Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_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: 1825372
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 9
Found at i:1640803 original size:42 final size:42
Alignment explanation
Indices: 1640705--1640816 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
1640695 TCTAGAATGT
* * * *
1640705 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGGA-CTCTTGAACGATGATAGGGGCCTCTTGAACGA
* **
1640747 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
*
1640789 TAGGG-GAGGCCTCTTGAACGATGATAGG
1 T-GGGAGAGGACTCTTGAACGATGATAGG
1640817 TGAGTCGGGC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 52 0.90
43 6 0.10
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:1641325 original size:18 final size:19
Alignment explanation
Indices: 1641302--1641347 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1641292 GAAACTTAAA
1641302 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
1641320 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
1641340 ATCGCAAC
1 ATCGCAAC
1641348 GAGAGAATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:1641416 original size:20 final size:20
Alignment explanation
Indices: 1641391--1641458 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
1641381 GTGATTCTTT
*
1641391 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
1641411 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
1641431 CGTTGTGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
1641451 CGTTGCGA
1 CGTTGCGA
1641459 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.08
20 37 0.93
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:1641629 original size:18 final size:18
Alignment explanation
Indices: 1641606--1641655 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
1641596 TTTACTAAGC
1641606 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
1641624 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
*
1641642 AATCTAACTGAAAT
1 AATCTAAGTGAAAT
1641656 TACGAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:1643390 original size:20 final size:20
Alignment explanation
Indices: 1643367--1643434 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
1643357 TCTGAAACTT
1643367 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
* *
1643387 AAAATCGTAATACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
1643407 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
1643426 AAAATCGCA
1 AAAATCGCA
1643435 TTACTATTCT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 7 0.18
20 31 0.82
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1644047 original size:20 final size:20
Alignment explanation
Indices: 1644021--1644112 Score: 105
Period size: 20 Copynumber: 4.6 Consensus size: 20
1644011 TGAAAATTGT
* *
1644021 ATTGCGACAGTCAGAATCGC
1 ATTGCGATAGTCATAATCGC
*
1644041 GTTGCGATAGTCATAATCGC
1 ATTGCGATAGTCATAATCGC
*
1644061 ATTACGATAGTCATAATCGC
1 ATTGCGATAGTCATAATCGC
* *
1644081 ATTGCGAT-TTACATATTCGC
1 ATTGCGATAGT-CATAATCGC
*
1644101 GTTGCGATAGTC
1 ATTGCGATAGTC
1644113 GAAAAATCGC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 58 0.97
21 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (20 bp):
ATTGCGATAGTCATAATCGC
Found at i:1644129 original size:22 final size:22
Alignment explanation
Indices: 1644104--1644155 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1644094 TATTCGCGTT
1644104 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
1644126 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
1644147 GCGATAGTC
1 GCGATAGTC
1644156 AGAATTGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:1644904 original size:34 final size:34
Alignment explanation
Indices: 1644826--1644906 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
1644816 TTTTTTAGAG
*
1644826 TTGTTTTCTCATTTTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTTTTTATCAAGAGAGAATTATCA
1644860 TTGTTTTCTCCTTTTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTTTTTATCAAGAGAGAATTATCA
1644894 TTGTTTTCTCCTT
1 TTGTTTTCTCCTT
1644907 GGTAGATCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTTATCAAGAGAGAATTATCA
Found at i:1644920 original size:36 final size:34
Alignment explanation
Indices: 1644826--1644921 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
1644816 TTTTTTAGAG
* **
1644826 TTGTTTTCTCATTTTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTTTAGATCAAGAGAGAATTATCA
**
1644860 TTGTTTTCTCCTTTTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTTTAGATCAAGAGAGAATTATCA
*
1644894 TTGTTTTCTCCTTGGTAGATCGAGAGAG
1 TTGTTTTCTCCTT--TAGATCAAGAGAG
1644922 GTTGTAATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
34 46 0.82
36 10 0.18
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (34 bp):
TTGTTTTCTCCTTTAGATCAAGAGAGAATTATCA
Found at i:1655982 original size:21 final size:20
Alignment explanation
Indices: 1655937--1655982 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
1655927 TTGGGATCAA
*
1655937 CATTTTTGCATTTGCATTTG
1 CATTTTTGCATTTGCATATG
1655957 CATTTTTGCATTTTGCATATG
1 CATTTTTGCA-TTTGCATATG
*
1655978 TATTT
1 CATTT
1655983 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (20 bp):
CATTTTTGCATTTGCATATG
Found at i:1655982 original size:27 final size:28
Alignment explanation
Indices: 1655940--1656008 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
1655930 GGATCAACAT
*
1655940 TTTTGCATTTGCATTTGC-ATTTTT-GCA
1 TTTTGCATATGCATTT-CAATTTTTAGCA
*
1655967 TTTTGCATATGTATTTCAATTTTTAAGCA
1 TTTTGCATATGCATTTCAATTTTT-AGCA
*
1655996 TTTT-CACATGCAT
1 TTTTGCATATGCAT
1656009 GGAATTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.03
27 20 0.57
28 7 0.20
29 7 0.20
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.52
Consensus pattern (28 bp):
TTTTGCATATGCATTTCAATTTTTAGCA
Found at i:1657297 original size:25 final size:25
Alignment explanation
Indices: 1657264--1657318 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
1657254 AAGATCAAAT
* *
1657264 CAAAACAAAGATAAAAGAAGCAACAA
1 CAAAACAAAGA-AAAAAAAACAACAA
1657290 -AAAACAAAGAAAAAAAAACAACAA
1 CAAAACAAAGAAAAAAAAACAACAA
1657314 CAAAA
1 CAAAA
1657319 AGCAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.76, C:0.15, G:0.07, T:0.02
Consensus pattern (25 bp):
CAAAACAAAGAAAAAAAAACAACAA
Found at i:1659008 original size:37 final size:36
Alignment explanation
Indices: 1658961--1659030 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
1658951 TGAGAATTTT
*
1658961 AAAACAAATTTTTGTCTCGCTTGAGACAATTTTTCTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACAATTTTTCTC
* *
1658998 AAAATAAATTTCGTCTCGCTTGAGACATTTTTT
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTTT
1659031 TCTCTGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 23 0.77
37 7 0.23
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (36 bp):
AAAACAAATTTCGTCTCGCTTGAGACAATTTTTCTC
Found at i:1659117 original size:106 final size:105
Alignment explanation
Indices: 1658996--1659196 Score: 323
Period size: 106 Copynumber: 1.9 Consensus size: 105
1658986 ACAATTTTTC
* * * *
1658996 TCAAAATAAATTTCGTCTCGCTTGAGACATTTTTTTCTCTGAGATACAAATTTCGAATTTCCTT-
1 TCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTTCTCTGAAATACAAATTT-AAATTT-ATTG
*
1659060 CACTTGAAATAAAATTAATCTCACTTGAGATTGTTGTTTCTT
64 CACTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTT
*
1659102 TCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTTCTCTGAAATACAAATTTAAATTTATTGTA
1 TCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTTCTCTGAAATACAAATTTAAATTTATTGCA
1659167 CTTGAAACAAAATTAATCTCACTTGAGATT
66 CTTGAAACAAAATTAATCTCACTTGAGATT
1659197 TTCAAAACCG
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
104 2 0.02
105 35 0.40
106 51 0.58
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.41
Consensus pattern (105 bp):
TCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTTCTCTGAAATACAAATTTAAATTTATTGCA
CTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTT
Found at i:1659596 original size:30 final size:31
Alignment explanation
Indices: 1659551--1659618 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 31
1659541 GAGACATTTA
*
1659551 TTTTG-AAATAAAAATCTTTGAGT-TGTTTC
1 TTTTGAAAAAAAAAATCTTTGAGTCTGTTTC
1659580 TTTTGAAAAAAAAAATCTTTGAGTCTGTTTC
1 TTTTGAAAAAAAAAATCTTTGAGTCTGTTTC
*
1659611 GTTTGAAA
1 TTTTGAAA
1659619 CAAAGTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 5 0.14
30 17 0.49
31 13 0.37
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (31 bp):
TTTTGAAAAAAAAAATCTTTGAGTCTGTTTC
Found at i:1659712 original size:30 final size:29
Alignment explanation
Indices: 1659654--1659744 Score: 110
Period size: 30 Copynumber: 3.1 Consensus size: 29
1659644 TTTTTCGTAA
* *
1659654 AAAAATATTCGAGTTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTTGTTTCTTTTGAAAC
1659683 AAAAATCTTTGAGTTGTTTCTTTTGGAAAC
1 AAAAATCTTTGAGTTGTTTCTTTT-GAAAC
*** *
1659713 ACCTATCTTTGAGTTAGTTTCTCTTGAAAC
1 AAAAATCTTTGAGTT-GTTTCTTTTGAAAC
1659743 AA
1 AA
1659745 CCACCTTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.42
30 23 0.43
31 8 0.15
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (29 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAAC
Found at i:1659753 original size:30 final size:29
Alignment explanation
Indices: 1659664--1659774 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 29
1659654 AAAAATATTC
**
1659664 GAGTTGTTTCTTTTGAAACAAAAATCTTT
1 GAGTTGTTTCTTTTGAAACAACCATCTTT
1659693 GAGTTGTTTCTTTTGGAAAC-ACCTATCTTT
1 GAGTTGTTTCTTTT-GAAACAACC-ATCTTT
* *
1659723 GAGTTAGTTTCTCTTGAAACAACCACCTTT
1 GAGTT-GTTTCTTTTGAAACAACCATCTTT
* * *
1659753 GAGATCGTTTCTATTAAAACAA
1 GAG-TTGTTTCTTTTGAAACAA
1659775 ATTTTGTCTC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
29 15 0.21
30 43 0.61
31 12 0.17
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (29 bp):
GAGTTGTTTCTTTTGAAACAACCATCTTT
Found at i:1659874 original size:37 final size:38
Alignment explanation
Indices: 1659811--1659882 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
1659801 CTGGAAACAC
* *
1659811 AAAATCTTTGAGTTTGTTTCACTTG-AAACAAAATGAA
1 AAAATCTTTGAATCTGTTTCACTTGAAAACAAAATGAA
*
1659848 AAAATCTTTGAATCTGTTTTC-TTTGAAAACAAAAT
1 AAAATCTTTGAATCTG-TTTCACTTGAAAACAAAAT
1659883 TGTCTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (38 bp):
AAAATCTTTGAATCTGTTTCACTTGAAAACAAAATGAA
Found at i:1659991 original size:28 final size:28
Alignment explanation
Indices: 1659951--1660044 Score: 154
Period size: 28 Copynumber: 3.4 Consensus size: 28
1659941 AAAATTCATC
1659951 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
*
1659979 ATCTTTGAGTTTGTTTTACTTGAAACAA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
*
1660007 ATCTTTGAGTCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGTTTGTTT-TTCTTGAAACAA
1660035 ATCTTTGAGT
1 ATCTTTGAGT
1660045 CGGTTTCCCT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 61 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (28 bp):
ATCTTTGAGTTTGTTTTTCTTGAAACAA
Found at i:1660045 original size:28 final size:27
Alignment explanation
Indices: 1659951--1660060 Score: 139
Period size: 28 Copynumber: 3.9 Consensus size: 27
1659941 AAAATTCATC
*
1659951 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTCTG-TTTTCTTGAAACAA
*
1659979 ATCTTTGAGTTTGTTTTACTTGAAACAA
1 ATCTTTGAGTCTGTTTT-CTTGAAACAA
*
1660007 ATCTTTGAGTCTGTTTCTTTTGAAACAA
1 ATCTTTGAGTCTGTTT-TCTTGAAACAA
* *
1660035 ATCTTTGAGTCGGTTTCCCTTGAAAC
1 ATCTTTGAGTCTGTTT-TCTTGAAAC
1660061 CATAATCACT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 4 0.05
28 70 0.93
29 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (27 bp):
ATCTTTGAGTCTGTTTTCTTGAAACAA
Found at i:1660057 original size:56 final size:56
Alignment explanation
Indices: 1659951--1660060 Score: 159
Period size: 56 Copynumber: 2.0 Consensus size: 56
1659941 AAAATTCATC
* ** *
1659951 ATCTTTGAGTTTGTTTTTCTTGAAACAAATCTTTGAGTTTGTTTTACTTGAAACAA
1 ATCTTTGAGTCTGTTTTTCTTGAAACAAATCTTTGAGTCGGTTTCACTTGAAACAA
*
1660007 ATCTTTGAGTCTGTTTCTT-TTGAAACAAATCTTTGAGTCGGTTTCCCTTGAAAC
1 ATCTTTGAGTCTGTTT-TTCTTGAAACAAATCTTTGAGTCGGTTTCACTTGAAAC
1660061 CATAATCACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 46 0.96
57 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (56 bp):
ATCTTTGAGTCTGTTTTTCTTGAAACAAATCTTTGAGTCGGTTTCACTTGAAACAA
Found at i:1660187 original size:43 final size:40
Alignment explanation
Indices: 1660079--1660188 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 40
1660069 CTATAGATGG
* * * *
1660079 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCTTGA
1 CCAGCCGTCCTCATCACGTAGGAGCCGTGTCACCCCTTAA
* * *
1660119 CTAGACC-TCCTCATCATGTATGAGCCGTGTCACCCCTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAGCCGTGTCACCCCT---TAA
*
1660162 CCAGCCGTCCTCATCGCGTAGGAGCCG
1 CCAGCCGTCCTCATCACGTAGGAGCCG
1660189 AGTTATCACC
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
40 29 0.54
41 1 0.02
42 2 0.04
43 22 0.41
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (40 bp):
CCAGCCGTCCTCATCACGTAGGAGCCGTGTCACCCCTTAA
Found at i:1660309 original size:134 final size:134
Alignment explanation
Indices: 1660089--1660331 Score: 378
Period size: 134 Copynumber: 1.8 Consensus size: 134
1660079 CCAGTCGTCC
** * *
1660089 TCATCACGTAGGAACCGTGTCATCCCTTGACTAGACCTCCTCATCATGTATGAGCCGTGTCACCC
1 TCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCACGTATGAGCCGTGTCACCC
* *
1660154 CTAGATAACCAGCCGTCCTCATCGCGTAGGAGCCGAGTTATCACCCTTTCTATAGATGACTAGAA
66 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTTCTATAGATGACTAGAA
1660219 CTCT
131 CTCT
* * * * *
1660223 TCATCACGTATGACCCGTGTCATCCCCCGACCAGATCTCTTCATCACGTATGAGTCGTGTCACCC
1 TCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCACGTATGAGCCGTGTCACCC
*
1660288 CTAGATAACCAGCCGTCCTCATCACGTATGAACCGAGTTATCAC
66 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
1660332 AACTCTTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 97 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.26
Consensus pattern (134 bp):
TCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCACGTATGAGCCGTGTCACCC
CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTTCTATAGATGACTAGAA
CTCT
Found at i:1660361 original size:134 final size:134
Alignment explanation
Indices: 1660073--1660369 Score: 366
Period size: 134 Copynumber: 2.2 Consensus size: 134
1660063 TAATCACTAT
* * ** * *
1660073 AGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCTTGACTAGACCTCCTCATCATGT
1 AGATGGACAGACGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCACGT
* * * *
1660138 ATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAGCCGAGTTATCACCCTTT
66 ATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACACTCT
*
1660203 CTAT
131 CTAA
* * * * *
1660207 AGAT-GACTAGAAC-TCTTCATCACGTATGACCCGTGTCATCCCCCGACCAGATCTCTTCATCAC
1 AGATGGAC-AG-ACGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCAC
* *
1660270 GTATGAGTCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTATGAACCGAGTTATCACAAC
64 GTATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC-AC
1660335 TCT-TAA
128 TCTCTAA
* *
1660341 AGATGGTCAGCCGTCCTCATCACGTAGGA
1 AGATGGACAGACGTCCTCATCACGTAGGA
1660370 GTCATACCAC
Statistics
Matches: 136, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
133 3 0.02
134 127 0.93
135 6 0.04
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (134 bp):
AGATGGACAGACGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCACGT
ATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACACTCT
CTAA
Found at i:1660436 original size:94 final size:94
Alignment explanation
Indices: 1660263--1660440 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 94
1660253 CCAGATCTCT
* * ** * *
1660263 TCATCACGTATGAGTCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTATGAACCGAGTTA
1 TCATCACGTAGGAGTCATACCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTA
*
1660328 TCACAACTCTTAAAGATGGTCAGCCGTCC
66 TCACAACTCCTAAAGATGGTCAGCCGTCC
* * *
1660357 TCATCACGTAGGAGTCATACCACCCCTAGATAACCAGTCATCCTCATCGCGTAGGAACCGTGTTA
1 TCATCACGTAGGAGTCATACCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTA
*
1660422 TCAC-CCTACCTAAAGATGG
66 TCACAACT-CCTAAAGATGG
1660441 CCAAGAACTC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 2 0.03
94 70 0.97
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (94 bp):
TCATCACGTAGGAGTCATACCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTA
TCACAACTCCTAAAGATGGTCAGCCGTCC
Found at i:1660720 original size:3 final size:3
Alignment explanation
Indices: 1660714--1660767 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
1660704 TTTTTTTAAA
**
1660714 TAT TAT TAT CGT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1660761 TAT TAT T
1 TAT TAT T
1660768 TTAATTTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1666163 original size:83 final size:83
Alignment explanation
Indices: 1666045--1666251 Score: 238
Period size: 83 Copynumber: 2.5 Consensus size: 83
1666035 GAACAAACAA
* * * *
1666045 ATTTGCTATAGATTACTGGTGATACGAA-GAATTTTGAGAAATACAAGCTGGCAAAGAACGGA-C
1 ATTTGCTATAGACTACTGGTGATAC-AAGGAGTTTTGAGAAATACAAGCTAGAAAAGAAC-GATC
*
1666108 AAGACATTTCTAAGGAGGCC
64 AAAACATTTCTAAGGAGGCC
* ** *
1666128 ATTTGCTATATACTACCAGTGATACAAGGAGTTTTGAGAAATATAAGCTAGAAAAGAACGATCAA
1 ATTTGCTATAGACTACTGGTGATACAAGGAGTTTTGAGAAATACAAGCTAGAAAAGAACGATCAA
* *
1666193 AACATTTGTAAGGAGGCT
66 AACATTTCTAAGGAGGCC
*** * *
1666211 ATGCACAATAGACTACTGGTGATATAAGGAGTTTTGAGAAA
1 ATTTGCTATAGACTACTGGTGATACAAGGAGTTTTGAGAAA
1666252 CATAATCTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
82 4 0.04
83 99 0.96
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (83 bp):
ATTTGCTATAGACTACTGGTGATACAAGGAGTTTTGAGAAATACAAGCTAGAAAAGAACGATCAA
AACATTTCTAAGGAGGCC
Found at i:1669949 original size:24 final size:24
Alignment explanation
Indices: 1669921--1669966 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1669911 TTCATATATG
* *
1669921 AAACATTTTATTAGAAATCAAACC
1 AAACATTCTATTAAAAATCAAACC
1669945 AAACATTCTATTAAAAATCAAA
1 AAACATTCTATTAAAAATCAAA
1669967 ATTCAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.28
Consensus pattern (24 bp):
AAACATTCTATTAAAAATCAAACC
Found at i:1673826 original size:60 final size:62
Alignment explanation
Indices: 1673674--1673820 Score: 212
Period size: 60 Copynumber: 2.4 Consensus size: 62
1673664 GTCATTCGAT
* * * *
1673674 TATTATAAGTTACAAAATTGTCA-TCTAACTATAGAGTATTATTTTTGTTGAGTCCCTCGAC
1 TATTAAAAGTTACAAAATGGTCACTCTAACTATAGAGTATTAGTTTTGTTGAGTCCCCCGAC
*
1673735 TATTAAAACTTACAAAATGGTC-CTCTAACTAT-GTAGTATT-GTTTTGTTGAGTCCCCCGAC
1 TATTAAAAGTTACAAAATGGTCACTCTAACTATAG-AGTATTAGTTTTGTTGAGTCCCCCGAC
1673795 TATTAAAAGTTACAAAATGGTCACTC
1 TATTAAAAGTTACAAAATGGTCACTC
1673821 GACTATTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
60 40 0.52
61 37 0.48
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (62 bp):
TATTAAAAGTTACAAAATGGTCACTCTAACTATAGAGTATTAGTTTTGTTGAGTCCCCCGAC
Found at i:1675137 original size:23 final size:21
Alignment explanation
Indices: 1675089--1675133 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1675079 CTTTTTTAAG
1675089 ATAATATATATTATTGAAATA
1 ATAATATATATTATTGAAATA
*
1675110 ATAATGTATAGTTAGTTG-AATA
1 ATAATATATA-TTA-TTGAAATA
1675132 AT
1 AT
1675134 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (21 bp):
ATAATATATATTATTGAAATA
Found at i:1684192 original size:29 final size:29
Alignment explanation
Indices: 1684160--1684224 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
1684150 ACTAATTCAA
* *
1684160 AAATAATAAAAATAT-TTTATATTTAATTT
1 AAATAATAAAAATATATTAATA-TTAATGT
* *
1684189 AAATTATAAAAGTATATTAATATTAATGT
1 AAATAATAAAAATATATTAATATTAATGT
1684218 AAA-AATA
1 AAATAATA
1684225 TATTTTAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.10
29 22 0.73
30 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATAATAAAAATATATTAATATTAATGT
Found at i:1684204 original size:24 final size:23
Alignment explanation
Indices: 1684177--1684229 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
1684167 AAAAATATTT
1684177 TATATTTAAT-TTAAAT-TATAAAA
1 TATATTTAATATT-AATGTA-AAAA
1684200 GTATA-TTAATATTAATGTAAAAA
1 -TATATTTAATATTAATGTAAAAA
1684223 TATATTT
1 TATATTT
1684230 TAGCATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 4 0.15
23 14 0.54
24 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TATATTTAATATTAATGTAAAAA
Found at i:1685523 original size:2 final size:2
Alignment explanation
Indices: 1685516--1685612 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
1685506 TCTTTTTAAA
1685516 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1685558 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1685600 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
1685613 TATATATATA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1685864 original size:24 final size:23
Alignment explanation
Indices: 1685830--1685947 Score: 139
Period size: 24 Copynumber: 5.0 Consensus size: 23
1685820 TCAAAACATA
* *
1685830 AATCAAGTCAAGTATCATATCAA
1 AATCCAGTCAAGTATCATATCAG
1685853 AATCCAGATCAAGTATCATATCAG
1 AATCCAG-TCAAGTATCATATCAG
*
1685877 AATCCAAGTTAAGTATCATATCAG
1 AATCC-AGTCAAGTATCATATCAG
*
1685901 AATCCATGTC-AGATATCAGATCAG
1 AATCCA-GTCAAG-TATCATATCAG
*
1685925 AATCCATGTCAAGTATCAGATCA
1 AATCCA-GTCAAGTATCATATCA
1685948 TAATTCAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 9 0.11
24 72 0.85
25 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (23 bp):
AATCCAGTCAAGTATCATATCAG
Found at i:1685905 original size:48 final size:48
Alignment explanation
Indices: 1685833--1685947 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
1685823 AAACATAAAT
*
1685833 CAAGTCAAGTATCATATCAAAATCCA-GATCA-AGTATCATATCAGAATC
1 CAAGTCAAGTATCATATCAAAATCCATG-TCAGA-TATCAGATCAGAATC
* *
1685881 CAAGTTAAGTATCATATCAGAATCCATGTCAGATATCAGATCAGAATC
1 CAAGTCAAGTATCATATCAAAATCCATGTCAGATATCAGATCAGAATC
* *
1685929 CATGTCAAGTATCAGATCA
1 CAAGTCAAGTATCATATCA
1685948 TAATTCAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
48 57 0.97
49 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (48 bp):
CAAGTCAAGTATCATATCAAAATCCATGTCAGATATCAGATCAGAATC
Found at i:1685967 original size:48 final size:47
Alignment explanation
Indices: 1685833--1685969 Score: 148
Period size: 48 Copynumber: 2.9 Consensus size: 47
1685823 AAACATAAAT
* *
1685833 CAAGTCAAGTATCATATCAAAATCCAGATCAAGTATCATATCAGAATC
1 CAAGTCAAGTATCATATCAAAATCCAAATCAA-TATCAGATCAGAATC
* * **
1685881 CAAGTTAAGTATCATATCAGAATCCATGTCAGATATCAGATCAGAATC
1 CAAGTCAAGTATCATATCAAAATCCAAATCA-ATATCAGATCAGAATC
* * * * *
1685929 CATGTCAAGTATCAGATCATAATTCAAATCGAAAATCAGAT
1 CAAGTCAAGTATCATATCAAAATCCAAATC-AATATCAGAT
1685970 AAAATATTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
48 72 0.97
49 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (47 bp):
CAAGTCAAGTATCATATCAAAATCCAAATCAATATCAGATCAGAATC
Found at i:1688486 original size:18 final size:18
Alignment explanation
Indices: 1688460--1688499 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1688450 CGCTGGTCAA
*
1688460 GGGTCAACGAGTCGGGTC
1 GGGTAAACGAGTCGGGTC
*
1688478 GGGTAAACGGGTCGGGTC
1 GGGTAAACGAGTCGGGTC
1688496 GGGT
1 GGGT
1688500 TGGAACAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.50, T:0.17
Consensus pattern (18 bp):
GGGTAAACGAGTCGGGTC
Found at i:1695337 original size:3 final size:3
Alignment explanation
Indices: 1695329--1695389 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
1695319 ATGAAATCTT
* * *
1695329 TAA TAA TAA TAA TAA TAA TTTA TAA TAA TAA TAA TAA TAA TATT TTA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA
1695376 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
1695390 CATTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1695357 original size:22 final size:22
Alignment explanation
Indices: 1695327--1695389 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
1695317 ATATGAAATC
1695327 TTTAATAATAATAATAATAAT-
1 TTTAATAATAATAATAATAATA
1695348 TTATAATAATAATAATAATAATA
1 TT-TAATAATAATAATAATAATA
*
1695371 TTTTATAATAATAATAATA
1 TTTAATAATAATAATAATA
1695390 CATTAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATAATAATAATAATAATA
Found at i:1695363 original size:25 final size:25
Alignment explanation
Indices: 1695329--1695389 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
1695319 ATGAAATCTT
1695329 TAATAATAATAATAATAATTTATAA
1 TAATAATAATAATAATAATTTATAA
*
1695354 TAATAATAATAATAATATTTTATAA
1 TAATAATAATAATAATAATTTATAA
1695379 TAATAATAATA
1 TAATAATAATA
1695390 CATTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATAATAATAATAATAATTTATAA
Found at i:1695399 original size:19 final size:19
Alignment explanation
Indices: 1695358--1695400 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1695348 TTATAATAAT
** *
1695358 AATAATAATAATATTTTAT
1 AATAATAATAATACATTAA
1695377 AATAATAATAATACATTAA
1 AATAATAATAATACATTAA
1695396 AATAA
1 AATAA
1695401 CGATTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAATAATAATACATTAA
Found at i:1695400 original size:22 final size:21
Alignment explanation
Indices: 1695329--1695400 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 21
1695319 ATGAAATCTT
1695329 TAATAATAATAATAATAATTTA
1 TAATAATAATAATAATAA-TTA
*
1695351 TAATAATAATAATAATAATATT
1 TAATAATAATAATAATAAT-TA
*
1695373 TTATAATAATAATAATACATTA
1 TAATAATAATAATAATA-ATTA
*
1695395 AAATAA
1 TAATAA
1695401 CGATTGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 1 0.02
22 40 0.93
23 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATAATAATAATAATAATTA
Found at i:1696778 original size:25 final size:25
Alignment explanation
Indices: 1696730--1696780 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1696720 AAATTATATG
* *
1696730 TTTTTTAATAAAATTTATATATAAA
1 TTTTTTAATAAAATTTAAAGATAAA
1696755 TTTTTT-ATAAAATTTAAAAGATAAA
1 TTTTTTAATAAAATTT-AAAGATAAA
1696780 T
1 T
1696781 GGGTAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTTTTAATAAAATTTAAAGATAAA
Found at i:1696874 original size:32 final size:32
Alignment explanation
Indices: 1696825--1696908 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
1696815 TTGTAATTAT
* ** *
1696825 AAATAATATT-AATTTTTACATTATTTATCTAA
1 AAAT-ATATTAAAATTTTACAACATTTAACTAA
1696857 AAATATATTAAAATTTTACAACATTTAACTAA
1 AAATATATTAAAATTTTACAACATTTAACTAA
*
1696889 ATAAGTATATGAAAATTTTA
1 A-AA-TATATTAAAATTTTA
1696909 ATAGATAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 5 0.11
32 23 0.52
33 2 0.05
34 14 0.32
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (32 bp):
AAATATATTAAAATTTTACAACATTTAACTAA
Found at i:1698159 original size:16 final size:17
Alignment explanation
Indices: 1698138--1698170 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1698128 AAGAAGTTGT
*
1698138 CACCAAC-CTTCAATTC
1 CACCAACGCATCAATTC
1698154 CACCAACGCATCAATTC
1 CACCAACGCATCAATTC
1698171 TCGAATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.42, G:0.03, T:0.21
Consensus pattern (17 bp):
CACCAACGCATCAATTC
Found at i:1704755 original size:37 final size:38
Alignment explanation
Indices: 1704693--1704769 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
1704683 GGAGGGGCCC
1704693 ATTTTTAAAATTATTTTTAAATTT-AATAATTAAAAAT
1 ATTTTTAAAATTATTTTTAAATTTAAATAATTAAAAAT
* *
1704730 ATTTTT-AAATATATTGTTT-ATTTTAAATACTTAAAAAT
1 ATTTTTAAAAT-TATT-TTTAAATTTAAATAATTAAAAAT
1704768 AT
1 AT
1704770 GGTAATTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 4 0.11
37 14 0.40
38 17 0.49
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (38 bp):
ATTTTTAAAATTATTTTTAAATTTAAATAATTAAAAAT
Found at i:1704850 original size:73 final size:71
Alignment explanation
Indices: 1704717--1704856 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 71
1704707 TTTTAAATTT
* * * * *
1704717 AATAATTAAAAATATTTTTAAATATATTGTTTATTTTAAATACTTAAAAATATGGTAATTTAGTG
1 AATAATTAAAAATATTTTTAAACATATTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAGTG
1704782 GGCTCC
66 GGCTCC
* *
1704788 AATAATTAAAAAATATTTTTAAACATCATTTTTTATTTAAAAAACTCGAAAATATAGTAATTTAG
1 AATAATT-AAAAATATTTTTAAACAT-ATTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAG
1704853 TGGG
64 TGGG
1704857 ACCCTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 7 0.12
72 17 0.28
73 36 0.60
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (71 bp):
AATAATTAAAAATATTTTTAAACATATTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAGTG
GGCTCC
Found at i:1707306 original size:35 final size:35
Alignment explanation
Indices: 1707264--1707334 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
1707254 TAATAATAAT
1707264 AAAAAGATAATATG-AGCGATGTTTTTACTCAAAAA
1 AAAAAGATAATA-GCAGCGATGTTTTTACTCAAAAA
* * *
1707299 AAAAAGATAATAGCAGTGGTGTTTTTACTTAAAAA
1 AAAAAGATAATAGCAGCGATGTTTTTACTCAAAAA
1707334 A
1 A
1707335 TTAATTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (35 bp):
AAAAAGATAATAGCAGCGATGTTTTTACTCAAAAA
Found at i:1707611 original size:30 final size:30
Alignment explanation
Indices: 1707577--1707649 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
1707567 AAAATCAAAT
* *
1707577 TAAACGGGGACGGAAAAAAATCGTTTATGC
1 TAAACGGGGACGGAAAAAAACCATTTATGC
* *
1707607 TAAACGGGGACGGAGAAAAACCATTTATGT
1 TAAACGGGGACGGAAAAAAACCATTTATGC
*
1707637 TAAAAGGGGACGG
1 TAAACGGGGACGG
1707650 GGACAAGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.18
Consensus pattern (30 bp):
TAAACGGGGACGGAAAAAAACCATTTATGC
Found at i:1709042 original size:37 final size:37
Alignment explanation
Indices: 1708991--1709095 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
1708981 TATTTTCGTC
1708991 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
1709028 TTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
1709065 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
1709096 CCACAATCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:1715753 original size:183 final size:183
Alignment explanation
Indices: 1715260--1715792 Score: 950
Period size: 183 Copynumber: 2.9 Consensus size: 183
1715250 AATTAATCCG
1715260 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGC-TTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
1715324 ATATATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
1715389 TTGTCAGGCCAAAGAC-TTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
1715441 TAAAGCTGAGCTATTCCACTAAGGCAATTGG-T-TAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1715504 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
1715569 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
1715622 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
1715687 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTAGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
1715751 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
1715793 TAAACCTGAT
Statistics
Matches: 338, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
179 24 0.07
180 87 0.26
181 97 0.29
182 2 0.01
183 128 0.38
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:1716988 original size:36 final size:35
Alignment explanation
Indices: 1716948--1717061 Score: 93
Period size: 36 Copynumber: 3.2 Consensus size: 35
1716938 CACTCAAATT
1716948 TGTTTTTCTTAAAACATATTTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-ATTTTGTCTCACTTGAGAC
** * * * * ** *
1716984 TGTTTTTCTCGAAAGAAGATTTATTTCACTCAAGAT
1 TGTTTTTCTTAAAACAA-TTTTGTCTCACTTGAGAC
* *
1717020 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAACAA-TTTTGTCTCACTTGAGAC
*
1717056 CGTTTT
1 TGTTTT
1717062 CACTCGAAAG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
35 1 0.02
36 57 0.98
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (35 bp):
TGTTTTTCTTAAAACAATTTTGTCTCACTTGAGAC
Found at i:1717023 original size:72 final size:75
Alignment explanation
Indices: 1716932--1717106 Score: 218
Period size: 72 Copynumber: 2.4 Consensus size: 75
1716922 ATGCAGATGA
* * * *
1716932 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-TTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
1716994 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
1717004 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
1717069 AAGAAGGCAT
66 AAGAAGGCAT
**
1717079 TTCATTTCACTCAAGGCTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
1717107 GAAGATTTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.01
72 50 0.56
73 11 0.12
74 1 0.01
75 8 0.09
76 19 0.21
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:1717141 original size:73 final size:72
Alignment explanation
Indices: 1716948--1717143 Score: 177
Period size: 72 Copynumber: 2.7 Consensus size: 72
1716938 CACTCAAATT
* * * * *
1716948 TGTTTTTCTTAAAACATA-TTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAGAAGATTTATTTC
1 TGTTTTTCTT-AAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTC
*
1717011 ACTCAAGAT
64 ACTCAAGAC
* *
1717020 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAA-G-ATTT-ATT
*
1717085 TCACTCAAGGC
62 TCACTCAAGAC
* * * *
1717096 TGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAG-TTTCCCTCGAAA
1 TGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
1717144 CAGAAAATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
71 1 0.01
72 37 0.35
73 27 0.25
74 16 0.15
75 6 0.06
76 19 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (72 bp):
TGTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTCAC
TCAAGAC
Found at i:1717165 original size:39 final size:39
Alignment explanation
Indices: 1717122--1717274 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
1717112 TTTTATCTTG
*
1717122 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
1717161 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCCCTCG-AAACA--------G-AA--AATTTTGTCTC-C
* *
1717213 C-TGAGATAGTTTCCCTCGAAACAGAAAATTGTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* *
1717251 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
1717275 TAAACATTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
38 2 0.02
39 44 0.50
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.27
52 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:1717360 original size:106 final size:105
Alignment explanation
Indices: 1717177--1717496 Score: 506
Period size: 106 Copynumber: 3.1 Consensus size: 105
1717167 ACAGTTTCTC
* *
1717177 TTGAAAACATTTCCCTTGAAATTA-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
*
1717241 TTGTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
1717281 TTGAAAACATTTCCCTTGAAATGATTTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGA-TATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1717346 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
1717387 TTGAAAACATTTCCCTTGAAATGA-ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
** *
1717448 TTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
1717488 TTGAAAACA
1 TTGAAAACA
1717497 ATTTAACGAA
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
101 48 0.24
103 1 0.00
104 53 0.26
106 101 0.50
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:1717443 original size:36 final size:36
Alignment explanation
Indices: 1717396--1717471 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
1717386 ATTGAAAACA
* * *
1717396 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
1717432 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
1717468 TTTC
1 TTTC
1717472 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:1717872 original size:105 final size:105
Alignment explanation
Indices: 1717671--1718196 Score: 774
Period size: 105 Copynumber: 5.0 Consensus size: 105
1717661 ATATCGTGAC
* * * * *
1717671 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
1717736 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1717777 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACGTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1717842 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1717882 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
1717947 ATCTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1717987 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
1718048 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
1718087 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
** * * *
1718152 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1718193 ACTC
1 ACTC
1718197 GGAACAATGC
Statistics
Matches: 383, Mismatches: 31, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
100 81 0.21
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 204 0.53
106 85 0.22
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1719034 original size:64 final size:64
Alignment explanation
Indices: 1718964--1719126 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
1718954 CGGTGCACCA
*
1718964 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * ** *
1719028 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATTG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
1719093 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
1719127 CAATTAATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 39 0.46
65 45 0.54
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:1719366 original size:20 final size:21
Alignment explanation
Indices: 1719343--1719382 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1719333 GAATCGAATA
1719343 TAAAAT-TATAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
1719363 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
1719383 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:1721043 original size:21 final size:21
Alignment explanation
Indices: 1720987--1721050 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1720977 TCAATAAGCC
* *
1720987 ATTAGGA-GCTTGAGGATCAGG
1 ATTAGGATG-TTGAGGAACGGG
* **
1721008 ATTAGGTTGAGGAGGAACGGG
1 ATTAGGATGTTGAGGAACGGG
1721029 ATTAGGATGTTGAGGAACGGG
1 ATTAGGATGTTGAGGAACGGG
1721050 A
1 A
1721051 GGACTATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.42, T:0.22
Consensus pattern (21 bp):
ATTAGGATGTTGAGGAACGGG
Found at i:1721762 original size:20 final size:21
Alignment explanation
Indices: 1721736--1721792 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
1721726 AAACCCGACG
1721736 GATGCATCGATGCATAGTC-T
1 GATGCATCGATGCATAGTCAT
* *
1721756 TATGCATCGATGCATATTCAAT
1 GATGCATCGATGCATAGTC-AT
1721778 GATGCATCGATGCAT
1 GATGCATCGATGCAT
1721793 TGTTAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (21 bp):
GATGCATCGATGCATAGTCAT
Found at i:1722894 original size:8 final size:8
Alignment explanation
Indices: 1722875--1722905 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1722865 TTGTCTGGGA
1722875 TATTATTAT
1 TATTA-TAT
1722884 TATTATAT
1 TATTATAT
1722892 TATTATAT
1 TATTATAT
1722900 TATTAT
1 TATTAT
1722906 CGTTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTATAT
Found at i:1723534 original size:12 final size:13
Alignment explanation
Indices: 1723519--1723550 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
1723509 ACCAGGAAGT
1723519 AAGAAAAGAAAA-
1 AAGAAAAGAAAAG
1723531 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
1723544 AAGAAAA
1 AAGAAAA
1723551 ATTGTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAG
Found at i:1726324 original size:16 final size:16
Alignment explanation
Indices: 1726298--1726335 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
1726288 TCTACTAAAG
1726298 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
1726315 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
1726331 CATGT
1 CATGT
1726336 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:1736282 original size:7 final size:8
Alignment explanation
Indices: 1736248--1736281 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
1736238 AAAATGAGTG
1736248 AAAAT-AA
1 AAAATAAA
1736255 AAAATAAA
1 AAAATAAA
1736263 AAAATAAA
1 AAAATAAA
1736271 AAAATAAA
1 AAAATAAA
1736279 AAA
1 AAA
1736282 TGAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:1736296 original size:11 final size:11
Alignment explanation
Indices: 1736249--1736293 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
1736239 AAATGAGTGA
1736249 AAATAAAAAAT
1 AAATAAAAAAT
* *
1736260 AAAAAAATAAAA
1 AAATAAA-AAAT
1736272 AAATAAAAAAT
1 AAATAAAAAAT
*
1736283 GAATAAAAAAT
1 AAATAAAAAAT
1736294 GAAAAATGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:1737454 original size:55 final size:55
Alignment explanation
Indices: 1737298--1737663 Score: 614
Period size: 55 Copynumber: 6.7 Consensus size: 55
1737288 GGTTTCCCAA
*
1737298 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
1737353 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
1737406 CGATCGTTGAAGATTATTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
1737461 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1737514 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
1737569 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCCGACG
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
1737624 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
1 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGA
1737664 GAGAAGGAGC
Statistics
Matches: 293, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
53 98 0.33
54 4 0.01
55 191 0.65
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:1737487 original size:108 final size:108
Alignment explanation
Indices: 1737298--1737663 Score: 642
Period size: 108 Copynumber: 3.4 Consensus size: 108
1737288 GGTTTCCCAA
1737298 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1737363 AGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
66 AGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
1737406 CGATCGTTGAAGATTATTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1737471 AGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
66 AGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
1737514 CGATCGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
* *
1737579 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCCGACG
66 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
1737624 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
1737664 GAGAAGGAGC
Statistics
Matches: 247, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
108 174 0.70
109 1 0.00
110 72 0.29
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (108 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
AGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:1737575 original size:163 final size:163
Alignment explanation
Indices: 1737305--1737663 Score: 623
Period size: 163 Copynumber: 2.2 Consensus size: 163
1737295 CAACGATCGT
*
1737305 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGATGAAGATTGT
*
1737370 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATTCGGGTCTTATA
66 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATTCGAGTCTTATA
1737435 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
131 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* *
1737468 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGATGAAGATTG-
*
1737531 TCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTA
65 T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATTCGAGTCTTA
* *
1737596 TACTCTCTGAAGAAATAGGGGGCCGACGCGATTGT
129 TACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
1737631 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
1737664 GAGAAGGAGC
Statistics
Matches: 184, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
161 49 0.27
162 2 0.01
163 112 0.61
164 1 0.01
165 20 0.11
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (163 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGATGAAGATTGT
GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATTCGAGTCTTATA
CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
Found at i:1737889 original size:54 final size:54
Alignment explanation
Indices: 1737632--1737874 Score: 328
Period size: 54 Copynumber: 4.5 Consensus size: 54
1737622 CGCGATTGTT
* * * * * * *
1737632 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGAGAGAAGGAGCGAACCCGTTTGAA
1 GAAGATT-TTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
* * *
1737687 GAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGAGAGCGAACTCGTTCGCA
1 GAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
*
1737741 AAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
1 GAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
1737795 GAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
1 GAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
* *
1737849 TAAGA-TTTCTGAGTTCTATACTCCCT
1 GAAGATTTTC-GAGTTCCATACTCCCT
1737875 GAAACAATAG
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
53 4 0.02
54 157 0.93
55 8 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (54 bp):
GAAGATTTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCA
Found at i:1740554 original size:6 final size:7
Alignment explanation
Indices: 1740537--1740568 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1740527 AAAAAATAAT
1740537 TTTTTTA
1 TTTTTTA
1740544 TTTTTTA
1 TTTTTTA
1740551 TTTTTTA
1 TTTTTTA
1740558 TTTTTTGA
1 TTTTTT-A
1740566 TTT
1 TTT
1740569 ATTACTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:1740811 original size:20 final size:19
Alignment explanation
Indices: 1740766--1740813 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1740756 AAATGGAATC
*
1740766 TTTTTAATAAATTTAATGA
1 TTTTTTATAAATTTAATGA
*
1740785 TTATTTATAAATTTTAAT-A
1 TTTTTTATAAA-TTTAATGA
1740804 TATTTTTATA
1 T-TTTTTATA
1740814 TTAATGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTTATAAATTTAATGA
Found at i:1740929 original size:20 final size:20
Alignment explanation
Indices: 1740890--1740934 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1740880 TCCTAGAAAA
*
1740890 ATAAATTACATTTATATTAT
1 ATAAATTACATTAATATTAT
* *
1740910 ATAAATTTCATTAATTTTAT
1 ATAAATTACATTAATATTAT
*
1740930 GTAAA
1 ATAAA
1740935 AATATAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAAATTACATTAATATTAT
Found at i:1741572 original size:121 final size:123
Alignment explanation
Indices: 1741344--1741591 Score: 466
Period size: 121 Copynumber: 2.0 Consensus size: 123
1741334 TATTGGATAC
1741344 ATAT-TAACTTTATTAGGGGTAAACAATGAAATAATTTAGTTTAATAAAATAACTAAAAGATTTA
1 ATATATAACTTTATTAGGGGTAAACAATGAAATAATTTAGTTTAATAAAATAACTAAAAGATTTA
*
1741408 AATTATATTATTAATATTGAAAGGGACTAAAATATTATCCATTTAATCAAAGGGAGTA
66 AATTATATTAATAATATTGAAAGGGACTAAAATATTATCCATTTAATCAAAGGGAGTA
1741466 ATATATAACTTTA-TAGGGGTAAACAATGAAAT-ATTTAGTTTAATAAAATAACTAAAAGATTTA
1 ATATATAACTTTATTAGGGGTAAACAATGAAATAATTTAGTTTAATAAAATAACTAAAAGATTTA
1741529 AATTATATTAATAATATTGAAAGGGACTAAAATATTATCCATTTAATCAAAGGGAGTA
66 AATTATATTAATAATATTGAAAGGGACTAAAATATTATCCATTTAATCAAAGGGAGTA
1741587 ATATA
1 ATATA
1741592 ATATCAGAGG
Statistics
Matches: 124, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
121 93 0.75
122 23 0.19
123 8 0.06
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (123 bp):
ATATATAACTTTATTAGGGGTAAACAATGAAATAATTTAGTTTAATAAAATAACTAAAAGATTTA
AATTATATTAATAATATTGAAAGGGACTAAAATATTATCCATTTAATCAAAGGGAGTA
Found at i:1743356 original size:2 final size:2
Alignment explanation
Indices: 1743349--1743374 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1743339 GAATATCCAC
1743349 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
1743375 GAGTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1746519 original size:21 final size:21
Alignment explanation
Indices: 1746495--1746561 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1746485 GATTCGCAAC
1746495 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
1746516 GCGATTCATTCCAA-AT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
*
1746536 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
1746557 GCGAT
1 GCGAT
1746562 TCATTCAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 8 0.24
21 13 0.38
22 2 0.06
23 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCGTT
Found at i:1746537 original size:20 final size:21
Alignment explanation
Indices: 1746512--1746602 Score: 91
Period size: 20 Copynumber: 4.4 Consensus size: 21
1746502 TCGAAGTTCG
1746512 CGTTGCGATTCATTCCAAA-T
1 CGTTGCGATTCATTCCAAATT
** * *
1746532 CGTTGCGA-T-AGGCGAAGTT
1 CGTTGCGATTCATTCCAAATT
1746551 CGCGTTGCGATTCATT-CAAATT
1 --CGTTGCGATTCATTCCAAATT
*
1746573 CGTTGCGATTCATTCAAAATT
1 CGTTGCGATTCATTCCAAATT
1746594 CGTTGCGAT
1 CGTTGCGAT
1746603 AGTCCAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.07
19 2 0.04
20 22 0.39
21 22 0.39
22 5 0.09
23 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (21 bp):
CGTTGCGATTCATTCCAAATT
Found at i:1746540 original size:41 final size:41
Alignment explanation
Indices: 1746495--1746581 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
1746485 GATTCGCAAC
*
1746495 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATT-CAAATTCGTT
1746536 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCAAATTCGTT
1746577 GCGAT
1 GCGAT
1746582 TCATTCAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 4 0.09
41 40 0.91
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCAAATTCGTT
Found at i:1747538 original size:20 final size:20
Alignment explanation
Indices: 1747513--1747580 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
1747503 ACTTCGTCTG
1747513 TCGCAACGAATTGGAATGAA
1 TCGCAACGAATTGGAATGAA
* **
1747533 TCGCAATGCGAACTTCGCCTG--
1 TCGCAA--CGAA-TTGGAATGAA
*
1747554 TCGCAACGATTTGGAATGAA
1 TCGCAACGAATTGGAATGAA
1747574 TCGCAAC
1 TCGCAAC
1747581 ACGAACTTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
20 13 0.36
21 6 0.17
22 4 0.11
23 5 0.14
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TCGCAACGAATTGGAATGAA
Found at i:1747548 original size:41 final size:41
Alignment explanation
Indices: 1747491--1747590 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
1747481 TATTTAGACT
*
1747491 ATCGCAACGCGAACTTCGTCTGTCGCAACGAATTGGAATGA
1 ATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
* *
1747532 ATCGCAATGCGAACTTCGCCTGTCGCAACGATTTGGAATGA
1 ATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
*
1747573 ATCGCAACACGAACTTCG
1 ATCGCAACGCGAACTTCG
1747591 ACTATCGCGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
Found at i:1748112 original size:23 final size:23
Alignment explanation
Indices: 1748086--1748132 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1748076 GTCTATAATG
1748086 TTATCAAATGATTACTCCTCCAT
1 TTATCAAATGATTACTCCTCCAT
*
1748109 TTATCAAATGATTTCTCCTCCAT
1 TTATCAAATGATTACTCCTCCAT
1748132 T
1 T
1748133 ATCCCCGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.43
Consensus pattern (23 bp):
TTATCAAATGATTACTCCTCCAT
Found at i:1756225 original size:18 final size:20
Alignment explanation
Indices: 1756202--1756242 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
1756192 ACTTCAAATT
1756202 TTTTCGAGTAT-AG-TTAAA
1 TTTTCGAGTATCAGTTTAAA
*
1756220 TTTTCGTGTATCAGTTTAAA
1 TTTTCGAGTATCAGTTTAAA
1756240 TTT
1 TTT
1756243 AATTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 2 0.10
20 8 0.40
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (20 bp):
TTTTCGAGTATCAGTTTAAA
Found at i:1759213 original size:16 final size:18
Alignment explanation
Indices: 1759192--1759225 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1759182 TGCTCCTATA
1759192 TTTTCTTA-AAA-AATAT
1 TTTTCTTATAAATAATAT
1759208 TTTTCTTATAAATAATAT
1 TTTTCTTATAAATAATAT
1759226 AATTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTCTTATAAATAATAT
Found at i:1760252 original size:40 final size:40
Alignment explanation
Indices: 1760208--1760286 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
1760198 AAATATATGT
* *
1760208 TAGTGAAATCGATAAGAAATCCATTAATCTCATCGGTAAG
1 TAGTGAAATCCACAAGAAATCCATTAATCTCATCGGTAAG
*
1760248 TAGTGAAATCCACAAGAAATCTATTAATCTCATCGGTAA
1 TAGTGAAATCCACAAGAAATCCATTAATCTCATCGGTAA
1760287 TTATCCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (40 bp):
TAGTGAAATCCACAAGAAATCCATTAATCTCATCGGTAAG
Found at i:1766154 original size:18 final size:18
Alignment explanation
Indices: 1766131--1766166 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1766121 AAAATATTAG
* *
1766131 AATTTATTTAAGATTAAT
1 AATTTATTAAAAATTAAT
1766149 AATTTATTAAAAATTAAT
1 AATTTATTAAAAATTAAT
1766167 TATAATTTTA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTTATTAAAAATTAAT
Found at i:1768037 original size:57 final size:58
Alignment explanation
Indices: 1767976--1768092 Score: 164
Period size: 57 Copynumber: 2.0 Consensus size: 58
1767966 TCACTCTTTA
* * *
1767976 AACTCAACACATGTCTTTGATTCAGCAGC-TTTTCTACCTCTATATCGTTGCTCATTC
1 AACTCAACACATATATTTGATTCAGCAGCTTTTTCTACCTCTATACCGTTGCTCATTC
* * * *
1768033 AACTCAACATATATATTTGATTCAGCAGCTTTTTCTACCTCTCTCCCGTTGCTCTTTC
1 AACTCAACACATATATTTGATTCAGCAGCTTTTTCTACCTCTATACCGTTGCTCATTC
1768091 AA
1 AA
1768093 TTGAGAAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 26 0.50
58 26 0.50
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.39
Consensus pattern (58 bp):
AACTCAACACATATATTTGATTCAGCAGCTTTTTCTACCTCTATACCGTTGCTCATTC
Found at i:1768262 original size:2 final size:2
Alignment explanation
Indices: 1768213--1768244 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1768203 TACCCAAATC
1768213 AT 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 AT
1768245 TAGGTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1770852 original size:21 final size:21
Alignment explanation
Indices: 1770828--1770881 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1770818 CACAGTTTCT
*
1770828 AAATTCGCAACGTGATACTCA
1 AAATTCGCAACGTAATACTCA
* *
1770849 AAATTCGCAACGTAATTCTCT
1 AAATTCGCAACGTAATACTCA
1770870 AAATTCGCAACG
1 AAATTCGCAACG
1770882 CGATTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (21 bp):
AAATTCGCAACGTAATACTCA
Found at i:1771000 original size:79 final size:78
Alignment explanation
Indices: 1770870--1771046 Score: 228
Period size: 79 Copynumber: 2.2 Consensus size: 78
1770860 GTAATTCTCT
* ** * * *
1770870 AAATTCGCAACGCGATTTTCATTTTTGCAACGCTAATTACCGGTATAGGTAAATACAACTATTCA
1 AAATTCGCAACGCGATTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCA
1770935 CAACTCAGTTTTC
66 CAACTCAGTTTTC
* * * * *
1770948 AAATTAGCAACGCGATTCTCCAAATTCGCAATGCTAATTATCGATATAGGTAAACATAATTATTC
1 AAATTCGCAACGCGATT-TCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTC
*
1771013 GCAACTCAGTTTTC
65 ACAACTCAGTTTTC
1771027 AAATTCGCAACGCGAATTTC
1 AAATTCGCAACGCG-ATTTC
1771047 GTTTTCGCGT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 16 0.19
79 65 0.77
80 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (78 bp):
AAATTCGCAACGCGATTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCA
CAACTCAGTTTTC
Found at i:1771457 original size:20 final size:20
Alignment explanation
Indices: 1771406--1771450 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1771396 AAATCTCGTA
* *
1771406 GCGAAAACGAAATTCGTGTT
1 GCGAAAATGAAATTCGCGTT
1771426 GCGAAAATGAAATTCGCGTT
1 GCGAAAATGAAATTCGCGTT
1771446 GCGAA
1 GCGAA
1771451 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (20 bp):
GCGAAAATGAAATTCGCGTT
Found at i:1771575 original size:79 final size:79
Alignment explanation
Indices: 1771439--1771611 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 79
1771429 AAAATGAAAT
*
1771439 TCGCGTTGCGAATTTGAAAACTGAGTTACGAATAATTGTGTTTACCTATATCAGTAATTAGCATT
1 TCGCGTTGCGAATTTGAAAACTGAGTTACGAATAATTGTGTTTACCTATACCAGTAATTAGCATT
*
1771504 GCAAATTTGGAGAA
66 GCAAATTTAGAGAA
* ** * * *
1771518 TCGCGTTGCTAATTTGAAAACTGAGTTGTGAATAGTTGTGTTTACCTATACCGGTAATTAGCGTT
1 TCGCGTTGCGAATTTGAAAACTGAGTTACGAATAATTGTGTTTACCTATACCAGTAATTAGCATT
*
1771583 GCGAATTTAGAGAA
66 GCAAATTTAGAGAA
* *
1771597 TCACATTGCGAATTT
1 TCGCGTTGCGAATTT
1771612 AGAGTATCGC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (79 bp):
TCGCGTTGCGAATTTGAAAACTGAGTTACGAATAATTGTGTTTACCTATACCAGTAATTAGCATT
GCAAATTTAGAGAA
Found at i:1771637 original size:21 final size:21
Alignment explanation
Indices: 1771578--1771652 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
1771568 CCGGTAATTA
*
1771578 GCGTTGCGAATTTAGAGAATC
1 GCGTTGCGAATTTAGAGTATC
* *
1771599 ACATTGCGAATTTAGAGTATC
1 GCGTTGCGAATTTAGAGTATC
* *
1771620 GCGTTGCGAAATTGGAGT-TC
1 GCGTTGCGAATTTAGAGTATC
1771640 GCGTTGCGAATTT
1 GCGTTGCGAATTT
1771653 GTTGGTTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
20 14 0.30
21 32 0.70
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (21 bp):
GCGTTGCGAATTTAGAGTATC
Found at i:1772205 original size:13 final size:13
Alignment explanation
Indices: 1772189--1772229 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1772179 AATTGATGAT
1772189 AATAAACTATAAA
1 AATAAACTATAAA
1772202 AAT-AAC-AT--A
1 AATAAACTATAAA
1772211 AATAAACTATAAA
1 AATAAACTATAAA
1772224 AATAAA
1 AATAAA
1772230 GTTATGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 4 0.17
10 3 0.12
11 4 0.17
12 3 0.12
13 10 0.42
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAACTATAAA
Found at i:1778073 original size:23 final size:23
Alignment explanation
Indices: 1778038--1778089 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1778028 TTCATGCTCG
* *
1778038 TTCGTTTAGTGTTCGCGAACATA
1 TTCGTTCAATGTTCGCGAACATA
* *
1778061 TTCGTTCAATGTTTGCGAACATG
1 TTCGTTCAATGTTCGCGAACATA
1778084 TTCGTT
1 TTCGTT
1778090 TATATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (23 bp):
TTCGTTCAATGTTCGCGAACATA
Found at i:1783180 original size:23 final size:23
Alignment explanation
Indices: 1783126--1783182 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1783116 TGTCAGTTGT
*
1783126 TGAACGTTAAATGAACATGTTCA
1 TGAACGTTAAATAAACATGTTCA
** *
1783149 CAAATGTTAAATAAACATGTTCA
1 TGAACGTTAAATAAACATGTTCA
1783172 TGAACGTTAAA
1 TGAACGTTAAA
1783183 CAAATATATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
TGAACGTTAAATAAACATGTTCA
Found at i:1783325 original size:3 final size:3
Alignment explanation
Indices: 1783317--1783348 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1783307 ATTGTATTCT
1783317 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1783349 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1783445 original size:29 final size:29
Alignment explanation
Indices: 1783413--1783490 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
1783403 ACATAAATTA
*
1783413 TAAATTTAATTTATATACTTTAATTTAAT
1 TAAATTTAATATATATACTTTAATTTAAT
* *
1783442 TAAATTTGATATATATACTTTAATTTAGT
1 TAAATTTAATATATATACTTTAATTTAAT
*
1783471 TAAATTTAATGTATATACTT
1 TAAATTTAATATATATACTT
1783491 GAATACACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (29 bp):
TAAATTTAATATATATACTTTAATTTAAT
Found at i:1790698 original size:2 final size:2
Alignment explanation
Indices: 1790691--1790722 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1790681 TCCTGTTATT
1790691 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1790723 AGACCTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1792750 original size:15 final size:15
Alignment explanation
Indices: 1792730--1792758 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1792720 CCAATAACAG
1792730 AATATTTAAGTTGAA
1 AATATTTAAGTTGAA
1792745 AATATTTAAGTTGA
1 AATATTTAAGTTGA
1792759 TGAAAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
AATATTTAAGTTGAA
Found at i:1795677 original size:60 final size:60
Alignment explanation
Indices: 1795569--1795682 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
1795559 CTTTGAGTAC
* * ** *
1795569 CATTCTAAATTAGTCCTCAAACTTTTGAACATTTTATTTTAATCCCCAAACTATGAAATG
1 CATTCTAAATTACTCCCCAAACTTTTGAACATTCCAATTTAATCCCCAAACTATGAAATG
* *
1795629 CATTCTAAATTTCTCCCCAAACTTTTTGAACATTCCAATTTCAT-CCCAAACTAT
1 CATTCTAAATTACTCCCCAAAC-TTTTGAACATTCCAATTTAATCCCCAAACTAT
1795683 ATGTATGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 29 0.63
61 17 0.37
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (60 bp):
CATTCTAAATTACTCCCCAAACTTTTGAACATTCCAATTTAATCCCCAAACTATGAAATG
Found at i:1795958 original size:60 final size:59
Alignment explanation
Indices: 1795814--1795958 Score: 156
Period size: 57 Copynumber: 2.5 Consensus size: 59
1795804 ATGAAAATCG
** *
1795814 AATATTCAAAAGTTTGGGGACAAATTTAGAAATAGGGTCATAGTTTAGGAATGAAATTA
1 AATATTCAAAAGTTTAAGGACAAATTTAGAAATAGGGTCATAGTTCAGGAATGAAATTA
* * *
1795873 GA-A-TCAAAAGTTTAAGGACTAATTTAG-AAT-GGGATTCATAGTTCAGTG-ATGGAATTAA
1 AATATTCAAAAGTTTAAGGACAAATTTAGAAATAGGG--TCATAGTTCAG-GAATGAAATT-A
*
1795931 AATATTCAAAAGTTTAAGGACCAATTTA
1 AATATTCAAAAGTTTAAGGACAAATTTA
1795959 ACACGATGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
55 3 0.04
56 3 0.04
57 38 0.53
58 4 0.06
59 2 0.03
60 22 0.31
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (59 bp):
AATATTCAAAAGTTTAAGGACAAATTTAGAAATAGGGTCATAGTTCAGGAATGAAATTA
Found at i:1796047 original size:27 final size:27
Alignment explanation
Indices: 1796016--1796074 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
1796006 TATTACATGA
*
1796016 TAATTAAATGTAAAATAAATAATTCAG
1 TAATTAAATGCAAAATAAATAATTCAG
* * * *
1796043 TAATTCATTGCACAGTAAATAATTCAG
1 TAATTAAATGCAAAATAAATAATTCAG
1796070 TAATT
1 TAATT
1796075 TATTACATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (27 bp):
TAATTAAATGCAAAATAAATAATTCAG
Found at i:1803641 original size:901 final size:899
Alignment explanation
Indices: 1800770--1803821 Score: 5276
Period size: 899 Copynumber: 3.4 Consensus size: 899
1800760 AGAGGCAAAT
* * **
1800770 GGACAAGATCATTTAGTTCCTGCAGCTGAGGATAA-AA-GTACTTGGGGAAATGAGATGGAATCG
1 GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATG-A-TCGGGGAAATGAGGCGGAATCG
* * * * *
1800833 GCTTCTCTTAAACATGATGGCCTAGCATCTCCTCGTATCGAGTACCCAACGCACAATAAGAAAGG
64 GCTTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGG
* *
1800898 TTAGGATATCTCTTGATTACTGATATTTGGTTGGCTATTCCCACTTGCTAAAAAGTATATTTTTT
129 TTAGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTT
* * **
1800963 TCGACTTAAAATGATTATGGATTAATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAA
194 TCGACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAA
*
1801028 ATACCTTTGAAAGAAGATGCTAGTACAGACGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGG
259 ATACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGG
*
1801093 TGGAGACGGAAGTACTCATGGAAGAAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTC
324 TGGAGACGGAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTC
* * *
1801158 ATCCGTGTATTGACAAGCCAAAACCTAACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTAT
389 ATCCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTAT
*
1801223 ATATTCCAATTCCAATGAACTAATGCAAAAAAACAATGTTTCAGCGTCAGTATTTCTAAATTATA
454 ATGTTCCAATTCCAATGAACTAATGCAAAAAAACAATGTTTCAGCGTCAGTATTTCTAAATTATA
1801288 TTTACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTG
519 TTTACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTG
*
1801353 GAGCGATCCTCACAAGAAGCGGGTAGCACAGATGTAATGGATAGACAAGGTCAATTACTTGCTCT
584 GAGCGATCCTCACAAGAAGCTGGTAGCACAGATGTAATGGATAGACAAGGTCAATTACTTGCTCT
1801418 AGTTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGG
649 AGTTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGG
*
1801483 CAGATCTTCACTGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCC
714 CAGATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCC
*
1801548 AATAAATGGTTCTCTG--TAT-ATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATGA
779 AATATATGGTTCTCTGTATATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATGA
1801610 TTCCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
844 TTCCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
* *
1801666 GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATGCTAGGGGAAATGAGGCGGAATCGGC
1 GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATGATCGGGGAAATGAGGCGGAATCGGC
*
1801731 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGATGACCCGACACACAATAAGAAAGGTT
66 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGGTT
* *
1801796 AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTACAAGGTAAATTTTTTTC
131 AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTTTC
* * *
1801861 TACTTACGATGATGATGGATCGATTTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
196 GACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
*
1801926 ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAATTCCCGCAGGTG
261 ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGGTG
1801991 GAGACGGAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTCAT
326 GAGACGGAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTCAT
1802056 CCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTATAT
391 CCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTATAT
*
1802121 GTTCCAATTCCAATGAACTAATGCAAAAAACCAATGTTTCAGCGTCAGTATTTCTAAATTATATT
456 GTTCCAATTCCAATGAACTAATGCAAAAAAACAATGTTTCAGCGTCAGTATTTCTAAATTATATT
1802186 TACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATAT---CATAAATGATGAAATCGTGGA
521 TACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTGGA
*
1802248 GCGATCCTCACAAGAAGCTGGTAGCACAGATGTAACGGATAGACAAGGTCAATTACTTGCTCTAG
586 GCGATCCTCACAAGAAGCTGGTAGCACAGATGTAATGGATAGACAAGGTCAATTACTTGCTCTAG
1802313 TTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGGCA
651 TTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGGCA
*
1802378 GATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGTCAA
716 GATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCCAA
1802443 TATATGGTTCTCTGTATATGATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATG
781 TATATGGTTCTCTG--TAT-ATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATG
1802508 ATTCCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
843 ATTCCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
* *
1802565 GGACAAGATCATCTATTTCCTGCAGCTGAGGATAACAATGCTCGGGGAAATGAGGCGGAATCGGC
1 GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATGATCGGGGAAATGAGGCGGAATCGGC
1802630 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGGTT
66 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGGTT
1802695 AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTTTC
131 AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTTTC
1802760 GACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
196 GACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
1802825 ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGGTG
261 ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGGTG
*
1802890 GAGACGTAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTCAT
326 GAGACGGAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTCAT
1802955 CCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTATAT
391 CCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTATAT
* * *
1803020 GTTCCAATTCCAATGAACAAATGCAAAAAAAAACAGTGTTTCAGCGTCAGTATTTCTAAATTAGA
456 GTTCCAATTCCAATGAACTAATGC--AAAAAAACAATGTTTCAGCGTCAGTATTTCTAAATTATA
1803085 TTTACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTG
519 TTTACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTG
* *
1803150 GAGCGATCCTCACAAGAAGCTGGTAGCACAGATGTAATGGATATACAAGGTCAATTATTTGCTCT
584 GAGCGATCCTCACAAGAAGCTGGTAGCACAGATGTAATGGATAGACAAGGTCAATTACTTGCTCT
**
1803215 AGTTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAACTG
649 AGTTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGG
1803280 CAGATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCC
714 CAGATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCC
1803345 AATATATGGTTCTCTGTATATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATGA
779 AATATATGGTTCTCTGTATATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATGA
*
1803410 TTCCAGTAGATAAGGAAGATTCCATGAAGGAAACTGGTTATGCAGAAAAGGAAAAA
844 TTCCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
*
1803466 GGACAAGATCATTTATTTCCTGCGGCTGAGGATAACAATGATCGGGGAAATGAGGCGGAATCGGC
1 GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATGATCGGGGAAATGAGGCGGAATCGGC
* * *
1803531 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCAAGGACACGACACACAATGAGAAAGGTT
66 TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGGTT
* * * * *
1803596 AGGATATATCTTGATTACTGATGTATGGTTGGTTATTCCCACTTGCTAAAAGATATA-TTTTGTC
131 AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTTTC
* * * * *
1803660 GACTTACTATGATGATGGATCCATGTAGAACAACATACTAGCACAATTCTTGAAGTAGAGGAATT
196 GACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
* * * * * *** * * * *
1803725 GCCCTTGAAAGAAGGTGCTAGTACGGATGAAACAAATATGGAAGGTCTCCTAGTTCCTGCAGGTG
261 ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGGTG
* * * * *
1803790 GAGATGAAAGTAGTCATGGAACCGAGACAGGG
326 GAGACGGAAGTACTCATGGAAGCAAGACAGGG
1803822 ACATTTTTGA
Statistics
Matches: 2054, Mismatches: 89, Indels: 22
0.95 0.04 0.01
Matches are distributed among these distances:
893 225 0.11
896 526 0.26
897 3 0.00
898 3 0.00
899 567 0.28
900 146 0.07
901 357 0.17
902 3 0.00
904 224 0.11
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (899 bp):
GGACAAGATCATTTATTTCCTGCAGCTGAGGATAACAATGATCGGGGAAATGAGGCGGAATCGGC
TTCTCTTGAACATGATGGCCTAGCATCTCCCCGTATCGAGGACCCGACACACAATAAGAAAGGTT
AGGATATCTCTTGATTACTGATATATGGTTGGCTATTCCCACTTGCTAAAAGGTATATTTTTTTC
GACTTACAATGATGATGGATCGATGTAGAACAAGATACTAGCACATTTCTTGAAGTAGAGGAAAT
ACCTTTGAAAGAAGATGCTAGTACAGATGAAATAAATGCAGAAGCTCGCCCAGTTCCCGCAGGTG
GAGACGGAAGTACTCATGGAAGCAAGACAGGGCTGGTTTTAGGTGATTGTGATGGAATGGTTCAT
CCATGTATTGACAAGCCGAAACCTGACGAGAAAGGTTAATGGATATGATGTTTTGTTGTCTATAT
GTTCCAATTCCAATGAACTAATGCAAAAAAACAATGTTTCAGCGTCAGTATTTCTAAATTATATT
TACATATTCGTACCGTGTTGAACCGGCGCAGGAGAGGATATGAACATAAATGATGAAATCGTGGA
GCGATCCTCACAAGAAGCTGGTAGCACAGATGTAATGGATAGACAAGGTCAATTACTTGCTCTAG
TTGAAGATAAAGCTACTTATGCAAATGAAACATGCTTAGTTTCCAGTGATCCCGAGGGAAAGGCA
GATCTTCACGGTGACAATCCTAAAGACCATGAGAAAGGTTAGAAATACAGTGTTTTATTTGCCAA
TATATGGTTCTCTGTATATGATGATGATGATGATGATTGATGTAGAAGAAGATAATAACATGATT
CCAGTAGATAAGGAAGATTCCATGAAAGAAACTGGTTATGCAGAAAAGGAAAAA
Found at i:1807780 original size:21 final size:21
Alignment explanation
Indices: 1807754--1807798 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1807744 AGTGAGGAAA
1807754 TTTATAATTCACCCTGATAGT
1 TTTATAATTCACCCTGATAGT
*
1807775 TTTATAATTCGCCCTGATAGT
1 TTTATAATTCACCCTGATAGT
1807796 TTT
1 TTT
1807799 TACTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (21 bp):
TTTATAATTCACCCTGATAGT
Found at i:1811632 original size:16 final size:16
Alignment explanation
Indices: 1811606--1811646 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1811596 TATTTATATA
1811606 ATTTAATAATATACATT
1 ATTTAA-AATATACATT
*
1811623 ATTTAAAATATATATT
1 ATTTAAAATATACATT
*
1811639 ATTGAAAA
1 ATTTAAAA
1811647 GTTCGAGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTAAAATATACATT
Found at i:1813101 original size:18 final size:17
Alignment explanation
Indices: 1813078--1813113 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1813068 AATCCGATCC
*
1813078 AAAATTAATTATTTTAGA
1 AAAATTAA-TATTATAGA
1813096 AAAATTAATATTATAGA
1 AAAATTAATATTATAGA
1813113 A
1 A
1813114 TTAAATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAATTAATATTATAGA
Found at i:1820689 original size:15 final size:15
Alignment explanation
Indices: 1820659--1820701 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
1820649 ACAATCTAAT
1820659 TAAAAATTAAAAAACA
1 TAAAAA-TAAAAAACA
1820675 TAAAAA-AAAACAACA
1 TAAAAATAAAA-AACA
1820690 TAAAAATAAAAA
1 TAAAAATAAAAA
1820702 TAAATTAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 11 0.44
16 10 0.40
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAATAAAAAACA
Done.