Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006065.1 Hibiscus syriacus cultivar Beakdansim tig00014344_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: 209318
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1261 original size:17 final size:17
Alignment explanation
Indices: 1235--1277 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1225 CCTTTACGTG
1235 TCGATTTTACGCCTTCT
1 TCGATTTTACGCCTTCT
*
1252 TCGGTTTTACGCCTTCT
1 TCGATTTTACGCCTTCT
1269 TCGATTTTA
1 TCGATTTTA
1278 ATTTTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.49
Consensus pattern (17 bp):
TCGATTTTACGCCTTCT
Found at i:4882 original size:26 final size:26
Alignment explanation
Indices: 4837--4915 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
4827 TTCTAGAAGG
* * * *
4837 CGCTGACTAGATCTTCTAGAAACTGT
1 CGCTGACTGGACCTTTTAGAAACTGC
*
4863 CGCTGACTGGACTTTTTAGAAACTGC
1 CGCTGACTGGACCTTTTAGAAACTGC
4889 CGCTGACTGGACCTTTTAGAAACTGC
1 CGCTGACTGGACCTTTTAGAAACTGC
4915 C
1 C
4916 ACGCAGACCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (26 bp):
CGCTGACTGGACCTTTTAGAAACTGC
Found at i:8938 original size:17 final size:17
Alignment explanation
Indices: 8916--8949 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8906 TTAAATGCTT
8916 AAGGAAGAACATTTGAA
1 AAGGAAGAACATTTGAA
8933 AAGGAAGAACATTTGAA
1 AAGGAAGAACATTTGAA
8950 GATGCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (17 bp):
AAGGAAGAACATTTGAA
Found at i:9613 original size:61 final size:61
Alignment explanation
Indices: 9546--9668 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
9536 GTGACTCTAA
*
9546 GTCGCATGTACCAATTTGATTATCAGGGAACAAAATTAAACAAATGATAATTGTTTTCCAG
1 GTCGCATGTAACAATTTGATTATCAGGGAACAAAATTAAACAAATGATAATTGTTTTCCAG
*
9607 GTCGCATGTAACAATTTGATTATCAGGGAACAAAATTAAACAAATGTTAATTGTTTTCCAG
1 GTCGCATGTAACAATTTGATTATCAGGGAACAAAATTAAACAAATGATAATTGTTTTCCAG
9668 G
1 G
9669 GAGTGTCTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (61 bp):
GTCGCATGTAACAATTTGATTATCAGGGAACAAAATTAAACAAATGATAATTGTTTTCCAG
Found at i:13043 original size:16 final size:16
Alignment explanation
Indices: 13019--13049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13009 ACCGACTATA
13019 ATATAATGAATTATTT
1 ATATAATGAATTATTT
*
13035 ATATTATGAATTATT
1 ATATAATGAATTATT
13050 AGATTTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATAATGAATTATTT
Found at i:13221 original size:32 final size:32
Alignment explanation
Indices: 13168--13242 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
13158 TAAAAAATAA
* * *
13168 AAAAACCGGATACCCGCTTACCAGATACCCGC
1 AAAATCCGGGTACCCGATTACCAGATACCCGC
* *
13200 AAAATCCGGGTACCCGATTACCGGATACCCGT
1 AAAATCCGGGTACCCGATTACCAGATACCCGC
*
13232 AACATCCGGGT
1 AAAATCCGGGT
13243 CGGGACACAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (32 bp):
AAAATCCGGGTACCCGATTACCAGATACCCGC
Found at i:13228 original size:15 final size:15
Alignment explanation
Indices: 13172--13230 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
13162 AAATAAAAAA
*
13172 ACCGGATACCCGCTT
1 ACCGGATACCCGATT
* **
13187 ACCAGATACCCGCAAA
1 ACCGGATACCCG-ATT
*
13203 ATCCGGGTACCCGATT
1 A-CCGGATACCCGATT
13219 ACCGGATACCCG
1 ACCGGATACCCG
13231 TAACATCCGG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
15 21 0.64
16 3 0.09
17 9 0.27
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.15
Consensus pattern (15 bp):
ACCGGATACCCGATT
Found at i:14064 original size:30 final size:31
Alignment explanation
Indices: 13977--14135 Score: 202
Period size: 31 Copynumber: 5.3 Consensus size: 31
13967 GACCTATTAG
* *
13977 TATAATTGAAACAAAAATCAAAGTTTAATGC
1 TATAATTGAAACGAAAATCAAAGTTCAATGC
*
14008 TATAATTGAAACG---ATTAAAG-TCAATGC
1 TATAATTGAAACGAAAATCAAAGTTCAATGC
*
14035 TATAAATGAAACGAAAATCAAA-TTCAATGC
1 TATAATTGAAACGAAAATCAAAGTTCAATGC
* *
14065 TATAATTGAAACGGAAATCAAAGTTTAATGC
1 TATAATTGAAACGAAAATCAAAGTTCAATGC
* **
14096 TATAATTGAAAAGAAAATCAAAGTTCAATAT
1 TATAATTGAAACGAAAATCAAAGTTCAATGC
14127 TATAATTGA
1 TATAATTGA
14136 TAAAATTAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
27 18 0.16
28 6 0.05
30 32 0.29
31 54 0.49
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (31 bp):
TATAATTGAAACGAAAATCAAAGTTCAATGC
Found at i:15976 original size:2 final size:2
Alignment explanation
Indices: 15969--16006 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15959 ATGATTTTAC
15969 TA TA 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
16007 ATTTTTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17456 original size:18 final size:17
Alignment explanation
Indices: 17418--17456 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17408 AATGTTTTTC
*
17418 ATTTTAAATAAAAGTCA
1 ATTTTAAATAAAAGACA
*
17435 ATTTTAATTAAAACGACA
1 ATTTTAAATAAAA-GACA
17453 ATTT
1 ATTT
17457 AAAGTATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTTAAATAAAAGACA
Found at i:19191 original size:19 final size:19
Alignment explanation
Indices: 19169--19211 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
19159 TGGTCAATTT
19169 CCCCTTTTGCTCGTGAACC
1 CCCCTTTTGCTCGTGAACC
19188 CCCCTTTTGCTCGTGAACC
1 CCCCTTTTGCTCGTGAACC
19207 CCCCT
1 CCCCT
19212 GTCCTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.47, G:0.14, T:0.30
Consensus pattern (19 bp):
CCCCTTTTGCTCGTGAACC
Found at i:20253 original size:3 final size:3
Alignment explanation
Indices: 20247--20281 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
20237 ACATTATTAT
*
20247 TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
20282 TCCCAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:23374 original size:15 final size:16
Alignment explanation
Indices: 23356--23386 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23346 TTTTAAAACA
23356 ATTTTAAGA-AAAAAT
1 ATTTTAAGACAAAAAT
23371 ATTTTAAGACAAAAAT
1 ATTTTAAGACAAAAAT
23387 TGATATGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTTTAAGACAAAAAT
Found at i:25562 original size:3 final size:3
Alignment explanation
Indices: 25554--25633 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
25544 GTATTGTTAA
25554 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
25602 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
25634 CTACTCATCC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:26060 original size:140 final size:139
Alignment explanation
Indices: 25788--26444 Score: 772
Period size: 140 Copynumber: 4.7 Consensus size: 139
25778 TTTAGTCATT
* * *
25788 TTTAGGTA-AATTTGGAGACAACACGGTTCCTACGTGATGAGGAAATATGGTTATCT-AAGAATG
1 TTTAGGGATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTATGGTTATCTGAA-AATG
* * * * * * *
25851 ACACTGCTCTTACATGATGAGGAGATCTGGTCGGTGGATGACATTGTTCATACGTGATTAGGACA
65 ACGCTGCTCCTACGTGATGAGGAGATATGGTCGGTGGACGACATTGTTCCTACGTGATGAGGA-A
25916 -TCTAGCCATC
129 GTCTAGCCATC
25926 TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGATGAAGAAGTATGGTTATCTGAAAATG
1 TTTAGGGATAATTT-GGAGACAACACGGTTCCTACGTGATGAAGAAGTATGGTTATCTGAAAATG
* *
25991 ACGCTGCTCTTACGTGATGAGGAGATATGGTCGATGGACGACATTGTTCCTACGTGATGAGGAAG
65 ACGCTGCTCCTACGTGATGAGGAGATATGGTCGGTGGACGACATTGTTCCTACGTGATGAGGAAG
* *
26056 TCTAGTCATA
130 TCTAGCCATC
* * * *
26066 TTTAAGGATAATTTGGGAGACAACTCGAG-TCCTACGTGATG-AGAAAGTCTGGTTATCTGAGAA
1 TTTAGGGATAATTT-GGAGACAACACG-GTTCCTACGTGATGAAG-AAGTATGGTTATCTGAAAA
* * * * *
26129 TGATGCTTCTCCTATGTGATGAGGAGATATCGTCTGTGGACGACATTGTTCCTACGTGATGAGGA
63 TGACGCTGCTCCTACGTGATGAGGAGATATGGTCGGTGGACGACATTGTTCCTACGTGATGAGGA
*
26194 CGTCTAGCCATC
128 AGTCTAGCCATC
* * *
26206 TGTAGGGATAATTTTGGAGACAACATGGTTCCTACGTGAT-AAGGAAGTCTGGTTAT-T-AAAGG
1 TTTAGGGATAA-TTTGGAGACAACACGGTTCCTACGTGATGAA-GAAGTATGGTTATCTGAAA--
* ** * * *
26268 ATGACACTGCTCCTACACGTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGG
62 ATGACGCTGCTCCTACGTGATGAGGAGATATGGTCGGTGGACGACATTGTTCCTACGTGATGAGG
* *
26333 ATGTCTAGCCGTC
127 AAGTCTAGCCATC
* * * * **
26346 TTTAGGGATAATTTAGAGACAACATGGTTCCTATGTGATGAGGAAGTATGGTTATCTGAGGATGA
1 TTTAGGGATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTATGGTTATCTGAAAATGA
* * *
26411 CGCTACTCCTACGCGTTGAGGAGATATGGTCGGT
66 CGCTGCTCCTACGTGATGAGGAGATATGGTCGGT
26445 TGATGATGAT
Statistics
Matches: 449, Mismatches: 55, Indels: 29
0.84 0.10 0.05
Matches are distributed among these distances:
138 9 0.02
139 82 0.18
140 350 0.78
141 8 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (139 bp):
TTTAGGGATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTATGGTTATCTGAAAATGA
CGCTGCTCCTACGTGATGAGGAGATATGGTCGGTGGACGACATTGTTCCTACGTGATGAGGAAGT
CTAGCCATC
Found at i:26655 original size:66 final size:66
Alignment explanation
Indices: 26552--26796 Score: 219
Period size: 67 Copynumber: 3.7 Consensus size: 66
26542 AAGAAATTTG
* * ** * * * * * *
26552 TTTCAAGAGAAGCTATCTCATGTAAGATAAAAATTTGTTTCGAGTGAAACAAT-TTAGAA-TTTA
1 TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCA-AAGTTTA
26615 CA
65 CA
* * * * *
26617 TTTCAAGGGAAAACTATCTCAAAG-GAGACGAAACTTTGTTTCTAGAGAAATAATCTCAAAGGTT
1 TTTCAAGAG-AAACTATCTC-AAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAAA-GTT
**
26681 TATG
63 TACA
* *
26685 TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAGAGGTT-C
1 TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTAC
26749 A
66 A
* *
26750 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTTTCAAGA
1 --TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGA
26797 AAAATTGTCT
Statistics
Matches: 148, Mismatches: 24, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
65 8 0.05
66 40 0.27
67 88 0.59
68 12 0.08
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (66 bp):
TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTAC
A
Found at i:26733 original size:37 final size:37
Alignment explanation
Indices: 26683--26940 Score: 165
Period size: 37 Copynumber: 7.4 Consensus size: 37
26673 CAAAGGTTTA
*
26683 TGTTTCAAGAGAAACTATCTCAAGCGACACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
* **
26720 TGTTTCAAGAGAAACAATCTCAGAG-G-TTC---A---
1 TGTTTCAAGAGAAACTATCTCA-AGCGAGACAAAACTT
*
26750 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
* * * *
26787 TGTTTCAAGAAAAATTGTCTCAAGCAAGACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
* * **
26824 TGTTTCGAGAGAAACAATCTCAA---AG-----GTTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
* *
26853 ATGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAA-TT
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
* * * * * * *
26890 TATTTCAAGAGAAACTGTTTTAAGCGAAATATAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
*
26926 TGTTTCAAGTGAAAC
1 TGTTTCAAGAGAAAC
26941 AAAACTTTGT
Statistics
Matches: 172, Mismatches: 31, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
29 4 0.02
30 40 0.23
31 1 0.01
33 3 0.02
34 3 0.02
36 43 0.25
37 76 0.44
38 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTT
Found at i:26795 original size:22 final size:21
Alignment explanation
Indices: 26769--26829 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 21
26759 AGAAACTGTC
26769 TCAAGCGAGACAAAACTTTGTT
1 TCAAGC-AGACAAAACTTTGTT
*
26791 TC-A--AGA-AAAA--TTGTC
1 TCAAGCAGACAAAACTTTGTT
26806 TCAAGCAAGACAAAACTTTGTT
1 TCAAGC-AGACAAAACTTTGTT
26828 TC
1 TC
26830 GAGAGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
15 6 0.20
16 1 0.03
17 4 0.13
18 3 0.10
19 3 0.10
20 4 0.13
21 1 0.03
22 8 0.27
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (21 bp):
TCAAGCAGACAAAACTTTGTT
Found at i:26808 original size:67 final size:67
Alignment explanation
Indices: 26617--26801 Score: 264
Period size: 67 Copynumber: 2.7 Consensus size: 67
26607 AGAATTTACA
* * *
26617 TTTCAAGGGAAAACTATCTCAAAG-GAGACGAAACTTTGTTTCTAGAGAAATAATCTCAAAGGTT
1 TTTCAAGAG-AAACTATCTC-AAGCGAGACAAAACTTTGTTTCAAGAGAAATAATCTCAAAGGTT
*
26681 TATG
64 CATG
* * *
26685 TTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAGAGGTTCA
1 TTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCAAGAGAAATAATCTCAAAGGTTCA
26750 TG
66 TG
* *
26752 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTTTCAAGAAAAAT
1 TTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCAAGAGAAAT
26802 TGTCTCAAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 3 0.03
67 94 0.90
68 8 0.08
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (67 bp):
TTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCAAGAGAAATAATCTCAAAGGTTCA
TG
Found at i:26819 original size:104 final size:102
Alignment explanation
Indices: 26683--26942 Score: 351
Period size: 104 Copynumber: 2.5 Consensus size: 102
26673 CAAAGGTTTA
* * *
26683 TGTTTCAAGAGAAACTATCTCAAGCGACACAAAACTTTGTTTCAAGAGAAACAATCTCAGAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGC-AAACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTT
26748 CATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTT
65 CATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAA-TT
* * *
26787 TGTTTCAAGAAAAATTGTCTCAAGCAAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGCAA-ACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTT
* *
26852 TATGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAATT
65 CATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
* * * * * *
26890 TATTTCAAGAGAAACTGTTTTAAGCGAAATATAA-TTTGTTTCAAGTGAAACAA
1 TGTTTCAAGAGAAACTGTCTCAAGC-AAACAAAACTTTGTTTCAAGAGAAACAA
26943 AACTTTGTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
102 17 0.12
103 27 0.20
104 93 0.68
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGCAAACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTC
ATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
Found at i:26899 original size:36 final size:36
Alignment explanation
Indices: 26856--26940 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
26846 AAGGTTTATG
* *
26856 TTTCAAGAGAAATTGTCTCAAGCGAGACAAAATTTA
1 TTTCAAGAGAAACTGTCTCAAGCGAAACAAAATTTA
* * * * *
26892 TTTCAAGAGAAACTGTTTTAAGCGAAATATAATTTG
1 TTTCAAGAGAAACTGTCTCAAGCGAAACAAAATTTA
*
26928 TTTCAAGTGAAAC
1 TTTCAAGAGAAAC
26941 AAAACTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGCGAAACAAAATTTA
Found at i:27077 original size:67 final size:66
Alignment explanation
Indices: 26996--27122 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 66
26986 GTTTCAAGTG
* * * *
26996 AAACAATTTCAAAAT-TTTGTGTTTTGAGGAAAAACTGTCTCAAGCAAGACGAAGTTTGTTTTTA
1 AAACAATCTCAAAATGTTCGTGTCTTAAGG-AAAACTGTCTCAAGCAAGACGAA-TTT-TTTTTA
27060 AGAA
63 AGAA
* **
27064 AAACAATCT-AAAATGTTCGTGTCTTAAGGAAGACTGTCTCAAGTGAGACGAATTTTTTT
1 AAACAATCTCAAAATGTTCGTGTCTTAAGGAAAACTGTCTCAAGCAAGACGAATTTTTTT
27123 AGAAAATTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
65 4 0.08
66 3 0.06
67 25 0.49
68 19 0.37
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (66 bp):
AAACAATCTCAAAATGTTCGTGTCTTAAGGAAAACTGTCTCAAGCAAGACGAATTTTTTTTAAGA
A
Found at i:36663 original size:11 final size:11
Alignment explanation
Indices: 36643--36678 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
36633 GGTCCTTGTA
36643 TTTATGTTTAT
1 TTTATGTTTAT
*
36654 TTTATTTTTAT
1 TTTATGTTTAT
*
36665 TTTATGTTGAT
1 TTTATGTTTAT
36676 TTT
1 TTT
36679 TTACTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTATGTTTAT
Found at i:46995 original size:201 final size:201
Alignment explanation
Indices: 46750--47159 Score: 552
Period size: 201 Copynumber: 2.0 Consensus size: 201
46740 CGCCTTTTTA
* * *
46750 TATAACAATACAGGTAGCACCTTTTTATATTGTTAATTGTGTAAGTTATATATGCAAAACATGTT
1 TATAACAATACAGGTAACACCTTTTTATATTGTTAATCGTGTAAGTTATATATACAAAACATGTT
* * *
46815 TCATTAAGGACATGTAAGAC-AAAAAGGGTTTTATTTATAACAATATAGGTAGTATCTTTCTATA
66 TCATTAAGGACATGTAAGACAAAAAAGGGTTTTATTTATAACAAAAAAGGTAGTACCTTTCTATA
* * * * *
46879 GTGTCAATCATTTACGTAATATGTATGAAACTTTTATTATTAAGAAACTATAAGAGAAAAAAGGC
131 ATGTCAACCATTTACGTAATA-GTATGAAACCTTTATTATTAAAAAACTATAACAGAAAAAAGGC
46944 TTAAATT
195 TTAAATT
* * * * **
46951 TATAACAATACATGTAACGCCTTTTTATGTTGTTAATCGTGTAAGTTATATCTACAAAATTTGTT
1 TATAACAATACAGGTAACACCTTTTTATATTGTTAATCGTGTAAGTTATATATACAAAACATGTT
* * * * *
47016 TTATTATGGACATGTAAGACAAAAAATGGTTTTATTTATAACAAAAAAGGTAGTGCCTTTTTATA
66 TCATTAAGGACATGTAAGACAAAAAAGGGTTTTATTTATAACAAAAAAGGTAGTACCTTTCTATA
* * * * *
47081 ATGTCAACCATTTACGTGATAGTTTGAAACCTTTATTATTAAAAAACTATAACAGAAAATATGTT
131 ATGTCAACCATTTACGTAATAGTATGAAACCTTTATTATTAAAAAACTATAACAGAAAAAAGGCT
47146 TAAATT
196 TAAATT
47152 TATGAACA
1 TAT-AACA
47160 TGTAAGATAG
Statistics
Matches: 180, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
201 120 0.67
202 60 0.33
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (201 bp):
TATAACAATACAGGTAACACCTTTTTATATTGTTAATCGTGTAAGTTATATATACAAAACATGTT
TCATTAAGGACATGTAAGACAAAAAAGGGTTTTATTTATAACAAAAAAGGTAGTACCTTTCTATA
ATGTCAACCATTTACGTAATAGTATGAAACCTTTATTATTAAAAAACTATAACAGAAAAAAGGCT
TAAATT
Found at i:48289 original size:61 final size:61
Alignment explanation
Indices: 48182--48341 Score: 214
Period size: 61 Copynumber: 2.6 Consensus size: 61
48172 TCCCGTGAAC
* * *
48182 TCTAGGACTTGATTAATCAAATACTAACTTT-CTCGTGAATTATGAGGAACACAGTAAAGAT
1 TCTAAGACTTGATTAATCAAATACTGACTTTCCT-GTGAACTATGAGGAACACAGTAAAGAT
* *
48243 TCTAAGACTTGATTAATCAAATAATGACTTTCCTGTGAACTCTGAGGAACACAGTAAAGAT
1 TCTAAGACTTGATTAATCAAATACTGACTTTCCTGTGAACTATGAGGAACACAGTAAAGAT
* * * * *
48304 TCCATGACATGATTAATCAAATTCTGACTTTCCCGTGA
1 TCTAAGACTTGATTAATCAAATACTGACTTTCCTGTGA
48342 TCCTAGTTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
61 85 0.98
62 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (61 bp):
TCTAAGACTTGATTAATCAAATACTGACTTTCCTGTGAACTATGAGGAACACAGTAAAGAT
Found at i:54872 original size:14 final size:14
Alignment explanation
Indices: 54853--54886 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
54843 TTTAGTTCTA
54853 TGGCATATCATTTT
1 TGGCATATCATTTT
54867 TGGCATATCATTTT
1 TGGCATATCATTTT
*
54881 TAGCAT
1 TGGCAT
54887 GAGTCGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (14 bp):
TGGCATATCATTTT
Found at i:55770 original size:27 final size:27
Alignment explanation
Indices: 55739--55792 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
55729 ATGGGAAAGT
55739 AAGAAAAAAACAGATTTATAAGTATAA
1 AAGAAAAAAACAGATTTATAAGTATAA
55766 AAGAAAAAAACAGATTTATAAGTATAA
1 AAGAAAAAAACAGATTTATAAGTATAA
55793 CATTATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (27 bp):
AAGAAAAAAACAGATTTATAAGTATAA
Found at i:58456 original size:94 final size:94
Alignment explanation
Indices: 58295--58500 Score: 376
Period size: 94 Copynumber: 2.2 Consensus size: 94
58285 TTGGGAGCGT
* *
58295 GGGGTGCATTGGTACACTCTCAGGGTGTATCGATACACTATGTGTAAAATTAAAATATTTTGACT
1 GGGGTGCATCGGTACACTCTCAGGGTGTATCGATACACTATGTGTAAAATTAAAATATTTCGACT
*
58360 GTTATAAGACTTAGTGCATTGGTAAACTA
66 GTTATAAGACTTAGTGCATCGGTAAACTA
58389 GGGGTGCATCGGTACACTCTCAGGGTGTATCGATACACTATGTGTAAAATTAAAATATTTCGACT
1 GGGGTGCATCGGTACACTCTCAGGGTGTATCGATACACTATGTGTAAAATTAAAATATTTCGACT
58454 GTTATAAGACTTAGTGCATCGGTAAACTA
66 GTTATAAGACTTAGTGCATCGGTAAACTA
*
58483 GAGGTGCATCGGTACACT
1 GGGGTGCATCGGTACACT
58501 AATTACATTC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 108 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (94 bp):
GGGGTGCATCGGTACACTCTCAGGGTGTATCGATACACTATGTGTAAAATTAAAATATTTCGACT
GTTATAAGACTTAGTGCATCGGTAAACTA
Found at i:58556 original size:65 final size:65
Alignment explanation
Indices: 58487--58641 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
58477 AAACTAGAGG
* *
58487 TGCATCGGTACACT-AATTACATTCGATGTTTCAA-AAGAATCAGGAGTGCATCGATGCATGGTT
1 TGCATCGGTACACTAAAATACATTCGATGTTTCAATAA-AATCAAGAGTGCATCGATGCATGG-T
58550 TA
64 TA
** * * *
58552 TGCATCGGTACA-TAAAATGTATTTGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGTTG
1 TGCATCGGTACACTAAAATACATTCGATGTTTCAATAAAATCAAGAGTGCATCGATGCATGGTTA
*
58616 TGCATCGGTACAC-AAAATGCATTCGA
1 TGCATCGGTACACTAAAATACATTCGA
58642 AATAGGGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 26 0.33
65 50 0.64
66 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (65 bp):
TGCATCGGTACACTAAAATACATTCGATGTTTCAATAAAATCAAGAGTGCATCGATGCATGGTTA
Found at i:60780 original size:14 final size:13
Alignment explanation
Indices: 60738--60780 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
60728 CCTAATGGGC
60738 AATGTTTGAAAAT
1 AATGTTTGAAAAT
* *
60751 TATTTTTGAAAAT
1 AATGTTTGAAAAT
60764 AATGTTTGAATAAT
1 AATGTTTGAA-AAT
60778 AAT
1 AAT
60781 ATGCAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (13 bp):
AATGTTTGAAAAT
Found at i:61324 original size:43 final size:44
Alignment explanation
Indices: 61247--61350 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
61237 CAATGCATAG
* * * * *
61247 CATAGTGCATCGATCCATATTCAAGGAATGCATCGGTGCATCT-T
1 CATAGTGTATCGATGCACATTCAAGGAATGCATCGATACA-CTGT
*
61291 CATGAG-GTATCGATGCACATTCAAGGGA-GCATCGATACACTGT
1 CAT-AGTGTATCGATGCACATTCAAGGAATGCATCGATACACTGT
61334 CATAGTGTATCGATGCA
1 CATAGTGTATCGATGCA
61351 TTGTGCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 4 0.08
43 24 0.47
44 21 0.41
45 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CATAGTGTATCGATGCACATTCAAGGAATGCATCGATACACTGT
Found at i:67496 original size:17 final size:18
Alignment explanation
Indices: 67463--67501 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
67453 TAATAGTGAG
67463 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
67481 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
67498 TTAT
1 TTAT
67502 ATTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:71598 original size:55 final size:54
Alignment explanation
Indices: 71542--72012 Score: 628
Period size: 55 Copynumber: 8.7 Consensus size: 54
71532 CGGGTTCGCT
* * * * * *
71542 CCCTCTTTCTTAAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTC-AACAATCTTCAACAATCGCGTCTGCC
* *
71597 CCCTATTTCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCC
* * *
71650 CCTTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCTGCC
* * *
71705 CCCTATTTCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCC
* *
71758 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCTGCC
*
71813 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCTGCC
* * *
71868 CGCTATTTCTTCAGAGAGTATAAGACTCGAACAACCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCTGCC
** *
71923 CCCTATTTCTTCAGAGAGTATAAGAC-CCCCAATCTTCATA-AATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCA-ACAATCGCGTCTGCC
71976 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCT
72013 CCTCAAACGT
Statistics
Matches: 370, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
53 138 0.37
54 7 0.02
55 223 0.60
56 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCC
Found at i:71696 original size:108 final size:108
Alignment explanation
Indices: 71542--72012 Score: 730
Period size: 108 Copynumber: 4.3 Consensus size: 108
71532 CGGGTTCGCT
* * * *
71542 CCCTCTTTCTTAAGAGAGTAT-AGAACTCG-GACAATCTTCAATAATCGTGTCTGCTCCCTATTT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAG-CAATCTTCAACAATCGTGTCTGCCCCCTATTT
*
71605 CTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCC
64 CTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTATGCC
*
71650 CCTTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
71715 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTATGCC
66 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTATGCC
71758 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
* * * *
71823 TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGTC
66 TCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTATGCC
* * * * *
71868 CGCTATTTCTTCAGAGAGTATAAGACTCGAACAACCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
* *
71933 TCAGAGAGTATAAGACCCCCAATCTTCATAAATCGCGTATGCC
66 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTATGCC
*
71976 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCT
72013 CCTCAAACGT
Statistics
Matches: 335, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
108 232 0.69
109 5 0.01
110 98 0.29
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (108 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTATGCC
Found at i:84564 original size:78 final size:79
Alignment explanation
Indices: 84479--84637 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
84469 AACAATGCGA
84479 AAATAGCCATAACAAGAATCGGGACTAAAATACAA-ACGCTGCAAGTTGAGAGACAAAATTAAAA
1 AAATAGCCATAACAAGAATCGGGACTAAAATACAACACGCTGCAAGTTGAGAGACAAAATTAAAA
84543 TTCTAACAAAGCTC
66 TTCTAACAAAGCTC
84557 AAATAGCCATAACAAGAATCGGGACTAAAATACAACACGCTGCAAGTTGAGAGACAAAATTAAAA
1 AAATAGCCATAACAAGAATCGGGACTAAAATACAACACGCTGCAAGTTGAGAGACAAAATTAAAA
84622 TTCTAACAAAGCTC
66 TTCTAACAAAGCTC
84636 AA
1 AA
84638 TTCAAGGACC
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 35 0.44
79 45 0.56
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (79 bp):
AAATAGCCATAACAAGAATCGGGACTAAAATACAACACGCTGCAAGTTGAGAGACAAAATTAAAA
TTCTAACAAAGCTC
Found at i:85665 original size:58 final size:58
Alignment explanation
Indices: 85575--85684 Score: 220
Period size: 58 Copynumber: 1.9 Consensus size: 58
85565 GTAGCTGAGC
85575 CAATACTCGGTTGGTCGTGCGCGATCTGGAAATGCGGTGGTGGCTTCACGTGAGTCTG
1 CAATACTCGGTTGGTCGTGCGCGATCTGGAAATGCGGTGGTGGCTTCACGTGAGTCTG
85633 CAATACTCGGTTGGTCGTGCGCGATCTGGAAATGCGGTGGTGGCTTCACGTG
1 CAATACTCGGTTGGTCGTGCGCGATCTGGAAATGCGGTGGTGGCTTCACGTG
85685 GAAATCACAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.15, C:0.21, G:0.36, T:0.27
Consensus pattern (58 bp):
CAATACTCGGTTGGTCGTGCGCGATCTGGAAATGCGGTGGTGGCTTCACGTGAGTCTG
Found at i:87912 original size:185 final size:185
Alignment explanation
Indices: 87600--87969 Score: 704
Period size: 185 Copynumber: 2.0 Consensus size: 185
87590 TGAATTGACC
87600 CATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACATTGCTCATAGTGATGACTATA
1 CATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACATTGCTCATAGTGATGACTATA
87665 TGTATGATCCTCAGACTTGAGATCAAAGTCATCCTAACATATATTGTTGTATGTTTTGATACAGT
66 TGTATGATCCTCAGACTTGAGATCAAAGTCATCCTAACATATATTGTTGTATGTTTTGATACAGT
** *
87730 TAAACATGCTCTGTAACTGGTTGCACTATAAAGACTGTTATTGAATCTCGATATA
131 TAAACATGCTCTGTAACTACTTGCACTATAAAGACTGTTATTGAATCTAGATATA
87785 CATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACATTGCTCATAGTGATGACTATA
1 CATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACATTGCTCATAGTGATGACTATA
87850 TGTATGATCCTCAGACTTGAGATCAAAGTCATCCTAACATATATTGTTGTATGTTTTGATACAGT
66 TGTATGATCCTCAGACTTGAGATCAAAGTCATCCTAACATATATTGTTGTATGTTTTGATACAGT
*
87915 TAAACATGCTTTGTAACTACTTGCACTATAAAGACTGTTATTGAATCTAGATATA
131 TAAACATGCTCTGTAACTACTTGCACTATAAAGACTGTTATTGAATCTAGATATA
87970 TGTAGTGGGG
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 181 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (185 bp):
CATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACATTGCTCATAGTGATGACTATA
TGTATGATCCTCAGACTTGAGATCAAAGTCATCCTAACATATATTGTTGTATGTTTTGATACAGT
TAAACATGCTCTGTAACTACTTGCACTATAAAGACTGTTATTGAATCTAGATATA
Found at i:95679 original size:14 final size:14
Alignment explanation
Indices: 95660--95700 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
95650 TAAGGTCTAG
95660 CAGCCGTTTTACTT
1 CAGCCGTTTTACTT
95674 CAGCCGTTTTACTT
1 CAGCCGTTTTACTT
95688 CAGCCGTTTTACT
1 CAGCCGTTTTACT
95701 CAAAACTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (14 bp):
CAGCCGTTTTACTT
Found at i:117332 original size:114 final size:111
Alignment explanation
Indices: 117200--117433 Score: 373
Period size: 111 Copynumber: 2.1 Consensus size: 111
117190 TTTAAAATCA
*
117200 ATTTTAAAAGTACTTTAAAATTCCAGTGTTTAATA-TGTTATTATAAA-ATTTTTAATAAGATAA
1 ATTTT-AAAGTACTTTAAAATTCCAGTGTTTAATATTGTTATTATAAATATTTTTAAAAAGATAA
117263 AATATATGCTTTACACATTATATTATAAATTCAAAATATATTAACTTAAATT
65 AATATATGCTTTACAC-----ATTATAAATTCAAAATATATTAACTTAAATT
*
117315 ATTTTAAAGTACTTTAAAATTCTAGTGTTTAATATTGTTATTATAAATATTTTTAAAAAGATAAA
1 ATTTTAAAGTACTTTAAAATTCCAGTGTTTAATATTGTTATTATAAATATTTTTAAAAAGATAAA
*
117380 ATATATGCTTTACACATTATAAATTCAAAATATGTTAACTTAAATT
66 ATATATGCTTTACACATTATAAATTCAAAATATATTAACTTAAATT
117426 ATTTTAAA
1 ATTTTAAA
117434 TTTATTAATA
Statistics
Matches: 114, Mismatches: 3, Indels: 8
0.91 0.02 0.06
Matches are distributed among these distances:
111 38 0.33
114 28 0.25
115 17 0.15
116 31 0.27
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (111 bp):
ATTTTAAAGTACTTTAAAATTCCAGTGTTTAATATTGTTATTATAAATATTTTTAAAAAGATAAA
ATATATGCTTTACACATTATAAATTCAAAATATATTAACTTAAATT
Found at i:117471 original size:111 final size:110
Alignment explanation
Indices: 117241--117471 Score: 268
Period size: 111 Copynumber: 2.0 Consensus size: 110
117231 AATATGTTAT
*
117241 TATAAAATTTTTAATAAGATAAAATATATGCTTTACACATTATATTATAAATTCAAAATATATTA
1 TATAAAATTTTTAAAAAGATAAAATATATGCTTTACAC----TATTATAAATTCAAAATATATTA
* * * * * * *
117306 ACTTAAATTATTTTAAAGTACTTTAAAATTCTAGTGTTTAATATTGTTAT
62 ACTTAAATTATTTTAAAGTAC-TTAAAATTCTAATATATAAAATAGTCAA
*
117356 TATAAATATTTTTAAAAAGATAAAATATATGCTTTACAC-ATTATAAATTCAAAATATGTTAACT
1 TATAAA-ATTTTTAAAAAGATAAAATATATGCTTTACACTATTATAAATTCAAAATATATTAACT
* * *
117420 TAAATTATTTTAAATTTA-TTAATATTTTAATATATAAAATAGATCAA
65 TAAATTATTTTAAA-GTACTTAAAATTCTAATATATAAAATAG-TCAA
117467 TATAA
1 TATAA
117472 CAGATAATAA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
110 17 0.17
111 45 0.45
112 2 0.02
115 6 0.06
116 31 0.31
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (110 bp):
TATAAAATTTTTAAAAAGATAAAATATATGCTTTACACTATTATAAATTCAAAATATATTAACTT
AAATTATTTTAAAGTACTTAAAATTCTAATATATAAAATAGTCAA
Found at i:118330 original size:7 final size:7
Alignment explanation
Indices: 118318--118381 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
118308 TTTTATAATG
118318 AACCCTA
1 AACCCTA
118325 AACCCTA
1 AACCCTA
118332 AACCCT-
1 AACCCTA
*
118338 ACCCCTA
1 AACCCTA
118345 AACCCTA
1 AACCCTA
* *
118352 AAACATA
1 AACCCTA
* *
118359 AATCATA
1 AACCCTA
**
118366 AAGTCTA
1 AACCCTA
118373 AACCCTA
1 AACCCTA
118380 AA
1 AA
118382 TTTTAAATCC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
6 5 0.11
7 41 0.89
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:118345 original size:13 final size:13
Alignment explanation
Indices: 118327--118351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118317 GAACCCTAAA
118327 CCCTAAACCCTAC
1 CCCTAAACCCTAC
118340 CCCTAAACCCTA
1 CCCTAAACCCTA
118352 AAACATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (13 bp):
CCCTAAACCCTAC
Found at i:118500 original size:14 final size:14
Alignment explanation
Indices: 118483--118516 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
118473 CCATAAATCC
*
118483 TAAATCCTAAACTA
1 TAAACCCTAAACTA
118497 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
118511 CAAACC
1 TAAACC
118517 TTAACCCGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:120986 original size:23 final size:23
Alignment explanation
Indices: 120954--121002 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
120944 GTTCAAATTT
*
120954 GAGTTTGAGTTCGAGCTCGAATC
1 GAGTTCGAGTTCGAGCTCGAATC
*
120977 GAGTTCGAGTTCGAGCTTGAATC
1 GAGTTCGAGTTCGAGCTCGAATC
121000 GAG
1 GAG
121003 CTCAAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (23 bp):
GAGTTCGAGTTCGAGCTCGAATC
Found at i:121013 original size:23 final size:23
Alignment explanation
Indices: 120964--121024 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
120954 GAGTTTGAGT
* * * **
120964 TCGAGCTCGAATCGAGTTCGAGT
1 TCGAGCTTGAATCGAGCTCAAAA
120987 TCGAGCTTGAATCGAGCTCAAAA
1 TCGAGCTTGAATCGAGCTCAAAA
*
121010 TCGAGCTTCAATCGA
1 TCGAGCTTGAATCGA
121025 TCTCGAGTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCAAAA
Found at i:121501 original size:21 final size:21
Alignment explanation
Indices: 121478--121630 Score: 141
Period size: 21 Copynumber: 7.4 Consensus size: 21
121468 CTGCATTTCA
*
121478 CGTTGCGATAGTTGAAAATCA
1 CGTTGCGATAGTTGAAAATCG
* ** **
121499 CGTTGCGAT-TTTCCATTTCG
1 CGTTGCGATAGTTGAAAATCG
121519 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
* ** **
121540 CGTTGCGAT-TTTCCATTTCG
1 CGTTGCGATAGTTGAAAATCG
121560 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
* ** **
121581 CGTTGCGAT-TTTCCATTTCG
1 CGTTGCGATAGTTGAAAATCG
121601 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
121622 CGTTGCGAT
1 CGTTGCGAT
121631 TTTCCTTTTC
Statistics
Matches: 98, Mismatches: 31, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
20 44 0.45
21 54 0.55
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
CGTTGCGATAGTTGAAAATCG
Found at i:121523 original size:41 final size:41
Alignment explanation
Indices: 121471--121653 Score: 330
Period size: 41 Copynumber: 4.5 Consensus size: 41
121461 ATTCGCGCTG
* *
121471 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
121512 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
121553 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
121594 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
121635 CTTTTCTCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
121654 CTACAGTTGT
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:121524 original size:20 final size:20
Alignment explanation
Indices: 121499--121650 Score: 124
Period size: 20 Copynumber: 7.5 Consensus size: 20
121489 TTGAAAATCA
121499 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
121519 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
121540 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
121560 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
121581 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
121601 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
* *
121622 CGTTGCGATTTTCCTTTTCT
1 CGTTGCGATTTTCCATTTCG
121642 CGTTGCGAT
1 CGTTGCGAT
121651 AGTCTACAGT
Statistics
Matches: 97, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
20 52 0.54
21 45 0.46
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:121669 original size:22 final size:22
Alignment explanation
Indices: 121641--121721 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
121631 TTTCCTTTTC
121641 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* * * **
121663 TCGTTGC-A-ATTTTCCAAAT-
1 TCGTTGCGATAGTCTACAGTTG
121682 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* *
121704 TTGTTGCGATAGTTTACA
1 TCGTTGCGATAGTCTACA
121722 AATTCGTTGC
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 7 0.16
20 7 0.16
21 7 0.16
22 23 0.52
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:121686 original size:41 final size:43
Alignment explanation
Indices: 121641--121733 Score: 145
Period size: 41 Copynumber: 2.2 Consensus size: 43
121631 TTTCCTTTTC
* *
121641 TCGTTGCGATAGTCTACAGTTGTCGTTGC-A-ATTTTCCAAAT
1 TCGTTGCGATAGTCTACAGTTGTCGTTGCGATAGTTTACAAAT
*
121682 TCGTTGCGATAGTCTACAGTTGTTGTTGCGATAGTTTACAAAT
1 TCGTTGCGATAGTCTACAGTTGTCGTTGCGATAGTTTACAAAT
121725 TCGTTGCGA
1 TCGTTGCGA
121734 AAATTCGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 28 0.60
42 1 0.02
43 18 0.38
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (43 bp):
TCGTTGCGATAGTCTACAGTTGTCGTTGCGATAGTTTACAAAT
Found at i:121687 original size:82 final size:81
Alignment explanation
Indices: 121471--121694 Score: 290
Period size: 82 Copynumber: 2.7 Consensus size: 81
121461 ATTCGCGCTG
* * * *
121471 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCAATTC-CGTTGCGATAGTTGAAA
121536 ATCGCGTTGCGATTTTC
65 ATCGCGTTGCGATTTTC
* *
121553 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCAATTC-CGTTGCGATAGTTGAAA
121618 ATCGCGTTGCGATTTTC
65 ATCGCGTTGCGATTTTC
* * * * *
121635 CTTTTCTCGTTGCGATAGTCT-ACAGTTGTCGTTGCAATTTTCCAAATT-CGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCAATTTTCC-AATTCCGTTGCGATAGT
121695 CTACAGTTGT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
82 113 0.87
83 14 0.11
84 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (81 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCAATTCCGTTGCGATAGTTGAAAA
TCGCGTTGCGATTTTC
Found at i:121687 original size:123 final size:122
Alignment explanation
Indices: 121471--121694 Score: 317
Period size: 123 Copynumber: 1.8 Consensus size: 122
121461 ATTCGCGCTG
121471 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
* *
121536 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
66 ATCGCGTTGCAATTTTCCAATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * * * *
121594 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCTTTTCTCGTTGCGATAGTCT-AC
1 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAA
* *
121658 AGTTGTCGTTGCAATTTTCCAAATT-CGTTGCGATAGT
65 AATCG-CGTTGCAATTTTCC-AATTCCGTTGCGATAGT
121695 CTACAGTTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
123 72 0.81
124 14 0.16
125 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (122 bp):
CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
ATCGCGTTGCAATTTTCCAATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:121834 original size:6 final size:6
Alignment explanation
Indices: 121823--121857 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
121813 AAAGACACGT
121823 ACGACC ACGACC ACGA-C ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
121858 CGAGACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.49, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:121845 original size:17 final size:17
Alignment explanation
Indices: 121823--121856 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
121813 AAAGACACGT
121823 ACGACCACGACCACGAC
1 ACGACCACGACCACGAC
121840 ACGACCACGACCACGAC
1 ACGACCACGACCACGAC
121857 CCGAGACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.47, G:0.18, T:0.00
Consensus pattern (17 bp):
ACGACCACGACCACGAC
Found at i:121851 original size:23 final size:22
Alignment explanation
Indices: 121823--121865 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
121813 AAAGACACGT
121823 ACGACCACGACCACGACACGACC
1 ACGACCACGACC-CGACACGACC
*
121846 ACGACCACGACCCGAGACGA
1 ACGACCACGACCCGACACGA
121866 GACGAGACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.44, G:0.21, T:0.00
Consensus pattern (22 bp):
ACGACCACGACCCGACACGACC
Found at i:122899 original size:19 final size:19
Alignment explanation
Indices: 122875--122943 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
122865 CAACGAATTT
122875 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
122894 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
122916 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
122935 TCGCAACGA
1 TCGCAACGA
122944 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:122920 original size:41 final size:41
Alignment explanation
Indices: 122875--122984 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
122865 CAACGAATTT
*
122875 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACCA
122916 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACCA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACCA
*
122957 TCGCAACGCGAA-ATGGAAAATCGCAACG
1 TCGCAA--CGAATTTGGAAAATCGCAACG
122985 CGATTTTCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 46 0.71
42 15 0.23
43 4 0.06
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACCA
Found at i:122921 original size:22 final size:22
Alignment explanation
Indices: 122892--122964 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
122882 GAATTTGGAA
122892 AATCGCAACGACAACTGTAGAC
1 AATCGCAACGACAACTGTAGAC
* * * *
122914 TATCGCAACG--AA-TTTGGAA
1 AATCGCAACGACAACTGTAGAC
122933 AATCGCAACGACAACTGTAGAC
1 AATCGCAACGACAACTGTAGAC
*
122955 CATCGCAACG
1 AATCGCAACG
122965 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (22 bp):
AATCGCAACGACAACTGTAGAC
Found at i:123016 original size:21 final size:21
Alignment explanation
Indices: 122953--123016 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
122943 ACAACTGTAG
*
122953 ACCATCGCAACGCGAAATGGA
1 ACCATCGCAACGCGAAATGCA
* ** *
122974 A-AATCGCAACGCGATTTTCA
1 ACCATCGCAACGCGAAATGCA
122994 ACCATCGCAACGCGAAATGCA
1 ACCATCGCAACGCGAAATGCA
123015 AC
1 AC
123017 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.14
Consensus pattern (21 bp):
ACCATCGCAACGCGAAATGCA
Found at i:124019 original size:25 final size:25
Alignment explanation
Indices: 123990--124038 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
123980 TATTAACGAT
*
123990 TTCAATAATA-TTATAATAATATATA
1 TTCAA-AATATTTAAAATAATATATA
*
124015 TTCAAATTATTTAAAATAATATAT
1 TTCAAAATATTTAAAATAATATAT
124039 GGTGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTCAAAATATTTAAAATAATATATA
Found at i:124250 original size:25 final size:23
Alignment explanation
Indices: 124213--124302 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 23
124203 AAAATGTTTT
124213 TAATATATTTATTTATAATTATAAA
1 TAATATA-TTATTTAT-ATTATAAA
*
124238 TAATATA-TATATTATTTTA-AAA
1 TAATATATTAT-TTATATTATAAA
*
124260 TAATAT-TT-TTAATATTAT-AA
1 TAATATATTATTTATATTATAAA
* *
124280 TAATATATTCAATTATATCATAA
1 TAATATATT-ATTTATATTATAA
124303 TATTGTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
20 14 0.27
21 3 0.06
22 10 0.19
23 13 0.25
24 5 0.10
25 7 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATATTATTTATATTATAAA
Found at i:124275 original size:22 final size:22
Alignment explanation
Indices: 124222--124288 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
124212 TTAATATATT
124222 TATTTAT-A-ATTAT-AAATAA
1 TATTTATAATATTATAAAATAA
* * *
124241 TATATATATTATTTTAAAATAA
1 TATTTATAATATTATAAAATAA
*
124263 TATTTTTAATATTATAATAAT-A
1 TATTTATAATATTATAA-AATAA
124285 TATT
1 TATT
124289 CAATTATATC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.16
21 4 0.11
22 24 0.65
23 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTATAATATTATAAAATAA
Found at i:125445 original size:64 final size:64
Alignment explanation
Indices: 125370--125492 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
125360 GCATCAATCC
*
125370 ATGCATCGATGCACCATT-GAATAAATT-GAACATCGAATGCATTCCATGCATCGATGCACTCTC
1 ATGCATCGATGCA-C-TTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCACTCTC
125433 T
64 T
** ** *
125434 ATGCATCGATGCACTTGGGTTTTATTAAAACATCGAATGCATTTCATGCATCGATGCAC
1 ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCAC
125493 AAGCAATGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 2 0.04
63 6 0.12
64 43 0.84
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCACTCTCT
Found at i:125502 original size:64 final size:63
Alignment explanation
Indices: 125398--125557 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 63
125388 GAATAAATTG
* *** * * * *
125398 AACATCGAATGCATTCCATGCATCGATGCACTCTCTATGCATCGATGCACT-TGGGTTTTATTAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCGATGCACTAT-GCTATT-TTAA
*
125462 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCGATGCACTCATGCTATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCGATGCACT-ATGCTATTTTAA
* *
125526 AACATCGAATGCATTTTATGAATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
125558 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 78 0.94
65 4 0.05
66 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCGATGCACTATGCTATTTTAA
Found at i:127944 original size:210 final size:210
Alignment explanation
Indices: 127535--127951 Score: 770
Period size: 210 Copynumber: 2.0 Consensus size: 210
127525 GATGATCATC
127535 AAAGAGATTGATGATCTTAAAACTTCTTTAATAAGGTTGGTACAAAAGTTTTGAAAAAGGTGAGA
1 AAAGAGATTGATGATCTTAAAACTTCTTTAATAAGGTTGGTACAAAAGTTTTGAAAAAGGTGAGA
127600 ATTCAAAATCCAACTTTGTTAAGAAAAGTTTTAGAAACTACAATCATAGAAGTCCTCAAAGAACT
66 ATTCAAAATCCAACTTTGTTAAGAAAAGTTTTAGAAACTACAATCATAGAAGTCCTCAAAGAACT
127665 TCAAATGGTAAAATCATTAGAATATATGGGTTTCCTAAAGAACTCATTACTACTAAGATAAAAAT
131 TCAAATGGTAAAATCATTAGAATATATGGGTTTCCTAAAGAACTCATTACTACTAAGATAAAAAT
127730 CCTTCATAAATGTCA
196 CCTTCATAAATGTCA
127745 AAAGAGATTGATGATCTTAAAACTTCTTTAATAAGGTTGGTACAAAAGTTTTGAAAAAGGTGAGA
1 AAAGAGATTGATGATCTTAAAACTTCTTTAATAAGGTTGGTACAAAAGTTTTGAAAAAGGTGAGA
127810 ATTCAAAATCCAACTTTGTTAAGAAAAGTTTTAG-AACTACAATC-TAGAAGTCCTCAAAGAACT
66 ATTCAAAATCCAACTTTGTTAAGAAAAGTTTTAGAAACTACAATCATAGAAGTCCTCAAAGAACT
127873 TC-AATGGTAAAATCATTAGAAGTATATGGG-TTCCTAAAGAACTCATTACTACTAAAGATAAAA
131 TCAAATGGTAAAATCATTAGAA-TATATGGGTTTCCTAAAGAACTCATTACTACT-AAGAT-AAA
127936 ATATCCTTCATAAATG
193 A-ATCCTTCATAAATG
127952 GATACCTAAG
Statistics
Matches: 203, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
207 42 0.21
208 34 0.17
209 14 0.07
210 113 0.56
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (210 bp):
AAAGAGATTGATGATCTTAAAACTTCTTTAATAAGGTTGGTACAAAAGTTTTGAAAAAGGTGAGA
ATTCAAAATCCAACTTTGTTAAGAAAAGTTTTAGAAACTACAATCATAGAAGTCCTCAAAGAACT
TCAAATGGTAAAATCATTAGAATATATGGGTTTCCTAAAGAACTCATTACTACTAAGATAAAAAT
CCTTCATAAATGTCA
Found at i:133008 original size:21 final size:21
Alignment explanation
Indices: 132966--133009 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
132956 ACTCCGGGAG
* *
132966 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
132987 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
133008 CT
1 CT
133010 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:133299 original size:15 final size:15
Alignment explanation
Indices: 133279--133308 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
133269 CGCTTGAGAT
133279 GAGAGCTCGTTACCC
1 GAGAGCTCGTTACCC
133294 GAGAGCTCGTTACCC
1 GAGAGCTCGTTACCC
133309 TCATCCTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (15 bp):
GAGAGCTCGTTACCC
Found at i:134142 original size:64 final size:64
Alignment explanation
Indices: 134070--134194 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
134060 GCATCAATTC
* *
134070 ATGCATCGATGCACCATT-GAATAAATT-GAACATCGAATGCATTTCTTGCATCGATGCACTCTC
1 ATGCATCGATGCA-C-TTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTC
134133 T
64 T
** **
134134 ATGCATCGATGCACTTGGGTTTTATTAAAACATCGAATGCATTTCATGCATCGATGCACTC
1 ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCACTC
134195 AGGCTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 2 0.04
63 6 0.11
64 45 0.85
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTCT
Found at i:134184 original size:45 final size:45
Alignment explanation
Indices: 134134--134237 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
134124 TGCACTCTCT
* * *
134134 ATGCATCGATGCACT-TGGGTTTTATTAAAACATCGAATGCATTTC
1 ATGCATCGATGCACTCAGGCTATT-TTAAAACATCGAATGCATTTC
* *
134179 ATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTC
*
134224 ATGCATTGATGCAC
1 ATGCATCGATGCAC
134238 ACTTGGTGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTC
Found at i:140255 original size:34 final size:34
Alignment explanation
Indices: 140212--140328 Score: 112
Period size: 34 Copynumber: 3.4 Consensus size: 34
140202 TCTAATTTTG
140212 TCGGGTCGGGTCACGGGTGAAGGACCCCTTCTTC
1 TCGGGTCGGGTCACGGGTGAAGGACCCCTTCTTC
* *** ***
140246 TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATT-TTGC
1 TCGGGTC-GGGTC---ACGGGTGAAGGACCCCTTCTT-C
140284 -CGGGTCGGGTCACGGGTGAAGGACCCCTTCTTC
1 TCGGGTCGGGTCACGGGTGAAGGACCCCTTCTTC
140317 TCGGGTCGGGTC
1 TCGGGTCGGGTC
140329 GGGTGGACCA
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
33 12 0.19
34 20 0.32
35 5 0.08
36 5 0.08
37 8 0.13
38 12 0.19
ACGTcount: A:0.11, C:0.25, G:0.38, T:0.26
Consensus pattern (34 bp):
TCGGGTCGGGTCACGGGTGAAGGACCCCTTCTTC
Found at i:140326 original size:76 final size:71
Alignment explanation
Indices: 140175--140332 Score: 300
Period size: 71 Copynumber: 2.2 Consensus size: 71
140165 AAATTGTCTA
*
140175 TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATTTTGTCGGGTCGGGTCACGGGTGAAGGACCCC
1 TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATTTTGCCGGGTCGGGTCACGGGTGAAGGACCCC
140240 TTCTTC
66 TTCTTC
140246 TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATTTTGCCGGGTCGGGTCACGGGTGAAGGACCCC
1 TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATTTTGCCGGGTCGGGTCACGGGTGAAGGACCCC
140311 TTCTTC
66 TTCTTC
140317 TCGGGTC-GGGTCGGGT
1 TCGGGTCGGGGTCGGGT
140333 GGACCAAAAA
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 9 0.10
71 77 0.90
ACGTcount: A:0.11, C:0.22, G:0.40, T:0.27
Consensus pattern (71 bp):
TCGGGTCGGGGTCGGGTCGGGTGAAATTCTAATTTTGCCGGGTCGGGTCACGGGTGAAGGACCCC
TTCTTC
Found at i:148566 original size:16 final size:16
Alignment explanation
Indices: 148547--148580 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
148537 AGATAATACA
*
148547 ATATTTAAATAATGTT
1 ATATTTAAATAATCTT
*
148563 ATATTTTAATAATCTT
1 ATATTTAAATAATCTT
148579 AT
1 AT
148581 TTCTATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATTTAAATAATCTT
Found at i:152605 original size:35 final size:34
Alignment explanation
Indices: 152520--152606 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
152510 AATATGATTT
*
152520 TAAATACAACAAACTTACAATAATTATTAAATGG
1 TAAATACAACAAAATTACAATAATTATTAAATGG
* *
152554 TAAATGATAACCAAATTACAATAATTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA-T--TATTAAATGG
152592 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
152607 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 2 0.04
37 3 0.07
38 11 0.24
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAATTATTAAATGG
Found at i:152694 original size:49 final size:46
Alignment explanation
Indices: 152637--152728 Score: 130
Period size: 49 Copynumber: 1.9 Consensus size: 46
152627 AAGTCCAACA
*
152637 AATTTAACAAAATAAAATAAGTATTAAATGAGAAATAAAAAAAAATTAC
1 AATTTAACAAAATAAAATAAATA-TAAAT-A-AAATAAAAAAAAATTAC
* *
152686 AATTTAACAAAATAAAGTAAATATAAATATAATAAAAAAAAAT
1 AATTTAACAAAATAAAATAAATATAAATAAAATAAAAAAAAAT
152729 CTATCGATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 13 0.32
47 1 0.03
48 5 0.12
49 21 0.52
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.25
Consensus pattern (46 bp):
AATTTAACAAAATAAAATAAATATAAATAAAATAAAAAAAAATTAC
Found at i:154877 original size:111 final size:111
Alignment explanation
Indices: 154740--154961 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
154730 ATTACAAAAA
154740 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
154805 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGAAAAGTGTAGAGATAT
*
154851 TTAATTCTTAATCTAATAATCATGCATTAAATAAATTAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
154916 AATTAAAATGTTAAAATGTTACCGTATCAGAAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGAAAAGTGTAGAGATAT
154962 ATGATTTCCA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGAAAAGTGTAGAGATAT
Found at i:155066 original size:17 final size:18
Alignment explanation
Indices: 155025--155063 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
155015 ATTATATTAC
155025 TAAAATA-TTAAATAAAG
1 TAAAATACTTAAATAAAG
*
155042 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAG
155060 TAAA
1 TAAA
155064 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAG
Found at i:155302 original size:50 final size:51
Alignment explanation
Indices: 155248--155366 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
155238 AGATAACCAT
* *
155248 GTATAGCGCGGATCAGGGGGCACACTATAC-CCACTTGGCGCCAAATCACC
1 GTATAGCGCGGATCAGGGGGCACACTATACTCCACGTGACGCCAAATCACC
* ** * *
155298 GTATATCGCGGGGCAGGGGGCACGCTATACTCCACGTGACGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCACACTATACTCCACGTGACGCCAAATCACC
*
155349 GTATAGCGCGGTTCAGGG
1 GTATAGCGCGGATCAGGG
155367 CGCGCACTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 26 0.45
51 32 0.55
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGATCAGGGGGCACACTATACTCCACGTGACGCCAAATCACC
Found at i:156418 original size:6 final size:6
Alignment explanation
Indices: 156407--156495 Score: 122
Period size: 6 Copynumber: 16.2 Consensus size: 6
156397 GACACGTATT
156407 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
156455 ACC-CG A-CACG A-CACG A-CACG A-CACG A-CACG A-CACG A-CACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
156495 A
1 A
156496 GATGAGACGG
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
4 1 0.01
5 36 0.44
6 45 0.55
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:157001 original size:6 final size:6
Alignment explanation
Indices: 156990--157032 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
156980 TCGTCTCGTC
156990 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
157033 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:167673 original size:18 final size:18
Alignment explanation
Indices: 167652--167699 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
167642 GTTGTTTTTA
167652 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
*
167670 AAATAAAAGAA-AATAATT
1 AAATAAAA-AATAAGAATT
167688 AAATAAATAAAT
1 AAATAAA-AAAT
167700 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:168487 original size:77 final size:75
Alignment explanation
Indices: 168323--168518 Score: 272
Period size: 77 Copynumber: 2.6 Consensus size: 75
168313 AAATACTAAT
* * * *
168323 TAAAACTATTTAAACTAAAATACCTAAAA-AAA-ATAATAT-TTAAAATAATATTCTAAATCCTA
1 TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACCTA
168385 ATTAAAATAC
66 ATTAAAATAC
*
168395 TAAAAATATATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAAAC
1 T-AAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCT-AAAAC
*
168460 TTAATTAAAATAC
63 CTAATTAAAATAC
*
168473 TAAAACCTATTTAAACTAAAATACATAAAACAAAGATAAAATATAA
1 TAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
168519 TGTTTAAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
72 1 0.01
73 4 0.04
74 23 0.21
75 3 0.03
76 6 0.06
77 55 0.50
78 17 0.16
ACGTcount: A:0.60, C:0.11, G:0.01, T:0.28
Consensus pattern (75 bp):
TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACCTA
ATTAAAATAC
Found at i:169926 original size:13 final size:13
Alignment explanation
Indices: 169908--169953 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
169898 GTCATAAATC
*
169908 TATGACGCGCATT
1 TATGACGCACATT
**
169921 TATGACATACATT
1 TATGACGCACATT
169934 TATGACGCACATT
1 TATGACGCACATT
169947 TATGACG
1 TATGACG
169954 TTCATTGAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:169929 original size:26 final size:26
Alignment explanation
Indices: 169900--169952 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
169890 GTAATTGCGT
*
169900 CATAAATCTATGACGCGCATTTATGA
1 CATAAATCTATGACGCACATTTATGA
* *
169926 CATACATTTATGACGCACATTTATGA
1 CATAAATCTATGACGCACATTTATGA
169952 C
1 C
169953 GTTCATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
CATAAATCTATGACGCACATTTATGA
Found at i:169959 original size:13 final size:13
Alignment explanation
Indices: 169917--169959 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
169907 CTATGACGCG
*
169917 CATTTATGACATA
1 CATTTATGACGTA
*
169930 CATTTATGACGCA
1 CATTTATGACGTA
*
169943 CATTTATGACGTT
1 CATTTATGACGTA
169956 CATT
1 CATT
169960 GAGCGTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTTATGACGTA
Found at i:174192 original size:30 final size:30
Alignment explanation
Indices: 174113--174180 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
174103 AATGGAGTTC
*
174113 AAGATACTGGGATAAGAGAAGATAGCGAAT
1 AAGATACTGGGATAAGAGAGGATAGCGAAT
* *
174143 AAGATACTGGGATAGGAGAGGATAGTGAAT
1 AAGATACTGGGATAAGAGAGGATAGCGAAT
174173 AAGATACT
1 AAGATACT
174181 TGGACACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (30 bp):
AAGATACTGGGATAAGAGAGGATAGCGAAT
Found at i:175112 original size:11 final size:11
Alignment explanation
Indices: 175085--175116 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
175075 TAAAGTTTGC
175085 TGAAAATAAAA
1 TGAAAATAAAA
175096 TG-AAATAAAA
1 TGAAAATAAAA
175106 TGAAAATAAAA
1 TGAAAATAAAA
175117 ACAAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (11 bp):
TGAAAATAAAA
Found at i:181734 original size:20 final size:19
Alignment explanation
Indices: 181696--181745 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
181686 AAAATGTTTT
* *
181696 TATGAATAATACTATACTG
1 TATGAATAGTACGATACTG
181715 TATGAATAGTATCGATACTG
1 TATGAATAGTA-CGATACTG
* *
181735 TGTGAAGAGTA
1 TATGAATAGTA
181746 ATGAACCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (19 bp):
TATGAATAGTACGATACTG
Found at i:199125 original size:9 final size:9
Alignment explanation
Indices: 199111--199146 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
199101 TACACATTCA
199111 TATATAAGC
1 TATATAAGC
*
199120 TATATAAAC
1 TATATAAGC
199129 TTATATAAGC
1 -TATATAAGC
199139 TATATAAG
1 TATATAAG
199147 TTTGATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (9 bp):
TATATAAGC
Found at i:208286 original size:20 final size:20
Alignment explanation
Indices: 208261--208361 Score: 107
Period size: 20 Copynumber: 5.1 Consensus size: 20
208251 TTTCCCACAA
208261 ATTTGTAAAACCTTCGGGTC
1 ATTTGTAAAACCTTCGGGTC
* ** *
208281 ATTTGT-AAACCTACTCGTA
1 ATTTGTAAAACCTTCGGGTC
*
208300 ATTTGTAAAACC-ACTGGGTC
1 ATTTGTAAAACCTTC-GGGTC
*
208320 ATTTGTAAAACCTTCGGGTA
1 ATTTGTAAAACCTTCGGGTC
* *
208340 ATTTGTAAATCCTTTGGGTC
1 ATTTGTAAAACCTTCGGGTC
208360 AT
1 AT
208362 CTGTCAGTCT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.26
20 48 0.73
21 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
ATTTGTAAAACCTTCGGGTC
Found at i:208358 original size:40 final size:39
Alignment explanation
Indices: 208260--208361 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 39
208250 ATTTCCCACA
* *
208260 AATTTGTAAAACCTTCGGGTCATTTGTAAACCTACTCGT
1 AATTTGTAAAACCTTTGGGTCATTTGTAAACCTACGCGT
** * *
208299 AATTTGTAAAACCACTGGGTCATTTGTAAAACCTTCGGGT
1 AATTTGTAAAACCTTTGGGTCATTTGT-AAACCTACGCGT
*
208339 AATTTGTAAATCCTTTGGGTCAT
1 AATTTGTAAAACCTTTGGGTCAT
208362 CTGTCAGTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 24 0.45
40 29 0.55
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (39 bp):
AATTTGTAAAACCTTTGGGTCATTTGTAAACCTACGCGT
Found at i:208546 original size:36 final size:36
Alignment explanation
Indices: 208495--208671 Score: 255
Period size: 36 Copynumber: 4.9 Consensus size: 36
208485 CTCAAGTAAA
*
208495 TCATTTTCAATCTTCACGGAAGAGTAGTGAAGTCAG
1 TCATTTTCAACCTTCACGGAAGAGTAGTGAAGTCAG
* * *
208531 TCATTTTCAACCTTCACGGAAGAGTAATGAAGTTAA
1 TCATTTTCAACCTTCACGGAAGAGTAGTGAAGTCAG
* *
208567 CCATTTTCAACCTTCACGAAAGAGTAGTGAAGTCAG
1 TCATTTTCAACCTTCACGGAAGAGTAGTGAAGTCAG
* * *
208603 TCATTTTCAACCTTCACGAAAGAATAGTGAAGTTAG
1 TCATTTTCAACCTTCACGGAAGAGTAGTGAAGTCAG
* *
208639 TCATTTTCAACCTTTACAGAAGAGTAGTGAAGT
1 TCATTTTCAACCTTCACGGAAGAGTAGTGAAGT
208672 AATACAATTC
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 125 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (36 bp):
TCATTTTCAACCTTCACGGAAGAGTAGTGAAGTCAG
Found at i:208897 original size:3 final size:3
Alignment explanation
Indices: 208885--209009 Score: 92
Period size: 3 Copynumber: 40.7 Consensus size: 3
208875 GTGTCGTTTC
* * *
208885 TAT TATT TAT TAT ATAT AAT ATAT TAT TAT TAT TAT TA- TAT AAT ATAG
1 TAT TA-T TAT TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * * * * *
208933 TAG CAT TAT TAA TAT TAT TAT TAT TA- TAT AAT ATAG TAG CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
208978 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
209010 CAATACCCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.04
3 83 0.86
4 10 0.10
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:208956 original size:36 final size:36
Alignment explanation
Indices: 208909--208993 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
208899 TATAATATAT
208909 TATTATTATTATTATATAATATAGTAGCATTATTAA
1 TATTATTATTATTATATAATATAGTAGCATTATTAA
*
208945 TATTATTATTATTATATAATATAGTAGCATTATTAT
1 TATTATTATTATTATATAATATAGTAGCATTATTAA
208981 TATTATTATTATT
1 TATTATTATTATT
208994 GTTATTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (36 bp):
TATTATTATTATTATATAATATAGTAGCATTATTAA
Found at i:208957 original size:39 final size:38
Alignment explanation
Indices: 208904--208998 Score: 158
Period size: 36 Copynumber: 2.5 Consensus size: 38
208894 TTATATATAA
208904 TATATTATTATTATTATTATATAATATAGTAGCATTAT
1 TATATTATTATTATTATTATATAATATAGTAGCATTAT
208942 TA-A-TATTATTATTATTATATAATATAGTAGCATTAT
1 TATATTATTATTATTATTATATAATATAGTAGCATTAT
*
208978 TATTATTATTATTATTGTTAT
1 TA-TATTATTATTATTATTAT
208999 TATTATTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.66
37 1 0.02
38 3 0.06
39 14 0.26
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (38 bp):
TATATTATTATTATTATTATATAATATAGTAGCATTAT
Done.