Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 139 of 204
Found at i:42519614 original size:19 final size:19
Alignment explanation
Indices: 42519564--42519613 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
42519554 TGTTTTCAAT
42519564 TATTTTAAAAAATAAAAAC
1 TATTTTAAAAAATAAAAAC
42519583 TATTTTAAAAAATAGAAAA-
1 TATTTTAAAAAATA-AAAAC
42519602 TACTTTTAAAAA
1 TA-TTTTAAAAA
42519614 TCAAATAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
TATTTTAAAAAATAAAAAC
Found at i:42523281 original size:21 final size:21
Alignment explanation
Indices: 42523235--42523281 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
42523225 AAACAAGAAG
*
42523235 ATTCAGCCTAATGGAGGTATT
1 ATTCGGCCTAATGGAGGTATT
*
42523256 ATTCGGCCTAGTGGAGGTATT
1 ATTCGGCCTAATGGAGGTATT
42523277 ATTCG
1 ATTCG
42523282 ATAAGCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (21 bp):
ATTCGGCCTAATGGAGGTATT
Found at i:42524808 original size:14 final size:14
Alignment explanation
Indices: 42524789--42524828 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
42524779 TTGATTGCCA
42524789 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
42524803 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
42524817 GGAAAATGTTTT
1 GTAAAATGTTTT
42524829 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:42524837 original size:20 final size:20
Alignment explanation
Indices: 42524812--42524851 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42524802 CGTAAAATGA
*
42524812 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
42524832 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
42524852 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:42524841 original size:34 final size:35
Alignment explanation
Indices: 42524797--42524863 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
42524787 CAGTAAAATG
*
42524797 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
42524831 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
42524864 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:42524867 original size:14 final size:15
Alignment explanation
Indices: 42524791--42524867 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
42524781 GATTGCCAGT
* *
42524791 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
42524805 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
42524819 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
42524839 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
42524854 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
42524868 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:42526177 original size:14 final size:13
Alignment explanation
Indices: 42526148--42526174 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42526138 AGAAGGTAAG
42526148 ACAGATACTTAAA
1 ACAGATACTTAAA
42526161 ACAGATACTTAAA
1 ACAGATACTTAAA
42526174 A
1 A
42526175 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:42526376 original size:272 final size:272
Alignment explanation
Indices: 42525889--42526447 Score: 1001
Period size: 272 Copynumber: 2.0 Consensus size: 272
42525879 AGAAGGTAAG
42525889 ACAGATACTTAAAAACATGAACCACAAATTCCTATATATGTAGCTGTGAAACAAATATTCAACTA
1 ACAGATACTTAAAAACATGAACCACAAATTCCTATATATGTAGCTGTGAAACAAATATTCAACTA
42525954 CTCTGGAGAACAAAGGAAAAGCAGATACTTAAAAACATGAACCACAAACCCTGCTTACGTAATGC
66 CTCTGGAGAACAAAGGAAAAGCAGATACTTAAAAACATGAACCACAAACCCTGCTTACGTAATGC
42526019 TAGACTTAAAGCATAACAAGAATAATTTACCAACTTTTCTTTCACTTTTCACAACCAGTCAAAGA
131 TAGACTTAAAGCATAACAAGAATAATTTACCAACTTTTCTTTCACTTTTCACAACCAGTCAAAGA
*
42526084 TCCTCACCTTGGCCTGCTTTGGGAGGGAAGGCTTGAAAGATATGAAATGGCAGCAGAAGGTAAGA
196 TCCTCACCTTGGCCTGCTTTGGGAGGGAAGGCTTGAAAGATATGAAATGGCAGCAGAAGGTAAAA
42526149 CAGATACTTAAA
261 CAGATACTTAAA
*
42526161 ACAGATACTTAAAAACATGAACCACAAATTCTTATATATGTAGCTGTGAAACAAATATTCAACTA
1 ACAGATACTTAAAAACATGAACCACAAATTCCTATATATGTAGCTGTGAAACAAATATTCAACTA
* *
42526226 CTCTGGAGAACAAAGGTAAAGCAGATACTTAAAAACATGAACCACAAACCCTGCTTACGTGATGC
66 CTCTGGAGAACAAAGGAAAAGCAGATACTTAAAAACATGAACCACAAACCCTGCTTACGTAATGC
* *
42526291 TAGACTTAAAGCATAACAAGAATCATTTACCAGCTTTTCTTTCACTTTTCACAACCAGTCAAAGA
131 TAGACTTAAAGCATAACAAGAATAATTTACCAACTTTTCTTTCACTTTTCACAACCAGTCAAAGA
* * * *
42526356 TCTTTACCTTGGCTTGCTTTGGGAGGGAAGGCTTGAAAGATATGAAATGGCTGCAGAAGGTAAAA
196 TCCTCACCTTGGCCTGCTTTGGGAGGGAAGGCTTGAAAGATATGAAATGGCAGCAGAAGGTAAAA
*
42526421 CATATACTTAAA
261 CAGATACTTAAA
42526433 ACAGAATCACTTAAA
1 ACAG-AT-ACTTAAA
42526448 CCAAAAAAAA
Statistics
Matches: 274, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
272 265 0.97
273 2 0.01
274 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (272 bp):
ACAGATACTTAAAAACATGAACCACAAATTCCTATATATGTAGCTGTGAAACAAATATTCAACTA
CTCTGGAGAACAAAGGAAAAGCAGATACTTAAAAACATGAACCACAAACCCTGCTTACGTAATGC
TAGACTTAAAGCATAACAAGAATAATTTACCAACTTTTCTTTCACTTTTCACAACCAGTCAAAGA
TCCTCACCTTGGCCTGCTTTGGGAGGGAAGGCTTGAAAGATATGAAATGGCAGCAGAAGGTAAAA
CAGATACTTAAA
Found at i:42532032 original size:30 final size:30
Alignment explanation
Indices: 42531988--42532045 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
42531978 TTCAAACTGC
*
42531988 ACACACACAAACAAACGCACATACACACGG
1 ACACACACAAACAAACGCACACACACACGG
* * *
42532018 ACACATACATACAAACGCAGACACACAC
1 ACACACACAAACAAACGCACACACACAC
42532046 ACACCGACGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.50, C:0.36, G:0.09, T:0.05
Consensus pattern (30 bp):
ACACACACAAACAAACGCACACACACACGG
Found at i:42532048 original size:34 final size:34
Alignment explanation
Indices: 42532005--42532071 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
42531995 CAAACAAACG
* *
42532005 CACATACACACGGACACATACATACAAACGCAGA
1 CACACACACACCGACACATACATACAAACGCAGA
* *
42532039 CACACACACACCGACGCATACATACAAATGCAG
1 CACACACACACCGACACATACATACAAACGCAG
42532072 GCAAAGGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.34, G:0.12, T:0.09
Consensus pattern (34 bp):
CACACACACACCGACACATACATACAAACGCAGA
Found at i:42536218 original size:9 final size:9
Alignment explanation
Indices: 42536193--42536226 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
42536183 TTCAAAACAA
42536193 ATAAATTATT
1 ATAAATT-TT
42536203 AATAAATTTT
1 -ATAAATTTT
42536213 ATAAATTTT
1 ATAAATTTT
42536222 ATAAA
1 ATAAA
42536227 ATTCAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 2 0.09
11 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATAAATTTT
Found at i:42536832 original size:7 final size:7
Alignment explanation
Indices: 42536819--42536870 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
42536809 CTGATTTTAT
42536819 ATTTTCA
1 ATTTTCA
*
42536826 ATCTTCA
1 ATTTTCA
*
42536833 ATTTTTA
1 ATTTTCA
42536840 ATTTTCA
1 ATTTTCA
*
42536847 ATTTTTA
1 ATTTTCA
42536854 A-TTTCA
1 ATTTTCA
*
42536860 ATTTTTA
1 ATTTTCA
42536867 ATTT
1 ATTT
42536871 CAGATATTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:42536834 original size:28 final size:28
Alignment explanation
Indices: 42536779--42536889 Score: 86
Period size: 28 Copynumber: 4.0 Consensus size: 28
42536769 CTTCCTAAAT
* * **
42536779 TTTC-AATCTTCAATCTTCAATCCCCAA
1 TTTCTAATTTTCAATTTTCAATCTTCAA
*
42536806 TTTCTGATTTT-ATATTTTCAATCTTCAA
1 TTTCTAATTTTCA-ATTTTCAATCTTCAA
* *
42536834 TTTTTAATTTTCAATTTTTAAT-TTCAA
1 TTTCTAATTTTCAATTTTCAATCTTCAA
* * *
42536861 TTTTTAA-TTTCAGATATTCAATCCTCAA
1 TTTCTAATTTTCA-ATTTTCAATCTTCAA
42536889 T
1 T
42536890 CATTTTTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
26 5 0.07
27 24 0.35
28 38 0.56
29 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTCTAATTTTCAATTTTCAATCTTCAA
Found at i:42536836 original size:14 final size:14
Alignment explanation
Indices: 42536776--42536889 Score: 74
Period size: 14 Copynumber: 8.2 Consensus size: 14
42536766 TTTCTTCCTA
42536776 AATTTTCAATCTTC
1 AATTTTCAATCTTC
* **
42536790 AATCTTCAATCCCC
1 AATTTTCAATCTTC
* *
42536804 AA-TTTCTGAT-TTT
1 AATTTTC-AATCTTC
42536817 ATATTTTCAATCTTC
1 A-ATTTTCAATCTTC
* *
42536832 AATTTTTAATTTTC
1 AATTTTCAATCTTC
*
42536846 AATTTTTAAT-TTC
1 AATTTTCAATCTTC
*
42536859 AATTTTTAAT-TTC
1 AATTTTCAATCTTC
* *
42536872 AGATATTCAATCCTC
1 A-ATTTTCAATCTTC
42536887 AAT
1 AAT
42536890 CATTTTTTAA
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
13 21 0.27
14 48 0.61
15 10 0.13
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.51
Consensus pattern (14 bp):
AATTTTCAATCTTC
Found at i:42536836 original size:21 final size:21
Alignment explanation
Indices: 42536813--42536857 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42536803 CAATTTCTGA
42536813 TTTTATATTTTCAATCTTCAAT
1 TTTTA-ATTTTCAATCTTCAAT
* *
42536835 TTTTAATTTTCAATTTTTAAT
1 TTTTAATTTTCAATCTTCAAT
42536856 TT
1 TT
42536858 CAATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATTTTCAATCTTCAAT
Found at i:42536858 original size:13 final size:13
Alignment explanation
Indices: 42536819--42536872 Score: 81
Period size: 14 Copynumber: 4.0 Consensus size: 13
42536809 CTGATTTTAT
*
42536819 ATTTTCAATCTTCA
1 ATTTTTAAT-TTCA
42536833 ATTTTTAATTTTCA
1 ATTTTTAA-TTTCA
42536847 ATTTTTAATTTCA
1 ATTTTTAATTTCA
42536860 ATTTTTAATTTCA
1 ATTTTTAATTTCA
42536873 GATATTCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
13 18 0.47
14 19 0.50
15 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTAATTTCA
Found at i:42536936 original size:15 final size:16
Alignment explanation
Indices: 42536911--42536940 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42536901 TTCTTTTTTT
42536911 TTTGAATTTTATTCTC
1 TTTGAATTTTATTCTC
42536927 TTTG-ATTTTATTCT
1 TTTGAATTTTATTCT
42536941 TTTCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGAATTTTATTCTC
Found at i:42539394 original size:18 final size:18
Alignment explanation
Indices: 42539358--42539395 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
42539348 GTAAATTTAC
*
42539358 AATTCGAATAACTAGAAT
1 AATTCGAATAACTAAAAT
*
42539376 AATTCGAATAATTAAAAT
1 AATTCGAATAACTAAAAT
42539394 AA
1 AA
42539396 CAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (18 bp):
AATTCGAATAACTAAAAT
Found at i:42541601 original size:25 final size:26
Alignment explanation
Indices: 42541573--42541624 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
42541563 CACTTCTTAT
42541573 AAAA-TATT-TATCATTTCAAA-AATTA
1 AAAATTATTATAT-ATTT-AAATAATTA
42541598 AAAATTATTATATATTTAAATAATTA
1 AAAATTATTATATATTTAAATAATTA
42541624 A
1 A
42541625 TTGATGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.29
26 14 0.58
27 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTATTATATATTTAAATAATTA
Found at i:42547488 original size:51 final size:51
Alignment explanation
Indices: 42547433--42547649 Score: 380
Period size: 51 Copynumber: 4.3 Consensus size: 51
42547423 GATCACATTT
* * *
42547433 ATCACTTGTCACTTGTCCCTGATTAGATAAGTGTAGCTAAAGCTACCACAC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
42547484 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
42547535 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* * *
42547586 ATCACTTGTCACTTGTCACTAATCAGATAAGTGTATCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
42547637 ATCACTTGTCACT
1 ATCACTTGTCACT
42547650 GATCAGAAGT
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 160 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:42553076 original size:74 final size:74
Alignment explanation
Indices: 42552997--42553171 Score: 260
Period size: 74 Copynumber: 2.4 Consensus size: 74
42552987 GCACCTAGCA
* * * * *
42552997 CTAGTCAGATAAATCGACAAATAAATAGTGAGCCCAGCTCTAGTTGGATATACCAACGATATTTG
1 CTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAGCTCTAGTTCGATACACCAACGATATTTG
*
42553062 CGCCTAACG
66 CGCCCAACG
*
42553071 CTAGTCGGATAAGCCGACGAATAAATAGTGAGCCCAGCTCTAGTTCGATACACCAACGATATTTG
1 CTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAGCTCTAGTTCGATACACCAACGATATTTG
* **
42553136 TGCCCAGTG
66 CGCCCAACG
42553145 CTAGTCGGATAAACCGACGAATAAATA
1 CTAGTCGGATAAACCGACGAATAAATA
42553172 ATTATTTATT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 90 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (74 bp):
CTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAGCTCTAGTTCGATACACCAACGATATTTG
CGCCCAACG
Found at i:42561261 original size:26 final size:27
Alignment explanation
Indices: 42561205--42561255 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
42561195 ATGCTTCAAG
42561205 ATTTTGATATAATAATATTTCAAATGA
1 ATTTTGATATAATAATATTTCAAATGA
*
42561232 ATTTT-ATAT-ATTATATTTTCAAAT
1 ATTTTGATATAATAATA-TTTCAAAT
42561256 TCATTTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTTGATATAATAATATTTCAAATGA
Found at i:42562974 original size:2 final size:2
Alignment explanation
Indices: 42562967--42563005 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
42562957 AAATTAGAAT
42562967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42563006 CACCATAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42569231 original size:675 final size:675
Alignment explanation
Indices: 42567941--42569292 Score: 2695
Period size: 675 Copynumber: 2.0 Consensus size: 675
42567931 GCCTTTGAAC
42567941 CCTCTCATTGCCTTGGCGTCTTCCTGACTTGCCTTGCAATCAGGTTGTCCCTTCCTTTGGAAGTT
1 CCTCTCATTGCCTTGGCGTCTTCCTGACTTGCCTTGCAATCAGGTTGTCCCTTCCTTTGGAAGTT
42568006 TTGCCTCGACTTCCGTCGCGTCTTCACTTGAACTGTTGCATTCGTTGGTACATCTTATTGGCAAG
66 TTGCCTCGACTTCCGTCGCGTCTTCACTTGAACTGTTGCATTCGTTGGTACATCTTATTGGCAAG
42568071 AAGTCTCCGCTCTAACTTGCCTCAACTTTGACTTGTTCTCTCTTGAATCACCTTAATTCTCACAT
131 AAGTCTCCGCTCTAACTTGCCTCAACTTTGACTTGTTCTCTCTTGAATCACCTTAATTCTCACAT
42568136 CTTGGCTTCGTATTGCCCACAGTCCCTTGGCCTCCTTGCTCATGAACTTTGAAAAGGCCCCTACG
196 CTTGGCTTCGTATTGCCCACAGTCCCTTGGCCTCCTTGCTCATGAACTTTGAAAAGGCCCCTACG
42568201 ACCTTGCCAAGCCAACAAGTCAGAATTTAAAACACTATCAAAATGTTCGTAATGTACCTTACTCG
261 ACCTTGCCAAGCCAACAAGTCAGAATTTAAAACACTATCAAAATGTTCGTAATGTACCTTACTCG
*
42568266 TAGCATTTACTTGTCCTCACTTTTTTTGCATCGCTCCCTTTTTCTTGAAGCCCAATGTACAACCC
326 TAGCATTTACTCGTCCTCACTTTTTTTGCATCGCTCCCTTTTTCTTGAAGCCCAATGTACAACCC
42568331 ACCTTTCCCAAAGGTGTCGGCCCCACAGTCGAATCTGCAAGCTTCATATCGAACTCTTGCGCCAC
391 ACCTTTCCCAAAGGTGTCGGCCCCACAGTCGAATCTGCAAGCTTCATATCGAACTCTTGCGCCAC
42568396 TAACACTTCTGAAGGAGCTTTCGTAACTACTCGTTCTATCGAGTCGATGTTCCTCCCATACGAAA
456 TAACACTTCTGAAGGAGCTTTCGTAACTACTCGTTCTATCGAGTCGATGTTCCTCCCATACGAAA
42568461 CATCCTCGACTAGTTGGATTGACGACAACACCTTTGCCCCCACTTTCATATCTCGATGCACCGGC
521 CATCCTCGACTAGTTGGATTGACGACAACACCTTTGCCCCCACTTTCATATCTCGATGCACCGGC
42568526 ACAACAATCTTTGTTAACGGACCGGTGATAATATGAATTTGATCGGCCCATGGATACAGAACTGT
586 ACAACAATCTTTGTTAACGGACCGGTGATAATATGAATTTGATCGGCCCATGGATACAGAACTGT
42568591 TTAAATCCTGTCAAGGAAGTTTAAG
651 TTAAATCCTGTCAAGGAAGTTTAAG
42568616 CCTCTCATTGCCTTGGCGTCTTCCTGACTTGCCTTGCAATCAGGTTGTCCCTTCCTTTGGAAGTT
1 CCTCTCATTGCCTTGGCGTCTTCCTGACTTGCCTTGCAATCAGGTTGTCCCTTCCTTTGGAAGTT
42568681 TTGCCTCGACTTCCGTCGCGTCTTCACTTGAACTGTTGCATTCGTTGGTACATCTTATTGGCAAG
66 TTGCCTCGACTTCCGTCGCGTCTTCACTTGAACTGTTGCATTCGTTGGTACATCTTATTGGCAAG
42568746 AAGTCTCCGCTCTAACTTGCCTCAACTTTGACTTGTTCTCTCTTGAATCACCTTAATTCTCACAT
131 AAGTCTCCGCTCTAACTTGCCTCAACTTTGACTTGTTCTCTCTTGAATCACCTTAATTCTCACAT
42568811 CTTGGCTTCGTATTGCCCACAGTCCCTTGGCCTCCTTGCTCATGAACTTTGAAAAGGCCCCTACG
196 CTTGGCTTCGTATTGCCCACAGTCCCTTGGCCTCCTTGCTCATGAACTTTGAAAAGGCCCCTACG
42568876 ACCTTGCCAAGCCAACAAGTCAGAATTTAAAACACTATCAAAATGTTCGTAATGTACCTTACTCG
261 ACCTTGCCAAGCCAACAAGTCAGAATTTAAAACACTATCAAAATGTTCGTAATGTACCTTACTCG
42568941 TAGCATTTACTCGTCCTCACTTTTTTTGCATCGCTCCCTTTTTCTTGAAGCCCAATGTACAACCC
326 TAGCATTTACTCGTCCTCACTTTTTTTGCATCGCTCCCTTTTTCTTGAAGCCCAATGTACAACCC
42569006 ACCTTTCCCAAAGGTGTCGGCCCCACAGTCGAATCTGCAAGCTTCATATCGAACTCTTGCGCCAC
391 ACCTTTCCCAAAGGTGTCGGCCCCACAGTCGAATCTGCAAGCTTCATATCGAACTCTTGCGCCAC
42569071 TAACACTTCTGAAGGAGCTTTCGTAACTACTCGTTCTATCGAGTCGATGTTCCTCCCATACGAAA
456 TAACACTTCTGAAGGAGCTTTCGTAACTACTCGTTCTATCGAGTCGATGTTCCTCCCATACGAAA
42569136 CATCCTCGACTAGTTGGATTGACGACAACACCTTTGCCCCCACTTTCATATCTCGATGCACCGGC
521 CATCCTCGACTAGTTGGATTGACGACAACACCTTTGCCCCCACTTTCATATCTCGATGCACCGGC
42569201 ACAACAATCTTTGTTAACGGACCGGTGATAATATGAATTTGATCGGCCCATGGATACAGAACTGT
586 ACAACAATCTTTGTTAACGGACCGGTGATAATATGAATTTGATCGGCCCATGGATACAGAACTGT
42569266 TTAAATCCTGTCAAGGAAGTTTAAG
651 TTAAATCCTGTCAAGGAAGTTTAAG
42569291 CC
1 CC
42569293 AAGTACATAA
Statistics
Matches: 676, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
675 676 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (675 bp):
CCTCTCATTGCCTTGGCGTCTTCCTGACTTGCCTTGCAATCAGGTTGTCCCTTCCTTTGGAAGTT
TTGCCTCGACTTCCGTCGCGTCTTCACTTGAACTGTTGCATTCGTTGGTACATCTTATTGGCAAG
AAGTCTCCGCTCTAACTTGCCTCAACTTTGACTTGTTCTCTCTTGAATCACCTTAATTCTCACAT
CTTGGCTTCGTATTGCCCACAGTCCCTTGGCCTCCTTGCTCATGAACTTTGAAAAGGCCCCTACG
ACCTTGCCAAGCCAACAAGTCAGAATTTAAAACACTATCAAAATGTTCGTAATGTACCTTACTCG
TAGCATTTACTCGTCCTCACTTTTTTTGCATCGCTCCCTTTTTCTTGAAGCCCAATGTACAACCC
ACCTTTCCCAAAGGTGTCGGCCCCACAGTCGAATCTGCAAGCTTCATATCGAACTCTTGCGCCAC
TAACACTTCTGAAGGAGCTTTCGTAACTACTCGTTCTATCGAGTCGATGTTCCTCCCATACGAAA
CATCCTCGACTAGTTGGATTGACGACAACACCTTTGCCCCCACTTTCATATCTCGATGCACCGGC
ACAACAATCTTTGTTAACGGACCGGTGATAATATGAATTTGATCGGCCCATGGATACAGAACTGT
TTAAATCCTGTCAAGGAAGTTTAAG
Found at i:42572657 original size:24 final size:26
Alignment explanation
Indices: 42572610--42572658 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
42572600 ACACATTTAT
42572610 TTTCTTATTTATTTTCATTCTTTTCA
1 TTTCTTATTTATTTTCATTCTTTTCA
42572636 TTTCTT-TTT-TTTTCACTT-TTTTC
1 TTTCTTATTTATTTTCA-TTCTTTTC
42572659 CTAGTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 5 0.23
26 6 0.27
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTCTTATTTATTTTCATTCTTTTCA
Found at i:42573831 original size:20 final size:19
Alignment explanation
Indices: 42573794--42573832 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
42573784 AATTTTTAGA
* *
42573794 ATTTTTTATAAAATAAATT
1 ATTTTATATAAAACAAATT
42573813 ATTTTATATAAAAACAAATT
1 ATTTTATAT-AAAACAAATT
42573833 CATTACCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATATAAAACAAATT
Found at i:42575981 original size:151 final size:151
Alignment explanation
Indices: 42575707--42576008 Score: 586
Period size: 151 Copynumber: 2.0 Consensus size: 151
42575697 TGCGTAAACA
42575707 AATCATTGGTGTTATATAGTTTTGTTTGCACAATTTTTCACAGTGTCAAGCCGTAATGGCCACTG
1 AATCATTGGTGTTATATAGTTTTGTTTGCACAATTTTTCACAGTGTCAAGCCGTAATGGCCACTG
42575772 CCATCAAACACTTCCATTACAGTTTTCATATTAAGCAAACAAGCAATTTAAGGTAACAACATATT
66 CCATCAAACACTTCCATTACAGTTTTCATATTAAGCAAACAAGCAATTTAAGGTAACAACATATT
42575837 GATTTATTAACAAGCTTTGCG
131 GATTTATTAACAAGCTTTGCG
*
42575858 AATCATTGGTGTTATTTAGTTTTGTTTGCACAATTTTTCACAGTGTCAAGCCGTAATGGCCACTG
1 AATCATTGGTGTTATATAGTTTTGTTTGCACAATTTTTCACAGTGTCAAGCCGTAATGGCCACTG
42575923 CCATCAAACACTTCCATTACAGTTTTCATATTAAGCAAACAAGCAATTTAAGGTAACAACATATT
66 CCATCAAACACTTCCATTACAGTTTTCATATTAAGCAAACAAGCAATTTAAGGTAACAACATATT
*
42575988 GATTTATTAACAAGTTTTGCG
131 GATTTATTAACAAGCTTTGCG
42576009 TTGAAGGCTT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 149 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (151 bp):
AATCATTGGTGTTATATAGTTTTGTTTGCACAATTTTTCACAGTGTCAAGCCGTAATGGCCACTG
CCATCAAACACTTCCATTACAGTTTTCATATTAAGCAAACAAGCAATTTAAGGTAACAACATATT
GATTTATTAACAAGCTTTGCG
Found at i:42582678 original size:21 final size:21
Alignment explanation
Indices: 42582638--42582683 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
42582628 ACGATCTAAG
*
42582638 CACATAGGCGTGTGGAGTAGT
1 CACATAGGCGTGTGGAGTAGC
42582659 CACATAGGCGTGT-GAGGTAGC
1 CACATAGGCGTGTGGA-GTAGC
42582680 CACA
1 CACA
42582684 CTGCCATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.26, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
CACATAGGCGTGTGGAGTAGC
Found at i:42602624 original size:16 final size:16
Alignment explanation
Indices: 42602603--42602651 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
42602593 TAAAACATAA
42602603 TTAAAATTTATAAAAT
1 TTAAAATTTATAAAAT
*
42602619 TTAAAATGTTCAAAAAAT
1 TTAAAAT-TT-ATAAAAT
* *
42602637 TAAAAATTAATAAAA
1 TTAAAATTTATAAAA
42602652 ACCATTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 12 0.44
17 3 0.11
18 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
TTAAAATTTATAAAAT
Found at i:42602639 original size:17 final size:16
Alignment explanation
Indices: 42602601--42602652 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
42602591 TTTAAAACAT
42602601 AATTAAAATTTATAAA
1 AATTAAAATTTATAAA
*
42602617 ATTTAAAATGTTCA-AAA
1 AATTAAAAT-TT-ATAAA
*
42602634 AATTAAAAATTAATAAA
1 AATT-AAAATTTATAAA
42602651 AA
1 AA
42602653 CCATTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 9 0.31
17 14 0.48
18 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AATTAAAATTTATAAA
Found at i:42611859 original size:108 final size:108
Alignment explanation
Indices: 42611559--42611862 Score: 335
Period size: 108 Copynumber: 2.8 Consensus size: 108
42611549 AAGTTCAAAG
* ** * * ** * *
42611559 ATACCTTAAGAGATATGTGACCT-AAAATGGTCAAAAGCTTTGGAAAGCTTGACACTTGAGAATG
1 ATACCTTAAAAGATATGTGACCTGAAAA-GACCAAAAGCTTTCGAAAACTCAACACTTCAGAAGG
** * ** **
42611623 TAAGGTGTATCTTAAATGATACAAGGTGTATCTTAAGAGATGCA
65 CGAGGTGTATCTTAAAAGATATGAGGTGTATCTTAAGAGACACA
* * *
42611667 ATACCTTAAACGATATGTGACCTGAAAAGACCAAAAGCTTTCGAAAACTCAACCCTTGAGAAGGC
1 ATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTCGAAAACTCAACACTTCAGAAGGC
42611732 GAGGTGTATCTTAAAAGATATGAGGTGTATCTTAAGAGACACA
66 GAGGTGTATCTTAAAAGATATGAGGTGTATCTTAAGAGACACA
* * * *
42611775 ATACCTTAAAAGGTATGTGACTTGAAAA-AGCTAACAGCTTTC-AAAAGCTCAACACTTCAGAAG
1 ATACCTTAAAAGATATGTGACCTGAAAAGA-CCAAAAGCTTTCGAAAA-CTCAACACTTCAGAAG
* *
42611838 GCGAGGTGTATCTTGAGAGATATGA
64 GCGAGGTGTATCTTAAAAGATATGA
42611863 TACCTTAAGA
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
107 5 0.03
108 158 0.95
109 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (108 bp):
ATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTCGAAAACTCAACACTTCAGAAGGC
GAGGTGTATCTTAAAAGATATGAGGTGTATCTTAAGAGACACA
Found at i:42611901 original size:87 final size:87
Alignment explanation
Indices: 42611753--42612062 Score: 246
Period size: 87 Copynumber: 3.6 Consensus size: 87
42611743 TAAAAGATAT
* ** * * * *
42611753 GAGGTGTATCTTAAGAGACACAATACCTTAAAAGGTATGTGACTTGAAAAAGCTAACAGCTTTCA
1 GAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTACGTGACCTGAAAAAGCTAAAAGCTTTAA
* * *
42611818 AAAGCTCAACACTTCAGAAGGC
66 AAAGCTCAACACGTCAAAAGAC
* * *
42611840 GAGGTGTATCTTGAGAGATATGATACCTTAAGAGGTACGTGACCTGAAAAGGCTAAAAGCTTTAA
1 GAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTACGTGACCTGAAAAAGCTAAAAGCTTTAA
* * *
42611905 AAAGCTTAACGCGTGAAAAGAC
66 AAAGCTCAACACGTCAAAAGAC
* * * * * * * * * * *
42611927 AATGTGTATCTTAAAAGATATGATACCTTAATAGGCATGTGTCAT-AAAAAGGTCAAGAGCTTTG
1 GAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTACGTGACCTGAAAAAGCT-AAAAGCTTTA
* * * * *
42611991 AAAAGCTCGACGCTTGAAAAGGC
65 AAAAGCTCAACACGTCAAAAGAC
* * * * * * *
42612014 AATGTATATATTAAAAGATACGATACCTTAAAA-GCACGTGACCTGAAAA
1 GAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTACGTGACCTGAAAA
42612063 TGTCAAGAGC
Statistics
Matches: 181, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
86 14 0.08
87 167 0.92
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (87 bp):
GAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTACGTGACCTGAAAAAGCTAAAAGCTTTAA
AAAGCTCAACACGTCAAAAGAC
Found at i:42614830 original size:107 final size:105
Alignment explanation
Indices: 42614564--42614898 Score: 494
Period size: 106 Copynumber: 3.2 Consensus size: 105
42614554 CGGCACCCAG
* * * * *
42614564 TACGAAAAGAAGGAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGTCGGCACCCAGTACAGT
1 TACGAAAA-AAGTAAAAAAAAAA-ATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGT
42614629 AAATTTTTTTTTACTTTTTT-GTGTCAGTATCAGGTATCAGTA
63 AAATTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTA
* *
42614671 TACAAAAAAAGT-AAAAAAAAAATTTGGTACTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAA
1 TACGAAAAAAGTAAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGT-AA
*
42614735 ATTTTTTTTTTACTTTTTTCGTGTCAATATCAGGTATCAGTA
65 A-TTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTA
* * *
42614777 TACGAAAAAAGTAAAAAAAAAAATTTGTTGCTGGTCTGTCAATGGCCGACACCCAGCACAGTAAA
1 TACGAAAAAAGTAAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAA
*
42614842 TTTTTTTTTACTTTTTTTCGTGTCAGTATCAGGTATCAATA
66 TTTTTTTTTAC-TTTTTTCGTGTCAGTATCAGGTATCAGTA
42614883 TACGAAAAAAGTAAAA
1 TACGAAAAAAGTAAAA
42614899 TTTTTTTTAT
Statistics
Matches: 208, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
103 32 0.15
104 6 0.03
105 37 0.18
106 81 0.39
107 52 0.25
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (105 bp):
TACGAAAAAAGTAAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAA
TTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTA
Found at i:42615188 original size:19 final size:18
Alignment explanation
Indices: 42615164--42615206 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
42615154 TCCATTAAAT
42615164 AAATATTAAAAAAAGAAAA
1 AAATATTAAAAAAA-AAAA
* *
42615183 AAATA-TAAAAATAAAAG
1 AAATATTAAAAAAAAAAA
42615200 AAATATT
1 AAATATT
42615207 TACATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATATTAAAAAAAAAAA
Found at i:42615248 original size:13 final size:13
Alignment explanation
Indices: 42615230--42615254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42615220 TTAAGAAAGT
42615230 AAAAATTAAAATA
1 AAAAATTAAAATA
42615243 AAAAATTAAAAT
1 AAAAATTAAAAT
42615255 TGTCGTGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTAAAATA
Found at i:42615818 original size:106 final size:106
Alignment explanation
Indices: 42615630--42615971 Score: 519
Period size: 106 Copynumber: 3.2 Consensus size: 106
42615620 TGATGACACG
* * *
42615630 AATTTTTTTATTACTTTTTTCGTATACTGATACCTGATACTAACAAGAAAAAAAGTAAAAAAAAA
1 AATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
*
42615695 TTTTACTGTGCTGGGTGCCGGCGATTGACAGGCCAGCACCCA
66 -TTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCA
42615737 AATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
1 AATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
* *
42615802 TTTACTGTGCTGGGTGCCGGCCATTGATAGGCCAGCACCAA
66 TTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCA
* **
42615843 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACG-AAAAAAGTAAAATAATT
1 AATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAA-AAAA
* * * *
42615907 TTTTACTATACTGGGTGCCGGCCATTAACAGGCCAGC-CTCCA
65 ATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCAC-CCA
42615949 AA-TTTTTTTTTACTTTTTTCGTA
1 AATTTTTTTTTTACTTTTTTCGTA
42615972 CCCTGGTGCC
Statistics
Matches: 218, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
105 34 0.16
106 122 0.56
107 62 0.28
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (106 bp):
AATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
TTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCA
Found at i:42617291 original size:15 final size:15
Alignment explanation
Indices: 42617271--42617299 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42617261 ATTTTTACAC
42617271 TATTATTATTATAAT
1 TATTATTATTATAAT
42617286 TATTATTATTATAA
1 TATTATTATTATAA
42617300 CCATGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATTATTATAAT
Found at i:42622680 original size:14 final size:15
Alignment explanation
Indices: 42622648--42622684 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
42622638 AGTGATGTGA
42622648 AAAAAT-GAAAAGAT
1 AAAAATGGAAAAGAT
*
42622662 GAAAATGGAAAAG-T
1 AAAAATGGAAAAGAT
42622676 AAAAATGGA
1 AAAAATGGA
42622685 GAGGCTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.14
Consensus pattern (15 bp):
AAAAATGGAAAAGAT
Found at i:42624308 original size:50 final size:50
Alignment explanation
Indices: 42624217--42624607 Score: 235
Period size: 50 Copynumber: 7.8 Consensus size: 50
42624207 TTTGGCATTA
* * ***
42624217 TAGTAGAATAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * * * * * **
42624267 TAGTGGAACAGATTGAAGCTACGACAGTGGATCTGGTTTCCCCGACATTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * ** * **
42624317 CAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGGCGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * * **
42624367 TGGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACATTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * ** * * *** *
42624417 CAATTAAAAAGATTGACA-CCACAACGGCTGATCTTACTTCCCTAGCGGTG
1 TAGTGGAACAGATTGA-AGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * * * * ** **
42624467 CAGTGGAATAGATTGAAGCTACGACAGCGGATCTGGTTTCCCTAACATTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
** * * * **** *
42624517 TAGTTAAATAGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGTGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
* * * * *
42624567 TAGTGGAACAAATTGAAGTCACAACGGTGAATCTTGTTTCC
1 TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCC
42624608 TCGACATTAC
Statistics
Matches: 243, Mismatches: 96, Indels: 4
0.71 0.28 0.01
Matches are distributed among these distances:
49 1 0.00
50 241 0.99
51 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
TAGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCTGGCGGTG
Found at i:42624575 original size:200 final size:200
Alignment explanation
Indices: 42624226--42624615 Score: 566
Period size: 200 Copynumber: 1.9 Consensus size: 200
42624216 ATAGTAGAAT
* *
42624226 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGA
* * * **
42624291 CAGTGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTT
66 CAGCGGATCTGGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACCT
* * *
42624356 CCCTGGCGGTGTGGTGGAACAGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACATTGCAAT
131 CCCTGGCGGTGTAGTGGAACAAATTGAAGCCACAACGGCGAATCTGGTTTCCCCGACATTGCAAT
42624421 TAAAA
196 TAAAA
* *
42624426 AGATTGACA-CCACAACGGCTGATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTGAAGCTACG
1 AGATTGA-AGCCACAACGGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACG
* * * * *
42624490 ACAGCGGATCTGGTTTCCCTAACATTGTAGTTAAATAGATTGAAGCCACAATGGCGAATCTTACC
65 ACAGCGGATCTGGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACC
* * * * *
42624555 TCCCTGGTGGTGTAGTGGAACAAATTGAAGTCACAACGGTGAATCTTGTTTCCTCGACATT
130 TCCCTGGCGGTGTAGTGGAACAAATTGAAGCCACAACGGCGAATCTGGTTTCCCCGACATT
42624616 ACAGTTAAGC
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
200 166 0.99
201 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (200 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGA
CAGCGGATCTGGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACCT
CCCTGGCGGTGTAGTGGAACAAATTGAAGCCACAACGGCGAATCTGGTTTCCCCGACATTGCAAT
TAAAA
Found at i:42624634 original size:100 final size:100
Alignment explanation
Indices: 42624226--42624615 Score: 514
Period size: 100 Copynumber: 3.9 Consensus size: 100
42624216 ATAGTAGAAT
*
42624226 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
*
42624291 CAGTGGATCTGGTTTCCCCGACATTGCAATTAAAA
66 CAGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
* * *
42624326 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGGCGGTGTGGTGGAACAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
*
42624391 CGGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
66 CAGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
* * * * *
42624426 AGATTGACA-CCACAACGGCTGATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTGAAGCTACG
1 AGATTGA-AGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACA
** * * *
42624490 ACAGCGGATCTGGTTTCCCTAACATTGTAGTTAAAT
65 ACAGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
* * * * *
42624526 AGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGTGGTGTAGTGGAACAAATTGAAG-TCACA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-ACA
* * * * *
42624590 ACGGTGAATCTTGTTTCCTCGACATT
65 ACAGCGGATCTGGTTTCCCCGACATT
42624616 ACAGTTAAGC
Statistics
Matches: 250, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.01
100 247 0.99
101 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
CAGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
Found at i:42626194 original size:22 final size:22
Alignment explanation
Indices: 42626168--42626209 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42626158 CTTCTGTTAT
*
42626168 TTTTACACTATTATTATTATTG
1 TTTTAAACTATTATTATTATTG
*
42626190 TTTTAAATTATTATTATTAT
1 TTTTAAACTATTATTATTAT
42626210 AACCATGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATTATTATTATTG
Found at i:42626312 original size:16 final size:16
Alignment explanation
Indices: 42626294--42626347 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
42626284 TTCTTTCTAT
42626294 ATATATATTTTTAT--
1 ATATATATTTTTATAC
* *
42626308 ATATACATTTGTATAC
1 ATATATATTTTTATAC
* *
42626324 ATACATATTTTTACAC
1 ATATATATTTTTATAC
42626340 ATATATAT
1 ATATATAT
42626348 ATCTTCATGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 12 0.39
16 19 0.61
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATATTTTTATAC
Found at i:42626345 original size:14 final size:14
Alignment explanation
Indices: 42626294--42626345 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
42626284 TTCTTTCTAT
*
42626294 ATATATATTTTTAT
1 ATATATATTTTTAC
*
42626308 ATATACATTTGTATAC
1 ATATATATTT-T-TAC
*
42626324 ATACATATTTTTAC
1 ATATATATTTTTAC
*
42626338 ACATATAT
1 ATATATAT
42626346 ATATCTTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
15 2 0.07
16 10 0.33
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (14 bp):
ATATATATTTTTAC
Found at i:42633631 original size:44 final size:44
Alignment explanation
Indices: 42633577--42633999 Score: 189
Period size: 44 Copynumber: 9.6 Consensus size: 44
42633567 AAGATGGCGA
* *
42633577 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAACAG
* * * * *
42633621 AT-TCTATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATAACAG
1 ATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAG
* *
42633665 ATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGC-A-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AA-CAACAG
* * * * * ***
42633710 -CCTTAT-TCTCCTGAATTTGTAGT-GAGGCAGACTGAAGATGGC-G
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACAACAG
**
42633753 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATC-ACAG
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CAACAG
* * ** * *
42633798 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAG
* * ** *
42633838 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAA-AGC-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACAACAG
* * *
42633882 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCATACTCAAGAA-ATCA-
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACAACAG
* * * * *
42633927 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATA-AACAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAACAG
* * * *
42633972 ATCTCATCTCTCTAAAGTTGTAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
42634000 TGGATTAGAA
Statistics
Matches: 284, Mismatches: 67, Indels: 56
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 22 0.08
41 7 0.02
42 1 0.00
43 16 0.06
44 134 0.47
45 96 0.34
46 7 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAG
Found at i:42633889 original size:45 final size:45
Alignment explanation
Indices: 42633666--42633960 Score: 191
Period size: 45 Copynumber: 6.7 Consensus size: 45
42633656 AAATAACAGA
* * *
42633666 TCTTATCTCCCTGAAGTTGCAATGGAGCAGA-CTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAG
* * * ** **
42633710 CCTTAT-TCTCCTGAATTTGTAGT-GAGGCAGACTGAAGATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACCCAAGAAAGC-AAG
** ** *
42633755 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGA--TTA-AAATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA-AG
* * * * * **
42633798 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--G-CATCGGG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAG
* *
42633839 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAG
* * *
42633884 TCTTATCTCCCTGAAGTTGCAGTGGAGCATACTCAAGAAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAG
* * *
42633929 TCTTATCCCCCTGAAATTGCAGTGGGGCAGAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
42633961 TAAATAAACA
Statistics
Matches: 192, Mismatches: 43, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.10
41 9 0.05
42 7 0.04
43 10 0.05
44 43 0.22
45 97 0.51
46 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAG
Found at i:42633900 original size:129 final size:132
Alignment explanation
Indices: 42633625--42633911 Score: 334
Period size: 129 Copynumber: 2.2 Consensus size: 132
42633615 CCAATAATTC
* * *
42633625 TATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATAACAGATCTTATCTCCCTGAAGTTGCAATG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAACAGATCTTATCTCCCTGAAGTTGCAA-G
* ** **
42633690 GAGCAGACTAAGTAAGCAAGCCTTATTCTCCTGAATTTGTAGTGAGGCAGACTGAAGATGGCGAA
65 GAGCAGACTAAGTAAGCAAGCCTTATTCTCCTGAAGTTGTAGTGAGGCAGACCCAAGAAAGCGAA
42633755 TCT
130 TCT
* * *
42633758 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGC-AGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAACAGATCTTATCTCCCTGAAGTTGCAAG-
* * * ** *
42633822 GAGCAGA-T-CG-CATCGGGTCTTA-TCTCCCTGAAGTTGTAGTG-GAGCAGACCCAAGAAAGCG
65 GAGCAGACTAAGTAAGCAAGCCTTATTCT-CCTGAAGTTGTAGTGAG-GCAGACCCAAGAAAGCG
*
42633882 AGTCT
128 AATCT
42633887 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
42633912 ATACTCAAGA
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
128 4 0.03
129 62 0.47
130 1 0.01
131 2 0.02
132 8 0.06
133 55 0.42
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (132 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAACAGATCTTATCTCCCTGAAGTTGCAAGG
AGCAGACTAAGTAAGCAAGCCTTATTCTCCTGAAGTTGTAGTGAGGCAGACCCAAGAAAGCGAAT
CT
Found at i:42633983 original size:174 final size:173
Alignment explanation
Indices: 42633666--42633991 Score: 372
Period size: 174 Copynumber: 1.9 Consensus size: 173
42633656 AAATAACAGA
* * * *
42633666 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCAAGCCTTATTCTCCTGAATTTGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACCAAGAAAGCAAGCCTTATTCTCCTGAAGTTGCA
* ** * * ** * *
42633731 GTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCAC
66 GTGAGGCAGACTCAAGAAAGCGAATCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAATAAC
* * *
42633796 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGGG
131 AAATCTCATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCGGG
* * * *
42633839 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCGAGTCTTA-TCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGA-CCAAGAAAGCAAGCCTTATTCT-CCTGAAGTTG
* * *
42633903 CAGTG-GAGCATACTCAAGAAATC-AAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACT-AAA
64 CAGTGAG-GCAGACTCAAGAAAGCGAA-TCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAA
42633965 TAAACAAATCTCATCTCTCTAAAGTTG
127 T-AACAAATCTCATCTCTCTAAAGTTG
42633992 TAGTGGAGTG
Statistics
Matches: 125, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
173 39 0.31
174 86 0.69
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (173 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACCAAGAAAGCAAGCCTTATTCTCCTGAAGTTGCA
GTGAGGCAGACTCAAGAAAGCGAATCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAATAAC
AAATCTCATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCGGG
Found at i:42634535 original size:19 final size:19
Alignment explanation
Indices: 42634511--42634602 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
42634501 AATCTTCAAG
*
42634511 GATATGCAATCTTGGATAT
1 GATATGCAATCTTAGATAT
*
42634530 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42634549 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
42634568 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42634587 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
42634603 AGATGTGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42634555 original size:38 final size:38
Alignment explanation
Indices: 42634511--42634602 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
42634501 AATCTTCAAG
* *
42634511 GATATGCAATCTTGGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATGTAATCTTAGATAT
42634549 GATATGCAATCTTAGATATAATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATGTAATCTTAGATAT
42634587 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
42634603 AGATGTGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATGTAATCTTAGATAT
Found at i:42638944 original size:20 final size:20
Alignment explanation
Indices: 42638919--42638957 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42638909 TAATATTTTC
*
42638919 AATAAAAAATCATAAAAATT
1 AATAAAAAATAATAAAAATT
*
42638939 AATAAAATATAATAAAAAT
1 AATAAAAAATAATAAAAAT
42638958 ATATTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAAAATAATAAAAATT
Found at i:42639005 original size:9 final size:9
Alignment explanation
Indices: 42638923--42639069 Score: 57
Period size: 10 Copynumber: 15.4 Consensus size: 9
42638913 ATTTTCAATA
*
42638923 AAAAATCAT
1 AAAAATTAT
42638932 AAAAATTAAT
1 AAAAATT-AT
*
42638942 AAAATATAAT
1 AAAA-ATTAT
42638952 AAAAATATAT
1 AAAAAT-TAT
** *
42638962 TGAATTTAT
1 AAAAATTAT
* *
42638971 TAAAATTGAC
1 AAAAATT-AT
42638981 ACAAAATTAT
1 A-AAAATTAT
42638991 AAAAAAATTAT
1 --AAAAATTAT
*
42639002 AAAATATAAT
1 AAAA-ATTAT
*
42639012 AAAAACTAT
1 AAAAATTAT
*
42639021 --ATATTAT
1 AAAAATTAT
42639028 AAAAA-TAT
1 AAAAATTAT
*
42639036 AATAAATTCT
1 AA-AAATTAT
*
42639046 AATAAATTTT
1 AA-AAATTAT
*
42639056 TAAAATTAAT
1 AAAAATT-AT
42639066 AAAA
1 AAAA
42639070 CAAATTTAAA
Statistics
Matches: 103, Mismatches: 22, Indels: 25
0.69 0.15 0.17
Matches are distributed among these distances:
7 5 0.05
8 5 0.05
9 33 0.32
10 43 0.42
11 16 0.16
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:42639209 original size:19 final size:20
Alignment explanation
Indices: 42639166--42639220 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
42639156 TTTTAATTCT
42639166 ATAAAAACTTA-AAAAAACTA
1 ATAAAAA-TTATAAAAAACTA
42639186 ATAAACAA-TATAAAAAA-TA
1 ATAAA-AATTATAAAAAACTA
*
42639205 TTAAAAATTATAAAAA
1 ATAAAAATTATAAAAA
42639221 TCATTTAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 16 0.52
20 11 0.35
21 2 0.06
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAAAATTATAAAAAACTA
Found at i:42639871 original size:20 final size:20
Alignment explanation
Indices: 42639802--42639873 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
42639792 TTTTATTTTT
*
42639802 TTTTAT-AATTTATTAGAA-
1 TTTTATAAATTTATTATAAG
* *
42639820 -TTTAAAAATAT-TTATAAGG
1 TTTTATAAATTTATTATAA-G
* *
42639839 TTTTATTATTTTATTATAAG
1 TTTTATAAATTTATTATAAG
42639859 TTTTATAAATTTATT
1 TTTTATAAATTTATT
42639874 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
17 9 0.22
18 4 0.10
20 21 0.52
21 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTATAAATTTATTATAAG
Found at i:42643376 original size:67 final size:67
Alignment explanation
Indices: 42643268--42643399 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
42643258 TTTTCAATTC
*
42643268 AGAGAGCACACTCCCACGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCAAACTCCCACGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
42643333 CA
66 CA
* * *
42643335 AGAGAGCAAACTCCCGCGAACCTCATTTCTTACAGCGGGATTATCAGTCTAGGCTAAATCCCCTG
1 AGAGAGCAAACTCCCACGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
42643400 TAATTAAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCAAACTCCCACGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:42643611 original size:57 final size:59
Alignment explanation
Indices: 42643545--42643659 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 59
42643535 GTTAAATCTA
42643545 TTTTCCACATATTCTTCAGGAGGGCTATATC-A-A-GATCACCCGTCCGGGCTAGAGCT
1 TTTTCCACATATTCTTCAGGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGAGCT
*
42643601 TTTTCACACATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGA
1 TTTTC-CACATATTCTTCAGGAGGGCTATATC--GATAGGATCACCCGTCCGGGCTAGA
42643660 TCCTTTTTAC
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
56 5 0.10
57 25 0.48
60 1 0.02
61 1 0.02
62 20 0.38
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (59 bp):
TTTTCCACATATTCTTCAGGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGAGCT
Found at i:42646788 original size:13 final size:13
Alignment explanation
Indices: 42646770--42646794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42646760 ATGATTTTTT
42646770 GATAATATAAATA
1 GATAATATAAATA
42646783 GATAATATAAAT
1 GATAATATAAAT
42646795 GTGGTACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
GATAATATAAATA
Found at i:42657539 original size:17 final size:16
Alignment explanation
Indices: 42657513--42657551 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
42657503 ATTTCATATC
*
42657513 ATATATTAATATTTTA
1 ATATAATAATATTTTA
42657529 ATTATAATAATATTTTA
1 A-TATAATAATATTTTA
42657546 ATATAA
1 ATATAA
42657552 GGCTCTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATAATATTTTA
Found at i:42657817 original size:45 final size:44
Alignment explanation
Indices: 42657765--42657854 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
42657755 AGATTTTCTT
*
42657765 ATTCTACAGTCTAGTCCTAAACCTTGTTTTTTTATAGATTTGCAA
1 ATTCTACAGTCTAGTCCTAAACCTCG-TTTTTTATAGATTTGCAA
*
42657810 ATTCTACAGTTTAGTCCTAAACCTCGTTTTTTATAGATTTGCAA
1 ATTCTACAGTCTAGTCCTAAACCTCGTTTTTTATAGATTTGCAA
42657854 A
1 A
42657855 CTAGTCCCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 19 0.44
45 24 0.56
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (44 bp):
ATTCTACAGTCTAGTCCTAAACCTCGTTTTTTATAGATTTGCAA
Found at i:42662820 original size:54 final size:53
Alignment explanation
Indices: 42662738--42662846 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 53
42662728 ACTCGGACAC
42662738 TGACTCATCATCTTCATCTGAAGAAGTAGATGAGGGGGTTTCAACTTCTGAAGA
1 TGACTCATCATCTTCATCTGAAGAAGTAGATGA-GGGGTTTCAACTTCTGAAGA
*
42662792 TGACTCGTCATCTTCATCTGAAGAAGTAGATGAGGGGTTTCAACTTCTGAAGA
1 TGACTCATCATCTTCATCTGAAGAAGTAGATGAGGGGTTTCAACTTCTGAAGA
42662845 TG
1 TG
42662847 CTGTTTATGG
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 22 0.41
54 32 0.59
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (53 bp):
TGACTCATCATCTTCATCTGAAGAAGTAGATGAGGGGTTTCAACTTCTGAAGA
Found at i:42665155 original size:70 final size:70
Alignment explanation
Indices: 42665037--42665181 Score: 281
Period size: 70 Copynumber: 2.1 Consensus size: 70
42665027 ACTTAGTTGA
*
42665037 TTTGAAAGCTTAGAGAAACTATAATATAGGCCCATATCTACTTTGTTAGTGGGGTTGCTATTAGT
1 TTTGTAAGCTTAGAGAAACTATAATATAGGCCCATATCTACTTTGTTAGTGGGGTTGCTATTAGT
42665102 AAATC
66 AAATC
42665107 TTTGTAAGCTTAGAGAAACTATAATATAGGCCCATATCTACTTTGTTAGTGGGGTTGCTATTAGT
1 TTTGTAAGCTTAGAGAAACTATAATATAGGCCCATATCTACTTTGTTAGTGGGGTTGCTATTAGT
42665172 AAATC
66 AAATC
42665177 TTTGT
1 TTTGT
42665182 GTTATTCAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (70 bp):
TTTGTAAGCTTAGAGAAACTATAATATAGGCCCATATCTACTTTGTTAGTGGGGTTGCTATTAGT
AAATC
Found at i:42666839 original size:44 final size:44
Alignment explanation
Indices: 42666776--42666863 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
42666766 GGAAGTAGTT
42666776 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
42666820 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
42666864 ATCTTTTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (44 bp):
TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
Found at i:42672373 original size:3 final size:3
Alignment explanation
Indices: 42672365--42672420 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
42672355 CTCTGGAGCT
* *
42672365 TCA TCA TCA TCA TCG TCA TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
42672413 TCA TCA TC
1 TCA TCA TC
42672421 TAAGTTCTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:42679054 original size:13 final size:13
Alignment explanation
Indices: 42679027--42679063 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
42679017 TTATTTTTTA
42679027 AATT-TAAAT-TT
1 AATTATAAATATT
42679038 AATTATAAATATT
1 AATTATAAATATT
*
42679051 AATTAAAAATATT
1 AATTATAAATATT
42679064 TTTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTATAAATATT
Found at i:42681571 original size:169 final size:161
Alignment explanation
Indices: 42681272--42681576 Score: 407
Period size: 169 Copynumber: 1.8 Consensus size: 161
42681262 GGTATTTTTG
* * *
42681272 TTAGTCAGACCATTAGTTAAAATGTTATCTATTTTTAAAAAAAGATTAACCCATAAATTGGTACT
1 TTAGTCAAACCATTAGTTAAAATATTATCTATTTTTAAAAAAAGATTAACCCATAAATTGGTACC
* * * * *
42681337 TAAATTATGTCATTTTTTTATTTTGGTATCTAAATATTTTTTTGGTCACAAGTATTACCTAAACT
66 TAAACTATGTCATTTTTTCATTTTGGTATCTAAACATTTTTTTGGTCACAAGTAGTACATAAACT
42681402 ATTTTTTTTCCAAGTTCATGATATATCTTCA
131 ATTTTTTTTCCAAGTTCATGATATATCTTCA
*
42681433 TTAGTCAAACCATTAGTTAAAGTATTAAGTCTATTTTTTTTAAAAAAAATGGATTAACCCATAAA
1 TTAGTCAAACCATTAGTTAAAATATT-A-TCTA---TTTTT-AAAAAAA--GATTAACCCATAAA
* *
42681498 TTGGTACCTAAACTATGTTATTTTTCTCATTTTGGTA-CTTAAACATTTTTTT-GTCACAAGTGG
58 TTGGTACCTAAACTATGTCATTTTT-TCATTTTGGTATC-TAAACATTTTTTTGGTCACAAGTAG
42681561 TACATAAACTATTTTT
121 TACATAAACTATTTTT
42681577 CTCCAAGCTG
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
161 23 0.19
162 1 0.01
163 4 0.03
166 5 0.04
167 7 0.06
169 61 0.50
170 22 0.18
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (161 bp):
TTAGTCAAACCATTAGTTAAAATATTATCTATTTTTAAAAAAAGATTAACCCATAAATTGGTACC
TAAACTATGTCATTTTTTCATTTTGGTATCTAAACATTTTTTTGGTCACAAGTAGTACATAAACT
ATTTTTTTTCCAAGTTCATGATATATCTTCA
Found at i:42681588 original size:27 final size:28
Alignment explanation
Indices: 42681530--42681588 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
42681520 TTTCTCATTT
* * *
42681530 TGGTACTTAAACATTTTTTTGTCACAAG
1 TGGTACATAAACATATTTTTCTCACAAG
42681558 TGGTACATAAAC-TATTTTTCTC-CAAG
1 TGGTACATAAACATATTTTTCTCACAAG
42681584 CTGGT
1 -TGGT
42681589 GCCTCTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 12 0.44
28 11 0.41
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (28 bp):
TGGTACATAAACATATTTTTCTCACAAG
Found at i:42681733 original size:16 final size:18
Alignment explanation
Indices: 42681712--42681749 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
42681702 TATATATTCT
42681712 TAAAAAATA-TT-AAAAA
1 TAAAAAATATTTAAAAAA
42681728 TAAAAAATATTTAAAAAA
1 TAAAAAATATTTAAAAAA
42681746 TAAA
1 TAAA
42681750 GAAAACTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAATATTTAAAAAA
Found at i:42722477 original size:41 final size:41
Alignment explanation
Indices: 42722386--42722530 Score: 166
Period size: 41 Copynumber: 3.6 Consensus size: 41
42722376 AGGCTAAGCG
* **** *
42722386 CCTAGCAGGCTAAATGCCGGTGA-ATTTTTCAGACTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * * *
42722426 TCTAGCAGGCTAAGTGCCGGTGATCGGAATTAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
42722467 CCTAGCAGGCTACGTGCCGGTGATATGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
42722508 CCTAGCAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
42722531 ATATGTTAAA
Statistics
Matches: 86, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 21 0.24
41 65 0.76
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
Found at i:42724794 original size:14 final size:16
Alignment explanation
Indices: 42724765--42724801 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
42724755 TAAATACAAA
42724765 TTATTTCAAACAATAG
1 TTATTTCAAACAATAG
42724781 TTATTT-AAAC-ATAG
1 TTATTTCAAACAATAG
*
42724795 CTATTTC
1 TTATTTC
42724802 TGAAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (16 bp):
TTATTTCAAACAATAG
Found at i:42726611 original size:32 final size:32
Alignment explanation
Indices: 42726575--42726639 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
42726565 TGGGGAATTC
42726575 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
1 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
*
42726607 TTTGCTTTTGTTCTTTCATGGAGGACCAGTGT
1 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
42726639 T
1 T
42726640 CTTTCATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (32 bp):
TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
Found at i:42726641 original size:21 final size:21
Alignment explanation
Indices: 42726615--42726655 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
42726605 GTTTTGCTTT
42726615 TGTTCTTTCATGGAGGACCAG
1 TGTTCTTTCATGGAGGACCAG
42726636 TGTTCTTTCATGGAGGACCA
1 TGTTCTTTCATGGAGGACCA
42726656 AACTTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTTCTTTCATGGAGGACCAG
Found at i:42728131 original size:21 final size:21
Alignment explanation
Indices: 42728107--42728147 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42728097 GGAAATCTGC
* *
42728107 CAAACAGCAGAAAATATTTTA
1 CAAACACCAAAAAATATTTTA
42728128 CAAACACCAAAAAATATTTT
1 CAAACACCAAAAAATATTTT
42728148 CCAATAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (21 bp):
CAAACACCAAAAAATATTTTA
Found at i:42728177 original size:20 final size:20
Alignment explanation
Indices: 42728152--42728189 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42728142 TATTTTCCAA
42728152 TAAATCATTTTACAGAAAAG
1 TAAATCATTTTACAGAAAAG
*
42728172 TAAATCATTTTCCAGAAA
1 TAAATCATTTTACAGAAA
42728190 TCATTTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAATCATTTTACAGAAAAG
Found at i:42728194 original size:34 final size:33
Alignment explanation
Indices: 42728139--42728203 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
42728129 AAACACCAAA
*
42728139 AAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAATATTTTCCAAGAAATCATTTTAC-GAAAAGT
42728173 AAATCATTTTCC-AGAAATCATTTTACGAAAA
1 AAAT-ATTTTCCAAGAAATCATTTTACGAAAA
42728204 ATATTTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 17 0.59
35 7 0.24
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (33 bp):
AAATATTTTCCAAGAAATCATTTTACGAAAAGT
Found at i:42729133 original size:9 final size:9
Alignment explanation
Indices: 42729119--42729169 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
42729109 GTAATTTTCA
42729119 GGTAATTCG
1 GGTAATTCG
42729128 GGTAATTCG
1 GGTAATTCG
*
42729137 GTTAATTCG
1 GGTAATTCG
*
42729146 GTTAA-TCG
1 GGTAATTCG
42729154 GGTAATTCG
1 GGTAATTCG
42729163 GGTAATT
1 GGTAATT
42729170 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
8 7 0.18
9 32 0.82
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:42729159 original size:17 final size:17
Alignment explanation
Indices: 42729119--42729168 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
42729109 GTAATTTTCA
42729119 GGTAATTCGGGTAATTCG
1 GGTAATTCGGGTAA-TCG
* *
42729137 GTTAATTCGGTTAATCG
1 GGTAATTCGGGTAATCG
42729154 GGTAATTCGGGTAAT
1 GGTAATTCGGGTAAT
42729169 TTTTAACCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.36
Consensus pattern (17 bp):
GGTAATTCGGGTAATCG
Found at i:42729905 original size:21 final size:22
Alignment explanation
Indices: 42729856--42729896 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42729846 ATTTAATTTT
42729856 AAAAAATATAATAATTAAATCG
1 AAAAAATATAATAATTAAATCG
*
42729878 AAAAAAT-TAATAGTTAAAT
1 AAAAAATATAATAATTAAAT
42729897 GATCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAAAATATAATAATTAAATCG
Found at i:42730952 original size:228 final size:229
Alignment explanation
Indices: 42730603--42731019 Score: 567
Period size: 228 Copynumber: 1.8 Consensus size: 229
42730593 ATGCCGGAAC
* *
42730603 TTTTGAAACTGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCGGTGCTTAGCCGAAAA
1 TTTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCGGCGCTTAGCCGAAAA
* * *
42730668 CGCCGCTATATATCAGCTTTTCATGGCGCTGTTCCTGAATCGCCGCAAATATTTTGAACAAAATG
66 CGCCGCTATATATCAGCTTTTCATGGCGCTGTTCCTGAAGCGCCGCAAAAATTTTGAACAAAATA
* * *
42730733 CATCG-TTCGAGTTTGACGTATAAATGCATTAGTGGCGCTTACCTGA-AAACGCCGCTATATCCC
131 CATCGTTTCG-GCTTCACGTATAAATGCATTAGCGGCGCTTA-CTGAGAAACGCCGCTATATCCC
42730796 ATAAATAGCGGCGTTTAACTAAAAAACGCTGAAAAA
194 ATAAATAGCGGCGTTTAACTAAAAAACGCTGAAAAA
* * * *
42730832 TTTT-AAACCGAAGCGCAACGTTTCGTCTTGAGCTATAGCTCCTTTAGTGGCGCTTATCC-ATAA
1 TTTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCGGCGCTTAGCCGA-AA
* * * *
42730895 ACGCCGTTATATATCAGCTTTT-AGTGGCGCT-TCTGCTTAAGCGCCGCAAAAATTTTGACCAAA
65 ACGCCGCTATATATCAGCTTTTCA-TGGCGCTGT-TCCTGAAGCGCCGCAAAAATTTTGAACAAA
* * * *
42730958 ATACATCGTTTCGGCTTCACGTATAGATTCATTAGCGGCGCTTATTTAGAAACGCCGCTATA
128 ATACATCGTTTCGGCTTCACGTATAAATGCATTAGCGGCGCTTACTGAGAAACGCCGCTATA
42731020 GAGTAACTTT
Statistics
Matches: 163, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
227 5 0.03
228 150 0.92
229 8 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (229 bp):
TTTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCGGCGCTTAGCCGAAAA
CGCCGCTATATATCAGCTTTTCATGGCGCTGTTCCTGAAGCGCCGCAAAAATTTTGAACAAAATA
CATCGTTTCGGCTTCACGTATAAATGCATTAGCGGCGCTTACTGAGAAACGCCGCTATATCCCAT
AAATAGCGGCGTTTAACTAAAAAACGCTGAAAAA
Found at i:42731372 original size:13 final size:14
Alignment explanation
Indices: 42731354--42731394 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
42731344 TTTCCAAAGA
42731354 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
42731367 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
42731381 TACGGTTTA-GACT
1 TATGGTTTAGGACT
42731394 T
1 T
42731395 TAGGGGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:42731629 original size:14 final size:14
Alignment explanation
Indices: 42731591--42731631 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
42731581 ACGATTTGGG
42731591 GTTTGGGGTTTAGA
1 GTTTGGGGTTTAGA
* * *
42731605 GTTTAGTGTTTATA
1 GTTTGGGGTTTAGA
42731619 GTTTGGGGTTTAG
1 GTTTGGGGTTTAG
42731632 GATCTACGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.49
Consensus pattern (14 bp):
GTTTGGGGTTTAGA
Found at i:42731808 original size:15 final size:16
Alignment explanation
Indices: 42731776--42731814 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
42731766 GATATTCTAG
42731776 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
42731792 A-TAATATAAAT-ATAA
1 ATTAATATAAATGA-AA
42731807 ATTAATAT
1 ATTAATAT
42731815 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 13 0.62
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:42732518 original size:17 final size:19
Alignment explanation
Indices: 42732498--42732540 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
42732488 CTGTCATCTC
42732498 CCCCAAATCCCTAA-A-TT
1 CCCCAAATCCCTAACAGTT
*
42732515 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAACAGTT
42732534 CCCCAAA
1 CCCCAAA
42732541 CCCGACGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 1 0.05
19 8 0.36
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (19 bp):
CCCCAAATCCCTAACAGTT
Found at i:42732896 original size:6 final size:6
Alignment explanation
Indices: 42732885--42732939 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
42732875 CGTTGAAATT
42732885 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
42732933 TATGTA T
1 TATGTA T
42732940 TAAAACTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:42735139 original size:20 final size:20
Alignment explanation
Indices: 42735111--42735278 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
42735101 TGGAAATAAC
*
42735111 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
42735131 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
* * *
42735151 ATAGTATTAAGACAAAATT-T
1 ATAATATTAAGA-TAACTTAT
* *
42735171 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
42735188 ATAAATATTAAGATAACTTAT
1 AT-AATATTAAGATAACTTAT
42735209 ATAATATTAAGATAA--TAT
1 ATAATATTAAGATAACTTAT
** * *
42735227 -TTCTAATT-ACATAACTTCT
1 ATAAT-ATTAAGATAACTTAT
* *
42735246 ATAATATTAATATAAGTTAT
1 ATAATATTAAGATAACTTAT
* *
42735266 ATTATTTTAAGAT
1 ATAATATTAAGAT
42735279 TAAATTTGGA
Statistics
Matches: 112, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
16 4 0.04
17 11 0.10
18 9 0.08
19 6 0.05
20 67 0.60
21 15 0.13
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:42735207 original size:58 final size:56
Alignment explanation
Indices: 42735122--42735312 Score: 247
Period size: 57 Copynumber: 3.3 Consensus size: 56
42735112 TAAAATTAAG
* *
42735122 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATA-TATTAAGATAAAATTTCTAATTAC
*
42735179 ATAACTTATATAAATATTAAGATAACTTATATAATATTAAGATAATATTTCTAATTAC
1 ATAACTTATAT-AATATTAAGATAACTTATAT-ATATTAAGATAAAATTTCTAATTAC
* * * * * **
42735237 ATAACTTCTATAATATTAATATAAGTTATATTATTTTAAGATTAAATTTGGAATTAC
1 ATAACTTATATAATATTAAGATAACTTATA-TATATTAAGATAAAATTTCTAATTAC
*
42735294 ATAAATTATATAATATTAA
1 ATAACTTATATAATATTAA
42735313 ATTGTATTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
57 65 0.55
58 52 0.44
59 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (56 bp):
ATAACTTATATAATATTAAGATAACTTATATATATTAAGATAAAATTTCTAATTAC
Found at i:42735394 original size:37 final size:35
Alignment explanation
Indices: 42735352--42735458 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 35
42735342 TATATTTTAG
*
42735352 ATAACTTATACAATATTAAGATAAAATTTCGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTC-AATTAC
42735389 ATAACTTATATAATATT-A-AT---TTCTC-ATTAC
1 ATAACTTATATAATATTAAGATAAATT-TCAATTAC
42735419 ATAACTTATATAATATTAAGATACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATA-AATTTC-AATTAC
42735456 ATA
1 ATA
42735459 TCAATTTCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
30 22 0.37
31 3 0.05
32 4 0.07
35 4 0.07
36 3 0.05
37 24 0.40
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (35 bp):
ATAACTTATATAATATTAAGATAAATTTCAATTAC
Found at i:42742527 original size:104 final size:104
Alignment explanation
Indices: 42742347--42742570 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
42742337 TGTATATAAA
** * *
42742347 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
42742412 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
42742451 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
42742515 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
42742555 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
42742571 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:42742622 original size:71 final size:72
Alignment explanation
Indices: 42742489--42742640 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
42742479 TCATTGGTGG
* *
42742489 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
42742554 GAGGGGT
66 GAGGGGT
***
42742561 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
42742625 GAGGGGT
66 GAGGGGT
42742632 TGCTAAGTG
1 TGCTAAGTG
42742641 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:42746301 original size:15 final size:14
Alignment explanation
Indices: 42746261--42746302 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
42746251 ACAGAAAGAA
42746261 AAAGAAA-GAAAAG
1 AAAGAAAGGAAAAG
*
42746274 AAA-AAGGGAAAAG
1 AAAGAAAGGAAAAG
42746287 AAAGAAAGGAGAAAG
1 AAAGAAAGGA-AAAG
42746302 A
1 A
42746303 CAAGGCTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 2 0.08
13 12 0.50
14 5 0.21
15 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAAAAG
Found at i:42749073 original size:7 final size:6
Alignment explanation
Indices: 42749052--42749083 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
42749042 CATGTGCATG
42749052 AAAATA AAAATA AAAATA AAAATA AATAATA A
1 AAAATA AAAATA AAAATA AAAATA AA-AATA A
42749084 TGATACAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:42749562 original size:22 final size:21
Alignment explanation
Indices: 42749527--42749584 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
42749517 AAAGGGTATC
* * *
42749527 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
42749548 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
42749571 TGCATATCATATCT
1 TACAAATCATATCT
42749585 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:42749600 original size:21 final size:19
Alignment explanation
Indices: 42749563--42749637 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
42749553 AATCATATCT
42749563 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
42749582 TCTAAGATTGCATATATCAAA
1 TCTAAGATTGC--ATATCATA
*
42749603 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
*
42749622 TCTAAGATTACATATC
1 TCTAAGATTGCATATC
42749638 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42752603 original size:16 final size:18
Alignment explanation
Indices: 42752576--42752608 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42752566 TAAAATAAGG
42752576 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
42752593 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
42752609 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:42765657 original size:26 final size:26
Alignment explanation
Indices: 42765624--42765677 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
42765614 AATTTAAATG
42765624 AATTGAAATTTTGAATTGGGTCTGAA
1 AATTGAAATTTTGAATTGGGTCTGAA
42765650 AATTGAAATTTTGAATTGGGTCTGAA
1 AATTGAAATTTTGAATTGGGTCTGAA
42765676 AA
1 AA
42765678 AAGGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (26 bp):
AATTGAAATTTTGAATTGGGTCTGAA
Found at i:42765686 original size:27 final size:26
Alignment explanation
Indices: 42765628--42765689 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
42765618 TAAATGAATT
**
42765628 GAAATTTTGAATTGGGTCTGAAAATT
1 GAAATTTTGAATTGGGTCTGAAAAAG
42765654 GAAATTTTGAATTGGGTCTGAAAAAAG
1 GAAATTTTGAATTGGGTCTG-AAAAAG
42765681 GAAATTTTG
1 GAAATTTTG
42765690 TGGTATAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.35
Consensus pattern (26 bp):
GAAATTTTGAATTGGGTCTGAAAAAG
Found at i:42767720 original size:20 final size:19
Alignment explanation
Indices: 42767695--42767747 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
42767685 AAAAAACATA
*
42767695 AAAAAATTATTAAGAATTAT
1 AAAAAATTATTAA-AAGTAT
42767715 AAAAAA-T-TTAAAAGTAT
1 AAAAAATTATTAAAAGTAT
*
42767732 TAAAAATTATTTAAAA
1 AAAAAATTA-TTAAAA
42767748 CAACAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 10 0.36
18 5 0.18
19 1 0.04
20 12 0.43
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAAAATTATTAAAAGTAT
Found at i:42767844 original size:20 final size:20
Alignment explanation
Indices: 42767807--42767845 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42767797 CTAAATTAAT
*
42767807 TATAGAAAATTATTAATAAA
1 TATAGAAAATTATAAATAAA
42767827 TATA-AAAATATATAAATAA
1 TATAGAAAAT-TATAAATAA
42767846 CGATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAGAAAATTATAAATAAA
Found at i:42768112 original size:19 final size:19
Alignment explanation
Indices: 42768090--42768145 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
42768080 TGAATAATTT
42768090 TAAAATTTTATATTTTTTA
1 TAAAATTTTATATTTTTTA
*
42768109 T-AAATTTTAATAGTTTTTA
1 TAAAATTTT-ATATTTTTTA
42768128 -AATAATTTTATATTTTTT
1 TAA-AATTTTATATTTTTT
42768146 TTTCACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 7 0.22
19 19 0.59
20 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TAAAATTTTATATTTTTTA
Found at i:42768666 original size:30 final size:30
Alignment explanation
Indices: 42768628--42768693 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
42768618 ATGGATGGAA
*
42768628 TTTTTAACA-A-AATGG-CTAATTTGCACTTT
1 TTTTTAACATACAA-GGTCTAACTTGC-CTTT
42768657 TTTTCTAACATACAAGGTCTAACTTGCCTTT
1 TTTT-TAACATACAAGGTCTAACTTGCCTTT
42768688 TTTTTA
1 TTTTTA
42768694 GTAAAAGGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
29 4 0.12
30 7 0.22
31 11 0.34
32 10 0.31
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTTTAACATACAAGGTCTAACTTGCCTTT
Found at i:42769875 original size:12 final size:11
Alignment explanation
Indices: 42769860--42769926 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
42769850 CAATTATAAG
42769860 GAAAGAAATAAA
1 GAAAGAAA-AAA
42769872 GAAAGAAAAGAA
1 GAAAGAAAA-AA
*
42769884 G-GAGAAAAAA
1 GAAAGAAAAAA
*
42769894 CAAAGAAAGAAAA
1 GAAAG-AA-AAAA
*
42769907 GAAAAAAAAAA
1 GAAAGAAAAAA
*
42769918 GAGAGAAAA
1 GAAAGAAAA
42769927 GGAAATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
10 2 0.05
11 20 0.45
12 15 0.34
13 7 0.16
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:42769924 original size:35 final size:34
Alignment explanation
Indices: 42769861--42769926 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
42769851 AATTATAAGG
* *
42769861 AAAGAAATAAAGAAAGAAAAGAAGGAGAAAAAAC
1 AAAGAAAAAAAGAAAGAAAAAAAGGAGAAAAAAC
42769895 AAAGAAAGAAAAGAAA-AAAAAAAGAGAGAAAA
1 AAAGAAA-AAAAGAAAGAAAAAAAG-GAGAAAA
42769927 GGAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (34 bp):
AAAGAAAAAAAGAAAGAAAAAAAGGAGAAAAAAC
Found at i:42769931 original size:21 final size:21
Alignment explanation
Indices: 42769857--42769936 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 21
42769847 TAGCAATTAT
*
42769857 AAGGAAAGAAATAAAGAAAGAAAA
1 AAGGAAA-AAAAAAAGAAAG--AA
42769881 GAAGGAGAAAAAACAAAGAAAGAA
1 -AAGGA-AAAAAA-AAAGAAAGAA
*
42769905 AA-GAAAAAAAAAAGAGAGAA
1 AAGGAAAAAAAAAAGAAAGAA
*
42769925 AAGGAAATAAAA
1 AAGGAAAAAAAA
42769937 TTTTTCTATG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 11 0.22
21 14 0.29
22 2 0.04
23 2 0.04
24 2 0.04
25 8 0.16
26 10 0.20
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (21 bp):
AAGGAAAAAAAAAAGAAAGAA
Found at i:42769936 original size:20 final size:20
Alignment explanation
Indices: 42769861--42769927 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
42769851 AATTATAAGG
*
42769861 AAAGAAATAAAGAAAGAAAAGA
1 AAAGAAA-AAAAAAAG-AAAGA
* *
42769883 AGGAGAAAAAACAAAGAAAGA
1 A-AAGAAAAAAAAAAGAAAGA
*
42769904 AAAGAAAAAAAAAAGAGAGA
1 AAAGAAAAAAAAAAGAAAGA
42769924 AAAG
1 AAAG
42769928 GAAATAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 20 0.51
21 6 0.15
22 8 0.21
23 5 0.13
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAAAAAAGAAAGA
Found at i:42772344 original size:5 final size:5
Alignment explanation
Indices: 42772334--42772366 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
42772324 TGAGCATTTG
42772334 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATC
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATC
42772367 AAAAATTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (5 bp):
ATCGA
Found at i:42773034 original size:16 final size:16
Alignment explanation
Indices: 42773013--42773043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42773003 GGGAAAAATA
42773013 AAAAGTTTAAGGGAAT
1 AAAAGTTTAAGGGAAT
*
42773029 AAAAGTTTGAGGGAA
1 AAAAGTTTAAGGGAA
42773044 AGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (16 bp):
AAAAGTTTAAGGGAAT
Found at i:42773166 original size:30 final size:31
Alignment explanation
Indices: 42773127--42773186 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
42773117 GGAGGTGGGA
**
42773127 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
* *
42773158 TGGG-AGGGAGTAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAA
42773187 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
Found at i:42774163 original size:17 final size:17
Alignment explanation
Indices: 42774141--42774174 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42774131 AAAGTTAGTT
42774141 CACTTTCACAAAATTAA
1 CACTTTCACAAAATTAA
42774158 CACTTTCACAAAATTAA
1 CACTTTCACAAAATTAA
42774175 ACATAGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CACTTTCACAAAATTAA
Found at i:42775595 original size:59 final size:61
Alignment explanation
Indices: 42775524--42775640 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
42775514 ATCACTTTAG
* * * *
42775524 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
42775583 TATTAAAATAATAAAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAAAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
42775641 GACAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:42778842 original size:28 final size:28
Alignment explanation
Indices: 42778809--42778907 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
42778799 TAATGAGATT
* *
42778809 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
42778836 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATGGTAA
* * * ** *
42778865 AGCACTAAGTGTGCAAGTGTGATTATTA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
42778893 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42778908 TACTTATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 57 0.93
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAATGGTAA
Found at i:42784438 original size:108 final size:106
Alignment explanation
Indices: 42784251--42784454 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 106
42784241 TGGATTAAGA
* * *
42784251 TTTAAAAGGTTATTTGGCTATTTGGTCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATACTTGGCTATTTGATCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
* *
42784316 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTACCTTACTTCGAAAT
* *
42784357 TTTAAAAGGATACTTGGCTATTTGAT-AGAATGAGAAAAATCGAAACTCAGCACATTAGGGCACG
1 TTTAAAAGGATACTTGGCTATTTGATCA-AATGAG--AAATCGAAACCCAGCACATTAGGGCACA
*
42784421 TTTTCTCGAATCTCCAAATGCAAAACATTACCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTACCTT
42784455 TATTATTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
105 1 0.01
106 29 0.33
108 57 0.66
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (106 bp):
TTTAAAAGGATACTTGGCTATTTGATCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTACCTTACTTCGAAAT
Found at i:42785295 original size:3 final size:3
Alignment explanation
Indices: 42785287--42785341 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
42785277 CAAGCCATAG
* * * *
42785287 ATA ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA ATA ATG ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
42785335 ATA ATA A
1 ATA ATA A
42785342 AAACTTATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42787229 original size:87 final size:87
Alignment explanation
Indices: 42787107--42787786 Score: 1072
Period size: 87 Copynumber: 7.8 Consensus size: 87
42787097 GCTAGTGCTT
42787107 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
42787172 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
42787194 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
42787259 CGGTCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
42787281 AGGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGTAACCGATGGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
42787346 CGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * *
42787368 AGGAAGACAAGATCTGTTATCTTTAACCAACTCCACTACAACCGTTGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
42787433 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
42787455 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCTATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
42787520 TGTTCTGCTTTGCTGTTAACGT
66 CGATCTGCTTCGCTGTTAACGC
* * * * * * * *
42787542 AGAAAGGCAATATCTACTATCTTTAACCAACTCCACTACAACTGATGAATGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
42787607 CGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
42787629 AAGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
42787694 TGATTTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
42787716 AGGAAGGTAAGATCTGCTATCTTTAGCCAGCTCCACTGCAACCGATGGAGGTAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
42787781 CGATCT
66 CGATCT
42787787 TCACTGATCT
Statistics
Matches: 532, Mismatches: 61, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 532 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:42789484 original size:6 final size:6
Alignment explanation
Indices: 42789469--42789508 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
42789459 TGATTTCTCT
*
42789469 TTTTGC TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
42789509 TTTCTTCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:42793742 original size:108 final size:106
Alignment explanation
Indices: 42793555--42793758 Score: 320
Period size: 108 Copynumber: 1.9 Consensus size: 106
42793545 TGGATTAAGA
* * * *
42793555 TTTAAGAGGATATTTGGCTATTTGGTCAAACAAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCAAAACCCAGCACATTAGGGCACATTT
*
42793620 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
*
42793661 TTTAAAAGGATATTTGGCTATTTGAT-AGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGGCTATTTGATCA-AAC-A-AAAAATCAAAACCCAGCACATTAGGGCACA
42793725 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
42793759 TATTATTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
105 1 0.01
106 27 0.30
107 1 0.01
108 60 0.67
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCAAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
Found at i:42794600 original size:3 final size:3
Alignment explanation
Indices: 42794592--42794646 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
42794582 CAAGACATAG
* * *
42794592 ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
42794640 ATA ATA A
1 ATA ATA A
42794647 CAACTTATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:42802021 original size:12 final size:12
Alignment explanation
Indices: 42802004--42802033 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
42801994 TCAGTGAGCT
*
42802004 ACACGGGTTGAG
1 ACACGGGCTGAG
42802016 ACACGGGCTGAG
1 ACACGGGCTGAG
42802028 ACACGG
1 ACACGG
42802034 CCGTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.40, T:0.10
Consensus pattern (12 bp):
ACACGGGCTGAG
Found at i:42811138 original size:2 final size:2
Alignment explanation
Indices: 42811131--42811162 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42811121 ATTTTCCTCA
42811131 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
42811163 ATCACACGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:42815850 original size:31 final size:29
Alignment explanation
Indices: 42815782--42815850 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
42815772 CTTAGGTTAG
* * *
42815782 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTACGTTTCAAATGTAAC
*
42815811 GTTTTAGTCACTTACGTTATCAAATTGTAAC
1 ATTTTAGTCACTTACGTT-TCAAA-TGTAAC
42815842 ATTTTAGTC
1 ATTTTAGTC
42815851 CTTGAACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 16 0.48
30 4 0.12
31 13 0.39
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (29 bp):
ATTTTAGTCACTTACGTTTCAAATGTAAC
Found at i:42816296 original size:25 final size:24
Alignment explanation
Indices: 42816262--42816310 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
42816252 AGAAAAAAAT
42816262 AGAAAATAAATAA-ATAAAAATTAAA
1 AGAAAATAAA-AAGA-AAAAATTAAA
*
42816287 AGAATATAAAAAGAAAAAATTAAA
1 AGAAAATAAAAAGAAAAAATTAAA
42816311 TTATTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (24 bp):
AGAAAATAAAAAGAAAAAATTAAA
Found at i:42822163 original size:30 final size:30
Alignment explanation
Indices: 42822128--42822300 Score: 229
Period size: 30 Copynumber: 5.7 Consensus size: 30
42822118 ATACATGTTT
42822128 TATATATTGCCGAATTGATTTGTATATGGATA
1 TATATATTGCCGAATTGATTTGTATATGG--A
* * * *
42822160 TATATATTTCCGAATTTATTTATATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
42822190 TATATATAGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
42822220 TATACACTGCCGAATTGATTTGTATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
42822250 TATACATTGCTGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
42822280 TATATATTGCCGAATTGATTT
1 TATATATTGCCGAATTGATTT
42822301 TAACATTGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
30 97 0.80
32 25 0.20
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Done.