.55
43 24 0.45
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGTCTGGTTATCTAGGGGTGACACAGC
Found at i:90492 original size:29 final size:30
Alignment explanation
Indices: 90422--90531 Score: 147
Period size: 29 Copynumber: 3.8 Consensus size: 30
90412 CAAAACTTTG
* *
90422 TTTCCAAAGAAACAAACTCAAAGA-ATTT-
1 TTTCAAAAGAAACAAACTCAAAGATTTTTA
90450 TTTCAAAAGAAAC-AACTCAAAGATTTTTA
1 TTTCAAAAGAAACAAACTCAAAGATTTTTA
* * *
90479 TTTCAAAAGAAAC-AACTTACATATTTTTA
1 TTTCAAAAGAAACAAACTCAAAGATTTTTA
90508 TTTCAAAAGAAACAAACTCAAAGA
1 TTTCAAAAGAAACAAACTCAAAGA
90532 CAAGTTTTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
27 10 0.14
28 15 0.21
29 39 0.55
30 7 0.10
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.28
Consensus pattern (30 bp):
TTTCAAAAGAAACAAACTCAAAGATTTTTA
Found at i:90732 original size:64 final size:64
Alignment explanation
Indices: 90578--90771 Score: 219
Period size: 64 Copynumber: 3.0 Consensus size: 64
90568 TTGTTTTAAG
* * ** * * *
90578 AGAAATTGTCTTAAAAGAGACAAACCTTTGTTTTCATAAAAAAACATATTTAAAGATTTTTCTTC
1 AGAAACTGTCTCAAAAGAGACAAAATTTTG-TTTC-CAAAAAAACATACTCAAAGA-TTTT-TTC
90643 AAA
62 AAA
* * * *
90646 AGGAACTGTCTCAAAAGTGACAAAATTTTGTTTCCAAAGAAACATACTCAAAGATTCTTTCAAA
1 AGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCCAAAAAAACATACTCAAAGATTTTTTCAAA
* *
90710 AGAAACTTTCTCAAAAGAGACAAAATTTTGTTAT-CAAATAAACATACTCAAAGATTTTTTCA
1 AGAAACTGTCTCAAAAGAGACAAAATTTTGTT-TCCAAAAAAACATACTCAAAGATTTTTTCA
90772 TTTTGTTTTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
64 61 0.56
65 4 0.04
66 16 0.15
67 4 0.04
68 24 0.22
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (64 bp):
AGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCCAAAAAAACATACTCAAAGATTTTTTCAAA
Found at i:90775 original size:37 final size:37
Alignment explanation
Indices: 90734--90806 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
90724 AAGAGACAAA
*
90734 ATTTTGTTATCAAAT-AAACATACTCAAAGATTTTTTC
1 ATTTTGTT-TCAAATGAAACAAACTCAAAGATTTTTTC
* * *
90771 ATTTTGTTTTAAGTGAAACAAACTCGAAGATTTTTT
1 ATTTTGTTTCAAATGAAACAAACTCAAAGATTTTTT
90807 AAGAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (37 bp):
ATTTTGTTTCAAATGAAACAAACTCAAAGATTTTTTC
Found at i:95265 original size:14 final size:14
Alignment explanation
Indices: 95238--95305 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 14
95228 AAAATGTAAT
95238 ATAATATATT-AATA
1 ATAATA-ATTAAATA
95252 ATAATAATTAAATAA
1 ATAATAATTAAAT-A
*
95267 ACGTAATAATAATAATA
1 A--TAATAATTA-AATA
95284 GATTAA-AATTAAATA
1 -A-TAATAATTAAATA
95299 ATAATAA
1 ATAATAA
95306 AAAAGACCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
13 6 0.14
14 12 0.27
15 6 0.14
16 4 0.09
17 12 0.27
18 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATAATTAAATA
Found at i:95290 original size:23 final size:23
Alignment explanation
Indices: 95247--95305 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
95237 TATAATATAT
*
95247 TAATAATAATAATTAAATAAACG
1 TAATAATAATAATTAAATAAAAG
* *
95270 TAATAATAATAA-TAGATTAAAAT
1 TAATAATAATAATTA-AATAAAAG
95293 TAAATAATAATAA
1 T-AATAATAATAA
95306 AAAAGACCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.06
23 18 0.58
24 11 0.35
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (23 bp):
TAATAATAATAATTAAATAAAAG
Found at i:100801 original size:3 final size:3
Alignment explanation
Indices: 100793--100818 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100783 TTTACCATGA
100793 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
100819 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:105027 original size:19 final size:21
Alignment explanation
Indices: 104988--105027 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
104978 TGTCAGAGGT
104988 AGATTTAGAAATTAATTAATAG
1 AGATTTAGAAATT-ATTAATAG
105010 AGATTTA-AAATT-TTAATA
1 AGATTTAGAAATTATTAATA
105028 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
AGATTTAGAAATTATTAATAG
Found at i:105749 original size:32 final size:32
Alignment explanation
Indices: 105708--105780 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
105698 ACCATGATGA
105708 TCTTCGGAAACTAATTACGGCCGGGTGAAGGG
1 TCTTCGGAAACTAATTACGGCCGGGTGAAGGG
105740 TCTTCGGAAACTAATTACGGCCGGGTGAAGGG
1 TCTTCGGAAACTAATTACGGCCGGGTGAAGGG
105772 TCTTCGGAA
1 TCTTCGGAA
105781 TCTGCTATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (32 bp):
TCTTCGGAAACTAATTACGGCCGGGTGAAGGG
Found at i:107919 original size:51 final size:51
Alignment explanation
Indices: 107838--107969 Score: 187
Period size: 51 Copynumber: 2.6 Consensus size: 51
107828 CACCCGTAGT
* * *
107838 AGTAAAGCGCGCCCCCTGCACCGCGCTATACGTTGATTTGACGCCACGTGG
1 AGTATAGCGCGCCCCCTGCACCGCGATATACGGTGATTTGACGCCACGTGG
* *
107889 AGTATAGCGCGCCCCCTGCCCCGCGATATACGGTGATTTGGCGCCACGTGG
1 AGTATAGCGCGCCCCCTGCACCGCGATATACGGTGATTTGACGCCACGTGG
*
107940 -GTATAGCGCGCCCCCTG-ATCCGCGCTATAC
1 AGTATAGCGCGCCCCCTGCA-CCGCGATATAC
107970 CTGGTTATCT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 27 0.37
51 46 0.63
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (51 bp):
AGTATAGCGCGCCCCCTGCACCGCGATATACGGTGATTTGACGCCACGTGG
Found at i:108196 original size:18 final size:18
Alignment explanation
Indices: 108173--108207 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108163 CAGCAGCCAC
*
108173 CGCAGCCATTTATGATGT
1 CGCAGCCATATATGATGT
108191 CGCAGCCATATATGATG
1 CGCAGCCATATATGATG
108208 CCGCCATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
CGCAGCCATATATGATGT
Found at i:108766 original size:26 final size:26
Alignment explanation
Indices: 108693--108766 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
108683 ATTATATTTG
108693 TATTTACTTTATTTTGTTAAATTATAA
1 TATTTACTTTATTTTGTTAAATT-TAA
*
108720 T-TTT--TTTATTATT-TCT-CATTTAA
1 TATTTACTTTATT-TTGT-TAAATTTAA
108743 TATTTACTTTATTTTGTTAAATTT
1 TATTTACTTTATTTTGTTAAATTT
108767 GTTGGACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
23 4 0.11
24 13 0.34
25 6 0.16
26 14 0.37
27 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (26 bp):
TATTTACTTTATTTTGTTAAATTTAA
Found at i:109441 original size:21 final size:21
Alignment explanation
Indices: 109415--109457 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
109405 TCGCGGCAAC
109415 TATGTGACACAAAACATTTCA
1 TATGTGACACAAAACATTTCA
*
109436 TATGTGACACGAAACATTTCA
1 TATGTGACACAAAACATTTCA
109457 T
1 T
109458 GCTTTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (21 bp):
TATGTGACACAAAACATTTCA
Found at i:114674 original size:2 final size:2
Alignment explanation
Indices: 114667--114692 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114657 AATAATTATT
114667 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
114693 CCCGGCCCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116266 original size:5 final size:5
Alignment explanation
Indices: 116256--116288 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
116246 TGACCGGTCT
116256 GACCC GACCC GA-CC GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
116289 GTTGACCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.21, C:0.58, G:0.21, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:116271 original size:9 final size:9
Alignment explanation
Indices: 116259--116289 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
116249 CCGGTCTGAC
116259 CCGACCCGA
1 CCGACCCGA
116268 CCGACCCGA
1 CCGACCCGA
116277 CCCGACCCGA
1 -CCGACCCGA
116287 CCG
1 CCG
116290 TTGACCGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.58, G:0.23, T:0.00
Consensus pattern (9 bp):
CCGACCCGA
Found at i:116273 original size:14 final size:15
Alignment explanation
Indices: 116256--116288 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
116246 TGACCGGTCT
116256 GACCCGACCCGA-CC
1 GACCCGACCCGACCC
116270 GACCCGACCCGACCC
1 GACCCGACCCGACCC
116285 GACC
1 GACC
116289 GTTGACCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.58, G:0.21, T:0.00
Consensus pattern (15 bp):
GACCCGACCCGACCC
Found at i:123440 original size:20 final size:21
Alignment explanation
Indices: 123415--123453 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
123405 GAGGGCTGGA
123415 AACCGGTT-TGACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
123435 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
123454 GACTGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:123451 original size:10 final size:9
Alignment explanation
Indices: 123416--123482 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
123406 AGGGCTGGAA
123416 ACCGGTTTG
1 ACCGGTTTG
*
123425 ACCGGTTTTCA
1 ACCGG-TTT-G
123436 ACCGGTTCTG
1 ACCGGTT-TG
123446 ACCGGTTTG
1 ACCGGTTTG
*
123455 ACTGGTTTTG
1 ACCGG-TTTG
*
123465 ACCGGTTCG
1 ACCGGTTTG
123474 AACCGGTTT
1 -ACCGGTTT
123483 CACCTGTCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
9 14 0.30
10 27 0.57
11 6 0.13
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.34
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:123478 original size:29 final size:31
Alignment explanation
Indices: 123415--123482 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
123405 GAGGGCTGGA
123415 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
* *
123446 -ACCGGTTTGACTGGTTTT-GACCGGTTC-G
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
123474 AACCGGTTT
1 AACCGGTTT
123483 CACCTGTCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.47
30 17 0.50
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.34
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:123520 original size:10 final size:9
Alignment explanation
Indices: 123494--123524 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
123484 ACCTGTCTGA
123494 ACCGACCCG
1 ACCGACCCG
123503 ACCGACCCG
1 ACCGACCCG
123512 ACTCGACCCG
1 AC-CGACCCG
123522 ACC
1 ACC
123525 CAACCGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.23, C:0.55, G:0.19, T:0.03
Consensus pattern (9 bp):
ACCGACCCG
Found at i:128559 original size:104 final size:103
Alignment explanation
Indices: 128379--128784 Score: 424
Period size: 99 Copynumber: 4.0 Consensus size: 103
128369 TTGCTCCGAG
* * * * * *
128379 TCCAATATCCTTCGTCGTGAAGTTAAAATTAGTTCTGGAACTGGAAAATTGTTTGTTGACAGTCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGG--AATTGTTTGTTGACAGTCA
*
128444 GCCGCCCCTTCGCCGTGAA-TTGAGCTTGTGCTAT-TTGCA
64 GCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTG-A
* * *
128483 TCCAATATCCTTTGCTGTGAAGTTGAAATTGGATATGAAATTGGGGAATTGTTTGTTGACAGTCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATT--GGAATTGTTTGTTGACAGTCA
*
128548 GCCACCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGA
64 GCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGA
*
128588 GTCCAATATCCTTCGTTGTGAAGTTGAAATT-GACTCTGAAA---G--TTGTTTGTTGACAATCA
1 -TCCAATATCCTTCGTTGTGAAGTTGAAATTGGA-TCTGAAATTGGAATTGTTTGTTGACAGTCA
* * * *
128647 GCCGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTCTTGGG
64 GCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTT-GA
* * * ** * *
128688 TCCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATT-GAAAAG--TG--GATAGTCATC
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGAATTGTTTGTTGACAGTCAGC
* *
128748 CGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTG
66 CGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTG
128785 TGTGCACGAT
Statistics
Matches: 259, Mismatches: 31, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
98 1 0.00
99 125 0.48
100 2 0.01
101 4 0.02
103 1 0.00
104 70 0.27
105 17 0.07
106 39 0.15
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (103 bp):
TCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGAATTGTTTGTTGACAGTCAGC
CGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGA
Found at i:129872 original size:8 final size:7
Alignment explanation
Indices: 129850--129901 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
129840 CTTATTTTTC
129850 TTTTCTT
1 TTTTCTT
129857 TTTTCTT
1 TTTTCTT
129864 TTGTTC-T
1 TT-TTCTT
*
129871 TTCTCTT
1 TTTTCTT
*
129878 TTTTCTC
1 TTTTCTT
*
129885 TTTTC-C
1 TTTTCTT
129891 TTTTCTT
1 TTTTCTT
129898 TTTT
1 TTTT
129902 TTTAATTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 8 0.21
7 27 0.71
8 3 0.08
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:129879 original size:21 final size:20
Alignment explanation
Indices: 129844--129901 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
129834 ACCCTCCTTA
129844 TTTTTCTTTTCTTTTTTCT-
1 TTTTTCTTTTCTTTTTTCTC
129863 TTTGTTCTTTCTCTTTTTTCTC
1 TTT-TTCTTT-TCTTTTTTCTC
*
129885 TTTTCCTTTTCTTTTTT
1 TTTTTCTTTTCTTTTTT
129902 TTTAATTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 3 0.09
20 14 0.40
21 15 0.43
22 3 0.09
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTCTTTTCTTTTTTCTC
Found at i:129961 original size:10 final size:10
Alignment explanation
Indices: 129946--129979 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
129936 AACGTTTTTC
129946 TTTTTTATAT
1 TTTTTTATAT
129956 TTTTTTATAT
1 TTTTTTATAT
129966 TTTCTTTAT-T
1 TTT-TTTATAT
129976 TTTT
1 TTTT
129980 CTTTTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.04
10 17 0.74
11 5 0.22
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:129973 original size:11 final size:11
Alignment explanation
Indices: 129949--129983 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
129939 GTTTTTCTTT
129949 TTTATATTTT-
1 TTTATATTTTC
129959 TTTATATTTTC
1 TTTATATTTTC
*
129970 TTTATTTTTTC
1 TTTATATTTTC
129981 TTT
1 TTT
129984 TCCTTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATATTTTC
Found at i:135951 original size:24 final size:22
Alignment explanation
Indices: 135928--136001 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
135918 GAAGTTGTGT
135928 TTGTAAACTAGCAGCAGCTAGTG
1 TTGTAAACTAGC-GCAGCTAGTG
* * *
135951 TTATAGAA-TAGCG-AGGTTGTG
1 TTGTA-AACTAGCGCAGCTAGTG
*
135972 TTTGTAAACAAGTCGCAGCTAGTG
1 -TTGTAAACTAG-CGCAGCTAGTG
135996 TTGTAA
1 TTGTAA
136002 TATTGTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 8 0.21
22 7 0.18
23 16 0.41
24 8 0.21
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (22 bp):
TTGTAAACTAGCGCAGCTAGTG
Found at i:135958 original size:45 final size:45
Alignment explanation
Indices: 135908--135997 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
135898 TAGCAAAGTC
*
135908 ATAGAATAGCGAAGTTGTGTTTGTAAACTAG-CAGCAGCTAGTGTT
1 ATAGAATAGCGAAGTTGTGTTTGTAAACAAGTC-GCAGCTAGTGTT
*
135953 ATAGAATAGCGAGGTTGTGTTTGTAAACAAGTCGCAGCTAGTGTT
1 ATAGAATAGCGAAGTTGTGTTTGTAAACAAGTCGCAGCTAGTGTT
135998 GTAATATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (45 bp):
ATAGAATAGCGAAGTTGTGTTTGTAAACAAGTCGCAGCTAGTGTT
Found at i:141268 original size:11 final size:11
Alignment explanation
Indices: 141252--141280 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
141242 CTGTTTGTCA
141252 AGTTGATGATG
1 AGTTGATGATG
141263 AGTTGATGATG
1 AGTTGATGATG
141274 AGTTGAT
1 AGTTGAT
141281 CATATGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (11 bp):
AGTTGATGATG
Found at i:142370 original size:12 final size:12
Alignment explanation
Indices: 142353--142377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
142343 ACAAAACACC
142353 ATTTGATGCCTA
1 ATTTGATGCCTA
142365 ATTTGATGCCTA
1 ATTTGATGCCTA
142377 A
1 A
142378 ATTATTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTTGATGCCTA
Found at i:143307 original size:21 final size:23
Alignment explanation
Indices: 143269--143312 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
143259 AATATTTTAA
* *
143269 TATATAAAAATATTAAATTAAAT
1 TATATAAAAATATAAAATAAAAT
143292 TATA-AAAAATA-AAAATAAAAT
1 TATATAAAAATATAAAATAAAAT
143313 ATTAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
TATATAAAAATATAAAATAAAAT
Found at i:149510 original size:21 final size:22
Alignment explanation
Indices: 149486--149528 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
149476 AGGACATATA
*
149486 ATTAGTATAATT-TTATATTAT
1 ATTAATATAATTATTATATTAT
*
149507 ATTAATATAATTATTTTATTAT
1 ATTAATATAATTATTATATTAT
149529 TCTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTAATATAATTATTATATTAT
Found at i:156840 original size:2 final size:2
Alignment explanation
Indices: 156833--156863 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
156823 TGAATAAAAC
156833 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
156864 AATACAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:158209 original size:3 final size:3
Alignment explanation
Indices: 158201--158233 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
158191 ATTTGGGTCT
158201 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
158234 TGATGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:158547 original size:78 final size:77
Alignment explanation
Indices: 158384--158788 Score: 585
Period size: 78 Copynumber: 5.4 Consensus size: 77
158374 AAGGTCCTAT
* *
158384 CATCTTGCACTGTAGGTCTTACAGATGACCCCGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
*
158449 ACTTTTTGAAAA
66 GCTTTTTGAAAA
* *
158461 CATTATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAAAACATCAAAAAGCTCCCGAA
158526 GGCTTTTTGAAAA
65 GGCTTTTTGAAAA
* * *
158539 CATCATGCACTGTAGGGCTTACAGATGACCCTAAGGCTTTAAAATA-A--AAAAA-CTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
158600 GCTTTTTGAAAA
66 GCTTTTTGAAAA
* * * * **
158612 C-TCATACACTGTAGGTCTTACAAATGACCCTGAGGCTTTATAATAATAAAAAAAAGCT-CCGAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTA-AAAAACATCAAAAAGCTCCCGAA
158675 GGCTTTTTGAAAA
65 GGCTTTTTGAAAA
*
158688 CATCATGCACTGTAGGTCTTACAGAT-ACCCTGAGGCTTT-AAAAACATCAAAAAGCTCCC-AAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
158750 GCTTTTTGAAAA
66 GCTTTTTGAAAA
*
158762 CATCATGCATTGTAGGTCTTACAGATG
1 CATCATGCACTGTAGGTCTTACAGATG
158789 TGGGAAATAA
Statistics
Matches: 295, Mismatches: 24, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
72 35 0.12
73 24 0.08
74 58 0.20
75 2 0.01
76 38 0.13
77 66 0.22
78 72 0.24
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (77 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
GCTTTTTGAAAA
Found at i:159118 original size:28 final size:27
Alignment explanation
Indices: 159086--159142 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
159076 CATGTTTGAA
* *
159086 TGCACTCAGATGTATCAATGTAATGCAT
1 TGCACGCAGATGTATCAATGGAATG-AT
159114 TGCACGCAGATGTATCAATGGAATGAT
1 TGCACGCAGATGTATCAATGGAATGAT
159141 TG
1 TG
159143 TCTATTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
TGCACGCAGATGTATCAATGGAATGAT
Found at i:159488 original size:21 final size:22
Alignment explanation
Indices: 159464--159517 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
159454 AATAAAGCGT
159464 TCATCTTTGAAAAGAG-ATCTA
1 TCATCTTTGAAAAGAGAATCTA
159485 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
159507 TCATCTTTGAA
1 TCATCTTTGAA
159518 GTGTAGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Done.