Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3172561
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 13
Found at i:1296935 original size:8 final size:8
Alignment explanation
Indices: 1296919--1296964 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
1296909 AATGTAGATG
1296919 AAAATGCA
1 AAAATGCA
*
1296927 AAAAGGCA
1 AAAATGCA
1296935 AAAATGC-
1 AAAATGCA
1296942 AAAATGCA
1 AAAATGCA
*
1296950 AGAATGCA
1 AAAATGCA
1296958 CAAAATG
1 -AAAATG
1296965 TTCGAGGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 7 0.22
8 20 0.62
9 5 0.16
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.11
Consensus pattern (8 bp):
AAAATGCA
Found at i:1296945 original size:15 final size:15
Alignment explanation
Indices: 1296919--1296957 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1296909 AATGTAGATG
1296919 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
1296935 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
1296950 AGAATGCA
1 AAAATGCA
1296958 CAAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:1296946 original size:23 final size:24
Alignment explanation
Indices: 1296919--1296964 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1296909 AATGTAGATG
1296919 AAAATGCAAAAAGGCA-AAAATGC
1 AAAATGCAAAAAGGCACAAAATGC
* *
1296942 AAAATGCAAGAATGCACAAAATG
1 AAAATGCAAAAAGGCACAAAATG
1296965 TTCGAGGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.11
Consensus pattern (24 bp):
AAAATGCAAAAAGGCACAAAATGC
Found at i:1299465 original size:13 final size:15
Alignment explanation
Indices: 1299432--1299461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1299422 AAAACCATGT
*
1299432 TAGATAAAAAGGTAA
1 TAGAAAAAAAGGTAA
1299447 TAGAAAAAAAGGTAA
1 TAGAAAAAAAGGTAA
1299462 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
TAGAAAAAAAGGTAA
Found at i:1299571 original size:19 final size:19
Alignment explanation
Indices: 1299535--1299592 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
1299525 GAAAACAAAG
*
1299535 ATAAAATAAT-AAGTAAAAT
1 ATAAAAAAATAAAG-AAAAT
1299554 ATAAAAAAATAAAGAAAA-
1 ATAAAAAAATAAAGAAAAT
*
1299572 AGAAGAAAAATGAAA-AAAAT
1 ATAA-AAAAAT-AAAGAAAAT
1299592 A
1 A
1299593 GAAATAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 3 0.09
19 23 0.70
20 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (19 bp):
ATAAAAAAATAAAGAAAAT
Found at i:1299595 original size:20 final size:19
Alignment explanation
Indices: 1299549--1299601 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
1299539 AATAATAAGT
*
1299549 AAAATATAAAAAAATAAAG
1 AAAATAGAAAAAAATAAAG
1299568 AAAA-AGAAGAAAAATGAAA-
1 AAAATAGAA-AAAAAT-AAAG
1299587 AAAATAGAAATAAAA
1 AAAATAGAAA-AAAA
1299602 CAAATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.10
19 15 0.52
20 11 0.38
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAATAGAAAAAAATAAAG
Found at i:1299614 original size:24 final size:24
Alignment explanation
Indices: 1299579--1299650 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1299569 AAAAGAAGAA
1299579 AAATGAAAAAAATAGA-AATAAAAC
1 AAATGAAAAAAATA-ATAATAAAAC
1299603 AAAT-AAATAAAATAATAATAAAA-
1 AAATGAAA-AAAATAATAATAAAAC
*
1299626 AAGT-AAAAATAATATATATATAAAA
1 AAATGAAAAA-AATA-ATA-ATAAAA
1299651 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 2 0.05
23 14 0.33
24 20 0.48
25 6 0.14
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (24 bp):
AAATGAAAAAAATAATAATAAAAC
Found at i:1299636 original size:20 final size:18
Alignment explanation
Indices: 1299537--1299670 Score: 73
Period size: 18 Copynumber: 7.1 Consensus size: 18
1299527 AAACAAAGAT
*
1299537 AAAATAATAAGTAAAATATA
1 AAAATAATAA--AAAAAATA
*
1299557 AAAA-AATAAAGAAAAAGA
1 AAAATAATAAA-AAAAATA
*
1299575 AGAAA-AATGAAAAAAATA
1 A-AAATAATAAAAAAAATA
*
1299593 GAAATAA-AACAAATAAAT-
1 AAAATAATAA-AAA-AAATA
1299611 AAAATAATAATAAAAAAGTA
1 AAAATAATAA-AAAAAA-TA
1299631 AAAATAATATATATATAAAAT-
1 AAAATAATA-A-A-A-AAAATA
*
1299652 AAAA-AATAAAAAAAGTA
1 AAAATAATAAAAAAAATA
1299669 AA
1 AA
1299671 TATATATATA
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.04
17 8 0.09
18 27 0.29
19 24 0.26
20 17 0.18
21 7 0.08
22 2 0.02
23 4 0.04
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAATAATAAAAAAAATA
Found at i:1299655 original size:29 final size:31
Alignment explanation
Indices: 1299594--1299676 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 31
1299584 AAAAAAATAG
*
1299594 AAATAAAACAAA-TAAATAAAATAATAATAAAA
1 AAATAAAA-AAAGTAAAT-ATATAATAATAAAA
* *
1299626 AAGTAAAAATAA-TATATATATAA-AAT-AAA
1 AAATAAAAA-AAGTAAATATATAATAATAAAA
1299655 AAATAAAAAAAGTAAATATATA
1 AAATAAAAAAAGTAAATATATA
1299677 TATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.05
29 20 0.45
30 3 0.07
31 6 0.14
32 13 0.30
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (31 bp):
AAATAAAAAAAGTAAATATATAATAATAAAA
Found at i:1299660 original size:37 final size:38
Alignment explanation
Indices: 1299609--1299686 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
1299599 AAACAAATAA
*
1299609 ATAAAATAATAAT-AAAAAAGTAAAAATA-ATATATAT
1 ATAAAATAAAAATAAAAAAAGTAAAAATATATATATAT
*
1299645 ATAAAATAAAAAATAAAAAAAGTAAATATATATATATAT
1 ATAAAAT-AAAAATAAAAAAAGTAAAAATATATATATAT
1299684 ATA
1 ATA
1299687 TATATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 7 0.19
37 5 0.14
38 14 0.38
39 11 0.30
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (38 bp):
ATAAAATAAAAATAAAAAAAGTAAAAATATATATATAT
Found at i:1299755 original size:24 final size:23
Alignment explanation
Indices: 1299728--1299795 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
1299718 TAATATATTT
*
1299728 ATATATATAATCTAAAAAATAAAA
1 ATATATATAATGTAAAAAA-AAAA
* *
1299752 ATATATACTAAAGTAAAAAAGAAA
1 ATATATA-TAATGTAAAAAAAAAA
* *
1299776 ATACATAAAATGTAAAAAAA
1 ATATATATAATGTAAAAAAA
1299796 TATTACATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 10 0.28
24 16 0.44
25 10 0.28
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (23 bp):
ATATATATAATGTAAAAAAAAAA
Found at i:1299802 original size:22 final size:21
Alignment explanation
Indices: 1299748--1299807 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
1299738 TCTAAAAAAT
1299748 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
1299768 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
1299791 AAAAATATTACATAAAA
1 AAAAATATTACATAAAA
1299808 AAATAACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 14 0.44
23 8 0.25
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:1300164 original size:34 final size:34
Alignment explanation
Indices: 1300121--1300189 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
1300111 GAATCCTAGC
1300121 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
1300155 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1300189 A
1 A
1300190 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:1300817 original size:24 final size:23
Alignment explanation
Indices: 1300786--1300830 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
1300776 ATTCGAGTTT
1300786 GAGTTCGAGCTTAAATCGAGCGC
1 GAGTTCGAGCTTAAATCGAGCGC
*
1300809 GAGTCTCGAGCTTCAATCGAGC
1 GAGT-TCGAGCTTAAATCGAGC
1300831 TCCAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (23 bp):
GAGTTCGAGCTTAAATCGAGCGC
Found at i:1301803 original size:42 final size:42
Alignment explanation
Indices: 1301747--1301867 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
1301737 AAGGACTTAT
* * **
1301747 CATCTTGCTTGAAAGACTTATAGATGACCCAAAGGATTTAAG
1 CATCATGCTCGAAAGACTTATAGATGACCCAAAGGACCTAAG
* * * **
1301789 CATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACCTACT
1 CATCATGCTCGAAAGACTTATAGATGACCCAAAGGACCTAAG
* *
1301831 CATCATGCTCGAAAGACTTACT-GATGGCCCGAAGGAC
1 CATCATGCTCGAAAGACTTA-TAGATGACCCAAAGGAC
1301868 TTATGTTGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 68 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTATAGATGACCCAAAGGACCTAAG
Found at i:1301852 original size:22 final size:22
Alignment explanation
Indices: 1301789--1301852 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
1301779 AGGATTTAAG
1301789 CATCATGCTCGAAAGACTTA-T
1 CATCATGCTCGAAAGACTTACT
* * * *
1301810 --TGATGGCCCGAAGGACCTACT
1 CATCAT-GCTCGAAAGACTTACT
1301831 CATCATGCTCGAAAGACTTACT
1 CATCATGCTCGAAAGACTTACT
1301853 GATGGCCCGA
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
19 3 0.10
20 11 0.35
21 1 0.03
22 13 0.42
23 3 0.10
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (22 bp):
CATCATGCTCGAAAGACTTACT
Found at i:1301868 original size:20 final size:20
Alignment explanation
Indices: 1301798--1301870 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
1301788 GCATCATGCT
*
1301798 CGAAAGACTTATTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * * * *
1301818 CGAAGGACCTACTCATCATGCT
1 CGAAAGACTTACTGAT--GGCC
1301840 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
1301860 CGAAGGACTTA
1 CGAAAGACTTA
1301871 TGTTGATTCG
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 24 0.62
22 15 0.38
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:1302251 original size:144 final size:144
Alignment explanation
Indices: 1301853--1302304 Score: 647
Period size: 145 Copynumber: 3.1 Consensus size: 144
1301843 AAGACTTACT
* * * * *
1301853 GATGGCCCGAAGGACTTATGTTGATTCGAAGTGTTTTGAATCGAGCAATAGGAAATGTTAATCCC
1 GATGGCCCGAAAGACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCC
* * *
1301918 TTTGGTGGGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAAATGAAATGTTGAAAACATACTG
66 TCTGGTGGGGCATTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACAT-CTG
*
1301983 CCAGAAGGTCTTATG
130 CCCGAAGGTCTTATG
* * *
1301998 GATGGCCC-AAATGAATTAAGCTAATTCGAAGTGTTGTGAATCAAGCAATAGGAAATGTTAACCC
1 GATGGCCCGAAA-GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCC
* ** *
1302062 CTCTGGTGTGGTGTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCT
65 CTCTGGTGGGGCATTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACAT-CT
1302127 GCCCGAAGGTCTTATG
129 GCCCGAAGGTCTTATG
1302143 GATGGCCCGAAAGACTTAAGCTGATTCGAAGTG-TGTGAATCGAGCAATAGGAAATGTTAACCCC
1 GATGGCCCGAAAGACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCC
* ** *
1302207 TCTGGTGGGGCACTACTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTGAAAACATCTAG
66 TCTGGTGGGGCATTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACATCT-G
* *
1302272 CACAAAGGTCTTATG
130 CCCGAAGGTCTTATG
*
1302287 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAAGACTTA
1302305 TCATCCTGCT
Statistics
Matches: 273, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
143 2 0.01
144 116 0.42
145 152 0.56
146 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (144 bp):
GATGGCCCGAAAGACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCC
TCTGGTGGGGCATTGTTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACATCTGC
CCGAAGGTCTTATG
Found at i:1302382 original size:42 final size:41
Alignment explanation
Indices: 1302281--1302394 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 41
1302271 GCACAAAGGT
* * *
1302281 CTTATGGATGGCCCGAAGGACTT-ATCATCCTGCTTGAAAGA
1 CTTATAGATGG-CCGAAGGACTTAATCATCATGCTCGAAAGA
** *
1302322 CTTATAGATAATCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTATAGAT-GGCCGAAGGACTTAATCATCATGCTCGAAAGA
*
1302364 CTTACT-GATGGCCTGAAGGACTTACTCATCA
1 CTTA-TAGATGGCC-GAAGGACTTAATCATCA
1302395 AGAAACACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 20 0.34
42 38 0.64
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CTTATAGATGGCCGAAGGACTTAATCATCATGCTCGAAAGA
Found at i:1302598 original size:32 final size:33
Alignment explanation
Indices: 1302554--1302622 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
1302544 CAAATCCCTA
* *
1302554 AAAATTAAGCTTAATTTCTTTGAAATTCATTT-
1 AAAATTAAGCTTAACTTCTTTCAAATTCATTTG
* *
1302586 AAAATTAGGCTTAGCTTCTTTCAAATTCATTTG
1 AAAATTAAGCTTAACTTCTTTCAAATTCATTTG
1302619 AAAA
1 AAAA
1302623 CATCGAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (33 bp):
AAAATTAAGCTTAACTTCTTTCAAATTCATTTG
Found at i:1302941 original size:65 final size:66
Alignment explanation
Indices: 1302817--1302982 Score: 194
Period size: 66 Copynumber: 2.5 Consensus size: 66
1302807 AGATACTTTT
* * * * * *
1302817 TTTCAAGGGAAATTTTCTCTAGAGAGATAAAA-TTCATTTCAAGGGAAATGATTTCAAAGA-TTG
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTTATTTCAAGGGAAATCATTTCAAAGATTTG
*
1302880 G
66 C
* *
1302881 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAA-CATATTCAAAGATTT
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTTATTTCAAGGGAAATCAT-TTCAAAGATTT
*
1302945 TC
65 GC
* *
1302947 TTTCATGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTT
1302983 TTCTTTGGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 29 0.34
65 22 0.26
66 35 0.41
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (66 bp):
TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTTATTTCAAGGGAAATCATTTCAAAGATTTG
C
Found at i:1303228 original size:102 final size:103
Alignment explanation
Indices: 1303070--1303325 Score: 329
Period size: 102 Copynumber: 2.5 Consensus size: 103
1303060 ACGATGTTTG
* * * * * *
1303070 TTTTGAGAG-AAATTGTCTTAAGTGAGACAAAATTTG-CTTCAAGTAAAACAACTTTGAAATTTG
1 TTTTGAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATATG
*
1303133 TGCTCCGAAGGAAAATATCTCAAGTGAGACGAAATTCA
66 TGCTCCGAAGGAAAATATCTCAAGTGAGACAAAATTCA
* *
1303171 TTTTGAGAGAAAAATGTCTCAAATGAGACAAAATTTGTTTTTAA-AAAAACAAGTTTGAAATATG
1 TTTTGAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATATG
* * * * **
1303235 TGTTTCGATGGAAAATGTCTCAAGTGAGACAAAATTTG
66 TGCTCCGAAGGAAAATATCTCAAGTGAGACAAAATTCA
* * *
1303273 TTTTAAGAGAAAAATGTATCAAGTAAGACAAAATTTGTTTTTAAGAAAAACAA
1 TTTTGAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAA
1303326 TTCTCTAGCG
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 9 0.07
102 112 0.84
103 12 0.09
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (103 bp):
TTTTGAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATATG
TGCTCCGAAGGAAAATATCTCAAGTGAGACAAAATTCA
Found at i:1303295 original size:37 final size:36
Alignment explanation
Indices: 1303246--1303322 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
1303236 GTTTCGATGG
* *
1303246 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
1 AAAATGTATCAAGTAAGACAAAATTTGTTTTAA-AGA
*
1303283 AAAATGTATCAAGTAAGACAAAATTTGTTTTTAAGA
1 AAAATGTATCAAGTAAGACAAAATTTGTTTTAAAGA
1303319 AAAA
1 AAAA
1303323 CAATTCTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (36 bp):
AAAATGTATCAAGTAAGACAAAATTTGTTTTAAAGA
Found at i:1304716 original size:2 final size:2
Alignment explanation
Indices: 1304709--1304741 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1304699 AGCTTTATTG
1304709 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 T
1304742 TCTAGGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1308521 original size:15 final size:15
Alignment explanation
Indices: 1308501--1308530 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1308491 ACTTTGTTCT
1308501 TCTTTAGACATACGA
1 TCTTTAGACATACGA
*
1308516 TCTTTAGACGTACGA
1 TCTTTAGACATACGA
1308531 CTCTCTACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (15 bp):
TCTTTAGACATACGA
Found at i:1311163 original size:2 final size:2
Alignment explanation
Indices: 1311156--1311180 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1311146 ATGAACATGC
1311156 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1311181 CTCAAGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1311289 original size:14 final size:14
Alignment explanation
Indices: 1311272--1311298 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1311262 TGAATAAAAA
1311272 AATAAAATTAAAGT
1 AATAAAATTAAAGT
1311286 AATAAAATTAAAG
1 AATAAAATTAAAG
1311299 GATTGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AATAAAATTAAAGT
Found at i:1311307 original size:14 final size:14
Alignment explanation
Indices: 1311272--1311311 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1311262 TGAATAAAAA
*
1311272 AATAAAATTAAAGT
1 AATAAAATTAAAGG
1311286 AATAAAATTAAAGG
1 AATAAAATTAAAGG
* *
1311300 ATTGAAATTAAA
1 AATAAAATTAAA
1311312 CTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAAAATTAAAGG
Found at i:1311339 original size:21 final size:21
Alignment explanation
Indices: 1311304--1311347 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1311294 TAAAGGATTG
*
1311304 AAATTAAACTAAATTAAAAGGC
1 AAATCAAACTAAATT-AAAGGC
1311326 AAATCAAA-TAAATTAAAGGC
1 AAATCAAACTAAATTAAAGGC
1311346 AA
1 AA
1311348 TTAATAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (21 bp):
AAATCAAACTAAATTAAAGGC
Found at i:1311538 original size:23 final size:23
Alignment explanation
Indices: 1311505--1311551 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1311495 ATAATAAAAT
* *
1311505 ATAAAAAAGTGAACAAATCATAA
1 ATAAAAAAGTGAAAAAAACATAA
*
1311528 ATAAAACAGTGAAAAAAACATAA
1 ATAAAAAAGTGAAAAAAACATAA
1311551 A
1 A
1311552 AATGCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.15
Consensus pattern (23 bp):
ATAAAAAAGTGAAAAAAACATAA
Found at i:1315503 original size:30 final size:30
Alignment explanation
Indices: 1315464--1315543 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 30
1315454 ACGCTCCTAC
*
1315464 ATAACCCTGGTGCTGCTCAAGCACTCATTA
1 ATAATCCTGGTGCTGCTCAAGCACTCATTA
*
1315494 ATAATCCTGGTGCTGCTGCTCAGGCACTCATTA
1 ATAATCCT-G-G-TGCTGCTCAAGCACTCATTA
1315527 ATAATCCTGGTGCTGCT
1 ATAATCCTGGTGCTGCT
1315544 GCTCAGGCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 14 0.31
31 2 0.04
32 2 0.04
33 27 0.60
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (30 bp):
ATAATCCTGGTGCTGCTCAAGCACTCATTA
Found at i:1315511 original size:33 final size:33
Alignment explanation
Indices: 1315474--1315555 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
1315464 ATAACCCTGG
*
1315474 TGCTGCTCAAGCACTCATTAATAATCCTGGTGC
1 TGCTGCTCAGGCACTCATTAATAATCCTGGTGC
1315507 TGCTGCTCAGGCACTCATTAATAATCCTGGTGC
1 TGCTGCTCAGGCACTCATTAATAATCCTGGTGC
1315540 TGCTGCTCAGGCACTC
1 TGCTGCTCAGGCACTC
1315556 CTTGGCAACC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (33 bp):
TGCTGCTCAGGCACTCATTAATAATCCTGGTGC
Found at i:1315725 original size:30 final size:30
Alignment explanation
Indices: 1315598--1315734 Score: 116
Period size: 30 Copynumber: 4.6 Consensus size: 30
1315588 CCTGAATAAC
* * *
1315598 CCTGTTGTTGGTCAGCAACACTTGGGTGTT
1 CCTGGTGTTGGTCAGCAACACATGGGTGAT
* * * *
1315628 CCTGGCGTCGGTCAGCAACACTTGGGTGTT
1 CCTGGTGTTGGTCAGCAACACATGGGTGAT
* * * *
1315658 CCTGGTGTTGGTCAGGACCACATGGG-CAA
1 CCTGGTGTTGGTCAGCAACACATGGGTGAT
* *
1315687 CCACGGTGTTGGTCAGCCACACATGGGCT-AT
1 CC-TGGTGTTGGTCAGCAACACATGGG-TGAT
*
1315718 CCTGGTGTTGGCCAGCA
1 CCTGGTGTTGGTCAGCA
1315735 GCATGTGGGC
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
29 2 0.02
30 80 0.94
31 3 0.04
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (30 bp):
CCTGGTGTTGGTCAGCAACACATGGGTGAT
Found at i:1319808 original size:15 final size:15
Alignment explanation
Indices: 1319788--1319832 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
1319778 ATTTACGATT
*
1319788 ATAATTATATTTATC
1 ATAATTATATTTAAC
1319803 ATAATTATAGTTATAAC
1 ATAATTATA-TT-TAAC
1319820 ATAAATTATATTT
1 AT-AATTATATTT
1319833 TATGGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 9 0.35
16 3 0.12
17 7 0.27
18 7 0.27
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTATATTTAAC
Found at i:1336500 original size:57 final size:57
Alignment explanation
Indices: 1336402--1336988 Score: 962
Period size: 57 Copynumber: 10.3 Consensus size: 57
1336392 GGAATTTATC
* *
1336402 AAGTGTATGAATTTCAGATAGGGCGTTGCGTATGCTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
* * *
1336459 ACGTGTATGAATTTCAGATAGGGCGTTTTGTACGCTGAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
* *
1336516 AAGTGTATGAATTTTAGATAGGGCGTTTCGTATGCTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
1336573 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
1336630 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATA-T
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
*
1336686 GAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACC
1 -AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
*
1336744 AAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
*
1336801 AAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
* *
1336858 AAGTGTATGAATTTCAGATAGGGTGTTTCGTACACTAAAATGTTAAGAAATCATACT
1 AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
** ** * *
1336915 AAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAACATGATAA-AATATTCATACT
1 AAGTGTATGAATTT-CAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAA-A-TCATACT
1336974 AAGTGTATGAATTTC
1 AAGTGTATGAATTTC
1336989 TGTATTGGAC
Statistics
Matches: 499, Mismatches: 26, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
56 1 0.00
57 451 0.90
58 26 0.05
59 21 0.04
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (57 bp):
AAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACT
Found at i:1341223 original size:96 final size:96
Alignment explanation
Indices: 1341085--1341309 Score: 287
Period size: 96 Copynumber: 2.4 Consensus size: 96
1341075 ATTGACAAGG
* *
1341085 TAGTATCGATACCATGGTAAGGGTATCGATACT-AGTCTACATCGAATCTAAAA-TGGATATCGA
1 TAGTATCGATACCATGGTAAGGGTATCGATACTAAGTCAACATCGAATCAAAAATTGG-TATCGA
** *
1341148 TACTGGAA-GGGGTATCAGTACTATAATATATA
65 TACCAGAAGGGGGTATCAGTACCATAATATA-A
* * *
1341180 GTGGTATCGATATCATGGTAAGGGTATCGACACTAAG-CAACATCGAATCAAAAATTGGTATCGA
1 -TAGTATCGATACCATGGTAAGGGTATCGATACTAAGTCAACATCGAATCAAAAATTGGTATCGA
* *
1341244 TACCAGAAGGGGGTATCGGTGCCATAATATAA
65 TACCAGAAGGGGGTATCAGTACCATAATATAA
* *
1341276 TAGTATCGATACCATGATAGGGGTATCGATACTA
1 TAGTATCGATACCATGGTAAGGGTATCGATACTA
1341310 TAGAGCCAGA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
95 29 0.26
96 58 0.52
97 24 0.22
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (96 bp):
TAGTATCGATACCATGGTAAGGGTATCGATACTAAGTCAACATCGAATCAAAAATTGGTATCGAT
ACCAGAAGGGGGTATCAGTACCATAATATAA
Found at i:1341719 original size:57 final size:57
Alignment explanation
Indices: 1341649--1341907 Score: 329
Period size: 57 Copynumber: 4.5 Consensus size: 57
1341639 GTGCAAAATA
* *
1341649 TAAGAAATCATACTAGGTGTATGAATTTTAGATAGGGCATTTCGTACACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACACTAAAATGT
* * * * *
1341706 TATGAAATGATACTAAGTGTATGAATTTCAGATAGGACGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACACTAAAATGT
* * ** *
1341763 TAAGAAATCATACTAAGTGTATAAATTTCAGATAGGGCGTTTTATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACACTAAAATGT
* * ** * * *
1341820 TAAGAAATCATACTAAGTGTATGAATTTCCAGATAAGGCACTTCGTGTAGTAACATGA
1 TAAGAAATCATACTAAGTGTATGAATTT-CAGATAGGGCATTTCGTACACTAAAATGT
1341878 TAAGAAATTCATACTAAGTGTATGAATTTC
1 TAAGAAA-TCATACTAAGTGTATGAATTTC
1341908 TGTATTTGAC
Statistics
Matches: 175, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
57 128 0.73
58 26 0.15
59 21 0.12
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACACTAAAATGT
Found at i:1346755 original size:32 final size:31
Alignment explanation
Indices: 1346677--1346763 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
1346667 TATACTAGTA
* * * *
1346677 AGGGTGTATTCAAATATTGCACAATATGGCC
1 AGGGTGCATTCAGATAATGCACATTATGGCC
* *
1346708 AGGGTGCATTTAGATAATGCACATTATGGTC
1 AGGGTGCATTCAGATAATGCACATTATGGCC
*
1346739 AGGTTTGCATTCAGATAATGCACAT
1 AGG-GTGCATTCAGATAATGCACAT
1346764 GTGTATTAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 28 0.60
32 19 0.40
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (31 bp):
AGGGTGCATTCAGATAATGCACATTATGGCC
Found at i:1357884 original size:18 final size:19
Alignment explanation
Indices: 1357861--1357941 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
1357851 GAAGAGATGT
*
1357861 AGAAAAAACACACAAAAAG
1 AGAAAAAACACAAAAAAAG
* *
1357880 A-AAAAAAGAGAAAAAAAG
1 AGAAAAAACACAAAAAAAG
* * *
1357898 AGAAAAAAGATAAAAAGAG
1 AGAAAAAACACAAAAAAAG
* *
1357917 A-AAAAGAAAACAAAGAAAG
1 AGAAAA-AACACAAAAAAAG
1357936 AAGAAA
1 -AGAAA
1357942 GAAAACCGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 19 0.39
19 26 0.53
20 1 0.02
21 3 0.06
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.01
Consensus pattern (19 bp):
AGAAAAAACACAAAAAAAG
Found at i:1357887 original size:8 final size:8
Alignment explanation
Indices: 1357874--1357934 Score: 68
Period size: 9 Copynumber: 7.1 Consensus size: 8
1357864 AAAAACACAC
1357874 AAAAAGAAA
1 AAAAAG-AA
1357883 AAAAGAGAA
1 AAAA-AGAA
1357892 AAAAAGAGA
1 AAAAAGA-A
*
1357901 AAAAAGAT
1 AAAAAGAA
*
1357909 AAAAAGAG
1 AAAAAGAA
1357917 AAAAAGAA
1 AAAAAGAA
1357925 AACAAAGAA
1 AA-AAAGAA
1357934 A
1 A
1357935 GAAGAAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
8 19 0.41
9 25 0.54
10 2 0.04
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:1357891 original size:10 final size:10
Alignment explanation
Indices: 1357874--1357921 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
1357864 AAAAACACAC
1357874 AAAA-AGAAA
1 AAAAGAGAAA
1357883 AAAAGAGAAA
1 AAAAGAGAAA
1357893 AAAAGAG--A
1 AAAAGAGAAA
*
1357901 AAAA-AGATA
1 AAAAGAGAAA
1357910 AAAAGAGAAA
1 AAAAGAGAAA
1357920 AA
1 AA
1357922 GAAAACAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 2 0.06
8 5 0.15
9 9 0.26
10 18 0.53
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAGAGAAA
Found at i:1357891 original size:27 final size:27
Alignment explanation
Indices: 1357863--1357921 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
1357853 AGAGATGTAG
*
1357863 AAAAAACACACAAAAAGAAAAAAAGAGA
1 AAAAAACAGA-AAAAAGAAAAAAAGAGA
* *
1357891 AAAAAAGAGAAAAAAGATAAAAAGAGA
1 AAAAAACAGAAAAAAGAAAAAAAGAGA
1357918 AAAA
1 AAAA
1357922 GAAAACAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (27 bp):
AAAAAACAGAAAAAAGAAAAAAAGAGA
Found at i:1357894 original size:17 final size:17
Alignment explanation
Indices: 1357874--1357946 Score: 78
Period size: 16 Copynumber: 4.3 Consensus size: 17
1357864 AAAAACACAC
*
1357874 AAAAAGAAAAAAAGAGAA
1 AAAAAGAGAAAAA-AGAA
*
1357892 AAAAAGAGAAAAAAGAT
1 AAAAAGAGAAAAAAGAA
1357909 AAAAAGAG-AAAAAGAA
1 AAAAAGAGAAAAAAGAA
* *
1357925 AACAA-AGAAAGAAGAA
1 AAAAAGAGAAAAAAGAA
1357941 AGAAAA
1 A-AAAA
1357947 CCGATAAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
15 2 0.04
16 19 0.40
17 14 0.30
18 12 0.26
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (17 bp):
AAAAAGAGAAAAAAGAA
Found at i:1358588 original size:45 final size:45
Alignment explanation
Indices: 1358527--1358648 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
1358517 CCTATATGCA
* * * * *
1358527 TTTCAATTATGTCATCCTTACATGTCTTTTATACACTATTATACC
1 TTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATACC
*
1358572 TTTCATTTATTACATCCTTTCATGCCTTTGATACACTATTATACC
1 TTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATACC
*
1358617 TTTCATTTATGGCATCCTTTCATGCCTTTGAT
1 TTTCATTTATGACATCCTTTCATGCCTTTGAT
1358649 TCAATTATGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (45 bp):
TTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATACC
Found at i:1359369 original size:57 final size:57
Alignment explanation
Indices: 1359234--1359935 Score: 980
Period size: 57 Copynumber: 12.5 Consensus size: 57
1359224 TCCAATACAT
* * * *
1359234 AAATTCATACACTTAGTATGATTTATTAACATTTTAGCATACGAAATGCCCTATATG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* *
1359291 -AATTCATACACTTAGTATGATTTCTTAACATTTTAACGTACAAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
*
1359347 AAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCAC-ATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCC-CTATCTG
* *
1359404 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACGCCCTA-CTTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATC-TG
* *
1359461 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAGACGCCCTA-CTTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATC-TG
**
1359518 AAATTCATACACTTAGTATGATTT-TTAACATTTTAGCGTAATAAACG-CC-ATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * *
1359572 AAATTCATACACTTAGTATGATTACTTAACATTTTA--GT--G--TCGCTCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * * * * *
1359623 AAGTTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACAAAATGGCATATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* *
1359680 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGAACGAAACGCCCTATCTA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* *
1359737 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGTGTACGAAACGTCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * * * *
1359794 AAATTCATACACTTAGTATGATTTCTTAATATTTTAGCTTACAAAATGTCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* *
1359851 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGTGTACGAAACGCCCTATATG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
*
1359908 AAATTCACACACTTAGTATGATTTCTTA
1 AAATTCATACACTTAGTATGATTTCTTA
1359936 TATTTTGCAC
Statistics
Matches: 576, Mismatches: 55, Indels: 28
0.87 0.08 0.04
Matches are distributed among these distances:
49 2 0.00
50 1 0.00
51 38 0.07
53 4 0.01
54 26 0.05
55 14 0.02
56 72 0.12
57 418 0.73
58 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37
Consensus pattern (57 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
Found at i:1360471 original size:96 final size:95
Alignment explanation
Indices: 1360278--1360497 Score: 291
Period size: 96 Copynumber: 2.3 Consensus size: 95
1360268 TGGGTCTATA
* * * * * *
1360278 GTATCGATACCCCTATCATGGTATCAATACTAATATACAATGGTACCGATACCCCCTTCTGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTAATATACAATCGTACCGATACCCCATTCCGGTAT
** *
1360343 CGATACCAATTTTTTATTCGATGTTGCTTG
66 CGATACCAATTTTAGATTCGATGTAGCTTG
**
1360373 GTATCGATACCCTTACCATGGTATCGATACTACTATATATTATCGTACCGATA-CCCATTCCGGT
1 GTATCGATACCCTTACCATGGTATCGATACTA--ATATACAATCGTACCGATACCCCATTCCGGT
*
1360437 ATCGATACCCATTTTAGATTCGATGTAGAC-TG
64 ATCGATACCAATTTTAGATTCGATGTAG-CTTG
1360469 GTATCGATACCCTTACCATGGTATCGATA
1 GTATCGATACCCTTACCATGGTATCGATA
1360498 TTACCTTGTC
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
95 29 0.26
96 64 0.58
97 17 0.15
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTAATATACAATCGTACCGATACCCCATTCCGGTAT
CGATACCAATTTTAGATTCGATGTAGCTTG
Found at i:1362384 original size:45 final size:45
Alignment explanation
Indices: 1362273--1362398 Score: 173
Period size: 44 Copynumber: 2.8 Consensus size: 45
1362263 CCTATATGCA
* * * * * *
1362273 TTTCAATTATGTCATCCTTACATGTCTTTTATACATTATTATACC
1 TTTCATTTATGACATCCTTTCATGCCTTTGATACAATATTATACC
* *
1362318 TTT-TTTTATGGCATCCTTTCATGCCTTTGATACAATATTATACC
1 TTTCATTTATGACATCCTTTCATGCCTTTGATACAATATTATACC
1362362 TTTCATTTATGACATCCTTTCATGCCTTTGATACAAT
1 TTTCATTTATGACATCCTTTCATGCCTTTGATACAAT
1362399 TATGCATTGT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 37 0.52
45 34 0.48
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.48
Consensus pattern (45 bp):
TTTCATTTATGACATCCTTTCATGCCTTTGATACAATATTATACC
Found at i:1363652 original size:64 final size:65
Alignment explanation
Indices: 1363584--1363726 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
1363574 TGCACTAAGA
* *
1363584 GTGCATCGATGCATAAAATGCATTCAATG-TTTCA-AAATAGCCTGAGTGCATCGATGCATGG-A
1 GTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAA-ACCCTGAGTGCATCGATACATGGTA
1363646 T
65 T
**** * *
1363647 GGTGCATCGATGCATGGCTTGCATTCGATGTTTTTATAAAACCCTGAGTGCATCGATACATGGTA
1 -GTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCCTGAGTGCATCGATACATGGTA
1363712 T
65 T
*
1363713 ATGCATCGATGCAT
1 GTGCATCGATGCAT
1363727 GTTATGTGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
64 24 0.36
65 38 0.57
66 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCCTGAGTGCATCGATACATGGTAT
Found at i:1363719 original size:19 final size:19
Alignment explanation
Indices: 1363695--1363746 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1363685 AAACCCTGAG
*
1363695 TGCATCGATACATGGTATA
1 TGCATCGATGCATGGTATA
* *
1363714 TGCATCGATGCATGTTATG
1 TGCATCGATGCATGGTATA
1363733 TGCATCGATGCATG
1 TGCATCGATGCATG
1363747 AAATGCATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (19 bp):
TGCATCGATGCATGGTATA
Found at i:1366644 original size:18 final size:18
Alignment explanation
Indices: 1366621--1366669 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
1366611 ATGGTGTTCT
1366621 TTGAAAGCAAAATGAATA
1 TTGAAAGCAAAATGAATA
1366639 TTGAAAGCAAAATGAATA
1 TTGAAAGCAAAATGAATA
1366657 TTGAAAGCAAAAT
1 TTGAAAGCAAAAT
1366670 TGGCTTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.22
Consensus pattern (18 bp):
TTGAAAGCAAAATGAATA
Found at i:1368763 original size:37 final size:37
Alignment explanation
Indices: 1368705--1368804 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
1368695 AAAACAAATT
*
1368705 TTGAGACAGTTTCTCTAGAAACAAAATTTTGTCTCCC
1 TTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
* *
1368742 TTGAGACAGTTTATCTTGAAACAAAGTTTTGTCTCCC
1 TTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
*
1368779 TTGAGATAGTTTCTCTTGAAACAAAA
1 TTGAGACAGTTTCTCTTGAAACAAAA
1368805 AATCTTTGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
Found at i:1368975 original size:76 final size:76
Alignment explanation
Indices: 1368828--1369086 Score: 265
Period size: 76 Copynumber: 3.4 Consensus size: 76
1368818 GTTTCCCTTG
* * * *
1368828 AAACAAGATTTATCTCCCTTAAGACAGTTTTTACTCGAAATAATACATTT--TTTTCACTTAAGA
1 AAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCGAAACAATACATTTCATTTT-ACTCAAGA
*
1368891 TTTTTTTTTCTTA
65 -TTATTTTTCTTA
* * *
1368904 AAACAAGATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAGAATACATTTCATTTTACTCAAGGT
1 AAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCGAAACAATACATTTCATTTTACTCAAGAT
1368969 TATTTTTCTTA
66 TATTTTTCTTA
** * * * * * * *
1368980 AAACAA-ACTTCGTCTCGATTGAGACATTTTTTACTCAAAACAAGA-ATATTCATTTAATTCAAT
1 AAACAAGA-TTTATCTCGCTTGAGACAGTTTTTACTCGAAACAATACAT-TTCATTTTACTCAAG
*
1369043 ATTGTTTTTCTTA
64 ATTATTTTTCTTA
* *
1369056 AAACCAATATTTATCTCGCTTGAGATAGTTT
1 AAA-CAAGATTTATCTCGCTTGAGACAGTTT
1369087 CCCTCGAAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
75 3 0.02
76 120 0.78
77 26 0.17
78 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (76 bp):
AAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCGAAACAATACATTTCATTTTACTCAAGAT
TATTTTTCTTA
Found at i:1369287 original size:52 final size:52
Alignment explanation
Indices: 1369142--1369287 Score: 168
Period size: 53 Copynumber: 2.8 Consensus size: 52
1369132 AAAAAAAAAG
* * *
1369142 ATTTTTAGAAACTAAACCTGATTTTCAGGGGTTTCTCGATGTTTTCAAATGA
1 ATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGTTTTCAAATGA
** * * * * *
1369194 ATTTCAAAGAAATTAAGACTAATTTT-TAGGGATTTCATGATGTTTTCAAATGA
1 ATTT-TTAGAAACTAAGCCTGATTTTCAAGGG-TTTCTTGATGTTTTCAAATGA
*
1369247 GTTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATG
1 ATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATG
1369288 ATGATTTTCA
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
52 32 0.44
53 41 0.56
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (52 bp):
ATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGTTTTCAAATGA
Found at i:1369444 original size:42 final size:41
Alignment explanation
Indices: 1369381--1369511 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 41
1369371 AAGGGTTTCT
* *
1369381 TGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 TGATGTGTAAGTCCTTTGGGCCAT-AGTAAGTCTTTCGAGCA
* * * *
1369423 TGATGTGTAAGTCATTTGGGCCATTTGTAAGCCTTTCAAGCA
1 TGATGTGTAAGTCCTTTGGGCCA-TAGTAAGTCTTTCGAGCA
* * *
1369465 TGATGCT-TAAATCCTTTGGGTCATATATAAGTCTTTCGAGCA
1 TGATG-TGTAAGTCCTTTGGGCCATA-GTAAGTCTTTCGAGCA
*
1369507 AGATG
1 TGATG
1369512 ATAAGTTCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 69 0.96
43 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
TGATGTGTAAGTCCTTTGGGCCATAGTAAGTCTTTCGAGCA
Found at i:1369636 original size:65 final size:65
Alignment explanation
Indices: 1369531--1369662 Score: 214
Period size: 65 Copynumber: 2.0 Consensus size: 65
1369521 TCGTGCCATC
1369531 CATAAGACCTTCGGACCAGATGTTTTCAACATTTGCTTTGCTTGATTCATAACACTTTGAATCAG
1 CATAAGACCTTCGGACCAGATGTTTTCAACATTTGCTTTGCTTGATTCATAACACTTTGAATCAG
* *
1369596 CATAAGACCTTCGG-GCAGGATGTTTTCAACATTT-CATTTGCTTGATTCATGACACTTTGAATC
1 CATAAGACCTTCGGACCA-GATGTTTTCAACATTTGC-TTTGCTTGATTCATAACACTTTGAATC
1369659 AG
64 AG
1369661 CA
1 CA
1369663 ACACCCCACC
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
64 3 0.05
65 60 0.95
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (65 bp):
CATAAGACCTTCGGACCAGATGTTTTCAACATTTGCTTTGCTTGATTCATAACACTTTGAATCAG
Found at i:1369710 original size:60 final size:60
Alignment explanation
Indices: 1369633--1369781 Score: 226
Period size: 60 Copynumber: 2.5 Consensus size: 60
1369623 AACATTTCAT
* * * *
1369633 TTGCTTGATTCATGACACTTTGAATCAGCAACACCCCACCAGAGGGGTTAAAATTTCCTA
1 TTGCTCGATTCACGACACTTCGAATCAGCAACACCCCACCAGAGGGGTTAAAATTTCCAA
* * *
1369693 TTGCTCGATTCACGACACTTCGAATCAGCAACGCCCCACTAGAGGGGTTAACATTTCCAA
1 TTGCTCGATTCACGACACTTCGAATCAGCAACACCCCACCAGAGGGGTTAAAATTTCCAA
*
1369753 TTGCTCGATTCACAACACTTCGAATCAGC
1 TTGCTCGATTCACGACACTTCGAATCAGC
1369782 TTAAGTCCTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
TTGCTCGATTCACGACACTTCGAATCAGCAACACCCCACCAGAGGGGTTAAAATTTCCAA
Found at i:1369893 original size:42 final size:43
Alignment explanation
Indices: 1369783--1369924 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 43
1369773 CGAATCAGCT
* *
1369783 TAAGTCCTTTGGGCCAT-TAGTGAGTCCTTCGAGCATGATGTG
1 TAAGTCCTTTGGGCCATCTAGTAAGTCTTTCGAGCATGATGTG
*
1369825 TAA-TCCTTTGGGCCATC-AGTATGTCTTTCGAGCATGATGTG
1 TAAGTCCTTTGGGCCATCTAGTAAGTCTTTCGAGCATGATGTG
* * *
1369866 TAAGTCCTTTGGGCCATCTA-TAAGTCTTTCAAGCAAGATG-A
1 TAAGTCCTTTGGGCCATCTAGTAAGTCTTTCGAGCATGATGTG
1369907 TAAGT-CTTTCGGGCCATC
1 TAAGTCCTTT-GGGCCATC
1369925 CATAAGACCT
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
40 4 0.04
41 50 0.56
42 34 0.38
43 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (43 bp):
TAAGTCCTTTGGGCCATCTAGTAAGTCTTTCGAGCATGATGTG
Found at i:1377744 original size:15 final size:15
Alignment explanation
Indices: 1377726--1377754 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1377716 ATCATCACCA
1377726 TCATCGTCGTCGTCG
1 TCATCGTCGTCGTCG
1377741 TCATCGTCGTCGTC
1 TCATCGTCGTCGTC
1377755 CTAAGTAGGT
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:0.07, C:0.34, G:0.24, T:0.34
Consensus pattern (15 bp):
TCATCGTCGTCGTCG
Found at i:1379849 original size:21 final size:19
Alignment explanation
Indices: 1379818--1379874 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 19
1379808 AAAAAAAATT
1379818 ATATAAGTAAAATATTAAATA
1 ATATAA-TAAAATATTAAA-A
1379839 A-ATTAAATAAAAAATATTAAAA
1 ATA-T-AAT--AAAATATTAAAA
1379861 ATATAATAAAATAT
1 ATATAATAAAATAT
1379875 ACCTTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 6 0.19
22 5 0.16
23 12 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATAATAAAATATTAAAA
Found at i:1379862 original size:25 final size:26
Alignment explanation
Indices: 1379808--1379873 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
1379798 ATATATATGC
*
1379808 AAAAA-AAATTATATAAGTAAAATATT
1 AAAAATAAATTAAATAAG-AAAATATT
1379834 --AAATAAATTAAATAA-AAAATATT
1 AAAAATAAATTAAATAAGAAAATATT
*
1379857 AAAAATATAATAAAATA
1 AAAAATA-AATTAAATA
1379874 TACCTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 8 0.24
24 3 0.09
25 15 0.44
26 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAATAAATTAAATAAGAAAATATT
Found at i:1386753 original size:29 final size:29
Alignment explanation
Indices: 1386719--1386777 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1386709 CCTAAATTAA
1386719 TTTGATGTCATTGCTTACATCAATTCAGT
1 TTTGATGTCATTGCTTACATCAATTCAGT
*
1386748 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTCAGT
1386777 T
1 T
1386778 GTGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTCAGT
Found at i:1393810 original size:29 final size:29
Alignment explanation
Indices: 1393765--1393852 Score: 167
Period size: 29 Copynumber: 3.0 Consensus size: 29
1393755 ATTTTCACCT
*
1393765 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
1393794 AACTAAATTGATATAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
1393823 AACTAAATTGATATAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
1393852 A
1 A
1393853 TTAATTTAGG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATATAAGCAATGACATCAA
Found at i:1401382 original size:14 final size:15
Alignment explanation
Indices: 1401363--1401391 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1401353 AAAATGAATT
1401363 ATATTTTTTA-AAAA
1 ATATTTTTTAGAAAA
1401377 ATATTTTTTAGAAAA
1 ATATTTTTTAGAAAA
1401392 CGTTTTACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATATTTTTTAGAAAA
Found at i:1401578 original size:14 final size:14
Alignment explanation
Indices: 1401546--1401585 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1401536 AAATAATTTA
1401546 TTTATTATTAAAAT
1 TTTATTATTAAAAT
* * *
1401560 ATTATTTTTATAAT
1 TTTATTATTAAAAT
1401574 TTTATTATTAAA
1 TTTATTATTAAA
1401586 CATATTAATA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTATTAAAAT
Found at i:1401607 original size:31 final size:28
Alignment explanation
Indices: 1401546--1401610 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
1401536 AAATAATTTA
*
1401546 TTTATTATTAAAATATTATTTTTATAAT
1 TTTATTATTAAAATATTATTTGTATAAT
1401574 TTTATTATTAAACATATTAATATTGGTAT-AT
1 TTTATTATTAAA-ATATT-AT-TT-GTATAAT
1401605 TTTATT
1 TTTATT
1401611 GAAATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 12 0.38
29 5 0.16
30 2 0.06
31 10 0.31
32 3 0.09
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTATTATTAAAATATTATTTGTATAAT
Found at i:1401749 original size:22 final size:22
Alignment explanation
Indices: 1401724--1401767 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1401714 GATTATTTTG
1401724 TTATAATATTAAAAATATTATA
1 TTATAATATTAAAAATATTATA
* *
1401746 TTATATTATTAGAAATATTATA
1 TTATAATATTAAAAATATTATA
1401768 ATAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATAATATTAAAAATATTATA
Found at i:1401941 original size:2 final size:2
Alignment explanation
Indices: 1401936--1401960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1401926 ATTTTGTGTG
1401936 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 T
1401961 GATTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1409842 original size:13 final size:13
Alignment explanation
Indices: 1409804--1409855 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
1409794 AATGACGCTC
*
1409804 AATGCGCGTCATA
1 AATGCGTGTCATA
* *
1409817 AATGTGTGCCATA
1 AATGCGTGTCATA
*
1409830 AATGCGTTTCATA
1 AATGCGTGTCATA
*
1409843 AATGCGCGTCATA
1 AATGCGTGTCATA
1409856 GATTTATGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:1410939 original size:17 final size:17
Alignment explanation
Indices: 1410899--1410939 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1410889 TTATTCAATA
1410899 AAGCTAGTTCACTAATT
1 AAGCTAGTTCACTAATT
* * *
1410916 AAACTAGTTCATTAGTT
1 AAGCTAGTTCACTAATT
1410933 AAGCTAG
1 AAGCTAG
1410940 CTCCTTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (17 bp):
AAGCTAGTTCACTAATT
Found at i:1413106 original size:29 final size:29
Alignment explanation
Indices: 1413063--1413123 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1413053 AGTCCATTAT
* *
1413063 TCTTTTACTCAACAGTGTTTAACCTTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
** *
1413092 TCTTTTACTTGACAGTATTTAATCGTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
1413121 TCT
1 TCT
1413124 AACTGGCTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (29 bp):
TCTTTTACTCAACAGTATTTAACCGTTCA
Found at i:1413518 original size:34 final size:34
Alignment explanation
Indices: 1413475--1413685 Score: 154
Period size: 34 Copynumber: 5.6 Consensus size: 34
1413465 TGTCATGACA
1413475 ATAATGCACCCATATGCATTATTCTTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
*
1413509 ATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGC-A
1 ATAATGCACCCATATGCA--T----TAT-TC-T--TTT-ATGCTG
* *
1413553 ATAATGTACCCATATGTATTATTCTTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
* **
1413587 ATAATGCACCTATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATGCTG
*
1413632 ATAATGCACCCATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
1413666 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1413686 TTAGCTATGG
Statistics
Matches: 141, Mismatches: 13, Indels: 46
0.70 0.06 0.23
Matches are distributed among these distances:
33 4 0.03
34 59 0.42
35 5 0.04
36 3 0.02
37 3 0.02
38 5 0.04
39 1 0.01
40 4 0.03
41 4 0.03
42 3 0.02
43 1 0.01
44 24 0.17
45 25 0.18
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCTG
Found at i:1413585 original size:78 final size:79
Alignment explanation
Indices: 1413416--1413719 Score: 450
Period size: 79 Copynumber: 3.9 Consensus size: 79
1413406 CAATTATAAC
* * * ** * * *
1413416 ATTCTTTTAGGTTGATAATGCATCCATATATATTTCAACGT-TGGCATCCTGTCATGACAATAAT
1 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGC-TATGGCATCCTTTCATGCCAATAAT
1413480 GCACCCATATGCATT
65 GCACCCATATGCATT
*
1413495 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATG-CAATAATG
1 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
* *
1413559 TACCCATATGTATT
66 CACCCATATGCATT
* *
1413573 ATTCTTTTATGCTGATAATGCACCTATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
1 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
1413638 CACCCATATGCATT
66 CACCCATATGCATT
* *
1413652 ATTCTTTTATACTGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATG
1 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
1413717 CAC
66 CAC
1413720 GCACATTTCC
Statistics
Matches: 205, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
78 75 0.37
79 130 0.63
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (79 bp):
ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
CACCCATATGCATT
Found at i:1413651 original size:45 final size:43
Alignment explanation
Indices: 1413587--1413719 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 43
1413577 TTTTATGCTG
*
1413587 ATAATGCACCTATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-AGCTATG-CATCCTTTCATGCCA
* **
1413632 ATAATGCACCCATATGCA-TTA--T-T-C-T--TTT-ATACTG
1 ATAATGCACCCATATGCATTTAGCTATGCATCCTTTCATGCCA
1413666 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TTTAGCTAT-GCATCCTTTCATGCCA
1413711 ATAATGCAC
1 ATAATGCAC
1413720 GCACATTTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
34 21 0.30
35 3 0.04
36 3 0.04
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 5 0.07
45 29 0.41
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTAGCTATGCATCCTTTCATGCCA
Found at i:1413702 original size:157 final size:158
Alignment explanation
Indices: 1413416--1413716 Score: 466
Period size: 157 Copynumber: 1.9 Consensus size: 158
1413406 CAATTATAAC
* *
1413416 ATTCTTTTAGGTTGATAATGCATCCATATATATTTCAACGTTGGCATCCTGTCATGACAATAATG
1 ATTCTTTTAGGCTGATAATGCATCCATATATATTTCAACGTTGACATCCTGTCATGACAATAATG
* *
1413481 CACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGTCATCCTT
66 CACCCATATGCATTATTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTT
1413546 TCATG-CAATAATGTACCCATATGTATT
131 TCATGCCAATAATGTACCCATATGTATT
* * * *
1413573 ATTCTTTTATGCTGATAATGCA-CC-TATATGCATTTCAGC-TATGACATCCTTTCATGCCAATA
1 ATTCTTTTAGGCTGATAATGCATCCATATAT--ATTTCAACGT-TGACATCCTGTCATGACAATA
*
1413635 ATGCACCCATATGCATTATTCTTTTATACTGATAATGCACCCATATGCATTTTAGCTATGGCATC
63 ATGCACCCATATGCATTATTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATC
1413700 CTTTCATGCCAATAATG
128 CTTTCATGCCAATAATG
1413717 CACGCACATT
Statistics
Matches: 131, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
155 5 0.04
156 3 0.02
157 115 0.88
158 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (158 bp):
ATTCTTTTAGGCTGATAATGCATCCATATATATTTCAACGTTGACATCCTGTCATGACAATAATG
CACCCATATGCATTATTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTT
TCATGCCAATAATGTACCCATATGTATT
Found at i:1418294 original size:11 final size:10
Alignment explanation
Indices: 1418273--1418297 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1418263 TACTGACTTG
1418273 TTTTCTTTTT
1 TTTTCTTTTT
1418283 TTTTCTTTTT
1 TTTTCTTTTT
1418293 TTTTC
1 TTTTC
1418298 ATTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:1419394 original size:17 final size:17
Alignment explanation
Indices: 1419372--1419405 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1419362 AATATGATCC
1419372 AATCGAAAGACTGCTCT
1 AATCGAAAGACTGCTCT
1419389 AATCGAAAGACTGCTCT
1 AATCGAAAGACTGCTCT
1419406 GGATTCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
AATCGAAAGACTGCTCT
Found at i:1420363 original size:7 final size:7
Alignment explanation
Indices: 1420353--1420409 Score: 69
Period size: 7 Copynumber: 7.7 Consensus size: 7
1420343 GACAAAAAGA
1420353 AAAAAAT
1 AAAAAAT
1420360 AAAAAAT
1 AAAAAAT
1420367 AAAAAAT
1 AAAAAAT
1420374 AAAAAAAT
1 -AAAAAAT
1420382 AAAAAAAT
1 -AAAAAAT
*
1420390 AAATAAAG
1 AAA-AAAT
*
1420398 AAAAAAG
1 AAAAAAT
1420405 AAAAA
1 AAAAA
1420410 GAATTATCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
7 26 0.55
8 21 0.45
ACGTcount: A:0.86, C:0.00, G:0.04, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:1420363 original size:8 final size:8
Alignment explanation
Indices: 1420346--1420403 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
1420336 ACGATGGGAC
*
1420346 AAAAAGAA
1 AAAAATAA
1420354 AAAAAT-A
1 AAAAATAA
1420361 AAAAAT-A
1 AAAAATAA
1420368 AAAAATAA
1 AAAAATAA
1420376 AAAAATAA
1 AAAAATAA
1420384 AAAAATAA
1 AAAAATAA
* *
1420392 ATAAAGAA
1 AAAAATAA
1420400 AAAA
1 AAAA
1420404 GAAAAAGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
7 14 0.31
8 31 0.69
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:1425904 original size:18 final size:18
Alignment explanation
Indices: 1425861--1425898 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1425851 GTGAAGTATG
*
1425861 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
1425879 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
1425897 AA
1 AA
1425899 GTGTGTAAGG
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:0.21, C:0.11, G:0.37, T:0.32
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:1433791 original size:95 final size:95
Alignment explanation
Indices: 1433623--1433847 Score: 249
Period size: 94 Copynumber: 2.4 Consensus size: 95
1433613 TCATATCAGG
* * * * * * ** *
1433623 TAGTATCCATACCATGATAAGGGGTATCGATACCAAGAAACATCAAATCTAATTTTTGTATCGAT
1 TAGTATCGATACCATGGTAA-GAGTATCGATACTATGAAACATCAAACCTAAAATTAGTATCGAT
**
1433688 ACCTGAAGGGGGTATCGATACCATAGAAT-GA
65 ACAAGAA-GGGGTATCGATACCATAGAATAGA
* *
1433719 TAGTATCGATACCATGGTAAGAGTATCGATACTATGCAACATCGAACCTAAAATTAGTATCGATA
1 TAGTATCGATACCATGGTAAGAGTATCGATACTATGAAACATCAAACCTAAAATTAGTATCGATA
*
1433784 CAAGAAGGGGTATCGATACCATAGTATAGA
66 CAAGAAGGGGTATCGATACCATAGAATAGA
* * *
1433814 -AGTATCGGTACTAGGGT-AGTAGTATCGATACTAT
1 TAGTATCGATACCATGGTAAG-AGTATCGATACTAT
1433848 AGAGCCAGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
93 2 0.02
94 48 0.44
95 42 0.38
96 18 0.16
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (95 bp):
TAGTATCGATACCATGGTAAGAGTATCGATACTATGAAACATCAAACCTAAAATTAGTATCGATA
CAAGAAGGGGTATCGATACCATAGAATAGA
Found at i:1434672 original size:81 final size:81
Alignment explanation
Indices: 1434535--1435216 Score: 965
Period size: 81 Copynumber: 8.5 Consensus size: 81
1434525 GTGCCATTGA
* * *
1434535 GGCCTAACTATGCAATTGGTAGAAATGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * *
1434600 TGACTAAAATAAAAAT
66 TGAGTAAAAGAATAAT
* *
1434616 GACCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
*
1434681 TGAGTAAAAAAATAAT
66 TGAGTAAAAGAATAAT
* * * *
1434697 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCTAGTTAGATGAATGATT-AATATCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
*
1434761 TGAGTAAAAGAATATT
66 TGAGTAAAAGAATAAT
* * * *
1434777 GGACTAACTGTGCAATTGGTAGAAAGGTACCAATTTTGCCAGCTAGATGAACGGTTAAATAGCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
*
1434842 TGAGTGAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
1434858 GGCCTAAC-ATGCAATTGGTAGAAAGGTACCAATTATGGCAGTTAGATGAATGTTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
1434922 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
1434938 GGCATAACTATGCAATTGGTAGAAAGGCACCAATTATGCCATTTAAATGAACGGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
1435003 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* **
1435019 GGCCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATAGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
1435084 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * ** * **
1435100 AGCCTAACTGTGCAATCGATAGAAAGGTACCAATTATGTTAGTTAGATGAATGGTTAAATA-TGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
*
1435164 TGAGTAAGAGAATAAT
66 TGAGTAAAAGAATAAT
*
1435180 GGCCTAACTGTGCAATTGGTAGAAAAGTACCAATTAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTAT
1435217 TGAGTAAAAT
Statistics
Matches: 536, Mismatches: 63, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
80 189 0.35
81 347 0.65
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
TGAGTAAAAGAATAAT
Found at i:1434835 original size:161 final size:162
Alignment explanation
Indices: 1434535--1435216 Score: 962
Period size: 161 Copynumber: 4.2 Consensus size: 162
1434525 GTGCCATTGA
* * * * *
1434535 GGCCTAACTATGCAATTGGTAGAAATGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGATTAAATACCAT
* * *
1434600 TGACTAAAATAAAAAT-GACCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGAT
66 TGAGTAAAAGAATAATGGA-CTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGAT
* *
1434664 GAACGGTTAAATACCGTTGAGTAAAAAAATAAT
130 GAACGGTTAAATACCATTGAGTAAAAGAATAAT
* *
1434697 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCTAGTTAGATGAATGATT-AATATCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGATTAAATACCAT
* * *
1434761 TGAGTAAAAGAATATTGGACTAACTGTGCAATTGGTAGAAAGGTACCAATTTTGCCAGCTAGATG
66 TGAGTAAAAGAATAATGGACTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG
* *
1434826 AACGGTTAAATAGCATTGAGTGAAAGAATAAT
131 AACGGTTAAATACCATTGAGTAAAAGAATAAT
* * * *
1434858 GGCCTAAC-ATGCAATTGGTAGAAAGGTACCAATTATGGCAGTTAGATGAATGTTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGATTAAATACCAT
* * * *
1434922 TGAGTAAAAGAATAATGG-CATAACTATGCAATTGGTAGAAAGGCACCAATTATGCCATTTAAAT
66 TGAGTAAAAGAATAATGGAC-TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGAT
1434986 GAACGGTTAAATACCATTGAGTAAAAGAATAAT
130 GAACGGTTAAATACCATTGAGTAAAAGAATAAT
*
1435019 GGCCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAAT-AGTTAAATACCA
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGA-TTAAATACCA
* * * * **
1435083 TTGAGTAAAAGAATAATAGCCTAACTGTGCAATCGATAGAAAGGTACCAATTATGTTAGTTAGAT
65 TTGAGTAAAAGAATAATGGACTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGAT
* ** *
1435148 GAATGGTTAAATA-TGTTGAGTAAGAGAATAAT
130 GAACGGTTAAATACCATTGAGTAAAAGAATAAT
*
1435180 GGCCTAACTGTGCAATTGGTAGAAAAGTACCAATTAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTAT
1435217 TGAGTAAAAT
Statistics
Matches: 462, Mismatches: 52, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
160 44 0.10
161 248 0.54
162 169 0.37
163 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (162 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGATTAAATACCAT
TGAGTAAAAGAATAATGGACTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG
AACGGTTAAATACCATTGAGTAAAAGAATAAT
Found at i:1435243 original size:53 final size:53
Alignment explanation
Indices: 1435163--1435269 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
1435153 GTTAAATATG
* *
1435163 TTGAGTAAGAGAATAATGGCCTAACTGTGCAATTGGTAGAAAAGTACCAATTA
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATCGGTAGAAAAGTACCAATTA
* * *
1435216 TTGAGTAAAATAATAATGGCCTAACTGTGCAATCGGTAGAAAGGTGCCAATTA
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATCGGTAGAAAAGTACCAATTA
1435269 T
1 T
1435270 GCTAGTTAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (53 bp):
TTGAGTAAAAGAATAATGGCCTAACTGTGCAATCGGTAGAAAAGTACCAATTA
Found at i:1436879 original size:81 final size:81
Alignment explanation
Indices: 1436742--1438242 Score: 2080
Period size: 81 Copynumber: 18.6 Consensus size: 81
1436732 GTGCCTTTGA
* * *
1436742 GGCCTAACTGTGCAATTGGTAGAAAGGTATCAATTATGCCAATTAGATGAACGGTTAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* * *
1436807 TCAGTAAAATAAAAAT
66 TGAGTAAAAGAATAAT
*
1436823 GACCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1436888 TGAGTAAAAAAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
1436904 GGCCTAAATGTGCAATTGGTAGAAAGGTACCAATTATGCTAGTTAGATGAACGATTAAATATCGA
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1436969 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
1436985 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTTTACCAGCTAGATGAAGGGTTAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437050 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
1437066 TGCCTAACTATGCAATTGGTAGAAAGGTACCTATTATTCGAGTTAGATGAATGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437131 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * **
1437147 GGCCTAACTATGCAATTCGTAGAAAGAG-ACCAATTACGCCAGTTAGATGAACAATTAAATACCG
1 GGCCTAACTGTGCAATTGGTAGAAAG-GTACCAATTATGCCAGTTAGATGAACGGTTAAATACCG
1437211 TTGAGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
* **
1437228 GGCCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACAATTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1437293 TTAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * ***
1437309 GGCCTAACTGTGCAATTGGTAGAAGGGTATCAATTATGCCAGTTAGATGAATTATTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437374 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
1437390 GGCCTAACTATGCAATTGGTAGAAAGGCACCAATTATGCCAGTTAGATGAATGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437455 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
1437471 TGCCTAACTGTACAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACAGTTAAACACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437536 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
1437552 GGCCTAACTATGAAATTGGTAGAAAGGTAACAATTATGCTAGTTAGATGAACAGTTAAACACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437617 TGAGTAAAA-AACTAAT
66 TGAGTAAAAGAA-TAAT
* * * ** *
1437633 GGCCTAACTGTGCAATTGGTAGAAAGGTACAAATTATGCTAGTTATATGAACAATTAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437698 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
*** * * *
1437714 GGGAGAACTGTGCAATTGGTAGAAAGGTACCAATTTTGCCAGCTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437779 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * *
1437795 GGCCTAACAATGCACTTGGTAGAAAGGTACCAATTATGCCAGTTAGATG-ATGGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1437859 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
1437875 GGCCTAACTATGCAATTGGTAGAAA-CTCACCAATTATACCAGTTAGATGAACGGTTAAATACCG
1 GGCCTAACTGTGCAATTGGTAGAAAGGT-ACCAATTATGCCAGTTAGATGAACGGTTAAATACCG
*
1437939 TTGAGTAAAATAATAAT
65 TTGAGTAAAAGAATAAT
* * * *
1437956 GGCCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGACAGTTAGACGAACAGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1438021 TGAGTAAACGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
1438037 GGCCTAACTATGCAATTGGTAGAAAGGTACCAATTATGTCAGTTATATGAATGGTTAAATA-CGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1438101 TGAGCAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
1438117 -TCCTAACTGTGCAATTGGTAGAAAAGCACCAATTATGCCTGTTAGATGAACGATTAAATA-TGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1438180 TGAGTAAAATAATAAT
66 TGAGTAAAAGAATAAT
* * * **
1438196 GGCCTAACTGTGCAATCGGTAAAAAGGTGCCAATTATGTTAGTTAGA
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGA
1438243 CGAGTGGTTA
Statistics
Matches: 1267, Mismatches: 145, Indels: 17
0.89 0.10 0.01
Matches are distributed among these distances:
79 68 0.05
80 128 0.10
81 1067 0.84
82 4 0.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:1442193 original size:96 final size:94
Alignment explanation
Indices: 1442092--1442288 Score: 216
Period size: 95 Copynumber: 2.1 Consensus size: 94
1442082 TACCGATAAG
** * * *****
1442092 GTAGTATCCGTACCATGGTAAGGGGTATCGATACCA-AGCAACATCGAATATAATTTTTGTATCG
1 GTAGTATCAATACCATGGTAA-GAGTATCGATACCATA-CAACATCGAACATAAACCAAGTATCG
*
1442156 ATACCAGAAGGGGGTATCGATACCATAATATA
64 ATACAAGAA-GGGGTATCGATACCATAATATA
* * *
1442188 GTAGTATCAATACCATGGTAAGAGTATTGATACTATACAACATCGAACCTAAACCAAGTATCGAT
1 GTAGTATCAATACCATGGTAAGAGTATCGATACCATACAACATCGAACATAAACCAAGTATCGAT
* *
1442253 ACAAGAAGGGGTATCGATACTATAGTATA
66 ACAAGAAGGGGTATCGATACCATAATATA
*
1442282 GAAGTAT
1 GTAGTAT
1442289 TGGTACTAGG
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 26 0.31
95 38 0.45
96 20 0.24
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (94 bp):
GTAGTATCAATACCATGGTAAGAGTATCGATACCATACAACATCGAACATAAACCAAGTATCGAT
ACAAGAAGGGGTATCGATACCATAATATA
Found at i:1442796 original size:54 final size:55
Alignment explanation
Indices: 1442651--1442798 Score: 174
Period size: 56 Copynumber: 2.7 Consensus size: 55
1442641 GTAAAAATTG
* * * *
1442651 TAAGATATTCATACTAAGTGTATGAATTTCTGTATGCGCACTTTGTGTGCAAAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCTATATGGGCACTATGTGTGCAAAAA
* * *
1442706 TAAGGAAATTCATACTAAGTGTATGAATTTCCATATGGGCACTATGTGTG-AGAAC
1 TAA-GAAATTCATACTAAGTGTATGAATTTCTATATGGGCACTATGTGTGCAAAAA
* * *
1442761 TAAGAAATTCTTACCAAATGTATGAATGTT-TATATGGG
1 TAAGAAATTCATACTAAGTGTATGAAT-TTCTATATGGG
1442799 AAAAATATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
54 28 0.35
55 11 0.14
56 41 0.51
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCTATATGGGCACTATGTGTGCAAAAA
Found at i:1443219 original size:81 final size:81
Alignment explanation
Indices: 1443082--1443852 Score: 1143
Period size: 81 Copynumber: 9.6 Consensus size: 81
1443072 GCCTTTGAGC
* * *
1443082 CCTAACTGTGCAATTGGTAGAAAGATACTAATTATGCCAGTTAGATGAATGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1443147 AGTAAAAGAAAAATGG
66 AGTAAAAGAATAATGG
* * *
1443163 CATAACTGTGCAATTGGTGGAAAGGTACCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* *
1443228 ACTAAAAGAATAATGT
66 AGTAAAAGAATAATGG
* *
1443244 CCTAACTTTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1443309 AGTAAAAGAATAATGG
66 AGTAAAAGAATAATGG
* * *
1443325 CTTAACTGTGCAATTGGTTGAAAGGTACCAATTATGCCAGTTAGATGAACGATTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1443390 AGTAAATGAATAATGG
66 AGTAAAAGAATAATGG
* * *
1443406 CCTAATTGTGCAATTAGTAGAAATGTACCAATTATG-CAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1443470 AGTAAAAGAATAATGG
66 AGTAAAAGAATAATGG
*
1443486 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1443551 AGTAAAAGAATAATTG
66 AGTAAAAGAATAATGG
* * * *
1443567 CCTAACTATGCAGTTGGTAGACAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTC
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1443632 AGTAAAAGAATAATGT
66 AGTAAAAGAATAATGG
* * * *
1443648 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATTCTAGTTAGAGGAATGGTTAAATA-CGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* *
1443712 TGTAAAAGGATAATGG
66 AGTAAAAGAATAATGG
* * * * * *
1443728 CCTAACTGTACAATTGGTAGAAAGGTACAAATTATGCTAGTTAGTTGAGCGGTTAAATA-TGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1443792 AGTAAAAGAATAATGA
66 AGTAAAAGAATAATGG
* * * *
1443808 CCTAGCTGTACAATCGGTAGAAAGGTGCCAATTATGCCAGTTAGA
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGA
1443853 CGAGTGGTTA
Statistics
Matches: 624, Mismatches: 65, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
80 200 0.32
81 424 0.68
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGAATAATGG
Found at i:1443522 original size:242 final size:242
Alignment explanation
Indices: 1443082--1443852 Score: 1159
Period size: 242 Copynumber: 3.2 Consensus size: 242
1443072 GCCTTTGAGC
* * *
1443082 CCTAACTGTGCAATTGGTAGAAAGATACTAATTATGCCAGTTAGATGAATGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * *
1443147 AGTAAAAGAAAAATGGCATAACTGTGCAATTGGTGGAAAGGTACCAATTATGCCAGTTAGATGAA
66 AGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATG-CAGTTAGATGAA
* * *
1443212 TGGTTAAATACCGTTGACTAAAAGAATAATGTCCTAACTTTGCAATTGGTAGAAAGGTACCAATT
130 TGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATT
* *
1443277 ATGCCAGTTAGATGAATGGTTAAATACCGTTGAGTAAAAGAATAATGG
195 ATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGG
* * *
1443325 CTTAACTGTGCAATTGGTTGAAAGGTACCAATTATGCCAGTTAGATGAACGATTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * * *
1443390 AGTAAATGAATAATGGCCTAATTGTGCAATTAGTAGAAATGTACCAATTATGCAGTTAGATGAAC
66 AGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCAGTTAGATGAAT
1443455 GGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTA
131 GGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTA
*
1443520 TGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATTG
196 TGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGG
* * * *
1443567 CCTAACTATGCAGTTGGTAGACAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTC
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * *
1443632 AGTAAAAGAATAATGTCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATTCTAGTTAGAGGAA
66 AGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGC-AGTTAGATGAA
* * * *
1443697 TGGTTAAATA-CGTTGTGTAAAAGGATAATGGCCTAACTGTACAATTGGTAGAAAGGTACAAATT
130 TGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATT
* * * *
1443761 ATGCTAGTTAGTTGAGCGGTTAAATA-TGTTGAGTAAAAGAATAATGA
195 ATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGG
* * * *
1443808 CCTAGCTGTACAATCGGTAGAAAGGTGCCAATTATGCCAGTTAGA
1 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGA
1443853 CGAGTGGTTA
Statistics
Matches: 476, Mismatches: 51, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
241 57 0.12
242 296 0.62
243 123 0.26
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (242 bp):
CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCAGTTAGATGAAT
GGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTA
TGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGG
Found at i:1445677 original size:19 final size:19
Alignment explanation
Indices: 1445653--1445690 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1445643 ATTAAAGAAA
1445653 TAAAGA-AAATATGAAAAAT
1 TAAAGACAAAT-TGAAAAAT
1445672 TAAAGACTAAATTGAAAAA
1 TAAAGAC-AAATTGAAAAA
1445691 AAAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (19 bp):
TAAAGACAAATTGAAAAAT
Found at i:1445769 original size:154 final size:158
Alignment explanation
Indices: 1445433--1445808 Score: 480
Period size: 154 Copynumber: 2.4 Consensus size: 158
1445423 TATTGTGATA
* * * *
1445433 TATGAGCATGTGGTTCAAATTCGGTAAAAGAC-GGACTTAAAATTATGGATGAATTTAGGAAATA
1 TATGAGCATGTGGTTCAAATTTGGTAAAAGACAGGACTTAAAATAAT-GATGAATTAAAGAAATA
* * * ** *
1445497 AGGAAAATATGAAAGATTAAGGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAATTGGATT
65 AAGAAAATATGAAAAATTAAGAGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAAT
* *
1445562 TGAAAGTATATATGTATTCTAAGATGGTT
130 TAAAAGTACATATGTATTCTAAGATGGTT
*
1445591 TATGAGCACGTGGTTCAAATTTGGTAAAAGACAGG-CTTAAAATAAATGATGAATTAAAGAAATA
1 TATGAGCATGTGGTTCAAATTTGGTAAAAGACAGGACTTAAAAT-AATGATGAATTAAAGAAATA
1445655 AAGAAAATATGAAAAATTAA-AGACTAAATTG-AAAA-AAAAAA-TTGTTATCAAAAAGAGGAAT
65 AAGAAAATATGAAAAATTAAGAGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAAT
*
1445716 TAAAAGTACATATGTATTCTACGATGGTT
130 TAAAAGTACATATGTATTCTAAGATGGTT
* ** * * *
1445745 TATGAACATGTGGTTCATCTTTGGTAAAA-A-ATGGACTTAAAATGAATGAGGAAGTGAAGAAAT
1 TATGAGCATGTGGTTCAAATTTGGTAAAAGACA-GGACTTAAAAT-AATGATGAATTAAAGAAAT
1445808 A
64 A
1445809 TTGAAATAAG
Statistics
Matches: 192, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
152 1 0.01
153 3 0.02
154 93 0.48
155 6 0.03
156 4 0.02
157 10 0.05
158 71 0.37
159 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (158 bp):
TATGAGCATGTGGTTCAAATTTGGTAAAAGACAGGACTTAAAATAATGATGAATTAAAGAAATAA
AGAAAATATGAAAAATTAAGAGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAATT
AAAAGTACATATGTATTCTAAGATGGTT
Found at i:1447345 original size:37 final size:38
Alignment explanation
Indices: 1447302--1447373 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
1447292 TAAACAAACT
1447302 AGTATTAGTAAAATTATTCAAAATA-GAAAGTAAACCG
1 AGTATTAGTAAAATTATTCAAAATAGGAAAGTAAACCG
* * *
1447339 AGTATTAGTAACATTATTTAAAATAGGAAGGTAAA
1 AGTATTAGTAAAATTATTCAAAATAGGAAAGTAAA
1447374 TCATAATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (38 bp):
AGTATTAGTAAAATTATTCAAAATAGGAAAGTAAACCG
Found at i:1454301 original size:18 final size:19
Alignment explanation
Indices: 1454256--1454304 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1454246 GAAAATGGAA
1454256 GTACCGATGCAATATTGGAT
1 GTACCGATGCAATATT-GAT
*
1454276 GTATCGATGCAA-ACTT-AT
1 GTACCGATGCAATA-TTGAT
1454294 GTACCGATGCA
1 GTACCGATGCA
1454305 CGATGCACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 12 0.46
19 1 0.04
20 13 0.50
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (19 bp):
GTACCGATGCAATATTGAT
Found at i:1460047 original size:23 final size:23
Alignment explanation
Indices: 1460021--1460091 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
1460011 GAAAGTGTAC
1460021 CGATGCATCTCTTGAATATGCAT
1 CGATGCATCTCTTGAATATGCAT
* * *
1460044 CGATACA-CT-ATGAAGATGCA-
1 CGATGCATCTCTTGAATATGCAT
*
1460064 CTGATGCAT-TCCTTGAATGTGCAT
1 C-GATGCATCT-CTTGAATATGCAT
1460088 CGAT
1 CGAT
1460092 ACACTAAGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 2 0.06
23 17 0.47
24 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
CGATGCATCTCTTGAATATGCAT
Found at i:1460062 original size:21 final size:20
Alignment explanation
Indices: 1459995--1460063 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
1459985 TTGTGCACTG
1459995 TGCATCGATACACTATGAAA
1 TGCATCGATACACTATGAAA
* * * *
1460015 GTGTACCGATGCATCTCTTGAATA
1 -TGCATCGATACA-CT-ATGAA-A
1460039 TGCATCGATACACTATGAAGA
1 TGCATCGATACACTATGAA-A
1460060 TGCA
1 TGCA
1460064 CTGATGCATT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 18 0.50
22 4 0.11
23 13 0.36
24 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
TGCATCGATACACTATGAAA
Found at i:1460070 original size:44 final size:44
Alignment explanation
Indices: 1459995--1460097 Score: 147
Period size: 44 Copynumber: 2.3 Consensus size: 44
1459985 TTGTGCACTG
*
1459995 TGCATCGATACACTATGAAAGTGTACCGATGCA-TCTCTTGAATA
1 TGCATCGATACACTATGAAAGTGCACCGATGCATTC-CTTGAATA
* *
1460039 TGCATCGATACACTATG-AAGATGCACTGATGCATTCCTTGAATG
1 TGCATCGATACACTATGAAAG-TGCACCGATGCATTCCTTGAATA
1460083 TGCATCGATACACTA
1 TGCATCGATACACTA
1460098 AGGAGTGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
43 3 0.06
44 49 0.91
45 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAATA
Found at i:1460113 original size:20 final size:20
Alignment explanation
Indices: 1460088--1460136 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
1460078 GAATGTGCAT
1460088 CGATACACTAAGGAGTGTAC
1 CGATACACTAAGGAGTGTAC
1460108 CGATACACTAAGGAGTGTAC
1 CGATACACTAAGGAGTGTAC
1460128 CGATACACT
1 CGATACACT
1460137 CGTCGGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
CGATACACTAAGGAGTGTAC
Found at i:1462366 original size:13 final size:13
Alignment explanation
Indices: 1462344--1462377 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1462334 AGGGGGAGAA
*
1462344 ATTTTCAAAATTG
1 ATTTTCAAAAATG
1462357 A-TTTCAAAAATG
1 ATTTTCAAAAATG
1462369 ATTTTCAAA
1 ATTTTCAAA
1462378 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:1462807 original size:65 final size:65
Alignment explanation
Indices: 1462708--1462851 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 65
1462698 AATGCACACC
* * * *
1462708 TGTGTACTGATGCACAGACATGCATTGATGCACTCCT-GATTTTATTAAAACATCGAATG-CATT
1 TGTGTACCGATGCACAGACATGCATTGATACACTCCTGGATCTT-TTAAAACATCGAATGTAATT
*
1462771 T
65 A
* *
1462772 TGTGTACCGATGCACAGACCATGCATTGATACACTCCTGGCTCTTTTGAAACATCGAATGTAATT
1 TGTGTACCGATGCACAGA-CATGCATTGATACACTCCTGGATCTTTTAAAACATCGAATGTAATT
1462837 A
65 A
1462838 T-TGTACCGATGCAC
1 TGTGTACCGATGCAC
1462852 CCCAAGTGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 17 0.24
65 45 0.64
66 8 0.11
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (65 bp):
TGTGTACCGATGCACAGACATGCATTGATACACTCCTGGATCTTTTAAAACATCGAATGTAATTA
Found at i:1469244 original size:103 final size:103
Alignment explanation
Indices: 1468916--1469233 Score: 593
Period size: 103 Copynumber: 3.1 Consensus size: 103
1468906 GTCGAGGGTC
*
1468916 TATGTGGTCCATCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1468981 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
1469019 TATGCT-GTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATG-TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
1469083 CTTGATCCCTAGTACATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
1469122 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1469187 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
1469225 TATGTGGTC
1 TATGTGGTC
1469234 TTTATGGACA
Statistics
Matches: 208, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
102 1 0.00
103 206 0.99
104 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:1474244 original size:103 final size:103
Alignment explanation
Indices: 1474065--1474298 Score: 441
Period size: 103 Copynumber: 2.3 Consensus size: 103
1474055 GTCGAGGGTC
*
1474065 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1474130 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
1474168 TATGTTATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1474233 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
1474271 TATGTGGTCCTTCGGGACATATATGTAT
1 TATGTGATCCTTCGGGACATATATGTAT
1474299 GGCACTACGG
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 127 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:1474366 original size:23 final size:23
Alignment explanation
Indices: 1474298--1474358 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1474288 CATATATGTA
*
1474298 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
* *
1474321 CGGCACTACGGTGTAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1474344 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1474359 TTTATATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1480269 original size:2 final size:2
Alignment explanation
Indices: 1480262--1480304 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1480252 TTTATTTGGT
* *
1480262 TA TA TA TA TA TA TA TA TA TA TA CA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1480304 T
1 T
1480305 CATACTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1480298 original size:24 final size:24
Alignment explanation
Indices: 1480266--1480320 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
1480256 TTTGGTTATA
1480266 TATATATATATATAT-ATACATATT
1 TATATATATATATATCATAC-TATT
1480290 TATATATATATATATCATACTATT
1 TATATATATATATATCATACTATT
*
1480314 TCTATAT
1 TATATAT
1480321 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATATATATATATCATACTATT
Found at i:1484363 original size:65 final size:64
Alignment explanation
Indices: 1484246--1484449 Score: 200
Period size: 65 Copynumber: 3.2 Consensus size: 64
1484236 GTTAAAAGTG
* * * * **
1484246 ATGCAGCGATGCACCAATCCATGCATCGATGCTC-CACGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTCA-AG-ATATTTTGAAACATCGAATGCATT
*
1484309 TT
63 TC
* *
1484311 ATGCATCGATGCACATA-CCATGTATCGATGCACTCAAGAT-TTTATGAAAACATCGAGTGCATT
1 ATGCATCGATGCACA-AGCCATGCATCGATGCACTCAAGATATTT-TG-AAACATCGAATGCATT
*
1484374 TG
63 TC
*** *
1484376 ATGCATCGATGCACAAGCCATGCATCGATGCACTTTGGCTATTTTGAAACATCGAATGCATTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCACTCAAGATATTTTGAAACATCGAATGCATTTC
1484440 ATGCATCGAT
1 ATGCATCGAT
1484450 CCACTCTTAG
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 44 0.38
65 65 0.56
66 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCACTCAAGATATTTTGAAACATCGAATGCATTTC
Found at i:1487257 original size:23 final size:22
Alignment explanation
Indices: 1487178--1487258 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
1487168 ACACTTAACA
1487178 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CC-TTGAAT
* * *
1487202 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
* *
1487223 GTGCACCAATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
1487246 GTGCATCGATGCA
1 GTGCATCGATGCA
1487259 CACTGCCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.31
22 2 0.04
23 17 0.38
24 12 0.27
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:1491352 original size:12 final size:12
Alignment explanation
Indices: 1491335--1491360 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1491325 ATGAAAATGA
1491335 AATGTGAAAGTG
1 AATGTGAAAGTG
1491347 AATGTGAAAGTG
1 AATGTGAAAGTG
1491359 AA
1 AA
1491361 AGATGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (12 bp):
AATGTGAAAGTG
Found at i:1491379 original size:13 final size:13
Alignment explanation
Indices: 1491324--1491382 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
1491314 AAGTATGGAT
1491324 TATGAAAATGAAA
1 TATGAAAATGAAA
* *
1491337 TGTGAAAGTG-AA
1 TATGAAAATGAAA
* *
1491349 TGTGAAAGTGAAA
1 TATGAAAATGAAA
* *
1491362 GATGAAAATGAGA
1 TATGAAAATGAAA
1491375 TATGAAAA
1 TATGAAAA
1491383 ATTTGTATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 12 0.32
13 26 0.68
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (13 bp):
TATGAAAATGAAA
Found at i:1497783 original size:21 final size:21
Alignment explanation
Indices: 1497757--1497796 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1497747 CTCGGGGTCT
*
1497757 AGTATCGATACTCATATGGCC
1 AGTATCGATACTCAGATGGCC
1497778 AGTATCGATACTCAGATGG
1 AGTATCGATACTCAGATGG
1497797 TCAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (21 bp):
AGTATCGATACTCAGATGGCC
Found at i:1499171 original size:15 final size:16
Alignment explanation
Indices: 1499148--1499181 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1499138 AAAGTTATGG
*
1499148 AAAGTATATGAAA-GA
1 AAAGAATATGAAATGA
1499163 AAAGAATATGAAATGA
1 AAAGAATATGAAATGA
1499179 AAA
1 AAA
1499182 TGAAAGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAGAATATGAAATGA
Found at i:1499872 original size:22 final size:22
Alignment explanation
Indices: 1499847--1499888 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1499837 TTATACGAGA
**
1499847 TTAAATAAAGGTTTTTAAATTG
1 TTAAATAAAAATTTTTAAATTG
1499869 TTAAATAAAAATTTTTAAAT
1 TTAAATAAAAATTTTTAAAT
1499889 GGAAAGAAAT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTAAATAAAAATTTTTAAATTG
Found at i:1507195 original size:29 final size:30
Alignment explanation
Indices: 1507152--1507209 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
1507142 ACACAATGTA
* *
1507152 AACTAATAAAGTAATGAAGACTTTAACTTG
1 AACTAATAAAGTAATAAACACTTTAACTTG
1507182 AACTAA-AAAGTAATAAACACTTTAACTT
1 AACTAATAAAGTAATAAACACTTTAACTT
1507210 TGTTTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (30 bp):
AACTAATAAAGTAATAAACACTTTAACTTG
Found at i:1507563 original size:19 final size:19
Alignment explanation
Indices: 1507539--1507579 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1507529 CATTTATTAA
*
1507539 TAACATAATAATAATATAT
1 TAACATAATAATAAAATAT
* *
1507558 TAACATTATATTAAAATAT
1 TAACATAATAATAAAATAT
1507577 TAA
1 TAA
1507580 TAATATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TAACATAATAATAAAATAT
Found at i:1507586 original size:19 final size:19
Alignment explanation
Indices: 1507554--1507591 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1507544 TAATAATAAT
*
1507554 ATATTAACATTATATTAAA
1 ATATTAACAATATATTAAA
*
1507573 ATATTAATAATATATTAAA
1 ATATTAACAATATATTAAA
1507592 CCATTCCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTAACAATATATTAAA
Found at i:1507587 original size:11 final size:11
Alignment explanation
Indices: 1507533--1507590 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
1507523 AAAAACCATT
*
1507533 TATTAATAACA
1 TATTAATAATA
*
1507544 TAATAATAATA
1 TATTAATAATA
* *
1507555 TATTAACATTA
1 TATTAATAATA
1507566 TATT-A-AA-A
1 TATTAATAATA
1507574 TATTAATAATA
1 TATTAATAATA
1507585 TATTAA
1 TATTAA
1507591 ACCATTCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
10 3 0.08
11 28 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
TATTAATAATA
Found at i:1507615 original size:19 final size:21
Alignment explanation
Indices: 1507576--1507636 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
1507566 TATTAAAATA
*
1507576 TTAATAATATATTAAACCATTCC
1 TTAATCAT-TATT-AACCATTCC
*
1507599 TTAA-CA-TATTGACCATTCC
1 TTAATCATTATTAACCATTCC
1507618 TTAATCATTATTAACCATT
1 TTAATCATTATTAACCATT
1507637 TTAATAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.36
20 6 0.18
21 10 0.30
22 1 0.03
23 4 0.12
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAATCATTATTAACCATTCC
Found at i:1507941 original size:18 final size:18
Alignment explanation
Indices: 1507894--1507959 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
1507884 AAATGCTGGT
*
1507894 AGTGGGCCTAATTCTGAC
1 AGTGGGCCTAATACTGAC
*** *
1507912 AGTGGTTATAATACTGCC
1 AGTGGGCCTAATACTGAC
*
1507930 AGTGGGCCTAATACCGAC
1 AGTGGGCCTAATACTGAC
*
1507948 AGTGGTCCTAAT
1 AGTGGGCCTAAT
1507960 GTTTCTAGTG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (18 bp):
AGTGGGCCTAATACTGAC
Found at i:1507970 original size:36 final size:36
Alignment explanation
Indices: 1507879--1507978 Score: 94
Period size: 36 Copynumber: 2.8 Consensus size: 36
1507869 TGCTGCCAGT
* * * *
1507879 TGGTCA-AATGCTGGTAGTGGGCCTAATTCTGACAG
1 TGGTCATAATACTGCTAGTGGGCCTAATACCGACAG
* *
1507914 TGGTTATAATACTGCCAGTGGGCCTAATACCGACAG
1 TGGTCATAATACTGCTAGTGGGCCTAATACCGACAG
* ** * *
1507950 TGGTCCTAATGTTTCTAGTGGACCTAATA
1 TGGTCATAATACTGCTAGTGGGCCTAATA
1507979 TAATAATTGA
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
35 5 0.10
36 46 0.90
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (36 bp):
TGGTCATAATACTGCTAGTGGGCCTAATACCGACAG
Found at i:1513005 original size:24 final size:24
Alignment explanation
Indices: 1512978--1513032 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1512968 CCATTTTTTC
1512978 TTTCTTTTTTCTTC-TTTTGAGTG
1 TTTCTTTTTTCTTCTTTTTGAGTG
**
1513001 TTT-TCAATTTCTTCTTTTTGAGTG
1 TTTCT-TTTTTCTTCTTTTTGAGTG
*
1513025 CTTCTTTT
1 TTTCTTTT
1513033 CTGATTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
22 1 0.04
23 10 0.42
24 12 0.50
25 1 0.04
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTCTTTTTTCTTCTTTTTGAGTG
Found at i:1518399 original size:42 final size:41
Alignment explanation
Indices: 1518338--1518422 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 41
1518328 TAGAAATTTA
*
1518338 TTTTATGTTTTAGAGTAAAGATGAATTATAGTTTAGGTTGT
1 TTTTATGTTTTAGAGTAAAGATGAATTATAGTTTAGGTCGT
* * * *
1518379 TTTTATTTTATTAGATTAAAGATGGATTTTAGTTTAGGTCGT
1 TTTTATGTT-TTAGAGTAAAGATGAATTATAGTTTAGGTCGT
1518421 TT
1 TT
1518423 CATTCCTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 8 0.21
42 30 0.79
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (41 bp):
TTTTATGTTTTAGAGTAAAGATGAATTATAGTTTAGGTCGT
Found at i:1539185 original size:21 final size:21
Alignment explanation
Indices: 1539146--1539194 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1539136 ATAATGATAT
* *
1539146 TATTCATTTATATTAGTTTTA
1 TATTCATTTAGATTAGTTTCA
1539167 TATTCATTTAGA-TAGGTTTCA
1 TATTCATTTAGATTA-GTTTCA
1539188 T-TTCATT
1 TATTCATT
1539195 CATGAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (21 bp):
TATTCATTTAGATTAGTTTCA
Done.