Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_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: 2348840
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1585690 original size:38 final size:38
Alignment explanation
Indices: 1585608--1585708 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 38
1585598 TATATATATA
* *
1585608 TATATATATATATATATTCAAAAACCATTTTTTAAATAAG
1 TATATAT-TATAT-TTTTCAAAAACCATTTTCTAAATAAG
* *
1585648 TATATATTATATGTTTTCAAAAACCGTTTTCTAAA-AAT
1 TATATATTATAT-TTTTCAAAAACCATTTTCTAAATAAG
1585686 TATATATTATATTTTTCAAAAAC
1 TATATATTATATTTTTCAAAAAC
1585709 TATACTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
37 11 0.20
38 14 0.25
39 24 0.43
40 7 0.12
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (38 bp):
TATATATTATATTTTTCAAAAACCATTTTCTAAATAAG
Found at i:1585706 original size:23 final size:27
Alignment explanation
Indices: 1585674--1585721 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1585664 TCAAAAACCG
1585674 TTTTCTAAAAA-T-TA-TATATTATAT
1 TTTTCTAAAAACTATACTATATTATAT
1585698 TTTTC-AAAAACTATACTATATTAT
1 TTTTCTAAAAACTATACTATATTAT
1585722 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 6 0.29
25 2 0.10
26 8 0.38
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTCTAAAAACTATACTATATTATAT
Found at i:1585707 original size:24 final size:26
Alignment explanation
Indices: 1585674--1585721 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
1585664 TCAAAAACCG
*
1585674 TTTTCTAAAAAT-TA-TATATTATAT
1 TTTTCAAAAAATATACTATATTATAT
*
1585698 TTTTCAAAAACTATACTATATTAT
1 TTTTCAAAAAATATACTATATTAT
1585722 TATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 2 0.10
26 8 0.40
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTCAAAAAATATACTATATTATAT
Found at i:1590664 original size:15 final size:15
Alignment explanation
Indices: 1590644--1590682 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1590634 CATAACGATT
1590644 TAACCCCTTTTTTTG
1 TAACCCCTTTTTTTG
1590659 TAACCCCTTTTTTTG
1 TAACCCCTTTTTTTG
1590674 TAACCCCTT
1 TAACCCCTT
1590683 CGACCCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49
Consensus pattern (15 bp):
TAACCCCTTTTTTTG
Found at i:1591235 original size:29 final size:28
Alignment explanation
Indices: 1591178--1591290 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 28
1591168 TTCCCAAATA
* *
1591178 GAAACAGAACGAGG-ATATAATCCTC-TAC
1 GAAATAGAATGAGGAAT-TAAT-CTCATAC
*
1591206 GTAAATAGAATAAGGAATTAATCTCATAC
1 G-AAATAGAATGAGGAATTAATCTCATAC
* * *
1591235 GGAATCAGAATGGGGAATTAATCTCATGC
1 GAAAT-AGAATGAGGAATTAATCTCATAC
* *
1591264 AAAAACAGAATGAGGAATTAATCTCAT
1 -GAAATAGAATGAGGAATTAATCTCAT
1591291 GCACAATAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.10
29 58 0.84
30 4 0.06
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (28 bp):
GAAATAGAATGAGGAATTAATCTCATAC
Found at i:1591291 original size:29 final size:29
Alignment explanation
Indices: 1591212--1591293 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
1591202 CTACGTAAAT
* * ** *
1591212 AGAATAAGGAATTAATCTCATACGGAATC
1 AGAATGAGGAATTAATCTCATGCAAAAAC
*
1591241 AGAATGGGGAATTAATCTCATGCAAAAAC
1 AGAATGAGGAATTAATCTCATGCAAAAAC
1591270 AGAATGAGGAATTAATCTCATGCA
1 AGAATGAGGAATTAATCTCATGCA
1591294 CAATAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (29 bp):
AGAATGAGGAATTAATCTCATGCAAAAAC
Found at i:1591829 original size:20 final size:21
Alignment explanation
Indices: 1591804--1591852 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1591794 AGTTAACGAA
*
1591804 AAAGTCAACGA-TCAACGATC
1 AAAGTCAACGAGTCAACAATC
1591824 AAAGTCAAC-AGTCAACAATC
1 AAAGTCAACGAGTCAACAATC
1591844 -AAGTCAACG
1 AAAGTCAACG
1591853 GGTTTGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAGTCAACGAGTCAACAATC
Found at i:1593911 original size:11 final size:11
Alignment explanation
Indices: 1593885--1593919 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1593875 ATATCTAAAT
*
1593885 TATTACTTTTAT
1 TATTA-TTTTAG
1593897 TATTATTTTAG
1 TATTATTTTAG
1593908 TATTATTTTAG
1 TATTATTTTAG
1593919 T
1 T
1593920 CATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTATTTTAG
Found at i:1594748 original size:3 final size:3
Alignment explanation
Indices: 1594740--1594846 Score: 101
Period size: 3 Copynumber: 36.0 Consensus size: 3
1594730 CTGTAATATG
* * *
1594740 TAA TAA TAA TATT TAT TAA TAA TAA TAA AAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
1594785 TTA TAA AAA TTA TAA TTA TAA TAA TAA TTA TAA AAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1594833 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
1594847 AATGGGCCAA
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
2 4 0.05
3 77 0.93
4 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1598083 original size:76 final size:74
Alignment explanation
Indices: 1597918--1598096 Score: 196
Period size: 76 Copynumber: 2.4 Consensus size: 74
1597908 ATTAACAAGA
* *
1597918 AGCAAATGATGGAGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATTGACACATTTTGAA
1 AGCAAATG-TGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAA
* *
1597983 CGTTTGTATT
65 CGTTCGTATC
* * * * ****
1597993 AGCCAATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAAGAATCATGAATGTTGGTGTATTTTGA
1 AGCAAATG-TGGGGCATGCTGAAAGCCCATTTCAATC-AGAATCAGGAATATTGACACATTTTGA
1598058 ACGTTCGTATC
64 ACGTTCGTATC
* *
1598069 AGCAAATGTCGGGGCACGCTGAAGGCCC
1 AGCAAATGT-GGGGCATGCTGAAAGCCC
1598097 TTATCATCTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
75 34 0.40
76 52 0.60
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (74 bp):
AGCAAATGTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAAC
GTTCGTATC
Found at i:1598705 original size:21 final size:21
Alignment explanation
Indices: 1598675--1598726 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1598665 TTTTATTTAA
1598675 TTAT-GTTTTTAACTATGTAT
1 TTATGGTTTTTAACTATGTAT
1598695 TTATGGTTTTTAACTATGTAT
1 TTATGGTTTTTAACTATGTAT
1598716 TTATGGTTTTT
1 TTATGGTTTTT
1598727 TATAGGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.21, C:0.04, G:0.13, T:0.62
Consensus pattern (21 bp):
TTATGGTTTTTAACTATGTAT
Found at i:1604674 original size:12 final size:13
Alignment explanation
Indices: 1604650--1604676 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1604640 TTTTATTTCG
1604650 AAAATTTGAAAAA
1 AAAATTTGAAAAA
1604663 AAAATTTGAAAAA
1 AAAATTTGAAAAA
1604676 A
1 A
1604677 TTCTTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (13 bp):
AAAATTTGAAAAA
Found at i:1617369 original size:24 final size:24
Alignment explanation
Indices: 1617342--1617416 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
1617332 GTCCATAAAT
1617342 AAATTTTTGTAACATCCTAGTCTC
1 AAATTTTTGTAACATCCTAGTCTC
* * **
1617366 AAATATTGTT-TGA-GTCCATA-AAT-
1 AAAT-TT-TTGTAACATCC-TAGTCTC
1617389 AAATTTTTGTAACATCCTAGTCTC
1 AAATTTTTGTAACATCCTAGTCTC
1617413 AAAT
1 AAAT
1617417 ATAAAGTATC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 8 0.22
24 12 0.33
25 6 0.17
26 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (24 bp):
AAATTTTTGTAACATCCTAGTCTC
Found at i:1617393 original size:47 final size:47
Alignment explanation
Indices: 1617324--1617418 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
1617314 GACGAGAAGC
1617324 TTGTTTGAGTCCATAAATAAATTTTTGTAACATCCTAGTCTCAAATA
1 TTGTTTGAGTCCATAAATAAATTTTTGTAACATCCTAGTCTCAAATA
1617371 TTGTTTGAGTCCATAAATAAATTTTTGTAACATCCTAGTCTCAAATA
1 TTGTTTGAGTCCATAAATAAATTTTTGTAACATCCTAGTCTCAAATA
1617418 T
1 T
1617419 AAAGTATCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (47 bp):
TTGTTTGAGTCCATAAATAAATTTTTGTAACATCCTAGTCTCAAATA
Found at i:1618793 original size:2 final size:2
Alignment explanation
Indices: 1618786--1618813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1618776 ATCATTAATG
1618786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1618814 CATTCAGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1619704 original size:114 final size:115
Alignment explanation
Indices: 1619463--1619706 Score: 332
Period size: 114 Copynumber: 2.1 Consensus size: 115
1619453 TAATTTTAAG
* * * * * *
1619463 AAAATATATTAATATACATA-AATAAGATATTTACTTATTTAGAAATATCAAAAAAAGGGCTTCT
1 AAAATATATTATTTTA-ATATAGTAAGATATTTACTTATTCAAAAATATCAAAAAAAGAGCTTCT
* * *
1619527 AGGTGCTTTAAGACAGCTCTTTTCTTTGATATTAAAAATAAATAAATATCA
65 AGGTACCTTAAGACAGCTCTTTTCTTCGATATTAAAAATAAATAAATATCA
* * *
1619578 AAAATATTTTATTTTAATATAGTAAGATATTTATTTATTCAAAAATATC-AGAAAAGAGCTTCTA
1 AAAATATATTATTTTAATATAGTAAGATATTTACTTATTCAAAAATATCAAAAAAAGAGCTTCTA
*
1619642 GGTACCTTAAGACAGCTTTTTTCTTCGATATTAAAAATAAATAAATATC-
66 GGTACCTTAAGACAGCTCTTTTCTTCGATATTAAAAATAAATAAATATCA
1619691 AAAATATGATTATTTT
1 AAAATAT-ATTATTTT
1619707 TCTTAAAATT
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
113 7 0.06
114 68 0.60
115 38 0.34
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (115 bp):
AAAATATATTATTTTAATATAGTAAGATATTTACTTATTCAAAAATATCAAAAAAAGAGCTTCTA
GGTACCTTAAGACAGCTCTTTTCTTCGATATTAAAAATAAATAAATATCA
Found at i:1619728 original size:13 final size:14
Alignment explanation
Indices: 1619710--1619740 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1619700 TTATTTTTCT
1619710 TAAAATT-AATTTA
1 TAAAATTAAATTTA
1619723 TAAAATTAAATTTA
1 TAAAATTAAATTTA
1619737 TAAA
1 TAAA
1619741 TAGGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAATTAAATTTA
Found at i:1621417 original size:3 final size:3
Alignment explanation
Indices: 1621403--1621491 Score: 110
Period size: 3 Copynumber: 30.0 Consensus size: 3
1621393 GTTGTATCTG
* *
1621403 TAA TAA -AA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1621450 TAA TAA TAG TAA TAA AAA TAA AAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
1621492 AAAAACCAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
2 3 0.04
3 69 0.95
4 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:1621502 original size:21 final size:21
Alignment explanation
Indices: 1621461--1621509 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1621451 AATAATAGTA
*
1621461 ATAAAAATAAAAATAATAAAT
1 ATAAAAATAAAAATAACAAAT
*
1621482 ATAATAATAAAAA-AACCAAAT
1 ATAAAAATAAAAATAA-CAAAT
*
1621503 GTAAAAA
1 ATAAAAA
1621510 ACTAGTGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAACAAAT
Found at i:1621938 original size:113 final size:113
Alignment explanation
Indices: 1621755--1622422 Score: 1032
Period size: 113 Copynumber: 5.9 Consensus size: 113
1621745 AGAATCATGC
*
1621755 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCGT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
1621820 TATGAACTCTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
* * *
1621869 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
1621934 ATGAACTCGCCCTGGCAATGTTGATCCATCGAATGATAAATTCAAGTG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
1621982 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1622047 ATGAACTCGACCTGGCAATGCTGATCCATCGAATAATGAATTCAAGCG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1622095 AAACGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1622160 ATGAACTCGATCTGGTAATGCTGATCCATCGAATGATGAATTCAAACG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1622208 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1622273 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1622321 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTTTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
1622386 ATGAACTCTTCC-AGAAATGTTGATCCATTGAATGATG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATG
1622423 GATTTGAACT
Statistics
Matches: 512, Mismatches: 42, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
112 21 0.04
113 486 0.95
114 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:1622857 original size:22 final size:22
Alignment explanation
Indices: 1622829--1622880 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1622819 GATAAAGCTT
*
1622829 TCATCTTTAAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
*
1622851 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
1622873 TCATCTTT
1 TCATCTTT
1622881 GAAGAGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:1623332 original size:54 final size:54
Alignment explanation
Indices: 1623272--1623391 Score: 240
Period size: 54 Copynumber: 2.2 Consensus size: 54
1623262 TTTGACAGTG
1623272 CATTCATCCTTTCTTTTGGTTTCTGCTCAGACGTTCGTAAAGCGTTTGACAACA
1 CATTCATCCTTTCTTTTGGTTTCTGCTCAGACGTTCGTAAAGCGTTTGACAACA
1623326 CATTCATCCTTTCTTTTGGTTTCTGCTCAGACGTTCGTAAAGCGTTTGACAACA
1 CATTCATCCTTTCTTTTGGTTTCTGCTCAGACGTTCGTAAAGCGTTTGACAACA
1623380 CATTCATCCTTT
1 CATTCATCCTTT
1623392 TGCTGTGGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (54 bp):
CATTCATCCTTTCTTTTGGTTTCTGCTCAGACGTTCGTAAAGCGTTTGACAACA
Found at i:1631123 original size:14 final size:14
Alignment explanation
Indices: 1631106--1631136 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1631096 GTAACTATAC
1631106 AAATATGCAAATGT
1 AAATATGCAAATGT
*
1631120 AAATATGTAAATGT
1 AAATATGCAAATGT
1631134 AAA
1 AAA
1631137 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (14 bp):
AAATATGCAAATGT
Found at i:1634985 original size:3 final size:3
Alignment explanation
Indices: 1634971--1635062 Score: 107
Period size: 3 Copynumber: 31.0 Consensus size: 3
1634961 GGTTGTATCT
* * *
1634971 TAA TAA -AA TAA TAA TAT TAA TAA TAA TAA TAA TAT TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1635018 TAA TAA TAA TAG TAA TAA AAA TAA AAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
1635063 AAAAACCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 3 0.04
3 70 0.95
4 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1635073 original size:21 final size:21
Alignment explanation
Indices: 1635032--1635080 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1635022 AATAATAGTA
*
1635032 ATAAAAATAAAAATAATAAAT
1 ATAAAAATAAAAATAACAAAT
*
1635053 ATAATAATAAAAA-AACCAAAT
1 ATAAAAATAAAAATAA-CAAAT
*
1635074 GTAAAAA
1 ATAAAAA
1635081 ACTAGTGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAACAAAT
Found at i:1646422 original size:7 final size:7
Alignment explanation
Indices: 1646408--1646443 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
1646398 CCCGACCCGT
1646408 CCGTTGA
1 CCGTTGA
*
1646415 CTGTTGA
1 CCGTTGA
1646422 CCGTTGA
1 CCGTTGA
1646429 CC-TTGA
1 CCGTTGA
1646435 CCGTTGA
1 CCGTTGA
1646442 CC
1 CC
1646444 TCCTTTGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.14, C:0.31, G:0.25, T:0.31
Consensus pattern (7 bp):
CCGTTGA
Found at i:1646436 original size:13 final size:13
Alignment explanation
Indices: 1646408--1646444 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1646398 CCCGACCCGT
*
1646408 CCGTTGACTGTTGA
1 CCGTTGAC-CTTGA
1646422 CCGTTGACCTTGA
1 CCGTTGACCTTGA
1646435 CCGTTGACCT
1 CCGTTGACCT
1646445 CCTTTGACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (13 bp):
CCGTTGACCTTGA
Found at i:1648074 original size:3 final size:3
Alignment explanation
Indices: 1648066--1648097 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1648056 CAAACAAATA
1648066 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1648098 AACCCAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1656114 original size:32 final size:31
Alignment explanation
Indices: 1656064--1656133 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
1656054 CCCATGATTA
* * *
1656064 ACCCAAGGAAGTGCCTTGGGGACTGAGAGCCT
1 ACCCAAGAAAGTACCTTGGGGACTCAG-GCCT
* * *
1656096 ACCCAAGAAAGTATCTTGGGGCCTCAGGGCT
1 ACCCAAGAAAGTACCTTGGGGACTCAGGCCT
1656127 ACCCAAG
1 ACCCAAG
1656134 GGTCACCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (31 bp):
ACCCAAGAAAGTACCTTGGGGACTCAGGCCT
Found at i:1658040 original size:13 final size:13
Alignment explanation
Indices: 1658039--1658096 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
1658029 CCGTTTACCC
1658039 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1658052 TACCCGACCCGTT
1 GACCCGACCCGTT
1658065 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1658078 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
1658093 GACC
1 GACC
1658097 GTTGACCGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1658068 original size:8 final size:8
Alignment explanation
Indices: 1658057--1658103 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
1658047 CCGTTTACCC
1658057 GACCCGTT
1 GACCCGTT
1658065 GACCC---
1 GACCCGTT
1658070 GACCCGTT
1 GACCCGTT
1658078 GA-CCGTT
1 GACCCGTT
1658085 GACCCGTT
1 GACCCGTT
1658093 GA-CCGTT
1 GACCCGTT
1658100 GACC
1 GACC
1658104 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:1658075 original size:18 final size:18
Alignment explanation
Indices: 1658017--1658062 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
1658007 ACCGGTCACA
1658017 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
1658035 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
1658053 ACCCGACCCG
1 ACCCGACCCG
1658063 TTGACCCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:1658085 original size:7 final size:7
Alignment explanation
Indices: 1658073--1658104 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1658063 TTGACCCGAC
1658073 CCGTTGA
1 CCGTTGA
1658080 CCGTTGA
1 CCGTTGA
1658087 CCCGTTGA
1 -CCGTTGA
1658095 CCGTTGA
1 CCGTTGA
1658102 CCG
1 CCG
1658105 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1658090 original size:15 final size:15
Alignment explanation
Indices: 1658057--1658103 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1658047 CCGTTTACCC
*
1658057 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
1658070 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1658085 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1658100 GACC
1 GACC
1658104 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1659439 original size:18 final size:18
Alignment explanation
Indices: 1659413--1659448 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1659403 TCGAAAGGAC
*
1659413 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1659431 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1659449 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1660690 original size:24 final size:24
Alignment explanation
Indices: 1660591--1660690 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
1660581 ATATTTTATC
* *
1660591 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
1660615 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
1660639 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
1660663 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
1660687 TGAT
1 TGAT
1660691 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:1660864 original size:2 final size:2
Alignment explanation
Indices: 1660857--1660881 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1660847 GGGATGGGGG
1660857 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
1660882 GTTTTAAAAA
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:1662850 original size:13 final size:13
Alignment explanation
Indices: 1662831--1662888 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
1662821 GTCACAACCC
1662831 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1662844 TACCCGACCCGTT
1 GACCCGACCCGTT
1662857 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1662870 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
1662885 GACC
1 GACC
1662889 GTTGACCGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1662860 original size:8 final size:8
Alignment explanation
Indices: 1662849--1662895 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
1662839 CCGTTTACCC
1662849 GACCCGTT
1 GACCCGTT
1662857 GACCC---
1 GACCCGTT
1662862 GACCCGTT
1 GACCCGTT
1662870 GA-CCGTT
1 GACCCGTT
1662877 GACCCGTT
1 GACCCGTT
1662885 GA-CCGTT
1 GACCCGTT
1662892 GACC
1 GACC
1662896 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:1662877 original size:7 final size:7
Alignment explanation
Indices: 1662865--1662896 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1662855 TTGACCCGAC
1662865 CCGTTGA
1 CCGTTGA
1662872 CCGTTGA
1 CCGTTGA
1662879 CCCGTTGA
1 -CCGTTGA
1662887 CCGTTGA
1 CCGTTGA
1662894 CCG
1 CCG
1662897 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1662882 original size:15 final size:15
Alignment explanation
Indices: 1662849--1662895 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1662839 CCGTTTACCC
*
1662849 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
1662862 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1662877 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1662892 GACC
1 GACC
1662896 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1664231 original size:18 final size:18
Alignment explanation
Indices: 1664205--1664240 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1664195 TCGAAAGGAC
*
1664205 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1664223 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1664241 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1665481 original size:24 final size:24
Alignment explanation
Indices: 1665382--1665481 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
1665372 AATATTTATC
* *
1665382 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
1665406 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
1665430 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
1665454 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
1665478 TGAT
1 TGAT
1665482 TTTGATATCT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:1665654 original size:2 final size:2
Alignment explanation
Indices: 1665647--1665689 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1665637 GGGATGGGGG
1665647 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1665689 T
1 T
1665690 GTTTTAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1666440 original size:27 final size:28
Alignment explanation
Indices: 1666386--1666441 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
1666376 ACTTGGAGAT
* *
1666386 ATTTTAGGTCATTTTATACTTTAGGGGC
1 ATTTTAGGTCATTTTACACTTCAGGGGC
*
1666414 ATTTT-GGTCATTTTACACTTCATGGGC
1 ATTTTAGGTCATTTTACACTTCAGGGGC
1666441 A
1 A
1666442 ATTCTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (28 bp):
ATTTTAGGTCATTTTACACTTCAGGGGC
Found at i:1677667 original size:57 final size:57
Alignment explanation
Indices: 1677435--1677663 Score: 305
Period size: 57 Copynumber: 4.0 Consensus size: 57
1677425 TATAACCATA
* * * * * *
1677435 CAACCCCGTCACAAACAGTAAGGCCCTGAGCATAAAGCCAAGGAACTTGCAAGTAAT
1 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * * *
1677492 CAACCCCGTCACAAACAATAAGGCTCTAAACACAAAGTCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * *
1677549 CAACCCCGTCACGAACAGTAAGGCTCCCAGCACAAAGCCGAGGAACCTACAAGTATT
1 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
** * *
1677606 CTTCCCCATCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1677663 C
1 C
1677664 TTCCTCCAAC
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 151 1.00
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (57 bp):
CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:1683257 original size:16 final size:16
Alignment explanation
Indices: 1683238--1683278 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1683228 AAGTGGTAAA
*
1683238 CTATATATTTGGTCAC
1 CTATCTATTTGGTCAC
1683254 CTATCTATTTGGTCAC
1 CTATCTATTTGGTCAC
1683270 CTATCTATT
1 CTATCTATT
1683279 ACTTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (16 bp):
CTATCTATTTGGTCAC
Found at i:1684491 original size:16 final size:18
Alignment explanation
Indices: 1684466--1684498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1684456 ATAATCAAAG
1684466 TAAAACATATCA-ATATT
1 TAAAACATATCACATATT
1684483 TAAAA-ATATCACATAT
1 TAAAACATATCACATAT
1684499 AATAATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAACATATCACATATT
Found at i:1689569 original size:17 final size:17
Alignment explanation
Indices: 1689512--1689572 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
1689502 TGTAAATATC
1689512 GATACTGATAGGGTATT
1 GATACTGATAGGGTATT
*
1689529 GATACCT-ATGCAAGTGGTAAT
1 GATA-CTGAT---AG-GGTATT
1689550 GATACTGATAGGGTATT
1 GATACTGATAGGGTATT
1689567 GATACT
1 GATACT
1689573 AACAAGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
20 4 0.11
21 11 0.31
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (17 bp):
GATACTGATAGGGTATT
Found at i:1690189 original size:46 final size:46
Alignment explanation
Indices: 1690118--1690209 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
1690108 AATATGTTAT
* * *
1690118 CATTAAGGCATGAAAGGATGTCATAACTAAAATTCATGAAATGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1690164 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1690210 TCATAACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
Found at i:1690242 original size:72 final size:71
Alignment explanation
Indices: 1690125--1690406 Score: 280
Period size: 72 Copynumber: 4.0 Consensus size: 71
1690115 TATCATTAAG
* *
1690125 GCATGAAAGGATGTCATAACTAAAATTCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGTCATAACT-AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1690190 CTAAAAT
65 CTAAAAT
1690197 GCATGAAAGGATGTCATAACTAATATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGTCATAACTAA-ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
1690262 TTAAAAT
65 CTAAAAT
* * * **
1690269 TCATGAAAGGATG-GAT---TAAA-GCATGAAAAGATGCCATAACTAAAATTCATGAAAGGATG-
1 GCATGAAAGGATGTCATAACTAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGC
*
1690328 CAT---T--AAG
60 CATAACTAAAAT
* * * * *
1690335 GAATGAAAGGATGCCATAACTTAAATGAATGAAAGGATGCATTAAGGCATGCAAGGATGCCACAA
1 GCATGAAAGGATGTCATAAC-TAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1690400 CTAAAAT
65 CTAAAAT
1690407 TAACGAATAA
Statistics
Matches: 172, Mismatches: 19, Indels: 38
0.75 0.08 0.17
Matches are distributed among these distances:
66 38 0.22
67 8 0.05
68 5 0.03
70 2 0.01
71 14 0.08
72 105 0.61
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.22
Consensus pattern (71 bp):
GCATGAAAGGATGTCATAACTAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAC
TAAAAT
Found at i:1690248 original size:46 final size:46
Alignment explanation
Indices: 1690197--1690406 Score: 303
Period size: 46 Copynumber: 4.6 Consensus size: 46
1690187 TAACTAAAAT
* *
1690197 GCATGAAAGGATGTCATAACTAATATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* * * *
1690243 GCATGAAAGGATGCCATAATTAAAATTCATGAAAGGATGGATTAAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* *
1690289 GCATGAAAAGATGCCATAACTAAAATTCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* * *
1690335 GAATGAAAGGATGCCATAACTTAAATGAATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* *
1690381 GCATGCAAGGATGCCACAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
1690407 TAACGAATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 145 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
Found at i:1690365 original size:26 final size:25
Alignment explanation
Indices: 1690125--1690374 Score: 153
Period size: 26 Copynumber: 10.6 Consensus size: 25
1690115 TATCATTAAG
* *
1690125 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-TTAAAT
* * *
1690151 TCATGAAATGATG-C---ATT-AAG
1 GCATGAAAGGATGCCATAATTAAAT
*
1690171 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-TTAAAT
* *
1690197 GCATGAAAGGATGTCATAACTAATAT
1 GCATGAAAGGATGCCATAATTAA-AT
*
1690223 GCATGAAAGGATG-C---ATT-AAG
1 GCATGAAAGGATGCCATAATTAAAT
1690243 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATT-AAAT
* *
1690269 TCATGAAAGGATG----GATTAAA-
1 GCATGAAAGGATGCCATAATTAAAT
* *
1690289 GCATGAAAAGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-TTAAAT
* *
1690315 TCATGAAAGGATG-C---ATT-AAG
1 GCATGAAAGGATGCCATAATTAAAT
*
1690335 GAATGAAAGGATGCCATAACTTAAAT
1 GCATGAAAGGATGCCATAA-TTAAAT
*
1690361 GAATGAAAGGATGC
1 GCATGAAAGGATGC
1690375 ATTAAGGCAT
Statistics
Matches: 172, Mismatches: 27, Indels: 50
0.69 0.11 0.20
Matches are distributed among these distances:
20 51 0.30
21 9 0.05
22 7 0.04
24 6 0.03
25 12 0.07
26 87 0.51
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (25 bp):
GCATGAAAGGATGCCATAATTAAAT
Found at i:1690374 original size:118 final size:116
Alignment explanation
Indices: 1690118--1690348 Score: 317
Period size: 118 Copynumber: 2.0 Consensus size: 116
1690108 AATATGTTAT
* * * * *
1690118 CATTAAGGCATGAAAGGATGTCATAACTAAAATTCATGAAATGATGCATTAAGGCATGAAAGGAT
1 CATTAAGGAATGAAAGGATGCCATAACTAAAATTCATGAAAGGATGCATTAAAGCATGAAAAGAT
* *
1690183 GCCATAACTAAAATGCATGAAAGGATGTCATAACTAATATGCATGAAAGGATG
66 GCCATAACTAAAATGCATGAAAGGATGTCAT-A-TAATAGGAATGAAAGGATG
* * *
1690236 CATTAAGGCATGAAAGGATGCCATAATTAAAATTCATGAAAGGATGGATTAAAGCATGAAAAGAT
1 CATTAAGGAATGAAAGGATGCCATAACTAAAATTCATGAAAGGATGCATTAAAGCATGAAAAGAT
*
1690301 GCCATAACTAAAATTCATGAAAGGATG-CAT-T-A-AGGAATGAAAGGATG
66 GCCATAACTAAAATGCATGAAAGGATGTCATATAATAGGAATGAAAGGATG
1690348 C
1 C
1690349 CATAACTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
112 14 0.13
113 1 0.01
114 1 0.01
117 3 0.03
118 85 0.82
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (116 bp):
CATTAAGGAATGAAAGGATGCCATAACTAAAATTCATGAAAGGATGCATTAAAGCATGAAAAGAT
GCCATAACTAAAATGCATGAAAGGATGTCATATAATAGGAATGAAAGGATG
Found at i:1698179 original size:21 final size:21
Alignment explanation
Indices: 1698155--1698202 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1698145 TAATTCGGAT
*
1698155 AATTTTTTAAATTTTGGCCTA
1 AATTCTTTAAATTTTGGCCTA
1698176 AATTCTTTAAATTTTGGCCTA
1 AATTCTTTAAATTTTGGCCTA
1698197 AATTCT
1 AATTCT
1698203 AATTTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (21 bp):
AATTCTTTAAATTTTGGCCTA
Found at i:1703045 original size:13 final size:13
Alignment explanation
Indices: 1703027--1703052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1703017 ACATATTTGA
1703027 ACAGTCTTCATAT
1 ACAGTCTTCATAT
1703040 ACAGTCTTCATAT
1 ACAGTCTTCATAT
1703053 GTGCGTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ACAGTCTTCATAT
Found at i:1719169 original size:42 final size:43
Alignment explanation
Indices: 1719086--1719171 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
1719076 CCCATGAAGG
* * * *
1719086 CATCCAAAAAAATAAAGACTAGATTAGACCCATGAAGGGGAGT
1 CATCCAAAAAAATAAAGAATAGATTAGAACCACGAAAGGGAGT
*
1719129 CATCCAAAAAAATCAAGAAT-GACTTA-AACCACGAAAGGGAGT
1 CATCCAAAAAAATAAAGAATAGA-TTAGAACCACGAAAGGGAGT
1719171 C
1 C
1719172 GTCTCATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 16 0.43
43 21 0.57
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (43 bp):
CATCCAAAAAAATAAAGAATAGATTAGAACCACGAAAGGGAGT
Found at i:1722768 original size:14 final size:14
Alignment explanation
Indices: 1722749--1722780 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1722739 AAAAACATCA
1722749 TCAGGTTTGAGATT
1 TCAGGTTTGAGATT
1722763 TCAGGTTTGAGATT
1 TCAGGTTTGAGATT
1722777 TCAG
1 TCAG
1722781 CCCTCAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
TCAGGTTTGAGATT
Found at i:1731620 original size:3 final size:3
Alignment explanation
Indices: 1731605--1731778 Score: 298
Period size: 3 Copynumber: 58.0 Consensus size: 3
1731595 TGATTTTTCC
1731605 ATT ATT CATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1731651 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1731699 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1731747 ATT ATT CATT ATT ATT ATT A-A ATT -TT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
1731779 TCAGATCCAA
Statistics
Matches: 163, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
2 3 0.02
3 154 0.94
4 6 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1734187 original size:13 final size:13
Alignment explanation
Indices: 1734169--1734210 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
1734159 ACTCATAATA
1734169 TTTATTATATTTT
1 TTTATTATATTTT
1734182 TTTATTATTATTGTT
1 TTTATTA-TATT-TT
*
1734197 TTTATTTTATTTT
1 TTTATTATATTTT
1734210 T
1 T
1734211 AGATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 10 0.38
14 8 0.31
15 8 0.31
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTATTATATTTT
Found at i:1734189 original size:16 final size:15
Alignment explanation
Indices: 1734170--1734210 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1734160 CTCATAATAT
1734170 TTATTATATTTTTTTA
1 TTATTAT-TTTTTTTA
*
1734186 TTATTATTGTTTTTA
1 TTATTATTTTTTTTA
1734201 TT-TTATTTTT
1 TTATTATTTTT
1734211 AGATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 7 0.30
15 9 0.39
16 7 0.30
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTATTATTTTTTTTA
Found at i:1735826 original size:14 final size:14
Alignment explanation
Indices: 1735807--1735837 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1735797 TTTGTATTTA
*
1735807 CATTTTCATTTTTG
1 CATTTTCATCTTTG
1735821 CATTTTCATCTTTG
1 CATTTTCATCTTTG
1735835 CAT
1 CAT
1735838 AATTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (14 bp):
CATTTTCATCTTTG
Found at i:1738220 original size:71 final size:72
Alignment explanation
Indices: 1738123--1738257 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 72
1738113 ATACAATAAA
* *
1738123 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCATGGCTTTATGGATAATATTCAACTAAT
1738188 ATGTTAT
66 ATGTTAT
*
1738195 GCTTGAGTTAT-CCCCTAAAGCAATTGGTTAATCGCCATGGCTTTATGGATAATATTCAACTAA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCATGGCTTTATGGATAATATTCAACTAA
1738258 CTTATTATAC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
71 49 0.82
72 11 0.18
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCATGGCTTTATGGATAATATTCAACTAAT
ATGTTAT
Found at i:1741403 original size:76 final size:75
Alignment explanation
Indices: 1741251--1741404 Score: 191
Period size: 76 Copynumber: 2.0 Consensus size: 75
1741241 AAATGATGGA
* * * * *
1741251 GCATGCTGAAAGCCCATTTCAATCAAAATCAGGAATATTGACACATTTTGAACGTTTGTATTAGC
1 GCATGCTGAAAGCCCATTTCAATCAAAAACAGGAATATTGACACATTTTGAACATTCGTATCAAC
* *
1741316 CAATGTTGGG
66 AAATGTCGGG
* * ***
1741326 GCATGCTGAAAGCCCCTTTCAATCAAGAAACATGAATATTGGTGCATTTTGAACATTCGTATCAA
1 GCATGCTGAAAGCCCATTTCAATCAA-AAACAGGAATATTGACACATTTTGAACATTCGTATCAA
1741391 CAAATGTCGGG
65 CAAATGTCGGG
1741402 GCA
1 GCA
1741405 CGCTAGGTCC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 25 0.38
76 41 0.62
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (75 bp):
GCATGCTGAAAGCCCATTTCAATCAAAAACAGGAATATTGACACATTTTGAACATTCGTATCAAC
AAATGTCGGG
Found at i:1742653 original size:22 final size:22
Alignment explanation
Indices: 1742628--1742706 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
1742618 ACATATACAT
*
1742628 TCTTCAAATATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1742650 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1742672 TCTTCAAAGATGATAAATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1742694 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1742707 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1743466 original size:36 final size:35
Alignment explanation
Indices: 1743426--1743612 Score: 126
Period size: 36 Copynumber: 5.1 Consensus size: 35
1743416 GTTTTTCTTA
1743426 AAACAAATTGCGTCTCGCTTGAGACAGTTTCACTCG
1 AAACAAATT-CGTCTCGCTTGAGACAGTTTCACTCG
* * ** ** **
1743462 AAACAACAAGTT-ATCTCACTTGAGATTGTTTTTCTTA
1 AAAC-A-AA-TTCGTCTCGCTTGAGACAGTTTCACTCG
1743499 AAACAAATTGCGTCTCGCTTGAGACAGTTTCACTCG
1 AAACAAATT-CGTCTCGCTTGAGACAGTTTCACTCG
** * ** * **
1743535 AAACAATAATTTATCTCACTTGAGATTGCTTT-TCTTA
1 AAAC-A-AATTCGTCTCGCTTGAGACAG-TTTCACTCG
*
1743572 AAACAAGATTCGTCTCGCTTGAGACAGTTTCACTAG
1 AAACAA-ATTCGTCTCGCTTGAGACAGTTTCACTCG
1743608 AAACA
1 AAACA
1743613 GAAATTTCCA
Statistics
Matches: 109, Mismatches: 32, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
34 2 0.02
35 6 0.06
36 49 0.45
37 41 0.38
38 9 0.08
39 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (35 bp):
AAACAAATTCGTCTCGCTTGAGACAGTTTCACTCG
Found at i:1743485 original size:37 final size:37
Alignment explanation
Indices: 1743438--1743559 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 37
1743428 ACAAATTGCG
* *
1743438 TCTCGCTTGAGACAGTTTCACTCGAAACAACAAGTTA
1 TCTCACTTGAGACAGTTTCACTCGAAACAACAAATTA
** * ** *
1743475 TCTCACTTGAGATTGTTT--TTCTTAA-AACAAATTGCG
1 TCTCACTTGAGACAGTTTCACTCGAAACAACAAATT--A
* * *
1743511 TCTCGCTTGAGACAGTTTCACTCGAAACAATAATTTA
1 TCTCACTTGAGACAGTTTCACTCGAAACAACAAATTA
1743548 TCTCACTTGAGA
1 TCTCACTTGAGA
1743560 TTGCTTTTCT
Statistics
Matches: 62, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
34 7 0.11
35 4 0.06
36 15 0.24
37 26 0.42
38 4 0.06
39 6 0.10
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (37 bp):
TCTCACTTGAGACAGTTTCACTCGAAACAACAAATTA
Found at i:1743619 original size:73 final size:73
Alignment explanation
Indices: 1743393--1743612 Score: 388
Period size: 73 Copynumber: 3.0 Consensus size: 73
1743383 TTTTTCAAAT
1743393 AACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGCGTCTCGCTTGAGACAGTTTCA
1 AACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGCGTCTCGCTTGAGACAGTTTCA
1743458 CTCGAAAC
66 CTCGAAAC
*
1743466 AACAAGTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGCGTCTCGCTTGAGACAGTTTCA
1 AACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGCGTCTCGCTTGAGACAGTTTCA
1743531 CTCGAAAC
66 CTCGAAAC
* *
1743539 AATAATTTATCTCACTTGAGATTGCTTTTCTTAAAACAAGATT-CGTCTCGCTTGAGACAGTTTC
1 AACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-ATTGCGTCTCGCTTGAGACAGTTTC
*
1743603 ACTAGAAAC
65 ACTCGAAAC
1743612 A
1 A
1743613 GAAATTTCCA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
73 138 0.98
74 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (73 bp):
AACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGCGTCTCGCTTGAGACAGTTTCA
CTCGAAAC
Found at i:1743856 original size:123 final size:123
Alignment explanation
Indices: 1743634--1743967 Score: 528
Period size: 123 Copynumber: 2.7 Consensus size: 123
1743624 CACTCGATGG
*
1743634 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
* * *
1743699 ATTAGAAGAACTTTTTCAACCTTTTGCTATATTCTATCACAGAAAGAGATAGATTAGC
66 ATAAGAAGAACTTGTTCAACCTTTTGCTATATTCTATCACAGAAAGAGATAGATCAGC
*
1743757 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
* *
1743822 ATAAGAAGAACTTGTTCAACCTTTTTCTCA-ATTCTATCACAGAAGGAGATAGATCAGC
66 ATAAGAAGAACTTGTTCAACCTTTTGCT-ATATTCTATCACAGAAAGAGATAGATCAGC
* *
1743880 ATCAACATTTCAAGATGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA-AAAGAAGTTCAT
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAA-AAGTTCAT
* * *
1743944 AATGAGAATAACTTGTTCGACCTT
65 AATAAGAAGAACTTGTTCAACCTT
1743968 AGCTGGATTC
Statistics
Matches: 196, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 3 0.02
123 192 0.98
124 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (123 bp):
ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
ATAAGAAGAACTTGTTCAACCTTTTGCTATATTCTATCACAGAAAGAGATAGATCAGC
Found at i:1744061 original size:137 final size:136
Alignment explanation
Indices: 1743880--1744241 Score: 426
Period size: 137 Copynumber: 2.6 Consensus size: 136
1743870 ATAGATCAGC
* *
1743880 ATCAACA-TTTCAAGATGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCAT
1 ATCAACATTTTC-AGA-GGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * * *
1743944 AATGAGAATAACTTGTTCGACCTTAG-CTGGATTCATCATC-TATGGAGTTGAATGAAAGAAGAA
64 AATGAAAAGAACTTGTTCAACCTT-GCCTGAATTCATCA-CATATGAAGTTGAATCAAAG-A-AA
1744007 CCTCCCTGGAGG
125 CCTCCCTGGAGG
1744019 ATCAACATTTTCAGA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTTCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * **
1744083 TGAAAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGTTGAATCAACGACACCTCTT
66 TGAAAAGAACTTGTTCAACCTTGCCTGAATTCATCACATATGAAGTTGAATCAAAGAAACCTCCC
*
1744148 TTGAGG
131 TGGAGG
** * * *
1744154 ATCAGTATTTCCAGAAGGAGTTCACAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTTCAG-AGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*** *
1744219 ATCTGAAGAACTTATTCAACCTT
65 ATGAAAAGAACTTGTTCAACCTT
1744242 TTACTCGACT
Statistics
Matches: 195, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
135 21 0.11
136 4 0.02
137 156 0.80
139 10 0.05
140 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (136 bp):
ATCAACATTTTCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAAAAGAACTTGTTCAACCTTGCCTGAATTCATCACATATGAAGTTGAATCAAAGAAACCTCCC
TGGAGG
Found at i:1744570 original size:16 final size:16
Alignment explanation
Indices: 1744549--1744591 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
1744539 TTAGCATTTG
1744549 CCAGTAGCTTCACATT
1 CCAGTAGCTTCACATT
1744565 CCAGTAGCTTCACATT
1 CCAGTAGCTTCACATT
1744581 CCAGTAGCTTC
1 CCAGTAGCTTC
1744592 TAACAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (16 bp):
CCAGTAGCTTCACATT
Found at i:1746370 original size:11 final size:11
Alignment explanation
Indices: 1746344--1746378 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1746334 ATATCTAAAT
*
1746344 TATTACTTTTAT
1 TATTA-TTTTAG
1746356 TATTATTTTAG
1 TATTATTTTAG
1746367 TATTATTTTAG
1 TATTATTTTAG
1746378 T
1 T
1746379 CATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTATTTTAG
Found at i:1763765 original size:23 final size:24
Alignment explanation
Indices: 1763728--1763808 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
1763718 ATTCTGTTAG
*
1763728 GATACTTGACCTGGATTCTGATCT
1 GATACTTGACATGGATTCTGATCT
1763752 GATA-TTGACATGGATTCTGATCT
1 GATACTTGACATGGATTCTGATCT
* * *
1763775 GATACATGACTTGGATTCTGATAT
1 GATACTTGACATGGATTCTGATCT
1763799 GATACTTGAC
1 GATACTTGAC
1763809 TTGAATTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 22 0.43
24 29 0.57
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (24 bp):
GATACTTGACATGGATTCTGATCT
Found at i:1763809 original size:24 final size:24
Alignment explanation
Indices: 1763718--1763811 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
1763708 TCTGAATTGA
* * *
1763718 ATTCTGTTAGGATACTTGACCTGG
1 ATTCTGATATGATACTTGACTTGG
* *
1763742 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACTTGG
* *
1763765 ATTCTGATCTGATACATGACTTGG
1 ATTCTGATATGATACTTGACTTGG
1763789 ATTCTGATATGATACTTGACTTG
1 ATTCTGATATGATACTTGACTTG
1763812 AATTATGTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 22 0.36
24 39 0.64
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACTTGG
Found at i:1763825 original size:24 final size:24
Alignment explanation
Indices: 1763769--1763818 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1763759 ACATGGATTC
* * *
1763769 TGATCTGATACATGACTTGGATTC
1 TGATATGATACATGACTTGAATTA
*
1763793 TGATATGATACTTGACTTGAATTA
1 TGATATGATACATGACTTGAATTA
1763817 TG
1 TG
1763819 TTTTGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (24 bp):
TGATATGATACATGACTTGAATTA
Found at i:1768362 original size:17 final size:17
Alignment explanation
Indices: 1768342--1768400 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1768332 TTTAGGGAAG
1768342 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1768359 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1768375 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
1768392 TAGTTCATT
1 TAGTTCATT
1768401 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1768414 original size:18 final size:18
Alignment explanation
Indices: 1768391--1768436 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1768381 ATTCATGCAT
1768391 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
1768409 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
1768427 TTATTTCATT
1 TTAGTTCATT
1768437 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:1770951 original size:3 final size:3
Alignment explanation
Indices: 1770943--1770976 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1770933 CCGACCTGTT
1770943 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1770977 CATACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1771163 original size:24 final size:24
Alignment explanation
Indices: 1771136--1771183 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1771126 GCCCAGATTG
1771136 GAAGGAAACTAGGATTTCCAATCC
1 GAAGGAAACTAGGATTTCCAATCC
1771160 GAAGGAAACTAGGATTTCCAATCC
1 GAAGGAAACTAGGATTTCCAATCC
1771184 CTATTGTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
GAAGGAAACTAGGATTTCCAATCC
Found at i:1775989 original size:33 final size:33
Alignment explanation
Indices: 1775942--1776034 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
1775932 AACTCAGCAT
* *
1775942 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1775975 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1776008 AATTCAAATACTTAAAAACTT-CAAGTT
1 AATTCAAATACTTAAAAACTTCCAAGTT
1776035 CGTTAATTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 6 0.10
33 52 0.90
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTTGATA
Found at i:1780137 original size:101 final size:102
Alignment explanation
Indices: 1779953--1780137 Score: 221
Period size: 101 Copynumber: 1.8 Consensus size: 102
1779943 ACAAGTTGGT
* * * ** * *
1779953 AATTGAATGCCTTCCTCTTGAACTTGAAGGCATCGTGTCATACGGGTTTTGAACTGAGTACTGTG
1 AATTGAATGCCTTCCCCTCGAACTTGAAGGCATCGTGTCAAACGGGTACTAAACAGAGTACTGTG
* *
1780018 TCGCATGCATCTCAATATTGAGGTCGAAGAAACTCGC
66 TCGCAGGCATCCCAATATTGAGGTCGAAGAAACTCGC
* * **
1780055 AATTGAATGCC-TCCCCTCGAACTTGAAGGCATCGTGTCAAATGGGTACTAAACAGATTGTTGTG
1 AATTGAATGCCTTCCCCTCGAACTTGAAGGCATCGTGTCAAACGGGTACTAAACAGAGTACTGTG
*
1780119 TCG-AGGGCATCCCCATATT
66 TCGCA-GGCATCCCAATATT
1780138 CAAGTCAAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
100 1 0.01
101 56 0.82
102 11 0.16
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (102 bp):
AATTGAATGCCTTCCCCTCGAACTTGAAGGCATCGTGTCAAACGGGTACTAAACAGAGTACTGTG
TCGCAGGCATCCCAATATTGAGGTCGAAGAAACTCGC
Found at i:1785869 original size:29 final size:29
Alignment explanation
Indices: 1785837--1785916 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
1785827 GATGCATTTA
* *
1785837 TGATTTTGCATGAGATTATATCCCCATCC
1 TGATTCTGCATGGGATTATATCCCCATCC
**
1785866 TGATTCTGCATGGGATTATATCTTCATCC
1 TGATTCTGCATGGGATTATATCCCCATCC
* *
1785895 TAATTCTACATGGGATTATATC
1 TGATTCTGCATGGGATTATATC
1785917 ATGTTTTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (29 bp):
TGATTCTGCATGGGATTATATCCCCATCC
Found at i:1788661 original size:64 final size:67
Alignment explanation
Indices: 1788513--1788703 Score: 191
Period size: 64 Copynumber: 2.9 Consensus size: 67
1788503 GTAGGATCAT
* * * * * *
1788513 TATT-TTTTGAATATATCAAATTAAAAGTATTTATTATC-TA-TTTAACTTTAAATATTAAAGAT
1 TATTCTTTTGAATATTTCAAATTAAAAG-A--TAATATCATAGTTTAAATTTGAATATAAAAGGT
*
1788575 AAT-TA
63 -GTCTA
*
1788580 TATTCTTTTGAATATTTCAAATTAAAA-ATAATATCA-A-TTTAAGTTTGAATAGTAAAAGGTGT
1 TATTCTTTTGAATATTTCAAATTAAAAGATAATATCATAGTTTAAATTTGAATA-TAAAAGGTGT
1788642 CTA
65 CTA
*
1788645 TA-TCTTTTGAATATTTCAAATTAAAAGATATTATCATATGTTTAAATTTGAATATAAAA
1 TATTCTTTTGAATATTTCAAATTAAAAGATAATATCATA-GTTTAAATTTGAATATAAAA
1788704 AGATAATTGG
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
64 44 0.41
65 18 0.17
66 2 0.02
67 9 0.08
68 34 0.32
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (67 bp):
TATTCTTTTGAATATTTCAAATTAAAAGATAATATCATAGTTTAAATTTGAATATAAAAGGTGTC
TA
Found at i:1793593 original size:24 final size:24
Alignment explanation
Indices: 1793471--1793586 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
1793461 TTCGAATTGA
1793471 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
1793495 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
1793519 ATTCTGATCTAATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1793543 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
1793566 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
1793587 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1796500 original size:3 final size:3
Alignment explanation
Indices: 1796494--1796610 Score: 60
Period size: 3 Copynumber: 37.0 Consensus size: 3
1796484 AATATAGTAG
* * *
1796494 TAA TAA TAA TAAA TAA TAA TAT TAA -AA TAAA TAA TAA TATT TAA TCA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TAA TAA
** * * *
1796541 TGG TAA TTAA -AA TTAA TAA TAG TAG TAA TAA TTAA TAA TAG TAA TTAA
1 TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA
1796589 -AA TTAA TAA TAA TAA TTAA TAA
1 TAA -TAA TAA TAA TAA -TAA TAA
1796611 ACTTATACAT
Statistics
Matches: 89, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
2 6 0.07
3 59 0.66
4 24 0.27
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1796538 original size:10 final size:10
Alignment explanation
Indices: 1796495--1796532 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1796485 ATATAGTAGT
1796495 AATAATAATA
1 AATAATAATA
1796505 AATAATAAT-
1 AATAATAATA
*
1796514 ATTAA-AATA
1 AATAATAATA
1796523 AATAATAATA
1 AATAATAATA
1796533 TTTAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 3 0.12
9 8 0.33
10 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAATAATA
Found at i:1796556 original size:19 final size:19
Alignment explanation
Indices: 1796543--1796607 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
1796533 TTTAATCATG
1796543 GTAATTAAAATTAATAATA
1 GTAATTAAAATTAATAATA
*
1796562 GT-AGTAATAATTAATAATA
1 GTAATTAA-AATTAATAATA
1796581 GTAATTAAAATTAATAATA
1 GTAATTAAAATTAATAATA
*
1796600 ATAATTAA
1 GTAATTAA
1796608 TAAACTTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 4 0.10
19 33 0.80
20 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
GTAATTAAAATTAATAATA
Found at i:1796559 original size:32 final size:32
Alignment explanation
Indices: 1796494--1796610 Score: 110
Period size: 38 Copynumber: 3.5 Consensus size: 32
1796484 AATATAGTAG
* * * *
1796494 TAATAATAATAAATAATAAT-ATTAAAATAAA
1 TAATAATATTTAATAATAGTAATTAAAATTAA
* *
1796525 TAATAATATTTAATCATGGTAATTAAAATTAA
1 TAATAATATTTAATAATAGTAATTAAAATTAA
1796557 TAATAGTAGTAATAATTAATAATAGTAATTAAAATTAA
1 TAATA--A-T-AT--TTAATAATAGTAATTAAAATTAA
*
1796595 TAATAATAATTAATAA
1 TAATAATATTTAATAA
1796611 ACTTATACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
31 15 0.21
32 22 0.31
34 2 0.03
35 2 0.03
36 3 0.04
38 26 0.37
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (32 bp):
TAATAATATTTAATAATAGTAATTAAAATTAA
Found at i:1797233 original size:20 final size:21
Alignment explanation
Indices: 1797189--1797237 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1797179 TAACATAGGG
* *
1797189 AAAAAAAGAGCAACTTTACATT
1 AAAAAAA-CGCAACTTAACATT
1797211 AAAAAAACGCAACTTAACA-T
1 AAAAAAACGCAACTTAACATT
1797231 AAAAAAA
1 AAAAAAA
1797238 TCCACCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 10 0.40
22 7 0.28
ACGTcount: A:0.63, C:0.14, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAAAAACGCAACTTAACATT
Found at i:1798601 original size:95 final size:95
Alignment explanation
Indices: 1798472--1798695 Score: 326
Period size: 95 Copynumber: 2.4 Consensus size: 95
1798462 ATAACGATGA
*
1798472 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTAAAGTTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTAAAATTGGTATCGA
*
1798537 T-GTCGGAAAGGGGTATCGATACCATAGTAT
66 TACT-GGAAAGGGGTATCGATACCATAGTAT
* * *
1798567 GGTAGTATCGATACCACT-GTAAGGGTATCAATACCAGGTAACATCGAATCTAAAATTGGTATCG
1 GGTAGTATCGATACCA-TGGTAAGGGTATCGATACCAGGAAACATCGAACCTAAAATTGGTATCG
* * *
1798631 ATACTGGAAGGGGGTATCGGTACCATCGTAT
65 ATACTGGAAAGGGGTATCGATACCATAGTAT
* *
1798662 AGTAGTATCGATACCATGGTATGGGTATCGATAC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
1798696 TGAAGAACCA
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
94 1 0.01
95 112 0.97
96 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTAAAATTGGTATCGA
TACTGGAAAGGGGTATCGATACCATAGTAT
Found at i:1798691 original size:20 final size:21
Alignment explanation
Indices: 1798642--1798695 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
1798632 TACTGGAAGG
*
1798642 GGGTATCGGTACCATCGTATA
1 GGGTATCGATACCATCGTATA
* *
1798663 GTAGTATCGATACCATGGTAT-
1 G-GGTATCGATACCATCGTATA
1798684 GGGTATCGATAC
1 GGGTATCGATAC
1798696 TGAAGAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
GGGTATCGATACCATCGTATA
Found at i:1799082 original size:54 final size:54
Alignment explanation
Indices: 1799022--1799465 Score: 561
Period size: 54 Copynumber: 8.2 Consensus size: 54
1799012 CCAAATAGGT
*
1799022 ACTAAGTGTGCATTTCACGTAATTCATCCTATGTGGATGAATAACCGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* *
1799076 ACTAAGTATGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
*** *
1799130 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGAATGAATAGTTGTTTCGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGG-ATGAATAACCGTTTCGAC
* * * * *
1799185 ACAAAGTGTGCATTTCACGAAATTCATCTTATGTGGATGAATAATCGTTTCAAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
*
1799239 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTC-AGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA-C
* * *
1799293 ACTATAG-GTGCATTTCACGGAATTCTTCCTATGTGGAATGAATAGCCGTTTCGGC
1 ACTA-AGTGTGCATTTCACGGAATTCATCCTATGTGG-ATGAATAACCGTTTCGAC
* * * * * *
1799348 ACTAGGTGTGTATTTCACGAAATTCATCATATGTGGATGAATAATCTTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * * ** *
1799402 ATTATAG-GTGCATTTCATGGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGC
1 ACTA-AGTGTGCATTTCACGGAATTCATCCTATGTGG-ATGAATAACCGTTTCGAC
1799457 ACTAAGTGT
1 ACTAAGTGT
1799466 TCATCCTATG
Statistics
Matches: 338, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.00
54 223 0.66
55 114 0.34
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (54 bp):
ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
Found at i:1799218 original size:109 final size:108
Alignment explanation
Indices: 1799022--1799708 Score: 660
Period size: 109 Copynumber: 6.4 Consensus size: 108
1799012 CCAAATAGGT
* * * *
1799022 ACTAAGTGTGCATTTCACGTAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTATGC
1 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGACACAAAG-GTGC
1799087 ATTTCACGAAATTCATCCTATGTGG-ATGAATAACCGTTTCGAC
65 ATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
* *** *
1799130 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGAATGAATAGTTGTTTCGGCACAAAGTGTG
1 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGG-ATGAATAACCGTTTCGACACAAAG-GTG
* * *
1799195 CATTTCACGAAATTCATCTTATGTGG-ATGAATAATCGTTTCAAC
64 CATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
*
1799239 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTC-AGCACTATAGGTG
1 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGA-CAC-AAAGGTG
* * * *
1799303 CATTTCACGGAATTCTTCCTATGTGGAATGAATAGCCGTTTCGGC
64 CATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
* * * * * * *
1799348 ACTAGGTGTGTATTTCACGAAATTCATCATATGTGGATGAATAATCTTTTCGACATTATAGGTGC
1 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGACA-CAAAGGTGC
* * * ** *
1799413 ATTTCATGGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGC
65 ATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
* *
1799457 ACTAA--GTG---TT--C---A-TC--C-TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
1 ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGACACAAAG-GTGC
* * *
1799508 ATTTCACGGAATTCATCCTATGTAG-ATGAATAATCGTTTCGAC
65 ATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
* * * * ** * *
1799551 ACTATAG-GTGTATTTCACAGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTGT
1 ACTA-AGTGTGCATTTCACGGAATTCATCATATGTGG-ATGAATAACCGTTTCGACACAAAG-GT
* *
1799615 GCATTTCACGAAATTCATCCTACGTGG-ATGAATAACCGTTTTGAC
63 GCATTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
* * * * * *
1799660 ACAATAGT-TACATTTCACGAAATTCTTCCTATGTGGAATGAATGACCGT
1 ACTA-AGTGTGCATTTCACGGAATTCATCATATGTGG-ATGAATAACCGT
1799709 ATGGGCACTA
Statistics
Matches: 498, Mismatches: 58, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
94 22 0.04
95 50 0.10
96 4 0.01
98 2 0.00
99 3 0.01
101 1 0.00
102 1 0.00
104 3 0.01
105 2 0.00
107 4 0.01
108 83 0.17
109 322 0.65
110 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (108 bp):
ACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGACACAAAGGTGCA
TTTCACGAAATTCATCCTATGTGGAATGAATAACCGTTTCGAC
Found at i:1799306 original size:163 final size:163
Alignment explanation
Indices: 1799025--1799702 Score: 811
Period size: 163 Copynumber: 4.2 Consensus size: 163
1799015 AATAGGTACT
* * *
1799025 AAGTGTGCATTTCACGTAATTCATCCTATGTGGATGAATAACCGTTTCGACACTA-AGTATGCAT
1 AAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAATCGTTTCGACACTATAG-GTGCAT
* *
1799089 TTCACGAAATTCATCCTATGTGG-ATGAATAACCGTTTCGACACTAAGTGTGCATTTCACGGAAT
65 TTCACGGAATTCATCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAAT
***
1799153 TCATCCTATGTGGAATGAATAGTTGTTTCGGCACA
130 TCATCCTATGTGG-ATGAATAACCGTTTCGGCACA
* *
1799188 AAGTGTGCATTTCACGAAATTCATCTTATGTGGATGAATAATCGTTTCAACACTA-AGTGTGCAT
1 AAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAATCGTTTCGACACTATAG-GTGCAT
* *
1799252 TTCACGGAATTCATCATATGTGG-ATGAATAACCGTTTCAGCACTATAG-GTGCATTTCACGGAA
65 TTCACGGAATTCATCCTATGTGGAATGAATAACCGTTTCGGCACTA-AGTGTGCATTTCACGGAA
* * *
1799315 TTCTTCCTATGTGGAATGAATAGCCGTTTCGGCACT
129 TTCATCCTATGTGG-ATGAATAACCGTTTCGGCACA
* * * * *
1799351 AGGTGTGTATTTCACGAAATTCATCATATGTGGATGAATAATCTTTTCGACATTATAGGTGCATT
1 AAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAATCGTTTCGACACTATAGGTGCATT
* * **
1799416 TCATGGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAA----G----T----G--TT
66 TCACGGAATTCATCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATT
*
1799467 CATCCTATGTGGATGAATAACCGTTTCGGCACT
131 CATCCTATGTGGATGAATAACCGTTTCGGCACA
* * *
1799500 AAGTGTGCATTTCACGGAATTCATCCTATGTAGATGAATAATCGTTTCGACACTATAGGTGTATT
1 AAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAATCGTTTCGACACTATAGGTGCATT
* * ** *
1799565 TCACAGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTGTGCATTTCACGAAATT
66 TCACGGAATTCATCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATT
* * *
1799630 CATCCTACGTGGATGAATAACCGTTTTGACACA
131 CATCCTATGTGGATGAATAACCGTTTCGGCACA
* *
1799663 ATAGT-TACATTTCACGAAATTCTTCCTATGTGGAATGAAT
1 A-AGTGTGCATTTCACGAAATTCATCCTATGTGG-ATGAAT
1799703 GACCGTATGG
Statistics
Matches: 450, Mismatches: 46, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
149 121 0.27
150 13 0.03
152 1 0.00
153 1 0.00
156 1 0.00
157 1 0.00
160 1 0.00
163 279 0.62
164 32 0.07
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (163 bp):
AAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAATCGTTTCGACACTATAGGTGCATT
TCACGGAATTCATCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATT
CATCCTATGTGGATGAATAACCGTTTCGGCACA
Found at i:1799492 original size:40 final size:41
Alignment explanation
Indices: 1799428--1799505 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
1799418 ATGGAATTCT
**
1799428 TCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTGTTCA
1 TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTTCA
1799469 TCCTATGTGG-ATGAATAACCGTTTCGGCACTAAGTGT
1 TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGT
1799506 GCATTTCACG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 25 0.71
41 10 0.29
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTTCA
Found at i:1799600 original size:149 final size:150
Alignment explanation
Indices: 1799319--1799614 Score: 486
Period size: 149 Copynumber: 2.0 Consensus size: 150
1799309 ACGGAATTCT
* * * *
1799319 TCCTATGTGGAATGAATAGCCGTTTCGGCACTAGGTGTGTATTTCACGAAATTCATCATATGTGG
1 TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATATGTAG
* * **
1799384 ATGAATAATCTTTTCGACATTATAGGTGCATTTCATGGAATTCTTCCTATGTGGAATGAATAGTC
66 ATGAATAATCGTTTCGACACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAATAGTC
1799449 GTTTCGGCACTAAGTGTTCA
131 GTTTCGGCACTAAGTGTTCA
* *
1799469 TCCTATGTGG-ATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTAG
1 TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATATGTAG
*
1799533 ATGAATAATCGTTTCGACACTATAGGTGTATTTCACAGAATTCTTCCTATGTGGAATGAATAGTC
66 ATGAATAATCGTTTCGACACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAATAGTC
1799598 GTTTCGGCACTAAGTGT
131 GTTTCGGCACTAAGTGT
1799615 GCATTTCACG
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
149 125 0.93
150 10 0.07
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (150 bp):
TCCTATGTGGAATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATATGTAG
ATGAATAATCGTTTCGACACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAATAGTC
GTTTCGGCACTAAGTGTTCA
Found at i:1799621 original size:55 final size:55
Alignment explanation
Indices: 1799465--1799708 Score: 291
Period size: 54 Copynumber: 4.5 Consensus size: 55
1799455 GCACTAAGTG
* *
1799465 TTCATCCTATGTGGATGAATAACCGTTTCGGCACTA-AGTGTGCATTTCACGGAA
1 TTCATCCTATGTGGATGAATAACCGTTTCGACACTATAGTGTGCATTTCACGAAA
* * *
1799519 TTCATCCTATGTAGATGAATAATCGTTTCGACACTATAG-GTGTATTTCAC-AGAA
1 TTCATCCTATGTGGATGAATAACCGTTTCGACACTATAGTGTGCATTTCACGA-AA
* ** *
1799573 TTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTA-AGTGTGCATTTCACGAAA
1 TTCATCCTATGTGG-ATGAATAACCGTTTCGACACTATAGTGTGCATTTCACGAAA
* * * *
1799628 TTCATCCTACGTGGATGAATAACCGTTTTGACACAATAGT-TACATTTCACGAAA
1 TTCATCCTATGTGGATGAATAACCGTTTCGACACTATAGTGTGCATTTCACGAAA
* *
1799682 TTCTTCCTATGTGGAATGAATGACCGT
1 TTCATCCTATGTGG-ATGAATAACCGT
1799709 ATGGGCACTA
Statistics
Matches: 162, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
54 101 0.62
55 60 0.37
56 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TTCATCCTATGTGGATGAATAACCGTTTCGACACTATAGTGTGCATTTCACGAAA
Found at i:1799676 original size:258 final size:258
Alignment explanation
Indices: 1799207--1799702 Score: 771
Period size: 258 Copynumber: 1.9 Consensus size: 258
1799197 TTTCACGAAA
* *
1799207 TTCATCTTATGTGGATGAATAATCGTTTCAACACTAAGTGTGCATTTCACGGAATTCATCATATG
1 TTCATCCTATGTGGATGAATAACCGTTTCAACACTAAGTGTGCATTTCACGGAATTCATCATATG
* *
1799272 TGGATGAATAACCGTTTCAGCACTATAGGTGCATTTCACGGAATTCTTCCTATGTGGAATGAATA
66 TAGATGAATAACCGTTTCAGCACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAATA
* * * *
1799337 GCCGTTTCGGCACTAGGTGTGTATTTCACGAAATTCATCATATGTGGATGAATAATCTTTTCGAC
131 GCCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATACGTGGATGAATAACCTTTTCGAC
** * * *
1799402 ATTATAGGTGCATTTCATGGAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTG
196 ACAATAGGTACATTTCACGAAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTG
** *
1799465 TTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATG
1 TTCATCCTATGTGGATGAATAACCGTTTCAACACTAAGTGTGCATTTCACGGAATTCATCATATG
* *
1799530 TAGATGAATAATCGTTTC-GACACTATAGGTGTATTTCACAGAATTCTTCCTATGTGGAATGAAT
66 TAGATGAATAACCGTTTCAG-CACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAAT
* *
1799594 AGTCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACCGTTTT-G
130 AGCCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATACGTGGATGAATAACC-TTTTCG
*
1799658 ACACAATAGTTACATTTCACGAAATTCTTCCTATGTGGAATGAAT
194 ACACAATAGGTACATTTCACGAAATTCTTCCTATGTGGAATGAAT
1799703 GACCGTATGG
Statistics
Matches: 215, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
257 1 0.00
258 210 0.98
259 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (258 bp):
TTCATCCTATGTGGATGAATAACCGTTTCAACACTAAGTGTGCATTTCACGGAATTCATCATATG
TAGATGAATAACCGTTTCAGCACTATAGGTGCATTTCACAGAATTCTTCCTATGTGGAATGAATA
GCCGTTTCGGCACTAAGTGTGCATTTCACGAAATTCATCATACGTGGATGAATAACCTTTTCGAC
ACAATAGGTACATTTCACGAAATTCTTCCTATGTGGAATGAATAGTCGTTTCGGCACTAAGTG
Found at i:1805826 original size:20 final size:20
Alignment explanation
Indices: 1805803--1805934 Score: 70
Period size: 20 Copynumber: 6.9 Consensus size: 20
1805793 CGACGAGGTA
1805803 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
*
1805823 GTATCGATACCA-GGCAA--
1 GTATCGATACCATGGTAAGG
* * *
1805840 -CATCGA-ACCTATAGT--TG
1 GTATCGATACC-ATGGTAAGG
1805857 GTATCGATACC--GG-AAGGGG
1 GTATCGATACCATGGTAA--GG
* * *
1805876 GTATCGGTACCATAGTATGG
1 GTATCGATACCATGGTAAGG
*
1805896 TAGTATCGATATCATGGTAAGG
1 --GTATCGATACCATGGTAAGG
1805918 GTATCGATACCA-GGTAA
1 GTATCGATACCATGGTAA
1805935 CATCGAATCT
Statistics
Matches: 82, Mismatches: 15, Indels: 31
0.64 0.12 0.24
Matches are distributed among these distances:
15 3 0.04
16 7 0.09
17 1 0.01
18 5 0.06
19 23 0.28
20 25 0.30
21 1 0.01
22 17 0.21
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:1805925 original size:95 final size:95
Alignment explanation
Indices: 1805799--1806022 Score: 349
Period size: 95 Copynumber: 2.4 Consensus size: 95
1805789 ATACCGACGA
* *
1805799 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTATAGTTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGA
**
1805864 TACCGGAAGGGGGTATCGGTACCATAGTAT
66 TACCGGAAGGGGGTATCAATACCATAGTAT
* * *
1805894 GGTAGTATCGATATCATGGTAAGGGTATCGATACCAGGTAACATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGA
*
1805959 TACCGGAAGGGGGTATCAATACCATCGTAT
66 TACCGGAAGGGGGTATCAATACCATAGTAT
* * *
1805989 AGTAATATCGATACCATGGTATGGGTATCGATAC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
1806023 TGATGAGCCA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 117 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGA
TACCGGAAGGGGGTATCAATACCATAGTAT
Found at i:1806409 original size:54 final size:54
Alignment explanation
Indices: 1806349--1807069 Score: 866
Period size: 54 Copynumber: 13.3 Consensus size: 54
1806339 CCAAATAGGT
* * *
1806349 ACTAAGTGTGCATTTCATGTAATTCATCCTATGTGGATGAATAACCGTTTCGAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
1806403 ACTAAGTGTACATTTCACGAAATTCATTCTATGTGGATGAATAACCATTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
*
1806457 ACTAAGTGTGCATTTCAC-AGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGC
1 ACTAAGTGTGCATTTCACGA-AATTCATCCTATGTGG-ATGAATAACCGTTTCGGC
* * **
1806512 ACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGAATAATTGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* *
1806566 ACTAAGTGTGCATTTCGCGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
1806620 ACTATAG-GTGCATTTCAC-AGAATTCTTCTTATGTGGAATGAATAGA-CGTTTCGAC
1 ACTA-AGTGTGCATTTCACGA-AATTCATCCTATGTGG-ATGAATA-ACCGTTTCGGC
* ** * *
1806675 ACTAAGTGTGCATTTCACAAAATTCATCCTACATTGATGAATAGCCGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
*
1806729 ACTATAG-GTGCATTTCACGAAATTCATCCTATGTGGATCAATAACCGTTTCGGC
1 ACTA-AGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
** * ***
1806783 GTTAAGTGTGCATTTCACGGAATTCATCCTATGTGGAATGAATAGTTGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGG-ATGAATAACCGTTTCGGC
1806838 ACTAAGTGTGCATTTCAC-ATAATTCATCCTATGTGGATGAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCACGA-AATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * * ***
1806892 ACTATAG-GTGCATTTCAC-AGAATTCTTCCTATGTGGAATGAATAGCTGTTTAAAC
1 ACTA-AGTGTGCATTTCACGA-AATTCATCCTATGTGG-ATGAATAACCGTTTCGGC
* ** *
1806947 ACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAGTCGTTTCGAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
1807001 ACTATAG-GTGCATTTTACGAAATTCTTCCTATGTGGAATGAATAACTGTTTCGGC
1 ACTA-AGTGTGCATTTCACGAAATTCATCCTATGTGG-ATGAATAACCGTTTCGGC
* *
1807056 ACTACGGGTGCATT
1 ACTAAGTGTGCATT
1807070 ACAAAGATTT
Statistics
Matches: 575, Mismatches: 71, Indels: 41
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.01
54 358 0.62
55 211 0.37
56 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (54 bp):
ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
Found at i:1806544 original size:109 final size:109
Alignment explanation
Indices: 1806349--1807069 Score: 899
Period size: 109 Copynumber: 6.6 Consensus size: 109
1806339 CCAAATAGGT
* * *
1806349 ACTAAGTGTGCATTTCA-TGTAATTCATCCTATGTGG-ATGAATAACCGTTTCGACACTAAGTGT
1 ACTAAGTGTGCATTTCACAG-AATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGT
* * *
1806412 ACATTTCACGAAATTCATTCTATGTGGATGAATAACCATTTCGGC
65 GCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
1806457 ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGTG
1 ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGTG
* * **
1806522 CATTTCACGGAATTTATCCTATGTGGATGAATAATTGTTTCGGC
66 CATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
1806566 ACTAAGTGTGCATTTCGCGGAATTCATCCTATGTGG-ATGAATAACCGTTTCGGCACTATAG-GT
1 ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTA-AGTGT
* * *
1806629 GCATTTCAC-AGAATTCTTCTTATGTGGAATGAATAGA-CGTTTCGAC
65 GCATTTCACGA-AATTCATCCTATGTGG-ATGAATA-ACCGTTTCGGC
* ** *
1806675 ACTAAGTGTGCATTTCACAAAATTCATCCTACATTG-ATGAATAGCCGTTTCGGCACTATAG-GT
1 ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTA-AGTGT
*
1806738 GCATTTCACGAAATTCATCCTATGTGGATCAATAACCGTTTCGGC
65 GCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
** * **
1806783 GTTAAGTGTGCATTTCACGGAATTCATCCTATGTGGAATGAATAGTTGTTTCGGCACTAAGTGTG
1 ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGTG
1806848 CATTTCAC-ATAATTCATCCTATGTGGATGAATAACCGTTTCGGC
66 CATTTCACGA-AATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * ***
1806892 ACTATAG-GTGCATTTCACAGAATTCTTCCTATGTGGAATGAATAGCTGTTTAAACACTAAGTGT
1 ACTA-AGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGT
* ** *
1806956 GCATTTCACGAAATTCATCCTACGTGGATGAATAGTCGTTTCGAC
65 GCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * * * * *
1807001 ACTATAG-GTGCATTTTAC-GAAATTCTTCCTATGTGGAATGAATAACTGTTTCGGCACTACGGG
1 ACTA-AGTGTGCATTTCACAG-AATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTG
1807064 TGCATT
64 TGCATT
1807070 ACAAAGATTT
Statistics
Matches: 540, Mismatches: 59, Indels: 27
0.86 0.09 0.04
Matches are distributed among these distances:
107 1 0.00
108 125 0.23
109 409 0.76
110 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (109 bp):
ACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGAATGAATAGCCGTTTCGGCACTAAGTGTG
CATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
Found at i:1806619 original size:163 final size:162
Alignment explanation
Indices: 1806349--1807069 Score: 941
Period size: 163 Copynumber: 4.4 Consensus size: 162
1806339 CCAAATAGGT
* * * *
1806349 ACTAAGTGTGCATTTCATGTAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAG-GTGC
* *
1806414 ATTTCACGAAATTCATTCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCACAGAA
65 ATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACAGAA
* *
1806479 TTCATCCTATGTGGAATGAATAGCCGTTTCGGC
130 TTCATCCTATGTGGAATGAATAGTCGTTTCGAC
* * **
1806512 ACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGAATAATTGTTTCGGCACTAAGTGTGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAG-GTGC
* *
1806577 ATTTCGCGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTATAG-GTGCATTTCACAGA
65 ATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTA-AGTGTGCATTTCACAGA
* * *
1806641 ATTCTTCTTATGTGGAATGAATAGACGTTTCGAC
129 ATTCATCCTATGTGGAATGAATAGTCGTTTCGAC
* ** * *
1806675 ACTAAGTGTGCATTTCACAAAATTCATCCTACATTGATGAATAGCCGTTTCGGCACTATAGGTGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTA-AGGTGC
* ** *
1806740 ATTTCACGAAATTCATCCTATGTGGATCAATAACCGTTTCGGCGTTAAGTGTGCATTTCACGGAA
65 ATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACAGAA
* *
1806805 TTCATCCTATGTGGAATGAATAGTTGTTTCGGC
130 TTCATCCTATGTGGAATGAATAGTCGTTTCGAC
1806838 ACTAAGTGTGCATTTCAC-ATAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTATAGGTG
1 ACTAAGTGTGCATTTCACGA-AATTCATCCTATGTGGATGAATAACCGTTTCGGCACTA-AGGTG
* * * ***
1806902 CATTTCAC-AGAATTCTTCCTATGTGGAATGAATAGCTGTTTAAACACTAAGTGTGCATTTCAC-
64 CATTTCACGA-AATTCATCCTATGTGG-ATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACA
*
1806965 GAAATTCATCCTACGTGG-ATGAATAGTCGTTTCGAC
127 G-AATTCATCCTATGTGGAATGAATAGTCGTTTCGAC
* * * *
1807001 ACTATAG-GTGCATTTTACGAAATTCTTCCTATGTGGAATGAATAACTGTTTCGGCACTACGGGT
1 ACTA-AGTGTGCATTTCACGAAATTCATCCTATGTGG-ATGAATAACCGTTTCGGCACTA-AGGT
1807065 GCATT
63 GCATT
1807070 ACAAAGATTT
Statistics
Matches: 492, Mismatches: 56, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
162 4 0.01
163 409 0.83
164 79 0.16
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (162 bp):
ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGGTGCA
TTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACAGAAT
TCATCCTATGTGGAATGAATAGTCGTTTCGAC
Found at i:1807679 original size:2 final size:2
Alignment explanation
Indices: 1807672--1807701 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1807662 TTTTAAAATA
1807672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1807702 TATTTGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1808477 original size:17 final size:17
Alignment explanation
Indices: 1808457--1808490 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1808447 ACCCTATCTC
1808457 TTTTATTATAATTTTAA
1 TTTTATTATAATTTTAA
*
1808474 TTTTTTTATAATTTTAA
1 TTTTATTATAATTTTAA
1808491 AAGTATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTATAATTTTAA
Found at i:1808529 original size:26 final size:27
Alignment explanation
Indices: 1808466--1808529 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
1808456 CTTTTATTAT
1808466 AATTT-TAATT-TTTTTATAATTTTAA
1 AATTTATAATTATTTTTATAATTTTAA
* *
1808491 AA-GTAT-CTATATTTTTAT-ATTTTAA
1 AATTTATAAT-TATTTTTATAATTTTAA
1808516 AATTTATAATTATT
1 AATTTATAATTATT
1808530 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
26 14 0.47
27 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
AATTTATAATTATTTTTATAATTTTAA
Found at i:1813614 original size:131 final size:131
Alignment explanation
Indices: 1813379--1813616 Score: 365
Period size: 131 Copynumber: 1.8 Consensus size: 131
1813369 ATAATTCTAA
* *
1813379 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAACCTCTCATGCCTTAAAGCA
* *
1813444 ATCTTTTATTACCCTGATCGAAATAAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATT
66 ATCATTTATTACCCTAATCGAAATAAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATT
1813509 C
131 C
* *
1813510 GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAACCTCTCCTGCCTTAACGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAACCTCTCATGCCTTAAAGCA
*
1813575 ATCATTTATTACTCC-AA-CTGAAATGAAA-AGATATTACTATTT
66 ATCATTTATTAC-CCTAATC-GAAAT-AAAGAGATATCACTATTT
1813617 TCATTAATTC
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
130 1 0.01
131 91 0.94
132 5 0.05
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAACCTCTCATGCCTTAAAGCA
ATCATTTATTACCCTAATCGAAATAAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATT
C
Found at i:1815251 original size:10 final size:10
Alignment explanation
Indices: 1815209--1815260 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
1815199 ACTGGAAACT
1815209 GGTTTTGACC
1 GGTTTTGACC
*
1815219 GG-TTTAACC
1 GGTTTTGACC
1815228 GGTTTTGAACC
1 GGTTTTG-ACC
1815239 GGTTTTGACC
1 GGTTTTGACC
1815249 GG-TTTGACC
1 GGTTTTGACC
1815258 GGT
1 GGT
1815261 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:1815290 original size:18 final size:17
Alignment explanation
Indices: 1815267--1815337 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 17
1815257 CGGTCACGAC
1815267 CCGTTTACCCGACCCGA
1 CCGTTTACCCGACCCGA
*
1815284 CCAGTTTACTCGACCCGA
1 CC-GTTTACCCGACCCGA
*
1815302 CCGTTGACCCGACCCGTTGA
1 CCGTTTACCCGACCC---GA
*
1815322 CCGTTGACCCGACCCG
1 CCGTTTACCCGACCCG
1815338 TTGACCGGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.30
18 16 0.34
20 17 0.36
ACGTcount: A:0.17, C:0.44, G:0.21, T:0.18
Consensus pattern (17 bp):
CCGTTTACCCGACCCGA
Found at i:1815312 original size:12 final size:13
Alignment explanation
Indices: 1815295--1815323 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1815285 CAGTTTACTC
1815295 GACCCGA-CCGTT
1 GACCCGACCCGTT
1815307 GACCCGACCCGTT
1 GACCCGACCCGTT
1815320 GACC
1 GACC
1815324 GTTGACCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.17, C:0.45, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1815325 original size:20 final size:20
Alignment explanation
Indices: 1815300--1815344 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
1815290 TACTCGACCC
1815300 GACCGTTGACCCGACCCGTT
1 GACCGTTGACCCGACCCGTT
1815320 GACCGTTGACCCGACCCGTT
1 GACCGTTGACCCGACCCGTT
1815340 GACCG
1 GACCG
1815345 GTGCTATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.40, G:0.27, T:0.18
Consensus pattern (20 bp):
GACCGTTGACCCGACCCGTT
Found at i:1815439 original size:29 final size:29
Alignment explanation
Indices: 1815344--1815425 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
1815334 CCCGTTGACC
1815344 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGGTTTT
1815373 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGGTTTT
1815402 GGTGCTATTCTGGGAATTAATTCG
1 GGTGCTATTCTGGGAATTAATTCG
1815426 AAATGGGTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.43
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGGTTTT
Found at i:1821424 original size:10 final size:10
Alignment explanation
Indices: 1821382--1821433 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
1821372 ACTGGAAACT
1821382 GGTTTTGACC
1 GGTTTTGACC
*
1821392 GG-TTTAACC
1 GGTTTTGACC
1821401 GGTTTTGAACC
1 GGTTTTG-ACC
1821412 GGTTTTGACC
1 GGTTTTGACC
1821422 GG-TTTGACC
1 GGTTTTGACC
1821431 GGT
1 GGT
1821434 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:1821473 original size:18 final size:17
Alignment explanation
Indices: 1821448--1821518 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 17
1821438 ACCCGTTTAC
1821448 CCGTTTACCCGACCCGA
1 CCGTTTACCCGACCCGA
1821465 CCAGTTTACCCGACCCGA
1 CC-GTTTACCCGACCCGA
* *
1821483 CCGTTGACCCGGCCCGTTGA
1 CCGTTTACCCGACCC---GA
*
1821503 CCGTTGACCCGACCCG
1 CCGTTTACCCGACCCG
1821519 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.30
18 17 0.36
20 16 0.34
ACGTcount: A:0.15, C:0.45, G:0.23, T:0.17
Consensus pattern (17 bp):
CCGTTTACCCGACCCGA
Found at i:1821506 original size:7 final size:7
Alignment explanation
Indices: 1821496--1821539 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
1821486 TTGACCCGGC
1821496 CCGTTGA
1 CCGTTGA
1821503 CCGTTGA
1 CCGTTGA
*
1821510 CC--CGA
1 CCGTTGA
1821515 CCCGTTGA
1 -CCGTTGA
1821523 CCGTTGA
1 CCGTTGA
1821530 CCGTTGA
1 CCGTTGA
1821537 CCG
1 CCG
1821540 GTGCTATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 2 0.06
7 26 0.81
8 2 0.06
ACGTcount: A:0.14, C:0.36, G:0.27, T:0.23
Consensus pattern (7 bp):
CCGTTGA
Found at i:1821506 original size:20 final size:20
Alignment explanation
Indices: 1821436--1821531 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
1821426 TGACCGGTCA
* *
1821436 CGACCCGTTTACCCGTTTACC
1 CGACCCGTTGA-CCGTTGACC
*
1821457 CGACCC---GACCAGTTTACC
1 CGACCCGTTGACC-GTTGACC
1821475 CGACCC---GACCGTTGACC
1 CGACCCGTTGACCGTTGACC
*
1821492 CGGCCCGTTGACCGTTGACC
1 CGACCCGTTGACCGTTGACC
1821512 CGACCCGTTGACCGTTGACC
1 CGACCCGTTGACCGTTGACC
1821532 GTTGACCGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
17 13 0.19
18 18 0.27
20 30 0.45
21 6 0.09
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.20
Consensus pattern (20 bp):
CGACCCGTTGACCGTTGACC
Found at i:1821634 original size:29 final size:29
Alignment explanation
Indices: 1821539--1821620 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
1821529 ACCGTTGACC
1821539 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGGTTTT
1821568 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGGTTTT
1821597 GGTGCTATTCTGGGAATTAATTCG
1 GGTGCTATTCTGGGAATTAATTCG
1821621 AAATGGGTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.43
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGGTTTT
Found at i:1826491 original size:2 final size:2
Alignment explanation
Indices: 1826484--1826508 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1826474 GAGGGTTTTC
1826484 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
1826509 CCCCCTCCCT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1827216 original size:30 final size:30
Alignment explanation
Indices: 1827176--1827257 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
1827166 TTTGTTTTTC
* * * *
1827176 TATTTAAGTCCTTTAACTTTTTATTTTTGT
1 TATTTTAGTCCTTTAAATGTCTATTTTTGT
1827206 TATTTTAGTCCTTTAAATGTCTATTTTTGT
1 TATTTTAGTCCTTTAAATGTCTATTTTTGT
* *
1827236 TATCTTAATCCTTTAAATGTCT
1 TATTTTAGTCCTTTAAATGTCT
1827258 GTATTTGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATGTCTATTTTTGT
Found at i:1827313 original size:30 final size:30
Alignment explanation
Indices: 1827268--1827329 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
1827258 GTATTTGATA
1827268 TTTAGACCCTTAAGTTT-TAGTTTTTACTAT
1 TTTAGACCCTTAAGTTTAT-GTTTTTACTAT
*
1827298 TTTA-ACCCTTTAAGTTTATGTTTTTGCTAT
1 TTTAGACCC-TTAAGTTTATGTTTTTACTAT
1827328 TT
1 TT
1827330 AAGTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 24 0.83
31 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (30 bp):
TTTAGACCCTTAAGTTTATGTTTTTACTAT
Done.