Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000816.1 Kokia drynarioides strain JFW-HI SEQ_111903, 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: 253564
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 20 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:6713 original size:18 final size:19
Alignment explanation
Indices: 6692--6727 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6682 AATTTTGAAT
*
6692 TTTTTAAT-TTTTTTTAAA
1 TTTTTAATAATTTTTTAAA
6710 TTTTTAATAATTTTTTAA
1 TTTTTAATAATTTTTTAA
6728 TTAATCTAGT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAATAATTTTTTAAA
Found at i:13823 original size:152 final size:150
Alignment explanation
Indices: 13547--13839 Score: 478
Period size: 152 Copynumber: 1.9 Consensus size: 150
13537 TCAAGCTCAT
13547 TTCAATAATTAAGTTTAAGGTTAACAATATATATTAAGGGCAACAACATAATTTAATAAAAAAAA
1 TTCAATAATTAAGTTTAAGGTTAACAATATATATTAAGGGCAACAACATAATTTAATAAAAAAAA
* * *
13612 AATGAAAAGCTCGATAAGGCTTGCGAGTCATTCGAGTCAAATACTACTCAGCTCTAATTCAGCTC
66 AATGAAAAGCTCGATAAGACTTGCGAGTCATTCGAGTCAAATACTACTAAGCTCGAATTCAGCTC
*
13677 GACCGATAGCTCAAAGTCCA
131 AACCGATAGCTCAAAGTCCA
* * *
13697 TTCAATAATTAAGTTTAAGGTTAACAATATATATTAAGGGCAATAACATTATTTAGTAATATAAA
1 TTCAATAATTAAGTTTAAGGTTAACAATATATATTAAGGGCAACAACATAATTTAATAA-A-AAA
* * *
13762 AATATGAAAAGCTCGATAAGATTTGCGAGTCTTTCGAGTCAAATACTACTAAGCTCGAATTCAGC
64 AAAATGAAAAGCTCGATAAGACTTGCGAGTCATTCGAGTCAAATACTACTAAGCTCGAATTCAGC
13827 TCAACCGATAGCT
129 TCAACCGATAGCT
13840 TAAGGTCGAA
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
150 56 0.43
151 1 0.01
152 74 0.56
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (150 bp):
TTCAATAATTAAGTTTAAGGTTAACAATATATATTAAGGGCAACAACATAATTTAATAAAAAAAA
AATGAAAAGCTCGATAAGACTTGCGAGTCATTCGAGTCAAATACTACTAAGCTCGAATTCAGCTC
AACCGATAGCTCAAAGTCCA
Found at i:14466 original size:22 final size:22
Alignment explanation
Indices: 14424--14467 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14414 TGATAATTTT
* *
14424 TTAAAAGTTTTGGAAGATATAA
1 TTAAAAGTTTTGAAAAATATAA
14446 TTAAAA-TTTTGAAAAATTATAA
1 TTAAAAGTTTTGAAAAA-TATAA
14468 AAGAGTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (22 bp):
TTAAAAGTTTTGAAAAATATAA
Found at i:15897 original size:3 final size:3
Alignment explanation
Indices: 15880--15968 Score: 76
Period size: 3 Copynumber: 30.0 Consensus size: 3
15870 GCTACAATCA
* * * *
15880 AAT AAT AAC AA- AAT AAT AAA AAT AAT AGT AACA AAT AAT AAT ACA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT
* * *
15925 ATT AA- GAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15969 TAGCATGATA
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
2 3 0.04
3 62 0.91
4 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16191 original size:17 final size:14
Alignment explanation
Indices: 16160--16205 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
16150 AAAGTGCTAG
*
16160 AAATAAATAAATAA
1 AAATAAAAAAATAA
16174 AAGATAAATAAGAATAA
1 AA-ATAAA-AA-AATAA
16191 AAATAAAAAAATAA
1 AAATAAAAAAATAA
16205 A
1 A
16206 TGACATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 6 0.21
17 7 0.25
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:20202 original size:29 final size:29
Alignment explanation
Indices: 20165--20228 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
20155 TTATTATATC
20165 GCATATCTACTTGTCATTACCTGTTTATA
1 GCATATCTACTTGTCATTACCTGTTTATA
20194 GCATATCTACTTGTCATTACCTGTTTATA
1 GCATATCTACTTGTCATTACCTGTTTATA
*
20223 CCATAT
1 GCATAT
20229 TAAACTTGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (29 bp):
GCATATCTACTTGTCATTACCTGTTTATA
Found at i:21333 original size:89 final size:89
Alignment explanation
Indices: 21181--21450 Score: 335
Period size: 89 Copynumber: 2.9 Consensus size: 89
21171 GGTATTCGAT
* * * *
21181 TATCTCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAGATAA
1 TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
*
21246 AGAAATATTGCCTCGATTTAAGTG
66 AGAAATATTGCCTCGATTTAAGGG
*
21270 TATCTTGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
1 TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
* *
21335 AGAAACATTGCGTCGATTTAAGGG
66 AGAAATATTGCCTCGATTTAAGGG
* *
21359 TAGTCGATTATCCCGGTTTAAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACT
1 TA-TC---T-T---GATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC-
* * *
21424 CGAA-ATAAAGGAATATCGCCTCGATTT
57 CAAAGATAAAGAAATATTGCCTCGATTT
21451 TAAATATTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
89 83 0.53
90 2 0.01
93 1 0.01
94 1 0.01
97 66 0.42
98 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (89 bp):
TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
AGAAATATTGCCTCGATTTAAGGG
Found at i:21763 original size:29 final size:29
Alignment explanation
Indices: 21702--21948 Score: 238
Period size: 30 Copynumber: 8.4 Consensus size: 29
21692 ATCAAGGTCG
* * *
21702 AAAATG-AAGTTTTGGAGAGTTTG-GGTTT
1 AAAATGTAATTTTTAGA-AGTTTGAGGGTT
* * *
21730 AAAATGCAA-TTTTAAAATGTTCGAGGGTT
1 AAAATGTAATTTTTAGAA-GTTTGAGGGTT
21759 AAAATGTAATTTTTAGAAGTTTGAGGGTT
1 AAAATGTAATTTTTAGAAGTTTGAGGGTT
21788 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGAGGGTT
* * *
21818 AAAATGTAATTTTGGAGAAGTTTAAGGGTC
1 AAAATGTAATTTT-TAGAAGTTTGAGGGTT
* *
21848 AAAATGTAATCTTAAGAAGTTT-AGAGGTT
1 AAAATGTAATTTTTAGAAGTTTGAG-GGTT
*
21877 AAAATGGAATTTTTGAGAAGTTT-AGGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGA-GGGTT
* *
21907 AAAATGAAATTTTTGAAAAGTTT-AGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGAGGGTT
21936 AAAAT-TCAATTTT
1 AAAATGT-AATTTT
21949 GGAAAGTTTT
Statistics
Matches: 190, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.01
28 17 0.09
29 76 0.40
30 95 0.50
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTGAGGGTT
Found at i:21960 original size:59 final size:57
Alignment explanation
Indices: 21702--21962 Score: 257
Period size: 59 Copynumber: 4.5 Consensus size: 57
21692 ATCAAGGTCG
* * *
21702 AAAATG-AAGTTTTGGAG-AGTTT-GGGTTTAAAATGCAATTTTAAAATGTTCGAGGGTT
1 AAAATGTAA-TTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAAAA-GTT-TAGGGTT
* *
21759 AAAATGTAATTTT-TAGAAGTTT-GAGGGTTAAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTAG-GGGTTAAAATGTAA-TTTT-AAAAGTTT-AGGGTT
* * *
21818 AAAATGTAATTTTGGAGAAGTTTAAGGGTCAAAATGTAATCTTAAGAAGTTTAGAGGTT
1 AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAA-AAGTTTAG-GGTT
* * *
21877 AAAATGGAATTTTTGAGAAGTTTAGGGGTTAAAATGAAATTTTTGAAAAGTTTAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAA-TTTT-AAAAGTTTAGGGTT
21936 AAAAT-TCAATTTTGGA-AAGTTTTAGGG
1 AAAATGT-AATTTTGGAGAAG-TTTAGGG
21963 TCAAAATATG
Statistics
Matches: 172, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
56 2 0.01
57 16 0.09
58 20 0.12
59 97 0.56
60 35 0.20
61 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (57 bp):
AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAAAAGTTTAGGGTT
Found at i:21988 original size:29 final size:28
Alignment explanation
Indices: 21775--21969 Score: 110
Period size: 30 Copynumber: 6.6 Consensus size: 28
21765 TAATTTTTAG
* *
21775 AAGTTTGAGGGTTAAAATGT-AATTTTTGA
1 AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
*
21804 GAAGTTTGAGGGTTAAAATGT-AATTTTGGA
1 -AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
* *
21834 GAAGTTTAAGGGTCAAAATGT-AATCTT-AA
1 -AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
* ** *
21863 GAAGTTTAGAGGTTAAAATGGAATTTTTGA
1 -AAGTTTAG-GGTCAAAATTCAATTTTGGA
* ** *
21893 GAAGTTTAGGGGTTAAAATGAAATTTTTGAA
1 -AAGTTTA-GGGTCAAAATTCAA-TTTTGGA
*
21924 AAGTTTAGGGTTAAAATTCAATTTTGGA
1 AAGTTTAGGGTCAAAATTCAATTTTGGA
21952 AAGTTTTAGGGTCAAAAT
1 AAG-TTTAGGGTCAAAAT
21970 ATGATTTATG
Statistics
Matches: 143, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
28 11 0.08
29 46 0.32
30 80 0.56
31 6 0.04
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (28 bp):
AAGTTTAGGGTCAAAATTCAATTTTGGA
Found at i:23747 original size:13 final size:14
Alignment explanation
Indices: 23729--23759 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23719 TTGTTTGGAC
23729 AATTGGGTTTT-GT
1 AATTGGGTTTTGGT
23742 AATTGGGTTTTGGT
1 AATTGGGTTTTGGT
23756 AATT
1 AATT
23760 TGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
AATTGGGTTTTGGT
Found at i:23825 original size:23 final size:22
Alignment explanation
Indices: 23791--23837 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
23781 GGACATTATT
23791 AATTTAAATAAAATTAAACTTA
1 AATTTAAATAAAATTAAACTTA
* *
23813 AATTTATAATAAATTTAAATTTA
1 AATTTA-AATAAAATTAAACTTA
23836 AA
1 AA
23838 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTAAATAAAATTAAACTTA
Found at i:23830 original size:17 final size:16
Alignment explanation
Indices: 23791--23850 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
23781 GGACATTATT
*
23791 AATTTAAA-TAAAATTA
1 AATTTAAATTTAAA-TA
*
23807 AACTTAAATTTATAATA
1 AATTTAAATTTA-AATA
*
23824 AATTTAAATTTAAAAA
1 AATTTAAATTTAAATA
23840 AATTTTAAATT
1 AA-TTTAAATT
23851 CTGTTGGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 12 0.32
17 23 0.62
18 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:24505 original size:209 final size:209
Alignment explanation
Indices: 24135--24554 Score: 662
Period size: 209 Copynumber: 2.0 Consensus size: 209
24125 TTCAGTGGTT
* **
24135 TGGTGTCATTGATTTGGTCTACTTCTTAGTATCTCATCAAGAAGATGACTGTATCACTTGTTTTG
1 TGGTGTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACTACATCACTTGTTTTG
* **
24200 ATCTACTTCTTTGTGTCTCATCAGGAAGACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAAG
66 ATCCACTTCCCTGTGTCTCATCAGGAAGACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAAG
24265 GTAACCACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTT
131 GTAACCACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTT
*
24330 GCTCGCTTTGAGCC
196 GCTCACTTTGAGCC
* * *
24344 TGGTTTCATTGATTTGGTCTACTTCTCCGTATCTCATCAAGAAGCTGA-TCACATCACTTGTTTT
1 TGGTGTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACT-ACATCACTTGTTTT
** * * *
24408 GATCCACTTCCCTGTGTCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAA
65 GATCCACTTCCCTGTGTCTCATCAGGAAGACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAA
* * *
24473 GGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
130 GGTAACCACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATT
24538 TGCTCACTTTGAGCC
195 TGCTCACTTTGAGCC
24553 TG
1 TG
24555 NNNNNNNNNN
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
208 1 0.01
209 191 0.99
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (209 bp):
TGGTGTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACTACATCACTTGTTTTG
ATCCACTTCCCTGTGTCTCATCAGGAAGACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAAG
GTAACCACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTT
GCTCACTTTGAGCC
Found at i:25937 original size:3 final size:3
Alignment explanation
Indices: 25920--26008 Score: 76
Period size: 3 Copynumber: 30.0 Consensus size: 3
25910 GCTACAATCA
* * * *
25920 AAT AAT AAC AA- AAT AAT AAA AAT AAT AGT AACA AAT AAT AAT ACA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT
* * *
25965 ATT AA- GAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26009 TAGCATGATA
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
2 3 0.04
3 62 0.91
4 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:26231 original size:17 final size:14
Alignment explanation
Indices: 26200--26245 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
26190 AAAGTGCTAG
*
26200 AAATAAATAAATAA
1 AAATAAAAAAATAA
26214 AAGATAAATAAGAATAA
1 AA-ATAAA-AA-AATAA
26231 AAATAAAAAAATAA
1 AAATAAAAAAATAA
26245 A
1 A
26246 TGACATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 6 0.21
17 7 0.25
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:30242 original size:29 final size:29
Alignment explanation
Indices: 30205--30268 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
30195 TTATTATATC
30205 GCATATCTACTTGTCATTACCTGTTTATA
1 GCATATCTACTTGTCATTACCTGTTTATA
30234 GCATATCTACTTGTCATTACCTGTTTATA
1 GCATATCTACTTGTCATTACCTGTTTATA
*
30263 CCATAT
1 GCATAT
30269 TAAACTTGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (29 bp):
GCATATCTACTTGTCATTACCTGTTTATA
Found at i:31373 original size:89 final size:89
Alignment explanation
Indices: 31221--31490 Score: 335
Period size: 89 Copynumber: 2.9 Consensus size: 89
31211 GGTATTCGAT
* * * *
31221 TATCTCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAGATAA
1 TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
*
31286 AGAAATATTGCCTCGATTTAAGTG
66 AGAAATATTGCCTCGATTTAAGGG
*
31310 TATCTTGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
1 TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
* *
31375 AGAAACATTGCGTCGATTTAAGGG
66 AGAAATATTGCCTCGATTTAAGGG
* *
31399 TAGTCGATTATCCCGGTTTAAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACT
1 TA-TC---T-T---GATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC-
* * *
31464 CGAA-ATAAAGGAATATCGCCTCGATTT
57 CAAAGATAAAGAAATATTGCCTCGATTT
31491 TAAATATTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
89 83 0.53
90 2 0.01
93 1 0.01
94 1 0.01
97 66 0.42
98 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (89 bp):
TATCTTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAAAGATAA
AGAAATATTGCCTCGATTTAAGGG
Found at i:31803 original size:29 final size:29
Alignment explanation
Indices: 31742--31988 Score: 238
Period size: 30 Copynumber: 8.4 Consensus size: 29
31732 ATCAAGGTCG
* * *
31742 AAAATG-AAGTTTTGGAGAGTTTG-GGTTT
1 AAAATGTAATTTTTAGA-AGTTTGAGGGTT
* * *
31770 AAAATGCAA-TTTTAAAATGTTCGAGGGTT
1 AAAATGTAATTTTTAGAA-GTTTGAGGGTT
31799 AAAATGTAATTTTTAGAAGTTTGAGGGTT
1 AAAATGTAATTTTTAGAAGTTTGAGGGTT
31828 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGAGGGTT
* * *
31858 AAAATGTAATTTTGGAGAAGTTTAAGGGTC
1 AAAATGTAATTTT-TAGAAGTTTGAGGGTT
* *
31888 AAAATGTAATCTTAAGAAGTTT-AGAGGTT
1 AAAATGTAATTTTTAGAAGTTTGAG-GGTT
*
31917 AAAATGGAATTTTTGAGAAGTTT-AGGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGA-GGGTT
* *
31947 AAAATGAAATTTTTGAAAAGTTT-AGGGTT
1 AAAATGTAATTTTT-AGAAGTTTGAGGGTT
31976 AAAAT-TCAATTTT
1 AAAATGT-AATTTT
31989 GGAAAGTTTT
Statistics
Matches: 190, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.01
28 17 0.09
29 76 0.40
30 95 0.50
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTGAGGGTT
Found at i:32000 original size:59 final size:57
Alignment explanation
Indices: 31742--32002 Score: 257
Period size: 59 Copynumber: 4.5 Consensus size: 57
31732 ATCAAGGTCG
* * *
31742 AAAATG-AAGTTTTGGAG-AGTTT-GGGTTTAAAATGCAATTTTAAAATGTTCGAGGGTT
1 AAAATGTAA-TTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAAAA-GTT-TAGGGTT
* *
31799 AAAATGTAATTTT-TAGAAGTTT-GAGGGTTAAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTAG-GGGTTAAAATGTAA-TTTT-AAAAGTTT-AGGGTT
* * *
31858 AAAATGTAATTTTGGAGAAGTTTAAGGGTCAAAATGTAATCTTAAGAAGTTTAGAGGTT
1 AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAA-AAGTTTAG-GGTT
* * *
31917 AAAATGGAATTTTTGAGAAGTTTAGGGGTTAAAATGAAATTTTTGAAAAGTTTAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAA-TTTT-AAAAGTTTAGGGTT
31976 AAAAT-TCAATTTTGGA-AAGTTTTAGGG
1 AAAATGT-AATTTTGGAGAAG-TTTAGGG
32003 TCAAAATATG
Statistics
Matches: 172, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
56 2 0.01
57 16 0.09
58 20 0.12
59 97 0.56
60 35 0.20
61 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (57 bp):
AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTAAAAGTTTAGGGTT
Found at i:32028 original size:29 final size:28
Alignment explanation
Indices: 31815--32009 Score: 110
Period size: 30 Copynumber: 6.6 Consensus size: 28
31805 TAATTTTTAG
* *
31815 AAGTTTGAGGGTTAAAATGT-AATTTTTGA
1 AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
*
31844 GAAGTTTGAGGGTTAAAATGT-AATTTTGGA
1 -AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
* *
31874 GAAGTTTAAGGGTCAAAATGT-AATCTT-AA
1 -AAGTTT-AGGGTCAAAAT-TCAATTTTGGA
* ** *
31903 GAAGTTTAGAGGTTAAAATGGAATTTTTGA
1 -AAGTTTAG-GGTCAAAATTCAATTTTGGA
* ** *
31933 GAAGTTTAGGGGTTAAAATGAAATTTTTGAA
1 -AAGTTTA-GGGTCAAAATTCAA-TTTTGGA
*
31964 AAGTTTAGGGTTAAAATTCAATTTTGGA
1 AAGTTTAGGGTCAAAATTCAATTTTGGA
31992 AAGTTTTAGGGTCAAAAT
1 AAG-TTTAGGGTCAAAAT
32010 ATGATTTATG
Statistics
Matches: 143, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
28 11 0.08
29 46 0.32
30 80 0.56
31 6 0.04
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (28 bp):
AAGTTTAGGGTCAAAATTCAATTTTGGA
Found at i:33787 original size:13 final size:14
Alignment explanation
Indices: 33769--33799 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
33759 TTGTTTGGAC
33769 AATTGGGTTTT-GT
1 AATTGGGTTTTGGT
33782 AATTGGGTTTTGGT
1 AATTGGGTTTTGGT
33796 AATT
1 AATT
33800 TGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
AATTGGGTTTTGGT
Found at i:33865 original size:23 final size:22
Alignment explanation
Indices: 33831--33877 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
33821 GGACATTATT
33831 AATTTAAATAAAATTAAACTTA
1 AATTTAAATAAAATTAAACTTA
* *
33853 AATTTATAATAAATTTAAATTTA
1 AATTTA-AATAAAATTAAACTTA
33876 AA
1 AA
33878 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTAAATAAAATTAAACTTA
Found at i:33870 original size:17 final size:16
Alignment explanation
Indices: 33831--33890 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
33821 GGACATTATT
*
33831 AATTTAAA-TAAAATTA
1 AATTTAAATTTAAA-TA
*
33847 AACTTAAATTTATAATA
1 AATTTAAATTTA-AATA
*
33864 AATTTAAATTTAAAAA
1 AATTTAAATTTAAATA
33880 AATTTTAAATT
1 AA-TTTAAATT
33891 CTGTTGGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 12 0.32
17 23 0.62
18 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:34679 original size:209 final size:209
Alignment explanation
Indices: 34180--34688 Score: 757
Period size: 209 Copynumber: 2.4 Consensus size: 209
34170 TGGTTTGGTG
* * *
34180 TCATTGATTTGGTCTACTTCTTAGTATCTCATCAAGAAGATGACTGTATCACTTGTTTTGATCTA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTGATCTA
* **
34245 CTTCTTTGTGTCTCATCAGGAAGACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAAGGTAAC
66 CTTCTCTGTGTCTCATCAGGAAGATGGATCTAGCTCACTTCTCTGTATCTCATCAGGAAGGTAAC
*
34310 CACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCG
131 CACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCA
* *
34375 CTTTGAGCCTGGTT
196 CTTTGAGCCTGATC
* * * * *
34389 TCATTGATTTGGTCTACTTCTCCGTATCTCATCAAGAAGCTGATCACATCACTTGTTTTGATCCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTGATCTA
* * * *
34454 CTTCCCTGTGTCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAAC
66 CTTCTCTGTGTCTCATCAGGAAGATGGATCTAGCTCACTTCTCTGTATCTCATCAGGAAGGTAAC
* * *
34519 CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
131 CACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCA
34584 CTTTGAGCCTGATC
196 CTTTGAGCCTGATC
* * ** * *
34598 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGCAGATGACCGCATCACTTGTTTCAATTTG
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTGATCTA
* *
34663 CTTCTCTGTATCTCATCAGAAAGATG
66 CTTCTCTGTGTCTCATCAGGAAGATG
34689 ACTGCATCAC
Statistics
Matches: 265, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
209 265 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
TCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTGATCTA
CTTCTCTGTGTCTCATCAGGAAGATGGATCTAGCTCACTTCTCTGTATCTCATCAGGAAGGTAAC
CACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCA
CTTTGAGCCTGATC
Found at i:34716 original size:49 final size:49
Alignment explanation
Indices: 34613--34735 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 49
34603 GATTTGGTCT
* * * **
34613 ACTTCTCAGTATCTCATCAGGCAGATGACCGCATCACTTGTTTCAATTT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCC
* * * **
34662 GCTTCTCTGTATCTCATCAGAAAGATGACTGCATCACTTATTTTGATCC
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCC
* *
34711 ACTTCTCTGTGTCTAATCAGGAAGA
1 ACTTCTCTGTATCTCATCAGGAAGA
34736 CGGATTTGGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (49 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCC
Found at i:34734 original size:258 final size:250
Alignment explanation
Indices: 34405--34936 Score: 789
Period size: 258 Copynumber: 2.1 Consensus size: 250
34395 ATTTGGTCTA
* * * *
34405 CTTCTCCGTATCTCATCA-AGAAGCTGATCACATCACTTGTTTTGATCCACTTCCCTGTGTCTCA
1 CTTCTCTGTATCTCATCAGA-AAGATGATCACATCACTTATTTTGATCCACTTCCCTGTGTCTAA
* *
34469 TCAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCG
65 TCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGCTTTATTGCTTCG
34534 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGATCT
130 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTG--CT
* * * *
34599 CATTGATTTGGTCTACTTCTCAGTATCTCATCAGGCAGATGACCGCATCACTTGTTTCAATTTG
193 --TT-ATTT-G-AT-CTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCG
* *
34663 CTTCTCTGTATCTCATCAGAAAGATGA-CTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAA
1 CTTCTCTGTATCTCATCAGAAAGATGATC-ACATCACTTATTTTGATCCACTTCCCTGTGTCTAA
*
34727 TCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGTTTTATTGCTTCG
65 TCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGCTTTATTGCTTCG
* *
34792 ACCTTCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTT
130 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGCTTT
* *
34857 CTTTGATCTTCTCAGTATCTCATCAGGAAGACGACCGTATCACTTGTTTCAATTCG
195 ATTTGATCTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCG
* *
34913 CTTCTCTGTATCTTATCAGGAAGA
1 CTTCTCTGTATCTCATCAGAAAGA
34937 CGAATTTGGT
Statistics
Matches: 253, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
250 67 0.26
251 1 0.00
252 1 0.00
253 3 0.01
254 2 0.01
256 1 0.00
257 1 0.00
258 176 0.70
259 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (250 bp):
CTTCTCTGTATCTCATCAGAAAGATGATCACATCACTTATTTTGATCCACTTCCCTGTGTCTAAT
CAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGCTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGCTTTA
TTTGATCTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCG
Found at i:35015 original size:201 final size:205
Alignment explanation
Indices: 34663--35114 Score: 599
Period size: 201 Copynumber: 2.2 Consensus size: 205
34653 TTTCAATTTG
* * * * ** *
34663 CTTCTCTGTATCTCATCAGAAAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTAAT
* * * * * *
34728 CAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGTTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTTCACTCCTCTATATCTCATCAGAAAGCTAACCATTTAATTGCTTCGA
* * *
34793 CCTTCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
131 CCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTC
34858 -TTT-G-AT-
196 ATTTGGTATA
* * * * *
34864 CTTCTCAGTATCTCATCAGGAAGACGACCGTATCACTTGTTTCAATTCGCTTCTCTGTATCTTAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTAAT
*
34929 CAGGAAGACGAATTTGG-TCTACTCCTCTATATCTCATCAGGAAGCTAACCATTTAATTGCTTCG
66 CAGGAAGACGAATTTGGTTC-ACTCCTCTATATCTCATCAGAAAGCTAACCATTTAATTGCTTCG
* *
34993 ACCTACTTCTCAGTATCTCATCAGGAAGTTGGAGTTCGAAGATTTGCTCGCTTTGAGCCTAGTTT
130 ACCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCCTAGTTT
*
35058 CATTGATTTGGTCTA
195 C----ATTTGGTATA
35073 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
35115 TGAATAATCG
Statistics
Matches: 215, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
200 2 0.01
201 168 0.78
206 3 0.01
207 1 0.00
208 1 0.00
209 40 0.19
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (205 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTAAT
CAGGAAGACGAATTTGGTTCACTCCTCTATATCTCATCAGAAAGCTAACCATTTAATTGCTTCGA
CCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTC
ATTTGGTATA
Found at i:35101 original size:459 final size:463
Alignment explanation
Indices: 34203--35114 Score: 1320
Period size: 459 Copynumber: 2.0 Consensus size: 463
34193 CTACTTCTTA
* * * * *
34203 GTATCTCATCAAGAAGATGACTGTATCACTTGTTTTGATCTACTTCTTTGTGTCTCATCAGGAAG
1 GTATCTCATCAAGAAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAATCAGGAAG
*
34268 ACAGATCTAGCTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTACTT
66 ACAGATCTAGCTCACTTCTCTGTATCTCATCAGAAAGGTAACCACTTTATTGCTTCGACCTACTT
*
34333 CTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCGCTTTGAGCCTGGTTTCATTGATT
131 CTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC----ATT
* * * **
34398 TGGTCTACTTCTCCGTATCTCATCAAGAAGCTGATCACATCACTTGTTTTGATCCACTTCCCTGT
192 TGGTATACTTCTCAGTATCTCATCAAGAAGCTGACCACATCACTTGTTTCAATCCACTTCCCTGT
* * * * * * *
34463 GTCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATT
257 ATCTCATCAGGAAGACGAATTTGGTTCACTCCTCTATATCTCATCAGGAAGCTAACCGATTTATT
* *
34528 GCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCC
322 GCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCC
*
34593 TGATCTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGCAGATGACCGCATCACTTGTTTCA
387 TGATCTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCA
34658 ATTTGCTTCTCT
452 ATTTGCTTCTCT
34670 GTATCTCATC-AGAAAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAATCAGGAA
1 GTATCTCATCAAG-AAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAATCAGGAA
* * * * ** *
34734 GACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGGTAACCGTTTTATTGCTTCGACCTTCT
65 GACAGATCTAGCTCACTTCTCTGTATCTCATCAGAAAGGTAACCACTTTATTGCTTCGACCTACT
*
34799 TCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC-TTT-G
130 TCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTTGG
* ** * * *
34862 -AT-CTTCTCAGTATCTCATCAGGAAGAC-GACCGTATCACTTGTTTCAATTCGCTTCTCTGTAT
195 TATACTTCTCAGTATCTCATCAAGAAG-CTGACCACATCACTTGTTTCAATCCACTTCCCTGTAT
*
34924 CTTATCAGGAAGACGAATTTGG-TCTACTCCTCTATATCTCATCAGGAAGCTAACC-ATTTAATT
259 CTCATCAGGAAGACGAATTTGGTTC-ACTCCTCTATATCTCATCAGGAAGCTAACCGATTT-ATT
* *
34987 GCTTCGACCTACTTCTCAGTATCTCATCAGGAAGTTGGAGTTCGAAGATTTGCTCGCTTTGAGCC
322 GCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCC
*
35052 T-AGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
387 TGA-TCTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
35115 TGAATAATCG
Statistics
Matches: 400, Mismatches: 40, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
458 6 0.01
459 216 0.54
460 2 0.00
461 1 0.00
462 3 0.01
466 2 0.00
467 170 0.43
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (463 bp):
GTATCTCATCAAGAAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTCTAATCAGGAAG
ACAGATCTAGCTCACTTCTCTGTATCTCATCAGAAAGGTAACCACTTTATTGCTTCGACCTACTT
CTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTTGGT
ATACTTCTCAGTATCTCATCAAGAAGCTGACCACATCACTTGTTTCAATCCACTTCCCTGTATCT
CATCAGGAAGACGAATTTGGTTCACTCCTCTATATCTCATCAGGAAGCTAACCGATTTATTGCTT
CGACCTACTTCTCAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACTTTGAGCCTGAT
CTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTT
GCTTCTCT
Found at i:37251 original size:3 final size:3
Alignment explanation
Indices: 37243--37275 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
37233 GGTCATCCCT
*
37243 TTC TTC TTC TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37276 GATATCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:46693 original size:97 final size:96
Alignment explanation
Indices: 46526--46786 Score: 409
Period size: 97 Copynumber: 2.7 Consensus size: 96
46516 AACTTTGGAA
* *
46526 AAGGGTA-TTCGATTATCCCAATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTC
1 AAGGGTAGTT-GATTATCTC-ATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTC
46590 AAAACCAGAGATAAAGAAACATTACCTCGATTT
64 AAAACCAGAGATAAAGAAACATTACCTCGATTT
46623 AAGGGTAGTTGATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTAGTTGATTATCTC-ATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
* *
46688 CAACCAGAGATAAAGAAACATTGCCTCGATTT
65 AAACCAGAGATAAAGAAACATTACCTCGATTT
* * *
46720 CAGGGAAGTCGATTATCTCAGTTTGAAGAAAAATCGCGCCTAGTAAG-TAAGGCACAAATTTTCA
1 AAGGGTAGTTGATTATCTCA-TTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
46784 AAA
65 AAA
46787 TCCAAAATAA
Statistics
Matches: 153, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
96 20 0.13
97 131 0.86
98 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (96 bp):
AAGGGTAGTTGATTATCTCATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAA
AACCAGAGATAAAGAAACATTACCTCGATTT
Found at i:47080 original size:29 final size:28
Alignment explanation
Indices: 47047--47103 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
47037 AAAAAAAATC
*
47047 GGGGTCGAAAATGAAGTTTCGGAGAGTTT
1 GGGGT-GAAAATGAAGTTTCGGAAAGTTT
* * *
47076 GGGGTTAAAATGTAGTTTTGGAAAGTTT
1 GGGGTGAAAATGAAGTTTCGGAAAGTTT
47104 TAAGGGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (28 bp):
GGGGTGAAAATGAAGTTTCGGAAAGTTT
Found at i:47118 original size:30 final size:30
Alignment explanation
Indices: 47077--47134 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
47067 GGAGAGTTTG
* *
47077 GGGTTAAAATGTAGTTTT-GGAAAGTTTTAA
1 GGGTAAAAATGTAATTTTGGGAAA-TTTTAA
47107 GGGTAAAAATGTAATTTTGGGAAATTTT
1 GGGTAAAAATGTAATTTTGGGAAATTTT
47135 GGGAAGTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (30 bp):
GGGTAAAAATGTAATTTTGGGAAATTTTAA
Found at i:47197 original size:57 final size:58
Alignment explanation
Indices: 47129--47284 Score: 160
Period size: 57 Copynumber: 2.7 Consensus size: 58
47119 AATTTTGGGA
* *
47129 AATTTTGGGAAGTTCGAAGGTAAAAATGTGATTTTTAGG-AGTTTG-GGGCAAAAATGTG
1 AATTTTTGGAAGTTCGAAGGTAAAAATGTGATTTTT-GGAAGTTGGAGGGCAAAAATG-G
*
47187 -ATTTTTGGAAGTTC-AAGAGTAAAAATG-GAATTTTTGGAAGTTGGAGGGTAAAAATGG
1 AATTTTTGGAAGTTCGAAG-GTAAAAATGTG-ATTTTTGGAAGTTGGAGGGCAAAAATGG
* * * * *
47244 AATTTTTAAGAAGTTTGAGGGTTAAAATGTAATTTTTGGAA
1 AATTTTT-GGAAGTTCGAAGGTAAAAATGTGATTTTTGGAA
47285 AGTTTAGGGG
Statistics
Matches: 82, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
56 6 0.07
57 34 0.41
58 16 0.20
59 24 0.29
60 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (58 bp):
AATTTTTGGAAGTTCGAAGGTAAAAATGTGATTTTTGGAAGTTGGAGGGCAAAAATGG
Found at i:47210 original size:29 final size:29
Alignment explanation
Indices: 47130--47302 Score: 122
Period size: 29 Copynumber: 5.9 Consensus size: 29
47120 ATTTTGGGAA
*
47130 ATTTTGGGAAGTTCGAA-GGTAAAAATGTG
1 ATTTTTGGAAGTTC-AAGGGTAAAAATGTG
** *
47159 ATTTTTAGG-AGTT-TGGGGCAAAAATGTG
1 ATTTTT-GGAAGTTCAAGGGTAAAAATGTG
*
47187 ATTTTTGGAAGTTCAAGAGTAAAAATG-G
1 ATTTTTGGAAGTTCAAGGGTAAAAATGTG
**
47215 AATTTTTGGAAGTTGGAGGGTAAAAATG-G
1 -ATTTTTGGAAGTTCAAGGGTAAAAATGTG
* ** * *
47244 AATTTTTAAGAAGTTTGAGGGTTAAAATGTA
1 -ATTTTT-GGAAGTTCAAGGGTAAAAATGTG
* * *
47275 ATTTTTGGAAAGTTTAGGGGTTAAAATG
1 ATTTTTGG-AAGTTCAAGGGTAAAAATG
47303 AAATTTTAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 51 0.43
30 43 0.36
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.35
Consensus pattern (29 bp):
ATTTTTGGAAGTTCAAGGGTAAAAATGTG
Found at i:47264 original size:30 final size:28
Alignment explanation
Indices: 47151--47465 Score: 206
Period size: 30 Copynumber: 10.8 Consensus size: 28
47141 TTCGAAGGTA
* * **
47151 AAAATGTG-ATTTTTAGGAGTTTGGGGCA
1 AAAATG-GAATTTTTAGAAGTTTAGGGTT
* * * *
47179 AAAATGTG-ATTTTTGGAAGTTCAAGAGTA
1 AAAATG-GAATTTTTAGAAGTT-TAGGGTT
* * *
47208 AAAATGGAATTTTTGGAAGTTGGAGGGTA
1 AAAATGGAATTTTTAGAAGTT-TAGGGTT
47237 AAAATGGAATTTTTAAGAAGTTTGAGGGTT
1 AAAATGGAATTTTT-AGAAGTTT-AGGGTT
* *
47267 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
1 AAAATGGAATTTTTAG-AAGTTTA-GGGTT
* *
47297 AAAATGAAATTTTAAGAA-TTTAGGGGTT
1 AAAATGGAATTTTTAGAAGTTTA-GGGTT
* * *
47325 -AAATGTAATTTTTGAGAAATCTAAGGGTT
1 AAAATGGAATTTTT-AGAAGT-TTAGGGTT
*
47354 AAAATGTAATTTTTAGAAAGTTTAGAGGTT
1 AAAATGGAATTTTTAG-AAGTTTAG-GGTT
*
47384 AAAATGTAATTTTTGAGAAGTTTAGGGGTT
1 AAAATGGAATTTTT-AGAAGTTTA-GGGTT
* * *
47414 AATATGTAATTTTTAAGAAATTTAAGGGTT
1 AAAATGGAATTTTT-AGAAGTTT-AGGGTT
* ** *
47444 AAACTATAATTTTTGGAAGTTT
1 AAAATGGAATTTTTAGAAGTTT
47466 CGGGGCAAAT
Statistics
Matches: 242, Mismatches: 30, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.05
28 34 0.14
29 62 0.26
30 131 0.54
31 4 0.02
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.38
Consensus pattern (28 bp):
AAAATGGAATTTTTAGAAGTTTAGGGTT
Found at i:47308 original size:60 final size:59
Alignment explanation
Indices: 47208--47470 Score: 283
Period size: 60 Copynumber: 4.5 Consensus size: 59
47198 TTCAAGAGTA
* * * *
47208 AAAATGGAATTTTTGG-AAG-TTGGAGGGTAAAAATGGAATTTTTAAGAAGTTTGAGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAG-GGGTTAAAATGTAATTTTTAAGAAGTTT-AGGGTT
*
47267 AAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATG-AAATTTTAAGAA-TTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTAAGAAGTTTA-GGGTT
* *
47325 -AAATGTAATTTTTGAGAAA-TCTAAGGGTTAAAATGTAATTTTT-AGAAAGTTTAGAGGTT
1 AAAATGTAATTTTTG-GAAAGTTTAGGGGTTAAAATGTAATTTTTAAG-AAGTTTAG-GGTT
* *
47384 AAAATGTAATTTTT-GAGAAGTTTAGGGGTTAATATGTAATTTTTAAGAAATTTAAGGGTT
1 AAAATGTAATTTTTGGA-AAGTTTAGGGGTTAAAATGTAATTTTTAAGAAGTTT-AGGGTT
* * *
47444 AAACTATAATTTTTGG-AAGTTTCGGGG
1 AAAATGTAATTTTTGGAAAGTTTAGGGG
47471 CAAATTTTTT
Statistics
Matches: 176, Mismatches: 14, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
57 31 0.18
58 23 0.13
59 46 0.26
60 68 0.39
61 8 0.05
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.38
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTAAGAAGTTTAGGGTT
Found at i:47375 original size:117 final size:120
Alignment explanation
Indices: 47231--47458 Score: 333
Period size: 117 Copynumber: 1.9 Consensus size: 120
47221 TGGAAGTTGG
47231 AGGGTAAAAATGGAATTTTTAAGAAGTTT-GAGGGTTAAAATGTAATTTTTG-GAAAGTTTAGGG
1 AGGGTAAAAATGGAATTTTTAAGAAGTTTAGA-GGTTAAAATGTAATTTTTGAG-AAGTTTAGGG
* *
47294 GTTAAAATG-AAATTTTAAG-AATTTAGGGGTTAAA-TGTAATTTTTGAGAAATCTA
64 GTTAAAATGTAAATTTTAAGAAATTTAAGGGTTAAACTATAATTTTTGAGAAATCTA
* *
47348 AGGGTTAAAATGTAATTTTT-AGAAAGTTTAGAGGTTAAAATGTAATTTTTGAGAAGTTTAGGGG
1 AGGGTAAAAATGGAATTTTTAAG-AAGTTTAGAGGTTAAAATGTAATTTTTGAGAAGTTTAGGGG
* *
47412 TTAATATGTAATTTTTAAGAAATTTAAGGGTTAAACTATAATTTTTG
65 TTAAAATGTAAATTTTAAGAAATTTAAGGGTTAAACTATAATTTTTG
47459 GAAGTTTCGG
Statistics
Matches: 99, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
116 2 0.02
117 61 0.62
118 12 0.12
119 14 0.14
120 10 0.10
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (120 bp):
AGGGTAAAAATGGAATTTTTAAGAAGTTTAGAGGTTAAAATGTAATTTTTGAGAAGTTTAGGGGT
TAAAATGTAAATTTTAAGAAATTTAAGGGTTAAACTATAATTTTTGAGAAATCTA
Found at i:49343 original size:17 final size:17
Alignment explanation
Indices: 49326--49361 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49316 TAAACTTAAA
49326 TTTATAATAAATTAAAAT
1 TTTA-AATAAATTAAAAT
*
49344 TTTAAATAAATTTAAAT
1 TTTAAATAAATTAAAAT
49361 T
1 T
49362 CTGTTAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATAAATTAAAAT
Found at i:49354 original size:11 final size:10
Alignment explanation
Indices: 49302--49360 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
49292 GGATATTATT
49302 AATTTAAATA
1 AATTTAAATA
49312 AATTTAAACTTA
1 AATTTAAA--TA
49324 AATTTATAATA
1 AATTTA-AATA
49335 AA-TT-AA-A
1 AATTTAAATA
*
49342 ATTTTAAATA
1 AATTTAAATA
49352 AATTTAAAT
1 AATTTAAAT
49361 TCTGTTAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
9 2 0.05
10 19 0.46
11 4 0.10
12 8 0.20
13 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTAAATA
Found at i:53311 original size:12 final size:12
Alignment explanation
Indices: 53296--53354 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
53286 ATAAATAAAT
53296 AAAAAGAAAAGA
1 AAAAAGAAAAGA
53308 AAAAAGAAAA-A
1 AAAAAGAAAAGA
*
53319 AAAATATAAAA-A
1 AAAA-AGAAAAGA
* * *
53331 AAGAGGAAAAAGG
1 AAAAAG-AAAAGA
53344 AAAAAGAAAAG
1 AAAAAGAAAAG
53355 GAGAGGTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
11 5 0.14
12 28 0.76
13 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:53330 original size:30 final size:31
Alignment explanation
Indices: 53294--53353 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
53284 AAATAAATAA
53294 ATAAAAAGAA-AAGAAAAAAGAAAAA-AAAAT
1 ATAAAAA-AAGAAGAAAAAAGAAAAAGAAAAT
* *
53324 ATAAAAAAAGAGGAAAAAGGAAAAAGAAAA
1 ATAAAAAAAGAAGAAAAAAGAAAAAGAAAA
53354 GGAGAGGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (31 bp):
ATAAAAAAAGAAGAAAAAAGAAAAAGAAAAT
Found at i:54371 original size:49 final size:49
Alignment explanation
Indices: 54235--54477 Score: 197
Period size: 49 Copynumber: 4.9 Consensus size: 49
54225 TGAGCCGCGG
* * * * *
54235 TACCATGAAGATTTGAA-GGAAAGATTGAGGCCGTAACTGCGAACCCGA
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
* * * *
54283 TACC-T-TAGAGGATGCAATGGGATAGGTTGAGGCCACAACGGTGAACCCGA
1 TACCATGAAGA-TATG-AA-GGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
* * * *
54333 TACCATGAAGTTTTGAAGGGGAAGGTTGAGGCCGCAACGGTGAACCTGA
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
* * ** *
54382 TACCATGAAGATATGAAGGAAAAGGTTGAGGCTGCAATAGTGAACCCGG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
* ** * * *
54431 TACCTTAGAAGACGTGATGGG-AAGGATTGAGTCCGTAACGGTGAACC
1 TACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACC
54478 TGGTACCTTG
Statistics
Matches: 151, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 6 0.04
49 77 0.51
50 57 0.38
51 3 0.02
52 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.19
Consensus pattern (49 bp):
TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
Found at i:54408 original size:98 final size:100
Alignment explanation
Indices: 54306--54493 Score: 220
Period size: 98 Copynumber: 1.9 Consensus size: 100
54296 GCAATGGGAT
* ***
54306 AGGTTGAGGCCACAACGGTGAACCCGATACCAT-GAAGTTTTGAAGGGGAAGG-TTGAGGCCGCA
1 AGGTTGAGGCCACAACAGTGAACCCGATACCATAGAAGACGTG-AGGGGAAGGATTGAGGCCGCA
54369 ACGGTGAACCTGATACCAT-GAAGATATGAAGGAAA
65 ACGGTGAACCTGATACCATGGAAGATATGAAGGAAA
** * * * * * *
54404 AGGTTGAGGCTGCAATAGTGAACCCGGTACCTTAGAAGACGTGATGGGAAGGATTGAGTCCGTAA
1 AGGTTGAGGCCACAACAGTGAACCCGATACCATAGAAGACGTGAGGGGAAGGATTGAGGCCGCAA
* *
54469 CGGTGAACCTGGTACCTTGGAAGAT
66 CGGTGAACCTGATACCATGGAAGAT
54494 GTGATGGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
98 35 0.48
99 32 0.44
100 6 0.08
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (100 bp):
AGGTTGAGGCCACAACAGTGAACCCGATACCATAGAAGACGTGAGGGGAAGGATTGAGGCCGCAA
CGGTGAACCTGATACCATGGAAGATATGAAGGAAA
Found at i:54503 original size:148 final size:147
Alignment explanation
Indices: 54235--54505 Score: 314
Period size: 148 Copynumber: 1.8 Consensus size: 147
54225 TGAGCCGCGG
* * * *
54235 TACCATGAAGATTTGAAGGAAAGATTGAGGCCGTAACTGCGAACCCGATACCTTAGAGGATGCAA
1 TACCATGAAGATATGAAGGAAAGATTGAGGCCGCAACTGCGAACCCGATACCTTAGAAGACGCAA
* *
54300 TGGGATAGGTTGAGGCCACAACGGTGAACCCGATACCATGAAGTTTTGAAGGGGAAGGTTGAGGC
66 TGGGATAGGTTGAGGCCACAACGGTGAACCCGATACCATGAAGATGTGAAGGGGAAGGTTGAGGC
54365 CGCAACGGTGAACCTGA
131 CGCAACGGTGAACCTGA
* * * * *
54382 TACCATGAAGATATGAAGGAAAAGGTTGAGGCTGCAA-TAGTGAACCCGGTACCTTAGAAGACGT
1 TACCATGAAGATATGAAGG-AAAGATTGAGGCCGCAACT-GCGAACCCGATACCTTAGAAGACGC
* * ** * * * *
54446 GATGGGA-AGGATTGAGTCCGTAACGGTGAACCTGGTACCTTGGAAGATGTG-ATGGGAAGG
64 AATGGGATAGG-TTGAGGCCACAACGGTGAACCCGATACCAT-GAAGATGTGAAGGGGAAGG
54506 ATCGAGCCGC
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
147 22 0.22
148 72 0.71
149 7 0.07
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.20
Consensus pattern (147 bp):
TACCATGAAGATATGAAGGAAAGATTGAGGCCGCAACTGCGAACCCGATACCTTAGAAGACGCAA
TGGGATAGGTTGAGGCCACAACGGTGAACCCGATACCATGAAGATGTGAAGGGGAAGGTTGAGGC
CGCAACGGTGAACCTGA
Found at i:54651 original size:39 final size:39
Alignment explanation
Indices: 54607--54688 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
54597 TGAAGATGCA
54607 CCAATCTCTTACCCCAATCATGGGGCAGATTGC-ATCCAT
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGCAAT-CAT
* ** *
54646 CCAATCTCTTATCCTGATCATGGTGCAGATTGCAATCAT
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGCAATCAT
54685 CCAA
1 CCAA
54689 AGCAATAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (39 bp):
CCAATCTCTTACCCCAATCATGGGGCAGATTGCAATCAT
Found at i:55018 original size:85 final size:84
Alignment explanation
Indices: 54865--55029 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
54855 TCAAACCCCA
* * * *
54865 TCTTCCTGATGAGATACAGAGAAGTGGGTTGAACCAATAAGTGGTCATCTTGCCAATGAGATGCA
1 TCTTCCTGACGAGATACAGAGAAGTGGATTGAAACAATAAGTGGTCATCTTGCCAATGAGATACA
54930 AAGAAGT-GAACCAAACTTG
66 AAGAAGTAG-ACCAAACTTG
* * *
54949 TCTTCTTGACGAGATACAGAGAAGTGGATTGAAACAATGAGGTGGTTATCTT-CCTAATGAGATA
1 TCTTCCTGACGAGATACAGAGAAGTGGATTGAAACAAT-AAGTGGTCATCTTGCC-AATGAGATA
*
55013 TAAAGAAGTAGACCAAA
64 CAAAGAAGTAGACCAAA
55030 TCAATGAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 36 0.51
85 33 0.47
86 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (84 bp):
TCTTCCTGACGAGATACAGAGAAGTGGATTGAAACAATAAGTGGTCATCTTGCCAATGAGATACA
AAGAAGTAGACCAAACTTG
Found at i:55215 original size:85 final size:85
Alignment explanation
Indices: 55072--55238 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
55062 TCAAACCCCA
* **
55072 TCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATTTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCATCCTGATGAGATAC
*
55137 AAAGAAGTGGACCAAATCCG
66 AAAGAAGTAGACCAAATCCG
* * * *
55157 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAA-CAATGAGGCGGTCATCATCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGG-GTCAAAGCAATAAAGCGGTCATCATCCTGATGAGATA
* *
55221 TAGAGAAGTAGACCAAAT
65 CAAAGAAGTAGACCAAAT
55239 TGATGAAGCG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 67 0.94
86 4 0.06
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCATCCTGATGAGATAC
AAAGAAGTAGACCAAATCCG
Found at i:55230 original size:208 final size:208
Alignment explanation
Indices: 54686--55351 Score: 865
Period size: 207 Copynumber: 3.2 Consensus size: 208
54676 TGCAATCATC
* * * * *
54686 CAAAGCAATAAAGTGGTAATCTTCCTGATGAGATGCAGAGAAGTGAACCAAATCCATCTTCCTGG
1 CAAAGCAATAAAGCGGTCATCTTCCTGATGAGATGCAAAGAAGTGAACCAAATCCGTCTTCCTGA
* * ** * *
54751 TGAGATACAGAGAAGTGGATT-AAATCAATGAGACGATCATCTTTTTCATGAGATACAGAGAAGT
66 TGAGATACAGAGAAGTGGATTGAAA-CAATGAGGCGGTCATCTTCCTAATGAGATATAGAGAAGT
* * *
54815 AGACCAAATTATTGAAGCGCAGCTTAATATGAGTGAAAATTCAAACCCCATCTTCCTGATGAGAT
130 AGACCAAATTAATGAAGCGAAGCTCAATATGAGTGAAAATTCAAACCCCATCTTCCTGATGAGAT
54880 ACAGAGAAGTGGGT
195 ACAGAGAAGTGGGT
** * * * * *
54894 TGAACCAAT-AAGTGGTCATCTTGCC-AATGAGATGCAAAGAAGTGAACCAAA-CTTGTCTTCTT
1 CAAAGCAATAAAGCGGTCATCTT-CCTGATGAGATGCAAAGAAGTGAACCAAATC-CGTCTTCCT
* * * *
54956 GACGAGATACAGAGAAGTGGATTGAAACAATGAGGTGGTTATCTTCCTAATGAGATATAAAGAAG
64 GATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCCTAATGAGATATAGAGAAG
* * * * * *
55021 TAGACCAAATCAATGAATCAAAGCTCAATATGAATGAGACTTCAAACCCCATCTTCCTGATGAGA
129 TAGACCAAATTAATGAAGCGAAGCTCAATATGAGTGAAAATTCAAACCCCATCTTCCTGATGAGA
*
55086 TATAGAGAAGTGGGT
194 TACAGAGAAGTGGGT
* * *
55101 CAAAGCAATAAAGCGGTCATTTTCCTGATGAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGA
1 CAAAGCAATAAAGCGGTCATCTTCCTGATGAGATGCAAAGAAGTGAACCAAATCCGTCTTCCTGA
* *
55166 TGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCATCCTGATGAGATATAGAGAAGTA
66 TGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCCTAATGAGATATAGAGAAGTA
* * * *
55231 GACCAAATTGATGAAGCGAAGTTCAATATGAGTGAAATTTCAAACCCCATCTTTCTGATGAGATA
131 GACCAAATTAATGAAGCGAAGCTCAATATGAGTGAAAATTCAAACCCCATCTTCCTGATGAGATA
* *
55296 CAAAGAAGAGGGT
196 CAGAGAAGTGGGT
* *
55309 C-AAGCAATGAAGCGGTCATCTTCCTGATGAGATGCAGAGAAGT
1 CAAAGCAATAAAGCGGTCATCTTCCTGATGAGATGCAAAGAAGT
55352 AGACCAATTT
Statistics
Matches: 390, Mismatches: 62, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
206 1 0.00
207 208 0.53
208 180 0.46
209 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (208 bp):
CAAAGCAATAAAGCGGTCATCTTCCTGATGAGATGCAAAGAAGTGAACCAAATCCGTCTTCCTGA
TGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCCTAATGAGATATAGAGAAGTA
GACCAAATTAATGAAGCGAAGCTCAATATGAGTGAAAATTCAAACCCCATCTTCCTGATGAGATA
CAGAGAAGTGGGT
Found at i:55395 original size:122 final size:122
Alignment explanation
Indices: 55157--55677 Score: 652
Period size: 122 Copynumber: 4.3 Consensus size: 122
55147 ACCAAATCCG
* * * * * *
55157 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCATCCTGATGAGATAT
1 TCTTCCTGATGAGATACAAAGAAGTGG-GTCAAACAATGAAGCGGTCATCTTCCTGATGAGATAC
* * * * *
55222 AGAGAAGTAGACCAAATTGATGAAGCGAAGTTCAATATGAGTGAAATTTCAAACCCCA
65 AGAGAAGTAGACCAAATTAATGAAGCGAAGCTCAATGTGAGCGAAACTTCAAACCCCA
* * * *
55280 TCTTTCTGATGAGATACAAAGAAGAGGGTCAAGCAATGAAGCGGTCATCTTCCTGATGAGATGCA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGCGGTCATCTTCCTGATGAGATACA
* * *
55345 GAGAAGTAGACCAATTTAATGAAGCGGAGCTTAATGTGAGCGAAACTTCAAACCCCA
66 GAGAAGTAGACCAAATTAATGAAGCGAAGCTCAATGTGAGCGAAACTTCAAACCCCA
* ** *
55402 TCTT-CTCGATGAGATACAAAGAAGTGGGTCAAATAATGAAGCAATCATCTTCTTGATGAGATAC
1 TCTTCCT-GATGAGATACAAAGAAGTGGGTCAAACAATGAAGCGGTCATCTTCCTGATGAGATAC
* * * *
55466 GGAGAAGTAGACCAAAATAATGAAGTGAAGCTCAATGTGAGTGAAACTTCAAACCCCA
65 AGAGAAGTAGACCAAATTAATGAAGCGAAGCTCAATGTGAGCGAAACTTCAAACCCCA
* * *
55524 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAATAATGAAGCGGTTATCTTCTTGATGAGATACA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGCGGTCATCTTCCTGATGAGATACA
* * * *
55589 AAGAAGTAGACC-AATTCAAGGAAGCGGAGCTCAATGTGA-CTGAAACTACAAACCCCA
66 GAGAAGTAGACCAAATT-AATGAAGCGAAGCTCAATGTGAGC-GAAACTTCAAACCCCA
* * * *
55646 TCTTCCTAATGAGATATAGAGAAGTGAGTCAA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAA
55678 TACAGAGTGT
Statistics
Matches: 347, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
121 5 0.01
122 316 0.91
123 26 0.07
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (122 bp):
TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGCGGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAATTAATGAAGCGAAGCTCAATGTGAGCGAAACTTCAAACCCCA
Found at i:57949 original size:30 final size:30
Alignment explanation
Indices: 57834--58061 Score: 146
Period size: 30 Copynumber: 7.6 Consensus size: 30
57824 AAAGCCCCTA
* *
57834 TTTTATCTAAAAATCA-ATTCTAACCCTCAAAC
1 TTTT-TCT-AAAATCACATTTTGACCC-CAAAC
* **
57866 -TTTTCCAAAATCACATTTTGACCTTAAAC
1 TTTTTCTAAAATCACATTTTGACCCCAAAC
* *
57895 -TTTTCTAAAACCACATTTTAACCCCAAAC
1 TTTTTCTAAAATCACATTTTGACCCCAAAC
* * *
57924 TTTTTTTACAATCATATTTTGACCCCTAAAC
1 TTTTTCTAAAATCACATTTTGACCCC-AAAC
* * **
57955 -TTTTCCAAAATTACATTTTGACCTTTAAAC
1 TTTTTCTAAAATCACATTTTGACC-CCAAAC
* * * * *
57985 -TTCTCCAAAATTACATTTTAACCCTTAAAC
1 TTTTTCTAAAATCACATTTTGACCC-CAAAC
*
58015 -TTTTCCAAAATCACATTTTGACCCCTAAAC
1 TTTTTCTAAAATCACATTTTGACCCC-AAAC
* *
58045 -TTTCCTAAAATTACATT
1 TTTTTCTAAAATCACATT
58062 ATAACCCTTA
Statistics
Matches: 158, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
29 35 0.22
30 116 0.73
31 7 0.04
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
TTTTTCTAAAATCACATTTTGACCCCAAAC
Found at i:58003 original size:60 final size:59
Alignment explanation
Indices: 57862--58121 Score: 222
Period size: 60 Copynumber: 4.4 Consensus size: 59
57852 TCTAACCCTC
* * * * ** * **
57862 AAACTTTTCCAAAATCACATTTTGA-CCTTAAACTTTTCTAAAACCACATTTTAACCCC
1 AAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCTT
* ** * * * * *
57920 AAACTTTTTTTACAATCATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCTTT
1 AAAC-TTCTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACC-TT
* *
57981 AAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATCACATTTTGACCCCT
1 AAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGA-CCTT
* * * * * *
58041 AAACTT-TCCTAAAATTACATTATAACCCTTAAAATTTTCTAATATTATATTTTGACCTC
1 AAACTTCTCC-AAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCTT
58100 AAA-TTCTCCAAAACTT-CATTTT
1 AAACTTCTCCAAAA-TTACATTTT
58122 TTGACACTAT
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
58 15 0.09
59 30 0.18
60 114 0.69
61 6 0.04
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (59 bp):
AAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCTT
Found at i:58033 original size:90 final size:89
Alignment explanation
Indices: 57857--58061 Score: 270
Period size: 90 Copynumber: 2.3 Consensus size: 89
57847 TCAATTCTAA
* * *
57857 CCCTCAAACTTTTCCAAAATCACATTTTGACCTTAAACTTTTCTAAAACCACATTTTAACCCCAA
1 CCCT-AAACTTTTCCAAAATTACATTTTGACCTTAAACTTCTCCAAAACCACATTTTAACCCCAA
** * *
57922 ACTTTTTTTACAATCATATTTTGAC
65 ACTTTTTCCAAAATCACATTTTGAC
** *
57947 CCCTAAACTTTTCCAAAATTACATTTTGACCTTTAAACTTCTCCAAAATTACATTTTAACCCTTA
1 CCCTAAACTTTTCCAAAATTACATTTTGACC-TTAAACTTCTCCAAAACCACATTTTAACCC-CA
58012 AAC-TTTTCCAAAATCACATTTTGAC
64 AACTTTTTCCAAAATCACATTTTGAC
58037 CCCTAAAC-TTTCCTAAAATTACATT
1 CCCTAAACTTTTCC-AAAATTACATT
58062 ATAACCCTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
89 31 0.30
90 67 0.66
91 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (89 bp):
CCCTAAACTTTTCCAAAATTACATTTTGACCTTAAACTTCTCCAAAACCACATTTTAACCCCAAA
CTTTTTCCAAAATCACATTTTGAC
Found at i:58124 original size:90 final size:90
Alignment explanation
Indices: 57857--58126 Score: 235
Period size: 90 Copynumber: 3.0 Consensus size: 90
57847 TCAATTCTAA
* * * * * * **
57857 CCCTCAAACTTTTCCAAAATCACATTTTGA-CCTTAAACTTTTCTAAAACCACATTTTAACCC-C
1 CCCT-AAACTTTTCCAAAATTACATTATAACCCTTAAAATTCTCCAAAATTACATTTTAACCCTC
* ** *
57920 AAACTTTTTTTACAATCATATTTTGAC
65 AAAC-TTCTCCAAAATCATATTTTGAC
* * * * *
57947 CCCTAAACTTTTCCAAAATTACATTTTGACCTTTAAACTTCTCCAAAATTACATTTTAACCCTTA
1 CCCTAAACTTTTCCAAAATTACATTATAACCCTTAAAATTCTCCAAAATTACATTTTAACCCTCA
* *
58012 AACTTTTCCAAAATCACATTTTGAC
66 AACTTCTCCAAAATCATATTTTGAC
* * * * *
58037 CCCTAAAC-TTTCCTAAAATTACATTATAACCCTTAAAATTTTCTAATATTATATTTTGA-CCTC
1 CCCTAAACTTTTCC-AAAATTACATTATAACCCTTAAAATTCTCCAAAATTACATTTTAACCCTC
*
58100 AAA-TTCTCCAAAACTTCATTTTTTGAC
65 AAACTTCTCCAAAA--TCATATTTTGAC
58127 ACTATTTTTT
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
88 9 0.06
89 35 0.23
90 103 0.68
91 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (90 bp):
CCCTAAACTTTTCCAAAATTACATTATAACCCTTAAAATTCTCCAAAATTACATTTTAACCCTCA
AACTTCTCCAAAATCATATTTTGAC
Found at i:58991 original size:325 final size:324
Alignment explanation
Indices: 58398--59018 Score: 920
Period size: 325 Copynumber: 1.9 Consensus size: 324
58388 AAATAATTTT
* * * * * *
58398 AAAACCGAGGCAATATTCTTTCGTGTGAAAATTTTGAAAAATTATGCTCTAACATGCTGGATGTG
1 AAAAACGAGGCAATATCCTTTCGTGTGAAAACTTCGAAAAATTATGCCCTAACATGCTCGATGTG
* * * * * *
58463 ATTTTTCGTATAATTCACACGATCGAATATCCTTTTTAAACCTTTTAAATGTTCTTCAATTTCGA
66 ATTTTTAGTATAATTCACACAATCGAATATCCTTATAAAACCTTTAAAATGTCCTTCAATTTCGA
*
58528 AATTTCGAGAACGTCGTGCCCTAACATGTTGGACACGACTTCAATTCTCCAAGAAATTCGAAACA
131 AATTTCGAGAACATCGTGCCCTAACATGTTGGACACGACTTCAATTCTCCAAGAAATTCGAAACA
* * * *
58593 CATGGGGCATTTTTCTTCAAATTCGATTATTGAAAATCATGCGAAATAAGTTATGTGTACAAGGA
196 CACGGGACATTTTTCTTCAAATTCGATTATTGAAAATCATGCGAAATAAGTTATGTGTAAAAAGA
58658 TCGTATTTTAAACTTCACTCGAGATTTC-AAGTTTTCAAAAAATATACAAATAATTTTAAACCA
261 TCGTATTTTAAACTTCACTCGAGATTTCAAAGTTTTCAAAAAATATACAAATAATTTTAAACCA
* * * *
58721 AAAAACGAGGCAATATCCTTTCGTGTGAAAGCTTCGAAAAATTATTCCCTATCGTGCTCGATGTG
1 AAAAACGAGGCAATATCCTTTCGTGTGAAAACTTCGAAAAATTATGCCCTAACATGCTCGATGTG
* *
58786 ATTTTTAGTATAATTCGCGCAATCGAATATCCTCTATAAAACCTTTCAAAATGTCCTTCAATTTC
66 ATTTTTAGTATAATTCACACAATCGAATATCCT-TATAAAACCTTT-AAAATGTCCTTCAATTTC
* ** * * *
58851 GAAATTTCGAGAATATCGTGCCCTAATGTGTTGGACACGACTTCAATTTTTCGAGAAATTCGAAA
129 GAAATTTCGAGAACATCGTGCCCTAACATGTTGGACACGACTTCAATTCTCCAAGAAATTCGAAA
* *
58916 CACACGGGACATTTTTCTTCAAATTTGATTTTTGAAAATCATGCGAAATAAGTTATGTGTAAAAA
194 CACACGGGACATTTTTCTTCAAATTCGATTATTGAAAATCATGCGAAATAAGTTATGTGTAAAAA
* *
58981 GATCGTATTTTAAACTTCCCTTGAGATTTCAAAGTTTT
259 GATCGTATTTTAAACTTCACTCGAGATTTCAAAGTTTT
59019 AACAAACAAG
Statistics
Matches: 262, Mismatches: 33, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
323 84 0.32
324 10 0.04
325 161 0.61
326 7 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (324 bp):
AAAAACGAGGCAATATCCTTTCGTGTGAAAACTTCGAAAAATTATGCCCTAACATGCTCGATGTG
ATTTTTAGTATAATTCACACAATCGAATATCCTTATAAAACCTTTAAAATGTCCTTCAATTTCGA
AATTTCGAGAACATCGTGCCCTAACATGTTGGACACGACTTCAATTCTCCAAGAAATTCGAAACA
CACGGGACATTTTTCTTCAAATTCGATTATTGAAAATCATGCGAAATAAGTTATGTGTAAAAAGA
TCGTATTTTAAACTTCACTCGAGATTTCAAAGTTTTCAAAAAATATACAAATAATTTTAAACCA
Found at i:69210 original size:38 final size:38
Alignment explanation
Indices: 69168--69240 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
69158 AAAAAGGAGA
69168 AATCGAGATGAAAACCCGCAAAGGGAGTCTCGAAAAAT
1 AATCGAGATGAAAACCCGCAAAGGGAGTCTCGAAAAAT
* * *
69206 AATCGAGATGAAAACCCGTAAAGGGCGTCTTGAAA
1 AATCGAGATGAAAACCCGCAAAGGGAGTCTCGAAA
69241 TCAAAGAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (38 bp):
AATCGAGATGAAAACCCGCAAAGGGAGTCTCGAAAAAT
Found at i:70412 original size:85 final size:85
Alignment explanation
Indices: 70267--70423 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
70257 TCAAACCTCA
* * *
70267 TCTTCTTGATGAGATACAGAGAAATGAGTCAAAGCAATAAAGAGGTCATCTTCTGGATGAGGTAC
1 TCTTCTTGATGAGATACAGAGAAATGAGTCAAAACAATAAAGAGGTCATCTTCTGAATGAGATAC
*
70332 AGAGAAGTGTACCAAATCCG
66 AAAGAAGTGTACCAAATCCG
* * * * *
70352 TCTTCTTGATGAGATACAGAGAAGTGTA-TTAAAACAATGAGGCGGTCATCTTCCT-AATGAGAT
1 TCTTCTTGATGAGATACAGAGAAATG-AGTCAAAACAATAAAGAGGTCATCTT-CTGAATGAGAT
70415 ACAAAGAAG
64 ACAAAGAAG
70424 CAGACCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 58 0.95
86 3 0.05
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (85 bp):
TCTTCTTGATGAGATACAGAGAAATGAGTCAAAACAATAAAGAGGTCATCTTCTGAATGAGATAC
AAAGAAGTGTACCAAATCCG
Found at i:70545 original size:208 final size:209
Alignment explanation
Indices: 70187--70793 Score: 907
Period size: 208 Copynumber: 2.9 Consensus size: 209
70177 AACTTAAAAA
* *
70187 GGTCATCTTCCTGATGAGATACGGAGAAGTAGACCAAATCGATGAAGCGAAGCTTAGTGTGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAGTGTGAGTG
* *
70252 AAACTTCAAACCTCATCTTCTTGATGAGATACAGAGAAATGAGTCAAAGCAATAAAGAGGTCATC
66 AAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGAGGTCATC
* * * *
70317 TT-CTGGATGAGGTACAGAGAAGTGTACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGTAT
131 TTCCTGAATGAGATACAGAGAAGTGTACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
70381 TAAAACAATGAGGC
196 TAAAACAATGAGGC
* * * *
70395 GGTCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCGATGAAGCAAAGCTCAGTGTGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAGTGTGAGTG
*
70460 AAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGAGGTCATC
66 AAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGAGGTCATC
* *
70525 TTCCT-AATGAGATACAGAGAAATGTACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTGGAT
131 TTCCTGAATGAGATACAGAGAAGTGTACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
* *
70589 TGAAATAATGAGGC
196 TAAAACAATGAGGC
* * * * * * *
70603 AGTCATCTTTCTGATGAGATATAGTGAAGTAGACCAAATAGATGAAGCGAAGCTCAATGAGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAGTGTGAGTG
* * *
70668 AAACTTCAAACCCCCATCTTCTTGATGAGATATAGAGAAGT-AGGTCGAAGCAATAAAGCGGTCA
66 AAACTTCAAA-CCCCATCTTCTTGATGAGATACAGAGAAGTGA-GTCAAAGCAATAAAGAGGTCA
* *
70732 CCTTCCTGAA-GAGATATAGAGAAGTGTACCAAATCCGTCTTCCTGATGAGATACAGAGAAGT
129 TCTTCCTGAATGAGATACAGAGAAGTGTACCAAATCCGTCTTCCTGATGAGATACAGAGAAGT
70794 AGACCAAATC
Statistics
Matches: 359, Mismatches: 36, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
208 253 0.70
209 104 0.29
210 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (209 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAGTGTGAGTG
AAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGAGGTCATC
TTCCTGAATGAGATACAGAGAAGTGTACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
TAAAACAATGAGGC
Found at i:70774 original size:37 final size:37
Alignment explanation
Indices: 70733--70803 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
70723 AAGCGGTCAC
*
70733 CTTCCTGAAGAGATATAGAGAAGT-GTACCAAATCCGT
1 CTTCCTGAAGAGATACAGAGAAGTAG-ACCAAATCCGT
*
70770 CTTCCTGATGAGATACAGAGAAGTAGACCAAATC
1 CTTCCTGAAGAGATACAGAGAAGTAGACCAAATC
70804 GATGAAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (37 bp):
CTTCCTGAAGAGATACAGAGAAGTAGACCAAATCCGT
Found at i:70810 original size:161 final size:161
Alignment explanation
Indices: 70606--70954 Score: 529
Period size: 161 Copynumber: 2.2 Consensus size: 161
70596 ATGAGGCAGT
* * * * *
70606 CATCTTTCTGATGAGATATAGTGAAGTAGACCAAATAGATGAAGCGAAGCTCAATGAGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATAGATGAAGCAAAACTCAATGAGAGTGAAA
* * *
70671 CTTCAAACC-CCCATCTTCTTGATGAGATATAGAGAAGTAGGTCGAAGCAATAAAGCGGTCACCT
66 CTTCAAACCTCCCATCTTCTTGATGAGATACAAAGAAGT-GGTCGAAGCAATAAAGCAGTCACCT
*
70735 TCCTGAAGAGATATAGAGAAGTGTACCAAATC
130 TCCTGAAGAGATACAGAGAAGTGTACCAAATC
* *
70767 CGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCAAAACTCAATGAGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATAGATGAAGCAAAACTCAATGAGAGTGAAA
* *
70832 CTTCAAACCTCCCATCTTCTTGATGAGATACAAAGAAGTGGTTGAAGCAATAAAGTAGTCACCTT
66 CTTCAAACCTCCCATCTTCTTGATGAGATACAAAGAAGTGGTCGAAGCAATAAAGCAGTCACCTT
* * *
70897 CCTGATGAGATACAGAGAAGTGTACCATATT
131 CCTGAAGAGATACAGAGAAGTGTACCAAATC
*
70928 CATCTTCTTGATGAGATACAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
70955 TGGTTAAAAC
Statistics
Matches: 169, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 142 0.84
162 27 0.16
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (161 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATAGATGAAGCAAAACTCAATGAGAGTGAAA
CTTCAAACCTCCCATCTTCTTGATGAGATACAAAGAAGTGGTCGAAGCAATAAAGCAGTCACCTT
CCTGAAGAGATACAGAGAAGTGTACCAAATC
Found at i:70998 original size:85 final size:84
Alignment explanation
Indices: 70844--71002 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 84
70834 TCAAACCTCC
* * ** *
70844 CATCTTCTTGATGAGATACAAAGAAGTGGTTGAAGCAATAAAGTAGTCACCTTCCTGATGAGATA
1 CATCTTCTTGATGAGATACAAAGAAGTGGTTAAAACAATAAAGTAGTCACCTTCCAAATAAGATA
70909 CAGAGAAGTGTACCATATT
66 CAGAGAAGTGTACCATATT
* * * *
70928 CATCTTCTTGATGAGATACAGAGAAGTTGGTTAAAACAATAAGGTGGTCATCTTCCAAATAAGAT
1 CATCTTCTTGATGAGATACAAAGAAG-TGGTTAAAACAATAAAGTAGTCACCTTCCAAATAAGAT
70993 ACAGAGAAGT
65 ACAGAGAAGT
71003 AGACCAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.38
85 40 0.62
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (84 bp):
CATCTTCTTGATGAGATACAAAGAAGTGGTTAAAACAATAAAGTAGTCACCTTCCAAATAAGATA
CAGAGAAGTGTACCATATT
Found at i:71125 original size:48 final size:48
Alignment explanation
Indices: 71053--71176 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
71043 TCAAAACCCC
* * *** *
71053 CATCTTCTTAATGAGATACTGAGAAGTGGGTCA-AAGCAATAAAGTGAT
1 CATCTTCTTGATGAGATACAGAGAAGTAAATCACAA-CAATAAAGCGAT
* * *
71101 CATCTTCTTGATGAGATACAGAGAAGTAAATCACAATAATGAAGCGGT
1 CATCTTCTTGATGAGATACAGAGAAGTAAATCACAACAATAAAGCGAT
*
71149 CATCTTCTTGATGAGATACAAAGAAGTA
1 CATCTTCTTGATGAGATACAGAGAAGTA
71177 GACCAAATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 63 0.97
49 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (48 bp):
CATCTTCTTGATGAGATACAGAGAAGTAAATCACAACAATAAAGCGAT
Found at i:71225 original size:173 final size:173
Alignment explanation
Indices: 70927--71301 Score: 454
Period size: 173 Copynumber: 2.2 Consensus size: 173
70917 TGTACCATAT
*** * *
70927 TCATCTTCTTGATGAGATACAGAGAAGTTGGTTAAAACAATAAGGTGGTCATCTTCCAAATAAGA
1 TCATCTTCTTGATGAGATACAGAGAAGTAAATCAAAACAATAAGGCGGTCATCTTCCAAATAAGA
* ** *
70992 TACAGAGAAGTAGACCAAATTGATGAAGCGAAGCTCAATGAGAGAGAAACTTCAAAACCCCCATC
66 TACAAAGAAGTAGACCAAATAAATGAAGCAAAGCTCAATGAGAGAGAAACTTCAAAACCCCCATC
*
71057 TTCTTAATGAGATACT-GAGAAGTGGGTC-AAAGCAATAAAGTGA
131 TTCTTAATGAGATA-TAGAGAAGTGAGTCGAAA-CAATAAAGTGA
* * *** *
71100 TCATCTTCTTGATGAGATACAGAGAAGTAAATCACAATAATGAA-GCGGTCATCTTCTTGATGAG
1 TCATCTTCTTGATGAGATACAGAGAAGTAAATCAAAACAAT-AAGGCGGTCATCTTCCAAATAAG
* * * * *
71164 ATACAAAGAAGTAGACCAAATCAAATGAAGCAAAGTTTAATGCA-AGTGAAAC-TCTAAACCCCT
65 ATACAAAGAAGTAGACCAAAT-AAATGAAGCAAAGCTCAATG-AGAGAGAAACTTCAAAACCCCC
* *
71227 ATCTTCTTGATGAGATATAGAGAAGTGAGTCGAAACAATAAAGTGG
128 ATCTTCTTAATGAGATATAGAGAAGTGAGTCGAAACAATAAAGTGA
*
71273 TCATCTTCCTGATGAGATACAGAGAAGTA
1 TCATCTTCTTGATGAGATACAGAGAAGTA
71302 GACCAAGAGA
Statistics
Matches: 173, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
172 1 0.01
173 144 0.83
174 27 0.16
175 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (173 bp):
TCATCTTCTTGATGAGATACAGAGAAGTAAATCAAAACAATAAGGCGGTCATCTTCCAAATAAGA
TACAAAGAAGTAGACCAAATAAATGAAGCAAAGCTCAATGAGAGAGAAACTTCAAAACCCCCATC
TTCTTAATGAGATATAGAGAAGTGAGTCGAAACAATAAAGTGA
Found at i:71709 original size:18 final size:19
Alignment explanation
Indices: 71681--71716 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
71671 ATAAAATTTG
71681 AAATTTGAAATTTATTTTA
1 AAATTTGAAATTTATTTTA
71700 AAATTT-AAATTTATTTT
1 AAATTTGAAATTTATTTT
71717 GTCTAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AAATTTGAAATTTATTTTA
Found at i:72313 original size:11 final size:10
Alignment explanation
Indices: 72292--72347 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
72282 TGGTTTAAAA
72292 AAATAATAAT
1 AAATAATAAT
72302 AAATACATAAT
1 AAATA-ATAAT
*
72313 AAATAATTAT
1 AAATAATAAT
*
72323 -AATATTAA-
1 AAATAATAAT
*
72331 ATAATTATAAT
1 A-AATAATAAT
72342 AAATAA
1 AAATAA
72348 AAAAGGAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 6 0.17
10 19 0.53
11 11 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAATAATAAT
Found at i:72326 original size:13 final size:13
Alignment explanation
Indices: 72308--72347 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 13
72298 TAATAAATAC
72308 ATAATAAATAATT
1 ATAATAAATAATT
72321 ATAATATTAAATAATT
1 AT-A-A-TAAATAATT
72337 ATAATAAATAA
1 ATAATAAATAA
72348 AAAAGGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 2 0.08
16 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAAATAATT
Found at i:72333 original size:16 final size:16
Alignment explanation
Indices: 72312--72342 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72302 AAATACATAA
72312 TAAATAATTATAATAT
1 TAAATAATTATAATAT
72328 TAAATAATTATAATA
1 TAAATAATTATAATA
72343 AATAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATAATTATAATAT
Found at i:73327 original size:30 final size:30
Alignment explanation
Indices: 73271--73434 Score: 154
Period size: 30 Copynumber: 5.6 Consensus size: 30
73261 TAAAATTTAC
* * ** * *
73271 ATTTTGACCCCCAAATTTTCCCAAAATAAC
1 ATTTTGACCCCTAAACTTTCTTAAAATCAT
***
73301 ATTTTGACATATAAACTTTCTTAAAATCAT
1 ATTTTGACCCCTAAACTTTCTTAAAATCAT
* * * *
73331 ATTTTGACCTC-AAACTTTCTTAATATTAC
1 ATTTTGACCCCTAAACTTTCTTAAAATCAT
* *
73360 ATTTT-AACCCTAAACTTTCCTAAAATCAT
1 ATTTTGACCCCTAAACTTTCTTAAAATCAT
* *
73389 ATTTTAACCCCTAAACTTTTTTAAAATCAT
1 ATTTTGACCCCTAAACTTTCTTAAAATCAT
73419 ATTTTGA-CCCTAAACT
1 ATTTTGACCCCTAAACT
73435 CTTCCAAAAT
Statistics
Matches: 108, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
28 3 0.03
29 48 0.44
30 57 0.53
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTTCTTAAAATCAT
Found at i:73434 original size:59 final size:58
Alignment explanation
Indices: 73312--73664 Score: 199
Period size: 59 Copynumber: 6.0 Consensus size: 58
73302 TTTTGACATA
* * * * *
73312 TAAACTTTCTTAAAATCATATTTTGACCTCAAACTTTCTTAATATTACATTTTAACCC
1 TAAACTTTCCTAAAATCATATTTTAACCCCAAACTTTCTTAAAATCACATTTTAACCC
* * *
73370 TAAACTTTCCTAAAATCATATTTTAACCCCTAAACTTTTTTAAAATCATATTTTGACCC
1 TAAACTTTCCTAAAATCATATTTTAACCCC-AAACTTTCTTAAAATCACATTTTAACCC
** ** ** *
73429 TAAACTCTTCC-AAAATTTCAT-TTAAAACCTTAAA-AATCTCT-AAATTACATTTTAACCCC
1 TAAACT-TTCCTAAAA--TCATATTTTAACCCCAAACTTTCT-TAAAATCACATTTTAA-CCC
* * ** * *
73488 TAAACTTTTCC-AAAATTACATTTTAACACTTAAAC-TTCTCCAAAGT-ACATTTTAACCCC
1 TAAAC-TTTCCTAAAATCATATTTTAAC-CCCAAACTTTCT-TAAAATCACATTTTAA-CCC
* * ** *
73547 TAAACTTTTCCAAAAATCATATTTTAACCCTTAAA--TTCCCAAAATTACATTTTAACCCC
1 TAAAC-TTTCCTAAAATCATATTTTAACCC-CAAACTTTCTTAAAATCACATTTTAA-CCC
* * * * *
73606 TAAAGTTTTCC-AAAATTATATTTTAACCCTAAA--TTCTTCAAATCTTCATTTTTAACCC
1 TAAA-CTTTCCTAAAATCATATTTTAACCCCAAACTTTCTTAAAATC-ACA-TTTTAACCC
73664 T
1 T
73665 GGTTTTTTTT
Statistics
Matches: 241, Mismatches: 37, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
57 13 0.05
58 73 0.30
59 119 0.49
60 32 0.13
61 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (58 bp):
TAAACTTTCCTAAAATCATATTTTAACCCCAAACTTTCTTAAAATCACATTTTAACCC
Found at i:73443 original size:29 final size:28
Alignment explanation
Indices: 73312--73638 Score: 196
Period size: 29 Copynumber: 11.1 Consensus size: 28
73302 TTTTGACATA
* *
73312 TAAACTTTCTTAAAATCATATTTTGA-CC
1 TAAACTTTC-CAAAATCATATTTTAACCC
* * * *
73340 TCAAACTTTCTTAATATTACATTTTAACCC
1 T-AAACTTTC-CAAAATCATATTTTAACCC
73370 TAAACTTTCCTAAAATCATATTTTAACCCC
1 TAAACTTTCC-AAAATCATATTTTAA-CCC
** *
73400 TAAACTTTTTTAAAATCATATTTTGACCC
1 TAAAC-TTTCCAAAATCATATTTTAACCC
** *
73429 TAAACTCTTCCAAAATTTCAT-TTAAAACCT
1 TAAACT-TTCCAAAA--TCATATTTTAACCC
** * * *
73459 TAAA-AATCTCTAAATTACATTTTAACCCC
1 TAAACTTTC-CAAAATCATATTTTAA-CCC
* * *
73488 TAAACTTTTCCAAAATTACATTTTAACACT
1 TAAAC-TTTCCAAAATCATATTTTAAC-CC
* *
73518 TAAACTTCTCCAAAGT-ACATTTTAACCCC
1 TAAACTT-TCCAAAATCATATTTTAA-CCC
73547 TAAACTTTTCCAAAAATCATATTTTAACCC
1 TAAAC-TTTCC-AAAATCATATTTTAACCC
* * *
73577 TTAAA-TTCCCAAAATTACATTTTAACCCC
1 -TAAACTTTCCAAAATCATATTTTAA-CCC
* *
73606 TAAAGTTTTCCAAAATTATATTTTAACCC
1 TAAA-CTTTCCAAAATCATATTTTAACCC
73635 TAAA
1 TAAA
73639 TTCTTCAAAT
Statistics
Matches: 238, Mismatches: 38, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.01
28 25 0.11
29 100 0.42
30 90 0.38
31 21 0.09
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (28 bp):
TAAACTTTCCAAAATCATATTTTAACCC
Found at i:73451 original size:88 final size:87
Alignment explanation
Indices: 73312--73638 Score: 270
Period size: 88 Copynumber: 3.7 Consensus size: 87
73302 TTTTGACATA
** * * * *
73312 TAAACTTTCTTAAAATCATATTTTGA-CCTCAAACTTTCTTAATATTACATTTTAACCCTAAACT
1 TAAACTTTCCCAAAATCACATTTTAACCCT-AAACTTTC-CAAAATTACATTTTAACCCTAAACT
73376 TTCCTAAAATCATATTTTAACCCC
64 TTCCTAAAATCATATTTTAACCCC
*** * * * * * *
73400 TAAACTTTTTTAAAATCATATTTTGACCCTAAACTCTTCCAAAATTTCATTTAAAACCTTAAA-A
1 TAAACTTTCCCAAAATCACATTTTAACCCTAAACT-TTCCAAAATTACATTT-TAACCCTAAACT
* * *
73464 ATCTCT-AAATTACATTTTAACCCC
64 TTC-CTAAAATCATATTTTAACCCC
* * * *
73488 TAAACTTTTCCAAAATTACATTTTAACACTTAAACTTCTCC-AAAGTACATTTTAACCCCTAAAC
1 TAAACTTTCCCAAAATCACATTTTAAC-CCTAAACTT-TCCAAAATTACATTTTAA-CCCTAAAC
* *
73552 TTTTCCAAAAATCATATTTTAACCCT
63 -TTTCCTAAAATCATATTTTAACCCC
* * *
73578 TAAA--TTCCCAAAATTACATTTTAACCCCTAAAGTTTTCCAAAATTATATTTTAACCCTAAA
1 TAAACTTTCCCAAAATCACATTTTAA-CCCTAAA-CTTTCCAAAATTACATTTTAACCCTAAA
73639 TTCTTCAAAT
Statistics
Matches: 195, Mismatches: 31, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
87 2 0.01
88 130 0.67
89 42 0.22
90 21 0.11
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (87 bp):
TAAACTTTCCCAAAATCACATTTTAACCCTAAACTTTCCAAAATTACATTTTAACCCTAAACTTT
CCTAAAATCATATTTTAACCCC
Found at i:73489 original size:118 final size:116
Alignment explanation
Indices: 73355--73647 Score: 317
Period size: 118 Copynumber: 2.5 Consensus size: 116
73345 CTTTCTTAAT
* * ** *
73355 ATTACATTTTAA-CCCTAAACTTTCCTAAAATCATATTTTAACCCCTAAACTTTTTTAAAATCAT
1 ATTACATTTTAACCCCTAAACTTTCC-AAAATTATATTTTAACCCCTAAACTTCTCCAAAAT-AC
* * * *
73419 ATTTTGA-CCCTAAACTCTTCCAAAATTTC-ATTTAAAACCTTAAAAATCTCTAA
64 ATTTTAACCCCTAAACTCTTCCAAAA-ATCAATTTAAAACCTT-AAAATCCCAAA
* * * *
73472 ATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACACTTAAACTTCTCCAAAGTACA
1 ATTACATTTTAACCCCTAAAC-TTTCCAAAATTATATTTTAACCCCTAAACTTCTCCAAAATACA
* * * *
73537 TTTTAACCCCTAAACTTTTCCAAAAATCATATTTTAACCCTTAAATTCCCAAA
65 TTTTAACCCCTAAACTCTTCCAAAAATCA-ATTTAAAACCTTAAAATCCCAAA
* *
73590 ATTACATTTTAACCCCTAAAGTTTTCCAAAATTATATTTTAA-CCCTAAA-TTCTTCAAA
1 ATTACATTTTAACCCCTAAA-CTTTCCAAAATTATATTTTAACCCCTAAACTTCTCCAAA
73648 TCTTCATTTT
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
116 8 0.05
117 26 0.18
118 99 0.67
119 15 0.10
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (116 bp):
ATTACATTTTAACCCCTAAACTTTCCAAAATTATATTTTAACCCCTAAACTTCTCCAAAATACAT
TTTAACCCCTAAACTCTTCCAAAAATCAATTTAAAACCTTAAAATCCCAAA
Found at i:73504 original size:30 final size:30
Alignment explanation
Indices: 73355--73638 Score: 260
Period size: 29 Copynumber: 9.7 Consensus size: 30
73345 CTTTCTTAAT
73355 ATTACATTTTAA-CCCTAAAC-TTTCCTAAA
1 ATTACATTTTAACCCCTAAACTTTTCC-AAA
* * **
73384 ATCATATTTTAACCCCTAAACTTTTTTAAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
* * * *
73414 ATCATATTTTGA-CCCTAAACTCTTCCAAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
* * * * ** * *
73443 ATTTCATTTAAAACCTTAAAAATCT-CTAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
73472 ATTACATTTTAACCCCTAAACTTTTCCAAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
* * *
73502 ATTACATTTTAACACTTAAACTTCTCC-AA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
*
73531 AGTACATTTTAACCCCTAAACTTTTCCAAAA
1 ATTACATTTTAACCCCTAAACTTTTCC-AAA
* * * *
73562 ATCATATTTTAACCCTTAAA--TTCCCAAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
*
73590 ATTACATTTTAACCCCTAAAGTTTTCCAAA
1 ATTACATTTTAACCCCTAAACTTTTCCAAA
*
73620 ATTATATTTTAA-CCCTAAA
1 ATTACATTTTAACCCCTAAA
73639 TTCTTCAAAT
Statistics
Matches: 203, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
28 20 0.10
29 88 0.43
30 74 0.36
31 21 0.10
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTACATTTTAACCCCTAAACTTTTCCAAA
Found at i:84921 original size:28 final size:28
Alignment explanation
Indices: 84881--84938 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
84871 ACCCAAATCT
* *
84881 TTATTTTAAATTTATTCTAAGTTTAGAA
1 TTATTTTAAATTTATTCTAAATTTAAAA
*
84909 TTATTTTAAATTTATTTTAAATTTAAAA
1 TTATTTTAAATTTATTCTAAATTTAAAA
84937 TT
1 TT
84939 TGAAATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (28 bp):
TTATTTTAAATTTATTCTAAATTTAAAA
Found at i:84932 original size:11 final size:11
Alignment explanation
Indices: 84909--84933 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84899 AAGTTTAGAA
84909 TTATTTTAAAT
1 TTATTTTAAAT
84920 TTATTTTAAAT
1 TTATTTTAAAT
84931 TTA
1 TTA
84934 AAATTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:84997 original size:15 final size:16
Alignment explanation
Indices: 84977--85011 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
84967 ATTTAAAATA
*
84977 AAAAGCCCAAGTTA-C
1 AAAAGCCCAAATTACC
84992 AAAAGCCCAAATTACC
1 AAAAGCCCAAATTACC
85008 AAAA
1 AAAA
85012 AGACCTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.54, C:0.26, G:0.09, T:0.11
Consensus pattern (16 bp):
AAAAGCCCAAATTACC
Found at i:85595 original size:3 final size:3
Alignment explanation
Indices: 85571--85655 Score: 95
Period size: 3 Copynumber: 27.7 Consensus size: 3
85561 GCATTTAGTA
85571 AAT AAGT AAT AAAT ATAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AA-T AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
85618 AAT AAT AA- ATAT AAT ATT AAT AA- AATT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT AAT AAT AA
85656 ATAAAAAAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
2 5 0.07
3 55 0.76
4 12 0.17
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:86708 original size:30 final size:29
Alignment explanation
Indices: 86662--86999 Score: 173
Period size: 29 Copynumber: 11.6 Consensus size: 29
86652 CCTAAAAGTC
86662 CCTAAACTTTCCAAAATTCCATTTTTGACT
1 CCTAAACTTTCCAAAATTCCATTTTT-ACT
* **
86692 -CTAAA-TTCTCTTAAAATTATATTTTTACT
1 CCTAAACTT-TC-CAAAATTCCATTTTTACT
86721 CCCTAAACTTTCCAAAATTCCATTTTTAAC-
1 -CCTAAACTTTCCAAAATTCCATTTTT-ACT
* * * *
86751 CTTGAATTTTCCAAAAATTACATTTTTTA-T
1 CCTAAACTTTCC-AAAATTCCA-TTTTTACT
** *
86781 CCTCAAACTTTTTAAAATTCCATTTTAAC-
1 CCT-AAACTTTCCAAAATTCCATTTTTACT
* ** *
86810 CCCAAA-TTTCCAAAAATTATATTTTTACA
1 CCTAAACTTTCC-AAAATTCCATTTTTACT
*
86839 CCCAAAC-TTCCAAAATTCCATTTTTAC-
1 CCTAAACTTTCCAAAATTCCATTTTTACT
* * * *
86866 CCCAAATTTTCCAAAAATTACATTTTCTTC-
1 CCTAAACTTTCC-AAAATTCCATTTT-TACT
* * *
86896 CCTGAAC-TTCTAAAAATTCCATTTTTA-A
1 CCTAAACTTTC-CAAAATTCCATTTTTACT
* * *
86924 CCTCGAATTTTCCAAAAATT--ATATTTCAC-
1 CCT-AAACTTTCC-AAAATTCCAT-TTTTACT
* * *
86953 CCCAAACTTTCCTAAATTCCATTTTTAAT
1 CCTAAACTTTCCAAAATTCCATTTTTACT
* *
86982 CCTGAATTTTCCAAAATT
1 CCTAAACTTTCCAAAATT
87000 TACACTTTCA
Statistics
Matches: 234, Mismatches: 47, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
27 14 0.06
28 53 0.23
29 88 0.38
30 58 0.25
31 19 0.08
32 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.41
Consensus pattern (29 bp):
CCTAAACTTTCCAAAATTCCATTTTTACT
Found at i:86815 original size:28 final size:27
Alignment explanation
Indices: 86794--86977 Score: 102
Period size: 28 Copynumber: 6.5 Consensus size: 27
86784 CAAACTTTTT
86794 AAAATTCCATTTTAACCCCAAATTTCCA
1 AAAATTCCATTTTAACCCCAAATTT-CA
** * * *
86822 AAAATTATATTTTTACACCCAAACTTCC
1 AAAATTCCATTTTAAC-CCCAAATTTCA
*
86850 AAAATTCCATTTTTACCCCAAATTTTCCA
1 AAAATTCCATTTTAACCCCAAA-TTT-CA
* ** ** *
86879 AAAATTACATTTTCTTCCCTGAACTTCTA
1 AAAATTCCATTTT-AACCCCAAATTTC-A
* *
86908 AAAATTCCATTTTTAACCTCGAATTTTCCA
1 AAAATTCCA-TTTTAACC-CCAAATTT-CA
* *
86938 AAAATT--ATATTTCACCCCAAACTTTCC
1 AAAATTCCAT-TTTAACCCCAAA-TTTCA
*
86965 TAAATTCCATTTT
1 AAAATTCCATTTT
86978 TAATCCTGAA
Statistics
Matches: 118, Mismatches: 26, Indels: 24
0.70 0.15 0.14
Matches are distributed among these distances:
27 16 0.14
28 44 0.37
29 36 0.31
30 21 0.18
31 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAATTCCATTTTAACCCCAAATTTCA
Found at i:86891 original size:115 final size:117
Alignment explanation
Indices: 86660--87008 Score: 408
Period size: 116 Copynumber: 3.0 Consensus size: 117
86650 ACCCTAAAAG
* * * **
86660 TCCCTAAACTT-TCCAAAATTCCATTTTTGA-CTCTAAATTCTCTTAAAATTATATTTTTACTCC
1 TCCCTAAACTTCT-AAAAATTCCATTTTTAACCTCCAAATT-TCCAAAAATTATATTTTTAC-CC
*
86723 CTAAACTTTCCAAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACATTTT-T
63 C-AAACTTTCCAAAATTCCATTTTTAACCCTGAATTTTCCAAAAATTACATTTTCT
* * *
86778 TATCCTCAAACTTTTTAAAATTCCA-TTTTAACC-CCAAATTTCCAAAAATTATATTTTTACACC
1 T-CCCT-AAACTTCTAAAAATTCCATTTTTAACCTCCAAATTTCCAAAAATTATATTTTTAC-CC
**
86841 CAAAC-TTCCAAAATTCCATTTTT-ACCCCAAATTTTCCAAAAATTACATTTTCT
63 CAAACTTTCCAAAATTCCATTTTTAACCCTGAATTTTCCAAAAATTACATTTTCT
* * * *
86894 TCCCTGAACTTCTAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTATA-TTTCACCCCAA
1 TCCCTAAACTTCTAAAAATTCCATTTTTAACCTCCAAATTTCCAAAAATTATATTTTTACCCCAA
* * * *
86958 ACTTTCCTAAATTCCATTTTTAATCCTGAATTTTCCAAAATTTACACTTTC
66 ACTTTCCAAAATTCCATTTTTAACCCTGAATTTTCCAAAAATTACATTTTC
87009 ACCCCCAAGC
Statistics
Matches: 199, Mismatches: 23, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
114 22 0.11
115 58 0.29
116 62 0.31
117 4 0.02
118 22 0.11
119 14 0.07
120 16 0.08
121 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.41
Consensus pattern (117 bp):
TCCCTAAACTTCTAAAAATTCCATTTTTAACCTCCAAATTTCCAAAAATTATATTTTTACCCCAA
ACTTTCCAAAATTCCATTTTTAACCCTGAATTTTCCAAAAATTACATTTTCT
Found at i:86989 original size:57 final size:57
Alignment explanation
Indices: 86665--87038 Score: 333
Period size: 57 Copynumber: 6.4 Consensus size: 57
86655 AAAAGTCCCT
* * * ** *
86665 AAACTTTCCAAAATTCCATTTTTGACTCTAAATTCTCTTAAAATTATATTTTTACTCCC
1 AAACTTTCCAAAATTCCATTTTTAAC-CTGAATTTTCCAAAAATTATATTTTCAC-CCC
* * *
86724 TAAACTTTCCAAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACATTTTTTATCCTC
1 -AAACTTTCCAAAATTCCATTTTTAACC-TGAATTTTCCAAAAATTATA-TTTTCA-CCCC
** ** * *
86785 AAACTTTTTAAAATTCCA-TTTTAACCCCAAATTTCCAAAAATTATATTTTTACACCC
1 AAACTTTCCAAAATTCCATTTTTAACCTGAATTTTCCAAAAATTATATTTTCAC-CCC
* ** * * *
86842 AAAC-TTCCAAAATTCCATTTTTACCCCAAATTTTCCAAAAATTACATTTTCTTCCCT
1 AAACTTTCCAAAATTCCATTTTTAACCTGAATTTTCCAAAAATTATATTTTC-ACCCC
* *
86899 GAAC-TTCTAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTATA-TTTCACCCC
1 AAACTTTC-CAAAATTCCATTTTTAACCT-GAATTTTCCAAAAATTATATTTTCACCCC
* * * *
86956 AAACTTTCCTAAATTCCATTTTTAATCCTGAATTTTCCAAAATTTACACTTTCACCCCC
1 AAACTTTCCAAAATTCCATTTTTAA-CCTGAATTTTCCAAAAATTATATTTTCA-CCCC
* *
87015 AAGCCTTCCAAAAGTTACCATTTT
1 AAACTTTCCAAAA-TT-CCATTTT
87039 ACCCCCGAAT
Statistics
Matches: 261, Mismatches: 39, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
56 12 0.05
57 86 0.33
58 49 0.19
59 40 0.15
60 58 0.22
61 15 0.06
62 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.40
Consensus pattern (57 bp):
AAACTTTCCAAAATTCCATTTTTAACCTGAATTTTCCAAAAATTATATTTTCACCCC
Found at i:87090 original size:57 final size:58
Alignment explanation
Indices: 87011--87154 Score: 168
Period size: 57 Copynumber: 2.5 Consensus size: 58
87001 ACACTTTCAC
* *
87011 CCCCAAGCCTTCCAAAAGTTACCATTTTACCCCCGA-ATGTCTAAAAACAT-C-ATTTTGA
1 CCCCAA-CCTTCCAAAAATTACCATTTTA-CCCCGAGATGTCTAAAAA-ATCCTATTTTAA
* * * *
87069 CCCCAACCTTTCAAAAATTACCATTTTACCCCTAGATGTCTAAAAATTCCTTTTTTAA
1 CCCCAACCTTCCAAAAATTACCATTTTACCCCGAGATGTCTAAAAAATCCTATTTTAA
*
87127 CCTCGAACCTTCCAAAAATTACCATTTT
1 CC-CCAACCTTCCAAAAATTACCATTTT
87155 GTTCTTGAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
56 6 0.08
57 32 0.43
58 13 0.18
59 23 0.31
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.32
Consensus pattern (58 bp):
CCCCAACCTTCCAAAAATTACCATTTTACCCCGAGATGTCTAAAAAATCCTATTTTAA
Found at i:87093 original size:29 final size:29
Alignment explanation
Indices: 87061--87155 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
87051 CTAAAAACAT
87061 CATTTTGACCCCAACCTTTCAAAAATTAC
1 CATTTTGACCCCAACCTTTCAAAAATTAC
* ** *
87090 CATTTT-ACCCCTAGATGTCTAAAAATT-C
1 CATTTTGACCCCAACCTTTC-AAAAATTAC
* * * *
87118 CTTTTTTAACCTCGAACCTTCCAAAAATTAC
1 C-ATTTTGACC-CCAACCTTTCAAAAATTAC
87149 CATTTTG
1 CATTTTG
87156 TTCTTGAAGC
Statistics
Matches: 48, Mismatches: 13, Indels: 9
0.69 0.19 0.13
Matches are distributed among these distances:
28 11 0.23
29 17 0.35
30 14 0.29
31 6 0.12
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
CATTTTGACCCCAACCTTTCAAAAATTAC
Found at i:113888 original size:19 final size:21
Alignment explanation
Indices: 113864--113903 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
113854 TTTATCATGC
*
113864 CATATACTA-ACATTT-AATT
1 CATATACCATACATTTCAATT
113883 CATATACCATACATTTCAATT
1 CATATACCATACATTTCAATT
113904 TCATGAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
CATATACCATACATTTCAATT
Found at i:115769 original size:24 final size:23
Alignment explanation
Indices: 115734--115779 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
115724 TGATATGAAT
* *
115734 AATATTATATGAATTGATATGTG
1 AATATTAGATGAATAGATATGTG
115757 AATATATAGATGAATAGATATGT
1 AATAT-TAGATGAATAGATATGT
115780 TTGTGTAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.39
Consensus pattern (23 bp):
AATATTAGATGAATAGATATGTG
Found at i:121573 original size:24 final size:23
Alignment explanation
Indices: 121540--121585 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
121530 ATTCATCTTT
* *
121540 TATTAATTTGCTCTGACATATTA
1 TATTAATTTGCACTAACATATTA
121563 TATTATATTTGCACTAACATATT
1 TATTA-ATTTGCACTAACATATT
121586 TAATTCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.48
Consensus pattern (23 bp):
TATTAATTTGCACTAACATATTA
Found at i:126630 original size:5 final size:5
Alignment explanation
Indices: 126620--126646 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
126610 AGTGGAGCGA
126620 GGTGG GGTGG GGTGG GGTGG GGTGG GG
1 GGTGG GGTGG GGTGG GGTGG GGTGG GG
126647 CGGAGCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGTGG
Found at i:129184 original size:36 final size:36
Alignment explanation
Indices: 129137--129213 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
129127 TGACTTACTA
* *
129137 AATATCAATATTTAGTGAATTCAAATATATGACAAT
1 AATATCAATATTTAATGAATTCAAATACATGACAAT
** *
129173 AATATCAATATTTAATGAATTTGAATACGTGACAAT
1 AATATCAATATTTAATGAATTCAAATACATGACAAT
129209 AATAT
1 AATAT
129214 AATTAACTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (36 bp):
AATATCAATATTTAATGAATTCAAATACATGACAAT
Found at i:129337 original size:27 final size:28
Alignment explanation
Indices: 129281--129338 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
129271 CAAATTATTT
* *
129281 TTCTCGATTTCTTATTCTCAATTTTCAA
1 TTCTCGATTTCTTATTCTAAATTATCAA
* *
129309 TTCTTGATTT-TTATTCTAAATTATGAA
1 TTCTCGATTTCTTATTCTAAATTATCAA
129336 TTC
1 TTC
129339 CCAAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.55
Consensus pattern (28 bp):
TTCTCGATTTCTTATTCTAAATTATCAA
Found at i:134865 original size:21 final size:21
Alignment explanation
Indices: 134825--134876 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
134815 ATTATCGATG
*
134825 TTCATG-ATTTGACTCCACTA
1 TTCATGAACTTGACTCCACTA
134845 TTCATGAACTTGA-TCCTACTA
1 TTCATGAACTTGACTCC-ACTA
134866 TTCATCGAACT
1 TTCAT-GAACT
134877 GACATTCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.32
21 14 0.50
22 5 0.18
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
TTCATGAACTTGACTCCACTA
Found at i:137286 original size:14 final size:15
Alignment explanation
Indices: 137265--137295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137255 TATTATTATA
*
137265 ATTTTTTTACAATTG
1 ATTTTTTAACAATTG
137280 ATTTTTTAACAATTG
1 ATTTTTTAACAATTG
137295 A
1 A
137296 ACCATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTTTAACAATTG
Found at i:145520 original size:29 final size:29
Alignment explanation
Indices: 145494--145552 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
145484 TCTAATTTTG
*
145494 AGGTATTTGGACTTAATGTTGCAATTTAT
1 AGGTATTTGGACTTAATGCTGCAATTTAT
145523 AGGTATTTGGACTTAATGCTGCAATTTAT
1 AGGTATTTGGACTTAATGCTGCAATTTAT
145552 A
1 A
145553 AGTGGTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (29 bp):
AGGTATTTGGACTTAATGCTGCAATTTAT
Found at i:147372 original size:17 final size:17
Alignment explanation
Indices: 147350--147460 Score: 73
Period size: 17 Copynumber: 6.4 Consensus size: 17
147340 AACTTTTGAT
*
147350 TTTAAATTTATATTAAG
1 TTTAAATTTATATTAAA
** *
147367 TTTAAATTGGTTTTAAA
1 TTTAAATTTATATTAAA
** *
147384 TTTATTTTTAAATTTAAA
1 TTTAAATTTATA-TTAAA
* *
147402 TTT-ACTTTAAATTTAAA
1 TTTAAATTTATA-TTAAA
* *
147419 TTTAAATTTGTTTTAAA
1 TTTAAATTTATATTAAA
147436 TTTAAATTTAGT-TTAAA
1 TTTAAATTTA-TATTAAA
147453 TTTGAAAT
1 TTT-AAAT
147461 GTTTTTAAAC
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
17 56 0.77
18 17 0.23
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATATTAAA
Found at i:147387 original size:6 final size:6
Alignment explanation
Indices: 147378--147460 Score: 82
Period size: 6 Copynumber: 14.2 Consensus size: 6
147368 TTAAATTGGT
** *
147378 TTTAAA TTTATT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
147425 TTT-GT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA T
147461 GTTTTTAAAC
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
5 11 0.18
6 46 0.75
7 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:147403 original size:29 final size:28
Alignment explanation
Indices: 147345--147486 Score: 106
Period size: 29 Copynumber: 5.0 Consensus size: 28
147335 GATCAAACTT
* *
147345 TTGATTTTAAATTTATATTAAGTTTAAA
1 TTGATTTTAAATTTATTTTAAATTTAAA
*
147373 TTGGTTTTAAATTTATTTTTAAATTTAAA
1 TTGATTTTAAATTTA-TTTTAAATTTAAA
* * * ***
147402 TTTACTTTAAATTTAAATTTAAATTTGTT
1 TTGATTTTAAATTT-ATTTTAAATTTAAA
* * *
147431 TTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTGATTTTAAATTTATTTTAAATTT-AAA
* * *
147460 -TGTTTTTAAACATAATTTTAAATTTAA
1 TTGATTTTAAA-TTTATTTTAAATTTAA
147487 TTTAAAAGTC
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
28 33 0.38
29 54 0.61
30 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (28 bp):
TTGATTTTAAATTTATTTTAAATTTAAA
Found at i:147410 original size:23 final size:23
Alignment explanation
Indices: 147390--147445 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
147380 TAAATTTATT
147390 TTTAAATTTAAATTTACTTTAAA
1 TTTAAATTTAAATTTACTTTAAA
**
147413 TTTAAATTTAAATTTGTTTTAAA
1 TTTAAATTTAAATTTACTTTAAA
147436 TTTAAATTTA
1 TTTAAATTTA
147446 GTTTAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTTACTTTAAA
Found at i:147455 original size:40 final size:40
Alignment explanation
Indices: 147344--147460 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
147334 GGATCAAACT
* * ***
147344 TTTGATTTTAAATTTATATTAAGTTTAAA-TTGGTTTTAAA
1 TTTG-TTTTAAATTTAAATTTAGTTTAAATTTAAATTTAAA
* *
147384 TTTATTTTTAAATTTAAATTTACTTTAAATTTAAATTTAAA
1 TTT-GTTTTAAATTTAAATTTAGTTTAAATTTAAATTTAAA
147425 TTTGTTTTAAATTTAAATTTAGTTTAAATTTGAAAT
1 TTTGTTTTAAATTTAAATTTAGTTTAAATTT-AAAT
147461 GTTTTTAAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
40 50 0.77
41 15 0.23
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.56
Consensus pattern (40 bp):
TTTGTTTTAAATTTAAATTTAGTTTAAATTTAAATTTAAA
Found at i:147628 original size:36 final size:36
Alignment explanation
Indices: 147581--147656 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
147571 ACAACAATCT
* *
147581 AAATGGTCCAATTACAAATAGATCTGAATTAAGCCC
1 AAATGGCCCAATTACAAACAGATCTGAATTAAGCCC
* *
147617 AAATGGCCCAATTATAAACAGATCTGAATTAAGCCT
1 AAATGGCCCAATTACAAACAGATCTGAATTAAGCCC
147653 AAAT
1 AAAT
147657 CACCCAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (36 bp):
AAATGGCCCAATTACAAACAGATCTGAATTAAGCCC
Found at i:149086 original size:29 final size:28
Alignment explanation
Indices: 149049--149405 Score: 198
Period size: 29 Copynumber: 12.2 Consensus size: 28
149039 TAATAATCAG
* *
149049 ATTTCGACCCTCGAACATTCCAAAAATAT
1 ATTTTGACCCTCGAAC-TTCCAAAAATAC
*
149078 ATTTTGACCC-CTAAACTTCCAAAAATTAC
1 ATTTTGACCCTC-GAACTTCCAAAAA-TAC
*
149107 ATTTTGACCCT-AAACTTTCCAAAAATTAC
1 ATTTTGACCCTCGAAC-TTCCAAAAA-TAC
* * *
149136 GTTTTTTACCCTCGAACTTCCAAAATTACC
1 -ATTTTGACCCTCGAACTTCCAAAAATA-C
* **
149166 ATTTT-ACCCTCGAATTTTTTAAAAATATC
1 ATTTTGACCCTCGAA-CTTCCAAAAATA-C
*
149195 ATTTTTACCCTCGAACTTCCAAAAATCAC
1 ATTTTGACCCTCGAACTTCCAAAAAT-AC
*
149224 ATCTTTG-CCCTCGAACTTCTAAAAATTACC
1 AT-TTTGACCCTCGAACTTCCAAAAA-TA-C
* **
149254 AATTT-ACCCTCGAACTTCCAAAAATTGT
1 ATTTTGACCCTCGAACTTCCAAAAA-TAC
*
149282 ATTTTTGACCC-CAAACTTTCCAAAAAATAC
1 A-TTTTGACCCTCGAAC-TTCC-AAAAATAC
* *
149312 ATTTTTATCCC-C-ATA-TGTCAAAAAATTAC
1 ATTTTGA-CCCTCGA-ACT-TCCAAAAA-TAC
* * *
149341 ATTTTCACCCTCG-AGTGTCCAAAAATTATT
1 ATTTTGACCCTCGAACT-TCCAAAAA-TA-C
149371 ATTTT-ACCCTCGAA-TCTCCAAAAAATATC
1 ATTTTGACCCTCGAACT-TCC-AAAAATA-C
149400 ATTTTG
1 ATTTTG
149406 GCATCGGGCA
Statistics
Matches: 266, Mismatches: 33, Indels: 57
0.75 0.09 0.16
Matches are distributed among these distances:
28 34 0.13
29 164 0.62
30 60 0.23
31 8 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (28 bp):
ATTTTGACCCTCGAACTTCCAAAAATAC
Found at i:149161 original size:58 final size:59
Alignment explanation
Indices: 149049--149405 Score: 251
Period size: 58 Copynumber: 6.1 Consensus size: 59
149039 TAATAATCAG
* * * * *
149049 ATTTCGACCCTCGAACATTCCAAAAA-TA-TATTTTGACCC-CTAAACTTCCAAAAATTAC
1 ATTTTGACCCTCAAACTTTCCAAAAATTACT-TTTTTACCCTC-GAACTTCCAAAAATTAC
149107 ATTTTGACCCT-AAACTTTCCAAAAATTACGTTTTTTACCCTCGAACTTCC-AAAATTACC
1 ATTTTGACCCTCAAACTTTCCAAAAATTAC-TTTTTTACCCTCGAACTTCCAAAAATTA-C
* * ** * *
149166 ATTTT-ACCCTCGAATTTTTTAAAAA-TATCATTTTTACCCTCGAACTTCCAAAAATCAC
1 ATTTTGACCCTCAAACTTTCCAAAAATTA-CTTTTTTACCCTCGAACTTCCAAAAATTAC
* * *** **
149224 ATCTTTG-CCCTCGAAC-TTCTAAAAATTACCAATTTACCCTCGAACTTCCAAAAATTGT
1 AT-TTTGACCCTCAAACTTTCCAAAAATTACTTTTTTACCCTCGAACTTCCAAAAATTAC
* * *
149282 ATTTTTGACCC-CAAACTTTCCAAAAAATACATTTTTATCCC-C-ATA-TGTCAAAAAATTAC
1 A-TTTTGACCCTCAAACTTTCCAAAAATTACTTTTTTA-CCCTCGA-ACT-TCCAAAAATTAC
* * * * *
149341 ATTTTCACCCTC-GAGTGTCCAAAAATTA-TTATTTTACCCTCGAA-TCTCCAAAAAATATC
1 ATTTTGACCCTCAAACTTTCCAAAAATTACTT-TTTTACCCTCGAACT-TCCAAAAATTA-C
149400 ATTTTG
1 ATTTTG
149406 GCATCGGGCA
Statistics
Matches: 239, Mismatches: 38, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
57 16 0.07
58 128 0.54
59 90 0.38
60 5 0.02
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (59 bp):
ATTTTGACCCTCAAACTTTCCAAAAATTACTTTTTTACCCTCGAACTTCCAAAAATTAC
Found at i:149205 original size:88 final size:87
Alignment explanation
Indices: 149091--149318 Score: 246
Period size: 88 Copynumber: 2.6 Consensus size: 87
149081 TTGACCCCTA
*
149091 AACTTCCAAAAATTACATTTTGACCCTAAACTTTCCAAAAATTACGTTTTTTACCCTCGAACTTC
1 AACTTCCAAAAATTACATTTTTACCCTAAACTTTCCAAAAATTAC-TTTTTTACCCTCGAACTTC
* *
149156 -CAAAATTACCATTTTACCCTCG
65 TAAAAATTACCAATTTACCCTCG
* ** * * * * *
149178 AATTTTTTAAAAA-TATCATTTTTACCCTCGAAC-TTCCAAAAATCACATCTTTGCCCTCGAACT
1 AA-CTTCCAAAAATTA-CATTTTTACCCT-AAACTTTCCAAAAATTACTTTTTTACCCTCGAACT
149241 TCTAAAAATTACCAATTTACCCTCG
63 TCTAAAAATTACCAATTTACCCTCG
** * * *
149266 AACTTCCAAAAATTGTATTTTTGACCCCAAACTTTCCAAAAAATACATTTTTA
1 AACTTCCAAAAATTACATTTTT-ACCCTAAACTTTCCAAAAATTACTTTTTTA
149319 TCCCCATATG
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
87 36 0.32
88 73 0.65
89 3 0.03
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (87 bp):
AACTTCCAAAAATTACATTTTTACCCTAAACTTTCCAAAAATTACTTTTTTACCCTCGAACTTCT
AAAAATTACCAATTTACCCTCG
Found at i:161872 original size:209 final size:209
Alignment explanation
Indices: 161508--162724 Score: 1383
Period size: 209 Copynumber: 5.8 Consensus size: 209
161498 AGATAACGAG
** * * * * * * *
161508 GCGGTCATCTTCCTGATGAGATACAAAGAAGTATACTAACTCGATCAAACAAAGCTCAAATGTGA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTC-AATATGA
* * * * *
161573 GCGAAACTTCGAACCCTAGCTTCCTGATGAGATACTAAGAAGCAGGACGAAGCAATAAAATGATT
65 GCAAAACTTCGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
* * * * * *
161638 ATCTTCCTGATGAGATA-TAGAGAAGTGAACCAAA-TCTGTCTTCCTGATAAGACACAAAGAAGT
130 AGCTTTCTGATGAGATACT-GAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAGAAGT
*
161701 GGATCAAAACAAGTGAT
193 GGATTAAAACAAGTGAT
* * *
161718 GCGGTCATCTTTCTGATGAGATATTGAGAAGTAGACCAAATCAATGAAACCAATCTCAATATGAG
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATATGAG
* *
161783 CAAAACTGT-GAAGCCTAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTC
66 CAAAACT-TCGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
*
161847 AGCTTTCTGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
130 AGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
161912 ATTAAAACAAGTGAT
195 ATTAAAACAAGTGAT
161927 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATATGAG
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATATGAG
* * * * *
161992 TAAAACTTTGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAATGGTCA
66 CAAAACTTCGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
* * * *
162057 GCTTTCTAATGAAATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGGGAAGCGGA
131 GCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGA
*
162122 TTGAAACAAGTGAT
196 TTAAAACAAGTGAT
* * * * *
162136 GTGGTCATCTTCCTGATGAGATACTGAGAAGTAGAACAAATCAATAAAACCAGGCTCAA-AGTAA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATA-TGA
* * * * * *
162200 GTAGATCTTCGAA-CCTCAGCTTCCTGATGAGATACTAAGAAGCAAGTTGAAGCAATAAAGA-GG
65 GCAAAACTTCGAAGCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA-ATGG
* * * * * * * * * * *
162263 TTA-CCTTCTTAATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATTAGACATATAAAAG
128 TTAGCTTTC-TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
* *
162327 TCGATCAAAACAAGTGAT
192 TGGATTAAAACAAGTGAT
* ** *
162345 GCGGTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATGAAGTCAGGCTCAA-AGTGA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATA-TGA
* * * * *
162409 GCAAACCTTCGAATCCCAGCTTCCTGATGAGATATTGAGAAGAAGGTCGAAGCAATAAAATGGTT
65 GCAAAACTTCGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
162474 AGC-TTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTG
130 AGCTTTC-TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTG
* *
162538 AATTGAAACAAGTGAT
194 GATTAAAACAAGTGAT
* ** * * * * *
162554 GTGGTCATCTTTTTGATAAGATACTGAGAAGTAGATCAAATCAATGAAACCAGGCTAAAAATGAG
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATATGAG
* * * * * * * * ***
162619 CAAATCTTCGAACCCCAACTTCTTGATGAGATA-TGGAGAAGCAAGTTGAAGTAATAAAATGACC
66 CAAAACTTCGAAGCCTAGCTTCCTGATGAGATACT-GAGAAGCAGGTCGAAGCAATAAAATGGTT
* * * ** * *
162683 ATCTTCCTGACGAGACGCAGAGAAGTGAACCAAATTCGTCTT
130 AGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTT
162725 TCTAGTAAAA
Statistics
Matches: 867, Mismatches: 126, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
208 11 0.01
209 799 0.92
210 57 0.07
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAATATGAG
CAAAACTTCGAAGCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
GCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGA
TTAAAACAAGTGAT
Found at i:163182 original size:28 final size:28
Alignment explanation
Indices: 163138--163215 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
163128 AAACTTTTGA
*
163138 TTTTAAATTTATATTAAGTTT-AAATTGG
1 TTTTAAATTTATATTAAATTTGAAA-TGG
163166 TTTTAAATTTAGT-TTAAATTTGAAATGG
1 TTTTAAATTTA-TATTAAATTTGAAATGG
* *
163194 TTTTAAACTTAATTTTAAATTT
1 TTTTAAA-TTTATATTAAATTT
163216 AATTTAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 29 0.66
29 15 0.34
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (28 bp):
TTTTAAATTTATATTAAATTTGAAATGG
Found at i:164476 original size:48 final size:48
Alignment explanation
Indices: 164417--164749 Score: 246
Period size: 48 Copynumber: 6.9 Consensus size: 48
164407 TTGAGCTCTA
* *
164417 CTTCATTGTTTTGGTCTACTTCTTTATATCTCATCAGGAAGATGACCG
1 CTTCATTGTTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACCG
* * * * * ***
164465 CTTCATCGTTTTGATCCACTTTTGTGTATCTCATCAGGAAGATGGGGG
1 CTTCATTGTTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACCG
* * * * * * * * *
164513 TTTGA-AG-TTTCATTCTACTCCACTATAAC-C-TCAGGGATGTTGACCTCTG
1 CTTCATTGTTTTGA-TCTACTTCTCTATATCTCATCA-GGAAGATGA-C-C-G
* *
164562 CTTCATTATTTT-AGTCCACTTCTCTATATCTCATCAGGAAGATGACCG
1 CTTCATTGTTTTGA-TCTACTTCTCTATATCTCATCAGGAAGATGACCG
* * * * * **
164610 CTTCATCGTTTTGTTCCACTTCTCTGTATCTCATCAAGAAGATGATTG
1 CTTCATTGTTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACCG
* * *
164658 CTTCATTGTTTTGATCTATTTCTCTATATCTCATCAAGAAGATGACCA
1 CTTCATTGTTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACCG
* * * *
164706 CTTTATTGTTTTGATCTACTTTTTTGTATCTCAT-ATGGAAGATG
1 CTTCATTGTTTTGATCTACTTCTCTATATCTCATCA-GGAAGATG
164750 GGGTTTGAAG
Statistics
Matches: 217, Mismatches: 57, Indels: 22
0.73 0.19 0.07
Matches are distributed among these distances:
45 3 0.01
46 11 0.05
47 11 0.05
48 159 0.73
49 5 0.02
50 14 0.06
51 11 0.05
52 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (48 bp):
CTTCATTGTTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACCG
Found at i:164607 original size:145 final size:145
Alignment explanation
Indices: 164337--164653 Score: 490
Period size: 145 Copynumber: 2.2 Consensus size: 145
164327 GTTTCACTCT
* * * * *
164337 ACTTCACTGTATCTTATCAAGAAGATGTGGGTTTGAAGTTTCACTCTACTCCACTGTAACCTTAG
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCTACTCCACTATAACCTCAG
* * * * *
164402 GGATGTTGAGCTCTACTTCATTGTTTTGGTCTACTTCTTTATATCTCATCAGGAAGATGACCGCT
66 GGATGTTGACCTCTACTTCATTATTTTAGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCT
164467 TCATCGTTTTGATCC
131 TCATCGTTTTGATCC
* * * *
164482 ACTTTTGTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCATTCTACTCCACTATAACCTCAG
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCTACTCCACTATAACCTCAG
*
164547 GGATGTTGACCTCTGCTTCATTATTTTAGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCT
66 GGATGTTGACCTCTACTTCATTATTTTAGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCT
*
164612 TCATCGTTTTGTTCC
131 TCATCGTTTTGATCC
164627 ACTTCTCTGTATCTCATCAAGAAGATG
1 ACTTCTCTGTATCTCATCAAGAAGATG
164654 ATTGCTTCAT
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
145 153 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (145 bp):
ACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCTACTCCACTATAACCTCAG
GGATGTTGACCTCTACTTCATTATTTTAGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCT
TCATCGTTTTGATCC
Found at i:164811 original size:72 final size:72
Alignment explanation
Indices: 164703--164865 Score: 191
Period size: 72 Copynumber: 2.2 Consensus size: 72
164693 AAGAAGATGA
* * * * * *
164703 CCACTTTATTGTTTTGATCTACTTTTTTGTATCTCATATGGAAGATGGGGTTTGAAGTCTCACTC
1 CCACTTCATTGTTTTGA-C--CTTCTCTGTATCTCATATAGAAGATGGGGTCTGAAGTCTCACCC
**
164768 ATGTTGAGCT
63 ACATTGAGCT
* * *
164778 CTACTTCATTGTTTTGACCTTCTCTGTATCTCATCTAGAAGATGGGGTCTGAAGTTTCACCCACA
1 CCACTTCATTGTTTTGACCTTCTCTGTATCTCATATAGAAGATGGGGTCTGAAGTCTCACCCACA
164843 TTGAGCT
66 TTGAGCT
*
164850 CCACTTTATTGTTTTG
1 CCACTTCATTGTTTTG
164866 CTCTACTACA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
72 59 0.79
74 1 0.01
75 15 0.20
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (72 bp):
CCACTTCATTGTTTTGACCTTCTCTGTATCTCATATAGAAGATGGGGTCTGAAGTCTCACCCACA
TTGAGCT
Found at i:165063 original size:84 final size:84
Alignment explanation
Indices: 164920--165193 Score: 199
Period size: 84 Copynumber: 3.2 Consensus size: 84
164910 TTAACATAGG
* * ** * * * ** **
164920 GGTAAAAGATTGGATTATGGCTTCAATCTGGCCCGTGGTTGGGGTAAGAGATCAGATGATGTCTT
1 GGTAAGAGATTGGATGATAACTTCAATATGCCCCATGGTCAGGGTAAGAGATCAGATGATAACTT
* * *
164985 TAATTTGCCTCATGGTCGA
66 CAATCTGCCTCATGATCGA
*
165004 GGTAAGAGATTGGATGATAACTTCAATATGCCCCATGGTCAGGGTAAGAGAATGA-ATGATAACT
1 GGTAAGAGATTGGATGATAACTTCAATATGCCCCATGGTCAGGGTAAGAG-ATCAGATGATAACT
*
165068 TCAATCTGCCTTATGATCGA
65 TCAATCTGCCTCATGATCGA
* ** * * * * **
165088 GGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCTTCTTGACTTAGGGGTAAAAGATTGGATG
1 GGTAAGAGATTGGAT---GATAACTTCAATATGCCC--CATG-GTCA-GGGTAAGAGATCAGATG
** * *
165153 ATGGCTTCAATCTGCCCCATGATCGG
59 ATAACTTCAATCTGCCTCATGATCGA
*
165179 GGTAAGAAATTGGAT
1 GGTAAGAGATTGGAT
165194 AGTGATGTCT
Statistics
Matches: 151, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
84 78 0.52
85 3 0.02
87 16 0.11
89 3 0.02
90 4 0.03
91 47 0.31
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (84 bp):
GGTAAGAGATTGGATGATAACTTCAATATGCCCCATGGTCAGGGTAAGAGATCAGATGATAACTT
CAATCTGCCTCATGATCGA
Found at i:165117 original size:45 final size:44
Alignment explanation
Indices: 165066--165213 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 44
165056 TGAATGATAA
*
165066 CTTCAATCTGCCTTATGATCGAGGTAAGAAATTGGATAGCGATGT
1 CTTCAATCTGCCTTATGATCGGGGTAAGAAATTGGATAG-GATGT
* * * *
165111 CTTCAATATGCCCTTCTTGACTTAGGGGTAA-AAGATTGGAT--GATGG
1 CTTCAATCTG-CCTT-ATGA--TCGGGGTAAGAA-ATTGGATAGGATGT
**
165157 CTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATAGTGATGT
1 CTTCAATCTGCCTTATGATCGGGGTAAGAAATTGGATAG-GATGT
*
165202 CTTCAATTTGCC
1 CTTCAATCTGCC
165214 CCTCTTGACT
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
42 15 0.18
43 2 0.02
44 3 0.04
45 26 0.32
46 17 0.21
47 3 0.04
48 2 0.02
49 14 0.17
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCCTTATGATCGGGGTAAGAAATTGGATAGGATGT
Found at i:165169 original size:46 final size:46
Alignment explanation
Indices: 165106--165432 Score: 317
Period size: 46 Copynumber: 7.1 Consensus size: 46
165096 ATTGGATAGC
* * *
165106 GATGTCTTCAATATGCCCTTCTTGACTTAGGGGTAAAAGATTGGAT
1 GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
* *
165152 GATGGCTTCAATCTG-CCC-CATGA--TCGGGGTAAGAA-ATTGGATAGT
1 GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAA-AAGATTGG--A-T
* * *
165197 GATGTCTTCAATTTGCCCCTCTTGACTTAGAGGTAAAAGATTGGAT
1 GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
* * *
165243 GATGATGTCTTTAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGAC
1 GATG--G-CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
* * * * *
165292 GATGGCTTCAATCTGCCTCTCTCGACTTAAGGGCAAAAGATTGGGT
1 GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
* * * * * * *
165338 AACGGTTTTAATATGCCCCTCTTAACTTAGAGGTAAAAGATTGGAT
1 GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
*
165384 GGTGGCTTCAATCTAG-CCCTCTTGAC-TAGGGGTAAAAGATTGGAT
1 GATGGCTTCAATCT-GCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
165429 GATG
1 GATG
165433 ATATAACTTC
Statistics
Matches: 223, Mismatches: 45, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
42 13 0.06
43 2 0.01
44 5 0.02
45 37 0.17
46 105 0.47
47 7 0.03
48 2 0.01
49 52 0.23
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (46 bp):
GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT
Found at i:165175 original size:91 final size:93
Alignment explanation
Indices: 165066--165264 Score: 303
Period size: 91 Copynumber: 2.2 Consensus size: 93
165056 TGAATGATAA
** *
165066 CTTCAATCTGCCTTATGATCGAGGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCTTCTTGA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCCTCTTGA
*
165131 CTTAGGGGTAAAAGATTGGATGATG-G-
66 CTTAGAGGTAAAAGATTGGATGATGAGT
* * *
165157 CTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATAGTGATGTCTTCAATTTGCCCCTCTTGA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCCTCTTGA
165222 CTTAGAGGTAAAAGATTGGATGATGATGT
66 CTTAGAGGTAAAAGATTGGATGATGA-GT
*
165251 CTTTAATCTGCCCC
1 CTTCAATCTGCCCC
165265 TCTTAACTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 83 0.86
93 1 0.01
94 13 0.13
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (93 bp):
CTTCAATCTGCCCCATGATCGAGGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCCTCTTGA
CTTAGAGGTAAAAGATTGGATGATGAGT
Found at i:165191 original size:42 final size:42
Alignment explanation
Indices: 164918--165193 Score: 171
Period size: 42 Copynumber: 6.4 Consensus size: 42
164908 TCTTAACATA
* * * * * *
164918 GGGGTAA-AAGATTGGATTATGGCTTCAATCTGGCCCGTGGTT
1 GGGGTAAGAA-ATTGGATGATGACTTCAATCTGCCCCATGATC
* ** * * * * *
164960 GGGGTAAGAGATCAGATGATGTCTTTAATTTGCCTCATGGTC
1 GGGGTAAGAAATTGGATGATGACTTCAATCTGCCCCATGATC
* * * * *
165002 GAGGTAAGAGATTGGATGATAACTTCAATATGCCCCATGGTC
1 GGGGTAAGAAATTGGATGATGACTTCAATCTGCCCCATGATC
* * * **
165044 AGGGTAAGAGAA-TGAATGATAACTTCAATCTGCCTTATGATC
1 GGGGTAAGA-AATTGGATGATGACTTCAATCTGCCCCATGATC
* * * * *
165086 GAGGTAAGAAATTGGATAGCGATGTCTTCAATATGCCCTTCTTGACTTA
1 GGGGTAAGAAATTGGAT---GATGACTTCAATCTGCCC--CATGA--TC
*
165135 GGGGTAA-AAGATTGGATGATGGCTTCAATCTGCCCCATGATC
1 GGGGTAAGAA-ATTGGATGATGACTTCAATCTGCCCCATGATC
165177 GGGGTAAGAAATTGGAT
1 GGGGTAAGAAATTGGAT
165194 AGTGATGTCT
Statistics
Matches: 180, Mismatches: 42, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.01
42 121 0.67
43 4 0.02
44 4 0.02
45 14 0.08
46 16 0.09
47 3 0.02
48 2 0.01
49 14 0.08
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (42 bp):
GGGGTAAGAAATTGGATGATGACTTCAATCTGCCCCATGATC
Found at i:165822 original size:49 final size:49
Alignment explanation
Indices: 165647--165824 Score: 175
Period size: 49 Copynumber: 3.6 Consensus size: 49
165637 TACATCTTTG
* *
165647 AGATTTACCTTTGTGGCTTCAATCTACTT--CTCTACATCTTTAGGGTATA
1 AGATTCACCGTTGTGGCTTCAATCT--TTCCCTCTACATCTTTAGGGTATA
* * *
165696 AGATTCACCGTTGTGACTTCAATCTTTCCCT-TCGCATCTCTAGGGTATA
1 AGATTCACCGTTGTGGCTTCAATCTTTCCCTCT-ACATCTTTAGGGTATA
* * * *
165745 TGGTTCACCGTTGTGGCTTTC-ACCTTTCCCTCTTCATCTTTAGGGTATA
1 AGATTCACCGTTGTGGC-TTCAATCTTTCCCTCTACATCTTTAGGGTATA
** * *
165794 AGATTTGCAGTCGTGGCTTCAATCTTTCCCT
1 AGATTCACCGTTGTGGCTTCAATCTTTCCCT
165825 TCACACCACT
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 4 0.04
49 95 0.90
50 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (49 bp):
AGATTCACCGTTGTGGCTTCAATCTTTCCCTCTACATCTTTAGGGTATA
Found at i:165861 original size:98 final size:97
Alignment explanation
Indices: 165676--165899 Score: 236
Period size: 98 Copynumber: 2.3 Consensus size: 97
165666 CAATCTACTT
* * * * * * *
165676 CTCTACATCTTTAGGGTATAAGATTCACCGTTGTGACTTCAATCTTTCCCTTCGCATCTCTAGGG
1 CTCTTCATCTTTAGGGTATAAGATTCACAGTCGTGACTTCAATCTTTCCCTTCACACCACTAAGG
* *
165741 TATATGGTTCACCGTTGTGGCTTTC-ACCTTTCC
66 TATAAGGTTCACCGTTGCGGC-TTCAACCTTT-C
** *
165774 CTCTTCATCTTTAGGGTATAAGATTTGCAGTCGTGGCTTCAATCTTTCCCTTCACACCACTAAGG
1 CTCTTCATCTTTAGGGTATAAGATTCACAGTCGTGACTTCAATCTTTCCCTTCACACCACTAAGG
**** *
165839 TATAAGGTTTTTTGTTGCGGCTTCAACCTTTT
66 TATAAGGTTCACCGTTGCGGCTTCAACCTTTC
*
165871 C-CTTCACGTCTTTAAGGTATAAGATTCAC
1 CTCTTCA--TCTTTAGGGTATAAGATTCAC
165900 CATTGCAGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
96 5 0.05
97 4 0.04
98 94 0.91
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (97 bp):
CTCTTCATCTTTAGGGTATAAGATTCACAGTCGTGACTTCAATCTTTCCCTTCACACCACTAAGG
TATAAGGTTCACCGTTGCGGCTTCAACCTTTC
Found at i:165916 original size:49 final size:49
Alignment explanation
Indices: 165853--165967 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
165843 AGGTTTTTTG
* * * * *
165853 TTGCGGCTTCAACCTTTTCCTTCACGTCTTTAA-GGTATAAGATTCACCA
1 TTGCAGCTTTAACCTTTTCCTTCACAT-TTCAATGGTACAAGATTCACCA
* *
165902 TTGCAGCTTTAACCTCTTCCTTCACATTTCAATGGTACAAGATTCGCCA
1 TTGCAGCTTTAACCTTTTCCTTCACATTTCAATGGTACAAGATTCACCA
* *
165951 TTGCAACTTTAATCTTT
1 TTGCAGCTTTAACCTTT
165968 CCCATCTCGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 4 0.07
49 51 0.93
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (49 bp):
TTGCAGCTTTAACCTTTTCCTTCACATTTCAATGGTACAAGATTCACCA
Found at i:166832 original size:9 final size:10
Alignment explanation
Indices: 166816--166854 Score: 64
Period size: 9 Copynumber: 4.1 Consensus size: 10
166806 TCTTGACCTC
166816 TCTTTTTTCT
1 TCTTTTTTCT
166826 T-TTTTTTCT
1 TCTTTTTTCT
166835 TCTTTTTT-T
1 TCTTTTTTCT
166844 TCTTTTTTCT
1 TCTTTTTTCT
166854 T
1 T
166855 TTCCCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:166838 original size:19 final size:19
Alignment explanation
Indices: 166816--166854 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
166806 TCTTGACCTC
166816 TCTTTTTTCTT-TTTTTTCT
1 TCTTTTTT-TTCTTTTTTCT
166835 TCTTTTTTTTCTTTTTTCT
1 TCTTTTTTTTCTTTTTTCT
166854 T
1 T
166855 TTCCCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TCTTTTTTTTCTTTTTTCT
Found at i:166839 original size:12 final size:12
Alignment explanation
Indices: 166818--166867 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
166808 TTGACCTCTC
166818 TTTT-TTCTTTT
1 TTTTCTTCTTTT
166829 TTTTCTTCTTTT
1 TTTTCTTCTTTT
166841 TTTTCTT-TTTT
1 TTTTCTTCTTTT
*
166852 CTTTTC-CCTTTT
1 -TTTTCTTCTTTT
166864 TTTT
1 TTTT
166868 TTGTTTTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 12 0.34
12 23 0.66
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:166863 original size:21 final size:21
Alignment explanation
Indices: 166817--166875 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
166807 CTTGACCTCT
*
166817 CTTTTTTCTTTTTTTTCTTCT
1 CTTTTTTCTTTTTTTTCTTCC
*
166838 TTTTTTTCTTTTTTCTT-TTCC
1 CTTTTTTCTTTTTT-TTCTTCC
166859 CTTTTTT-TTTTGTTTTC
1 CTTTTTTCTTTT-TTTTC
166876 CTTTCTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 6 0.19
21 24 0.75
22 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (21 bp):
CTTTTTTCTTTTTTTTCTTCC
Found at i:166874 original size:23 final size:23
Alignment explanation
Indices: 166818--166881 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
166808 TTGACCTCTC
* *
166818 TTTTTTCTTTT-TTTTCTTCTTT
1 TTTTTTTTTTTCTTTTCTCCTTT
166840 TTTTTCTTTTTTCTTTTC-CCTTT
1 TTTTT-TTTTTTCTTTTCTCCTTT
*
166863 TTTTTTTGTTTTCCTTTCT
1 TTTTTTT-TTTTCTTTTCT
166882 TTTCTCTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 7 0.20
23 23 0.66
24 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTTTCTTTTCTCCTTT
Found at i:167709 original size:48 final size:48
Alignment explanation
Indices: 167638--167729 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
167628 GTTGAGCTTT
* * *
167638 GCTTCATTGTTTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGACC
1 GCTTCATCGTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGACC
167686 GCTTCATCGTTTTGATCCACTTCTCTATATCTCATCAAGAAGAT
1 GCTTCATCGTTTTGATCCACTTCTCTATATCTCATCAAGAAGAT
167730 AGGGGTTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (48 bp):
GCTTCATCGTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGACC
Done.