Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_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: 3141433
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 12
Found at i:1953630 original size:60 final size:60
Alignment explanation
Indices: 1953443--1953636 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1953433 CTTTAAATAT
**
1953443 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1953504 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1953564 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1953624 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1953637 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1953653 original size:21 final size:20
Alignment explanation
Indices: 1953629--1953705 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
1953619 ATATTCGCGT
1953629 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
1953650 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
1953670 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
1953692 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
1953706 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:1953716 original size:20 final size:20
Alignment explanation
Indices: 1953691--1953742 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1953681 AAGAATCGCG
*
1953691 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1953711 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1953731 TTGCGATTCTGG
1 TTGCGATTCTGG
1953743 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1954369 original size:30 final size:30
Alignment explanation
Indices: 1954310--1954374 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
1954300 GAGGAGGGTT
* * *
1954310 AGGTGCTGGTGGTGGAGCTGGATTTGGTGG
1 AGGTGCTGGTGCTGGAGCTGGACTCGGTGG
* * *
1954340 GGGTGCTGGTGCTGGAGGTGGGCTCGGTGG
1 AGGTGCTGGTGCTGGAGCTGGACTCGGTGG
1954370 AGGTG
1 AGGTG
1954375 GTGGACTTGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.08, C:0.09, G:0.57, T:0.26
Consensus pattern (30 bp):
AGGTGCTGGTGCTGGAGCTGGACTCGGTGG
Found at i:1954530 original size:15 final size:15
Alignment explanation
Indices: 1954506--1954537 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1954496 GGGAGCTGGA
*
1954506 GGTGGTGGTGGATTT
1 GGTGGAGGTGGATTT
1954521 GGTGGAGGTGGATTT
1 GGTGGAGGTGGATTT
1954536 GG
1 GG
1954538 AGGCGGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.56, T:0.34
Consensus pattern (15 bp):
GGTGGAGGTGGATTT
Found at i:1954581 original size:30 final size:30
Alignment explanation
Indices: 1954547--1954603 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1954537 GAGGCGGAGC
* *
1954547 TGGAGGTGGCGCAGGTGGTGGGTTTGGCGG
1 TGGAGCTGGCGCAGGCGGTGGGTTTGGCGG
* *
1954577 TGGAGCTGGTGTAGGCGGTGGGTTTGG
1 TGGAGCTGGCGCAGGCGGTGGGTTTGG
1954604 AGGTTTCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.07, C:0.09, G:0.58, T:0.26
Consensus pattern (30 bp):
TGGAGCTGGCGCAGGCGGTGGGTTTGGCGG
Found at i:1954956 original size:19 final size:21
Alignment explanation
Indices: 1954911--1954956 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
1954901 ATAATTTAGT
*
1954911 TTTAAAAATGAAATGATATAA
1 TTTAAAAATGAAATGAAATAA
**
1954932 ACTAAAAAT-AAA-GAAATAA
1 TTTAAAAATGAAATGAAATAA
1954951 TTTAAA
1 TTTAAA
1954957 TCAAAATATT
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
TTTAAAAATGAAATGAAATAA
Found at i:1954956 original size:24 final size:23
Alignment explanation
Indices: 1954920--1954964 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
1954910 TTTTAAAAAT
*
1954920 GAAATGATATAAACTAAAAATAAA
1 GAAATAATATAAA-TAAAAATAAA
* *
1954944 GAAATAATTTAAATCAAAATA
1 GAAATAATATAAATAAAAATA
1954965 TTTAAACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (23 bp):
GAAATAATATAAATAAAAATAAA
Found at i:1957899 original size:474 final size:474
Alignment explanation
Indices: 1957012--1957959 Score: 1878
Period size: 474 Copynumber: 2.0 Consensus size: 474
1957002 ACTGATTCTG
1957012 CTGAACAAGAATTAGTAGAAGGAGAGATTAGAGAGGGGGAAGATCAAGCTAAAGAGACTCTGGAA
1 CTGAACAAGAATTAGTAGAAGGAGAGATTAGAGAGGGGGAAGATCAAGCTAAAGAGACTCTGGAA
1957077 ATTTCTATTAATGCTATTACAGGGAATGTGGGGCATACTACCCTGAGAATCCAAGGTTTTATCAG
66 ATTTCTATTAATGCTATTACAGGGAATGTGGGGCATACTACCCTGAGAATCCAAGGTTTTATCAG
1957142 AGGAAAACCTATTAATGTGCTAATTGATAGTGGCAGCACCCATAGTTTTGTAACTCCTAAATGGG
131 AGGAAAACCTATTAATGTGCTAATTGATAGTGGCAGCACCCATAGTTTTGTAACTCCTAAATGGG
1957207 CCAAGGAAGGGGTTGAATTAGTACATACCCAACCATTAGTCATCACAGTAGCTAATGGGGAGAAG
196 CCAAGGAAGGGGTTGAATTAGTACATACCCAACCATTAGTCATCACAGTAGCTAATGGGGAGAAG
1957272 CTGTTCAGTACTGCTAGGAGTAATAAGGTGAGCTGGAAGATGCAAGGCTATGATTTTCAGCATGA
261 CTGTTCAGTACTGCTAGGAGTAATAAGGTGAGCTGGAAGATGCAAGGCTATGATTTTCAGCATGA
*
1957337 CTTTAGAGTATTAGCTTTGGGAGGTAGTGATATGGTTTTGGGGGTGGATTGGATGGAAGAATTCA
326 CTTTAGAGTATTAGCTCTGGGAGGTAGTGATATGGTTTTGGGGGTGGATTGGATGGAAGAATTCA
1957402 GCCCTATAATGATGGATTTTAAAACTAAAACTATCAGTTTTGAGAAGAATGGAGAAACTGTAGTT
391 GCCCTATAATGATGGATTTTAAAACTAAAACTATCAGTTTTGAGAAGAATGGAGAAACTGTAGTT
1957467 ATTAAAGGGTCTCAGAAGC
456 ATTAAAGGGTCTCAGAAGC
1957486 CTGAACAAGAATTAGTAGAAGGAGAGATTAGAGAGGGGGAAGATCAAGCTAAAGAGACTCTGGAA
1 CTGAACAAGAATTAGTAGAAGGAGAGATTAGAGAGGGGGAAGATCAAGCTAAAGAGACTCTGGAA
1957551 ATTTCTATTAATGCTATTACAGGGAATGTGGGGCATACTACCCTGAGAATCCAAGGTTTTATCAG
66 ATTTCTATTAATGCTATTACAGGGAATGTGGGGCATACTACCCTGAGAATCCAAGGTTTTATCAG
1957616 AGGAAAACCTATTAATGTGCTAATTGATAGTGGCAGCACCCATAGTTTTGTAACTCCTAAATGGG
131 AGGAAAACCTATTAATGTGCTAATTGATAGTGGCAGCACCCATAGTTTTGTAACTCCTAAATGGG
1957681 CCAAGGAAGGGGTTGAATTAGTACATACCCAACCATTAGTCATCACAGTAGCTAATGGGGAGAAG
196 CCAAGGAAGGGGTTGAATTAGTACATACCCAACCATTAGTCATCACAGTAGCTAATGGGGAGAAG
1957746 CTGTTCAGTACTGCTAGGAGTAATAAGGTGAGCTGGAAGATGCAAGGCTATGATTTTCAGCATGA
261 CTGTTCAGTACTGCTAGGAGTAATAAGGTGAGCTGGAAGATGCAAGGCTATGATTTTCAGCATGA
1957811 CTTTAGAGTATTAGCTCTGGGAGGTAGTGATATGGTTTTGGGGGTGGATTGGATGGAAGAATTCA
326 CTTTAGAGTATTAGCTCTGGGAGGTAGTGATATGGTTTTGGGGGTGGATTGGATGGAAGAATTCA
*
1957876 GCCCTATAATGATGGATTTTAAAACTAAAACTATCAGTTTTGAGAATAATGGAGAAACTGTAGTT
391 GCCCTATAATGATGGATTTTAAAACTAAAACTATCAGTTTTGAGAAGAATGGAGAAACTGTAGTT
1957941 ATTAAAGGGTCTCAGAAGC
456 ATTAAAGGGTCTCAGAAGC
1957960 TACCATTAAT
Statistics
Matches: 472, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
474 472 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (474 bp):
CTGAACAAGAATTAGTAGAAGGAGAGATTAGAGAGGGGGAAGATCAAGCTAAAGAGACTCTGGAA
ATTTCTATTAATGCTATTACAGGGAATGTGGGGCATACTACCCTGAGAATCCAAGGTTTTATCAG
AGGAAAACCTATTAATGTGCTAATTGATAGTGGCAGCACCCATAGTTTTGTAACTCCTAAATGGG
CCAAGGAAGGGGTTGAATTAGTACATACCCAACCATTAGTCATCACAGTAGCTAATGGGGAGAAG
CTGTTCAGTACTGCTAGGAGTAATAAGGTGAGCTGGAAGATGCAAGGCTATGATTTTCAGCATGA
CTTTAGAGTATTAGCTCTGGGAGGTAGTGATATGGTTTTGGGGGTGGATTGGATGGAAGAATTCA
GCCCTATAATGATGGATTTTAAAACTAAAACTATCAGTTTTGAGAAGAATGGAGAAACTGTAGTT
ATTAAAGGGTCTCAGAAGC
Found at i:1963527 original size:25 final size:26
Alignment explanation
Indices: 1963484--1963549 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
1963474 TAGTGAAGAC
* *
1963484 AAATGAAAGAAATTTTTAATAAAAATAG
1 AAAT-AAAGAAATATTAAATAAAAAT-G
*
1963512 ATATAAA-AAATATTAAATAAAAATG
1 AAATAAAGAAATATTAAATAAAAATG
1963537 AAATAAAGAAATA
1 AAATAAAGAAATA
1963550 GTAAGAGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 3 0.09
28 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (26 bp):
AAATAAAGAAATATTAAATAAAAATG
Found at i:1964538 original size:17 final size:17
Alignment explanation
Indices: 1964516--1964562 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
1964506 CCGGACTCTT
1964516 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
1964533 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
1964550 CTGGCCGTGTTGG
1 CTGGCCGT-TTGG
1964563 TTTCCCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (17 bp):
CTGGCCGTTTGGCATGA
Found at i:1964735 original size:18 final size:18
Alignment explanation
Indices: 1964690--1964724 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1964680 CAAAAACGAT
*
1964690 AAAATAAATAATAAAAAC
1 AAAACAAATAATAAAAAC
1964708 AAAACAAATAATAAAAA
1 AAAACAAATAATAAAAA
1964725 AGAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAACAAATAATAAAAAC
Found at i:1964946 original size:37 final size:37
Alignment explanation
Indices: 1964860--1965190 Score: 245
Period size: 38 Copynumber: 8.8 Consensus size: 37
1964850 AAAAAATTTC
*
1964860 AACTATATATTATATAA-ATTTCAAAATGATTTT-AA
1 AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
* * * *
1964895 AACAATTTATTATATAAGTTTTCAAAATGGTTTAAAA
1 AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
* * * *
1964932 AACTATATAATATATATGGTTTCAAAAAT-ATCTTCAAA
1 AACTATATATTATATAAGTTTTC-AAAATGAT-TTTAAA
* * *
1964970 AACTATATAATATATATGTTTTCAAAAAAATG-TTTTTAA
1 AACTATATATTATATAAGTTTTC---AAAATGATTTTAAA
*
1965009 AACTATA-A-TATATATGTTTTCAAAAATG-TTTTCAAA
1 AACTATATATTATATAAGTTTTC-AAAATGATTTT-AAA
1965045 AACTCTATATATATATATATAAGTTTTCAAAATGATTTTAAA
1 AA--C--TATATAT-TATATAAGTTTTCAAAATGATTTTAAA
* * *
1965087 AATTATATATTATATATA-TTTTCTAAAATGTCTTTTTTAA
1 AACTATATATTATATA-AGTTTTC-AAAATG--ATTTTAAA
*
1965127 AACTATATATTATAT-AGTTTT-AAAA--ACTATTAAA
1 AACTATATATTATATAAGTTTTCAAAATGA-TTTTAAA
*
1965161 AACTATATATTATATACGTAGTTTCAAAAT
1 AACTATATATTATATAAGT--TTTCAAAAT
1965191 ATGTATATAT
Statistics
Matches: 244, Mismatches: 25, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
34 20 0.08
35 28 0.11
36 17 0.07
37 52 0.21
38 53 0.22
39 15 0.06
40 31 0.13
41 1 0.00
42 11 0.05
43 16 0.07
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
Found at i:1964971 original size:38 final size:38
Alignment explanation
Indices: 1964905--1965176 Score: 213
Period size: 37 Copynumber: 7.2 Consensus size: 38
1964895 AACAATTTAT
* ** *
1964905 TATATAAGTTTTC-AAAATGGTTTAAAAAACTATATAA
1 TATATATGTTTTCAAAAATATTTTCAAAAACTATATAA
* *
1964942 TATATATGGTTTCAAAAATATCTTCAAAAACTATATAA
1 TATATATGTTTTCAAAAATATTTTCAAAAACTATATAA
* **
1964980 TATATATGTTTTCAAAAAAATGTTTTTAAAAC--TATAA
1 TATATATGTTTTCAAAAATAT-TTTCAAAAACTATATAA
*
1965017 TATATATGTTTTCAAAAATGTTTTCAAAAACTCTATATATA
1 TATATATGTTTTCAAAAATATTTTCAAAAA--CTATATA-A
* *
1965058 TATATATAAGTTTTC-AAAATGATTTT-AAAAATTATATAT
1 TATATAT--GTTTTCAAAAAT-ATTTTCAAAAACTATATAA
* * * ** *
1965097 TATATATATTTTCTAAAATGTCTTTTTTAAAACTATATAT
1 TATATATGTTTTC-AAAA-ATATTTTCAAAAACTATATAA
*
1965137 TATATA-GTTTT-AAAAACTA--TT-AAAAACTATATAT
1 TATATATGTTTTCAAAAA-TATTTTCAAAAACTATATAA
1965171 TATATA
1 TATATA
1965177 CGTAGTTTCA
Statistics
Matches: 193, Mismatches: 27, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
34 18 0.09
35 2 0.01
36 7 0.04
37 45 0.23
38 40 0.21
39 25 0.13
40 28 0.15
41 8 0.04
42 10 0.05
43 10 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (38 bp):
TATATATGTTTTCAAAAATATTTTCAAAAACTATATAA
Found at i:1965039 original size:12 final size:12
Alignment explanation
Indices: 1965022--1965046 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1965012 TATAATATAT
1965022 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1965034 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1965046 A
1 A
1965047 CTCTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:1965071 original size:43 final size:39
Alignment explanation
Indices: 1964863--1965117 Score: 156
Period size: 37 Copynumber: 6.7 Consensus size: 39
1964853 AAATTTCAAC
*
1964863 TATATAT-TATATAA-ATTTCAAAATGATTTTAAAACA--A
1 TATATATATATATAAGTTTTCAAAATG-TTTTAAAA-ATTA
*
1964900 T-T-TAT-TATATAAGTTTTCAAAATGGTTTAAAAA--A
1 TATATATATATATAAGTTTTCAAAATGTTTTAAAAATTA
* * * * *
1964934 CTATATA-ATATATATGGTTTCAAAAATATCTTCAAAAACTA
1 -TATATATATATATAAGTTTTC-AAAATGT-TTTAAAAATTA
* *
1964975 TATA-ATATATAT--GTTTTCAAAAAAATGTTTTTAAAA--C
1 TATATATATATATAAGTTTTC---AAAATGTTTTAAAAATTA
1965012 TATA-ATATATAT--GTTTTCAAAAATGTTTTCAAAAACTCTA
1 TATATATATATATAAGTTTTC-AAAATGTTTT-AAAAA-T-TA
1965052 TATATATATATATAAGTTTTCAAAATGATTTTAAAAATTA
1 TATATATATATATAAGTTTTCAAAATG-TTTTAAAAATTA
1965092 TATAT-TATATAT-A-TTTTCTAAAATGT
1 TATATATATATATAAGTTTTC-AAAATGT
1965118 CTTTTTTAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 44
0.76 0.06 0.18
Matches are distributed among these distances:
34 2 0.01
35 29 0.16
36 16 0.09
37 38 0.21
38 17 0.09
39 21 0.12
40 28 0.15
41 10 0.05
42 11 0.06
43 10 0.05
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (39 bp):
TATATATATATATAAGTTTTCAAAATGTTTTAAAAATTA
Found at i:1965101 original size:41 final size:43
Alignment explanation
Indices: 1965012--1965117 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
1965002 TTTTTAAAAC
*
1965012 TATA-ATATATATGTTTTCAAAAATGTTTTCAAAAACTCTATA
1 TATATATATATAAGTTTTCAAAAATGTTTTCAAAAACTCTATA
1965054 TATATATATATAAGTTTTC-AAAATGATTTT-AAAAA-T-TATA
1 TATATATATATAAGTTTTCAAAAATG-TTTTCAAAAACTCTATA
*
1965094 TAT-TATATAT-A-TTTTCTAAAATGT
1 TATATATATATAAGTTTTCAAAAATGT
1965118 CTTTTTTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
37 6 0.10
38 7 0.12
39 7 0.12
40 7 0.12
41 1 0.02
42 15 0.25
43 17 0.28
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (43 bp):
TATATATATATAAGTTTTCAAAAATGTTTTCAAAAACTCTATA
Found at i:1965190 original size:155 final size:153
Alignment explanation
Indices: 1964905--1965194 Score: 343
Period size: 155 Copynumber: 1.9 Consensus size: 153
1964895 AACAATTTAT
* *
1964905 TATATAAGTTTTCAAAATGGTTTAAAAAACTATATAATATATATGGTTTCAAAAATATCTTCAAA
1 TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAA
* * * *
1964970 AACTATATAATATATATGTTTTCAAAAAAATGTTTTTAAAACTATAATATATATGTTTTCAAAAA
66 AACTATATAATATATATGTTTT--AAAAAATCTATTAAAAACTATAATATATACGTTTTCAAAAA
1965035 TGTTTTCAAAAACTCTATATATATA
129 TGTTTTCAAAAACTCTATATATATA
* * * * * * **
1965060 TATATAAGTTTTCAAAATGATTTTAAAAATTATATATTATATATATTTTCTAAAATGTCTTTTTT
1 TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATC--TTCA
*
1965125 AAAACTATATATTATATA-GTTTT-AAAAA-CTATTAAAAACTATATATTATATACGTAGTTTCA
64 AAAACTATATAATATATATGTTTTAAAAAATCTATTAAAAACTATA-A-TATATACGT--TTTCA
1965187 AAATATGT
125 AAA-ATGT
1965195 ATATATATAA
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
152 12 0.11
153 6 0.05
154 8 0.07
155 51 0.45
156 13 0.12
157 23 0.20
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (153 bp):
TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAA
AACTATATAATATATATGTTTTAAAAAATCTATTAAAAACTATAATATATACGTTTTCAAAAATG
TTTTCAAAAACTCTATATATATA
Found at i:1966575 original size:105 final size:105
Alignment explanation
Indices: 1966044--1967536 Score: 2398
Period size: 105 Copynumber: 14.2 Consensus size: 105
1966034 TATTGTTCCA
* ** * ** * * *
1966044 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTCGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTGTTTATTGACAAC
1966109 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1966150 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1966215 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1966256 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1966321 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
1966362 AGTCCAATATCATTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1966427 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1966468 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGCAA-TATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTGTTTATTGACAAC
1966532 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1966573 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATGGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
* *
1966638 AGGGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1966678 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
* *
1966743 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
1966783 AGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1966847 CAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1966888 AGCCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1966953 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1966994 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
1967059 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1967099 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
*
1967164 AGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1967204 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
1967269 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1967309 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
* *
1967374 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
1967415 AGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTATTGACAAC
*
1967479 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1967520 AGTCCAATATCCTTCGT
1 AGTCCAATATCCTTCGT
1967537 GCTCATGGTT
Statistics
Matches: 1303, Mismatches: 78, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
104 2 0.00
105 757 0.58
106 542 0.42
107 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1966831 original size:421 final size:422
Alignment explanation
Indices: 1966044--1967536 Score: 2476
Period size: 421 Copynumber: 3.5 Consensus size: 422
1966034 TATTGTTCCA
* * * ** * *
1966044 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTCGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AATTGTTTATTGACAAC
1966109 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * * *
1966174 TTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGGGAAGATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1966239 GAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
*
1966304 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
260 A-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
*
1966369 TATCATTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGT
324 TATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGT
*
1966434 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
389 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1966468 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGCAA-TATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AATTGTTTATTGACAAC
1966532 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
1966597 TTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATGGACAACCAGGGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGGGAAGATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1966661 GAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
*
1966726 AATGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAAT
260 AATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAAT
* * *
1966791 ATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAGCAGCGGTC
325 ATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
*
1966855 CCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
390 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1966888 AGCCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTATTGACAAC
*
1966953 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1967018 TTGAAATTGGCTCTGAAATTGGGAA-ATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGGGAAGATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1967082 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
* * *
1967147 AATGTTTATTGACAACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
260 AATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAAT
* * *
1967212 ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAACCAGCGGTC
325 ATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
1967276 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
390 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1967309 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTATTGACAAC
* * * * * *
1967374 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCATTCGCTGGGAAT
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
1967439 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGGGAAGATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1967503 GAACTTGCGTTGTCTGAAGTCCAATATCCTTCGT
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
1967537 GCTCATGGTT
Statistics
Matches: 1003, Mismatches: 62, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
419 2 0.00
420 96 0.10
421 660 0.66
422 103 0.10
423 99 0.10
424 43 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (422 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGGGAAGATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATA
TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCC
CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1967097 original size:526 final size:526
Alignment explanation
Indices: 1966044--1967536 Score: 2583
Period size: 526 Copynumber: 2.8 Consensus size: 526
1966034 TATTGTTCCA
* ** * ** *
1966044 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTCGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TGTTTATCGACAAC
1966109 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
1966174 TTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * *
1966239 GAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
194 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
*
1966304 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
259 AGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
*
1966369 TATCATTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGT
324 TATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAACCAGCGGT
1966434 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
388 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
1966499 TGGCTCTGAAATTGGGCAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
453 TGGCTCTGAAATTGGGAAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
1966564 GTTGTCTGG
518 GTTGTCTGG
*
1966573 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATGGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATCGACAACC
* *
1966638 AGGGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1966703 TGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* * * *
1966768 ACTTGCGTTGTCTTGAGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAG
196 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
* * * *
1966833 TTGTTT-TTGACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATA
261 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATA
* * *
1966897 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
326 TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAACCAGCGGTCC
1966962 CTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
390 CTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1967027 GCTCTGAAATTGGGAAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
455 GCTCTGAAATTGGGAAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
1967092 TGTCTGG
520 TGTCTGG
*
1967099 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATCGACAACC
*
1967164 AGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1967229 TGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1967294 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
196 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
*
1967359 TTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATA
261 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATA
* * *
1967424 TCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAAGCAGCGGTCCC
326 TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTCCC
* *
1967489 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGT
391 TTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGT
1967537 GCTCATGGTT
Statistics
Matches: 909, Mismatches: 54, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
526 568 0.62
527 198 0.22
528 99 0.11
529 44 0.05
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (526 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATCGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATA
TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
CTCTGAAATTGGGAAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
GTCTGG
Found at i:1969541 original size:26 final size:25
Alignment explanation
Indices: 1969487--1969543 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
1969477 GAGACAGGTG
*
1969487 AATGCAATGAAAAAAAAGGAATCAT
1 AATGCAATGAAAAAAAAGGAATCAA
* *
1969512 AATGCGAATGTAAAGAAAAGTAA-CAA
1 AATGC-AATG-AAAAAAAAGGAATCAA
1969538 AATGCA
1 AATGCA
1969544 CAATATGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 11 0.41
27 10 0.37
ACGTcount: A:0.58, C:0.09, G:0.18, T:0.16
Consensus pattern (25 bp):
AATGCAATGAAAAAAAAGGAATCAA
Found at i:1971290 original size:25 final size:26
Alignment explanation
Indices: 1971247--1971312 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
1971237 TAGTGAAGAC
* *
1971247 AAATGAAAGAAATTTTTAATAAAAATAG
1 AAAT-AAAGAAATATTAAATAAAAAT-G
*
1971275 ATATAAA-AAATATTAAATAAAAATG
1 AAATAAAGAAATATTAAATAAAAATG
1971300 AAATAAAGAAATA
1 AAATAAAGAAATA
1971313 GTAAGAGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 3 0.09
28 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (26 bp):
AAATAAAGAAATATTAAATAAAAATG
Found at i:1972300 original size:17 final size:17
Alignment explanation
Indices: 1972278--1972324 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
1972268 CCGGACTCTT
1972278 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
1972295 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
1972312 CTGGCCGTGTTGG
1 CTGGCCGT-TTGG
1972325 TTTCCCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (17 bp):
CTGGCCGTTTGGCATGA
Found at i:1972500 original size:22 final size:22
Alignment explanation
Indices: 1972450--1972501 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
1972440 CCCAAAAACG
1972450 ATAAAATAAATAATAAAAACAA
1 ATAAAATAAATAATAAAAACAA
1972472 A-ACAAAT-AATAAATAAAAA-AGA
1 ATA-AAATAAAT-AATAAAAACA-A
1972494 ATAAAATA
1 ATAAAATA
1972502 CTATATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
21 5 0.20
22 19 0.76
23 1 0.04
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
ATAAAATAAATAATAAAAACAA
Found at i:1972712 original size:37 final size:37
Alignment explanation
Indices: 1972626--1972956 Score: 245
Period size: 37 Copynumber: 8.8 Consensus size: 37
1972616 AAAAAATTTC
*
1972626 AACTATATATTATATAA-ATTTCAAAATGATTTT-AA
1 AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
* * * *
1972661 AACAATTTATTATATAAGTTTTCAAAATGGTTTAAAA
1 AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
* * * *
1972698 AACTATATAATATATATGGTTTCAAAAAT-ATCTTCAAA
1 AACTATATATTATATAAGTTTTC-AAAATGAT-TTTAAA
* * *
1972736 AACTATATAATATATATGTTTTCAAAAAAATG-TTTTTAA
1 AACTATATATTATATAAGTTTTC---AAAATGATTTTAAA
*
1972775 AACTATA-A-TATATATGTTTTCAAAAATG-TTTTCAAA
1 AACTATATATTATATAAGTTTTC-AAAATGATTTT-AAA
1972811 AACTATATATATATATATATAAGTTTTCAAAATGATTTTAAA
1 AAC----TATATAT-TATATAAGTTTTCAAAATGATTTTAAA
* * *
1972853 AATTATATATTATATATA-TTTTCTAAAATGTCTTTTTTAA
1 AACTATATATTATATA-AGTTTTC-AAAATG--ATTTTAAA
*
1972893 AACTATATATTATAT-AGTTTT-AAAA--ACTATTAAA
1 AACTATATATTATATAAGTTTTCAAAATGA-TTTTAAA
*
1972927 AACTATATATTATATACGTAGTTTCAAAAT
1 AACTATATATTATATAAGT--TTTCAAAAT
1972957 ATGTATATAT
Statistics
Matches: 244, Mismatches: 25, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
34 20 0.08
35 28 0.11
36 18 0.07
37 52 0.21
38 52 0.21
39 15 0.06
40 31 0.13
41 1 0.00
42 11 0.05
43 16 0.07
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
Found at i:1972805 original size:12 final size:12
Alignment explanation
Indices: 1972788--1972812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1972778 TATAATATAT
1972788 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1972800 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1972812 A
1 A
1972813 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:1972867 original size:41 final size:43
Alignment explanation
Indices: 1972778--1972908 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 43
1972768 TTTTTAAAAC
*
1972778 TATA-ATATATATGTTTTCAAAAATGTTTTCAAAAACTATATA
1 TATATATATATAAGTTTTCAAAAATGTTTTCAAAAACTATATA
1972820 TATATATATATAAGTTTTC-AAAATGATTTT-AAAAA-T-TATA
1 TATATATATATAAGTTTTCAAAAATG-TTTTCAAAAACTATATA
* **
1972860 TAT-TATATAT-A-TTTTCTAAAATGTCTTTTTTAAAACTATATA
1 TATATATATATAAGTTTTCAAAAATG--TTTTCAAAAACTATATA
1972902 T-TATATA
1 TATATATA
1972909 GTTTTAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 16
0.80 0.03 0.16
Matches are distributed among these distances:
37 5 0.06
38 7 0.09
39 11 0.14
40 11 0.14
41 3 0.04
42 24 0.31
43 17 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (43 bp):
TATATATATATAAGTTTTCAAAAATGTTTTCAAAAACTATATA
Found at i:1972881 original size:38 final size:37
Alignment explanation
Indices: 1972626--1972956 Score: 236
Period size: 38 Copynumber: 8.8 Consensus size: 37
1972616 AAAAAATTTC
*
1972626 AACTATATATTATATA-AATTTCAAAATGATTTT-AA
1 AACTATATATTATATATATTTTCAAAATGATTTTAAA
* * * *
1972661 AACAATTTATTATATA-AGTTTTCAAAATGGTTTAAAA
1 AACTATATATTATATATA-TTTTCAAAATGATTTTAAA
* ** *
1972698 AACTATATAATATATATGGTTTCAAAAAT-ATCTTCAAA
1 AACTATATATTATATATATTTTC-AAAATGAT-TTTAAA
* * *
1972736 AACTATATAATATATATGTTTTCAAAAAAATG-TTTTTAA
1 AACTATATATTATATATATTTTC---AAAATGATTTTAAA
*
1972775 AACTATA-A-TATATATGTTTTCAAAAATG-TTTTCAAA
1 AACTATATATTATATATATTTTC-AAAATGATTTT-AAA
1972811 AACTATATATATATATATATAAGTTTTCAAAATGATTTTAAA
1 AAC--TATATAT-TATATAT-A-TTTTCAAAATGATTTTAAA
* * *
1972853 AATTATATATTATATATATTTTCTAAAATGTCTTTTTTAA
1 AACTATATATTATATATATTTTC-AAAATG--ATTTTAAA
* *
1972893 AACTATATATTATATA-GTTTT-AAAA--ACTATTAAA
1 AACTATATATTATATATATTTTCAAAATGA-TTTTAAA
*
1972927 AACTATATATTATATACGTAGTTTCAAAAT
1 AACTATATATTATATA--TATTTTCAAAAT
1972957 ATGTATATAT
Statistics
Matches: 243, Mismatches: 27, Indels: 48
0.76 0.08 0.15
Matches are distributed among these distances:
34 21 0.09
35 26 0.11
36 18 0.07
37 45 0.19
38 48 0.20
39 23 0.09
40 35 0.14
41 7 0.03
42 11 0.05
43 9 0.04
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AACTATATATTATATATATTTTCAAAATGATTTTAAA
Found at i:1972988 original size:18 final size:18
Alignment explanation
Indices: 1972953--1972991 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1972943 CGTAGTTTCA
* *
1972953 AAATATGTATATATATAT
1 AAATATGTAGATACATAT
*
1972971 AAATATGTAGGTACATAT
1 AAATATGTAGATACATAT
1972989 AAA
1 AAA
1972992 GGGGGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (18 bp):
AAATATGTAGATACATAT
Found at i:1982469 original size:22 final size:22
Alignment explanation
Indices: 1982444--1982487 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1982434 GACACAACAT
*
1982444 CACACTAATTAACACTATGAAG
1 CACACTAATTAACACAATGAAG
1982466 CACACTAATTAACACAATGAAG
1 CACACTAATTAACACAATGAAG
1982488 AAGACAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.23, G:0.09, T:0.20
Consensus pattern (22 bp):
CACACTAATTAACACAATGAAG
Found at i:1983976 original size:15 final size:16
Alignment explanation
Indices: 1983956--1983985 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1983946 GTATGGGTGA
1983956 TGAAAGAGT-ATGGAG
1 TGAAAGAGTCATGGAG
1983971 TGAAAGAGTCATGGA
1 TGAAAGAGTCATGGA
1983986 CCGAACTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.20
Consensus pattern (16 bp):
TGAAAGAGTCATGGAG
Found at i:1985126 original size:18 final size:19
Alignment explanation
Indices: 1985091--1985128 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1985081 ATAAGAATGT
1985091 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1985111 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
1985129 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1985675 original size:35 final size:35
Alignment explanation
Indices: 1985629--1985704 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
1985619 AAAACAGTCC
* *
1985629 TCAATTTCATTCTAAA-CCTCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCT-AAATTCCAAAATAAT
1985664 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1985699 TCAATT
1 TCAATT
1985705 AAATTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.92
36 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:1986246 original size:130 final size:130
Alignment explanation
Indices: 1986100--1986347 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
1986090 TATTTATATA
* **
1986100 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
1986165 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTAGTGACACATGTCACCACCTAATTATTTATATATGCT
1986230 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
1986295 TTAACACATGATCATGATATATGTTATTAGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTAGTGACACATGTCACCACCTAATTA
1986348 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTAGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1986378 original size:130 final size:129
Alignment explanation
Indices: 1986114--1986378 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
1986104 ATTTGGTCCT
* ** *
1986114 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
1986179 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTAGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1986244 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
1986309 TGATATATGTTATTAGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTAGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1986373 -A
128 CA
1986374 AAATT
1 AAATT
1986379 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTAGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1986707 original size:28 final size:27
Alignment explanation
Indices: 1986676--1986738 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
1986666 AGTTGATACA
*
1986676 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
1986704 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
1986732 ATATTTT
1 ATATTTT
1986739 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:1986839 original size:16 final size:18
Alignment explanation
Indices: 1986818--1986851 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1986808 ATTTCTTATT
1986818 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1986834 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1986852 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1989904 original size:25 final size:27
Alignment explanation
Indices: 1989874--1989928 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
1989864 ATACAATAGT
1989874 GAAC-TTTTAAAAACCTTTTT-TAATA
1 GAACTTTTTAAAAACCTTTTTCTAATA
* *
1989899 GAACTTTTTAGAAACTTTTTTCTAATA
1 GAACTTTTTAAAAACCTTTTTCTAATA
1989926 GAA
1 GAA
1989929 AAAACTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 14 0.54
27 8 0.31
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
GAACTTTTTAAAAACCTTTTTCTAATA
Found at i:1994691 original size:15 final size:16
Alignment explanation
Indices: 1994665--1994695 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1994655 AGTAGTTCGG
1994665 TCCATGACTCTTTCAC
1 TCCATGACTCTTTCAC
1994681 TCCAT-ACTCTTTCAC
1 TCCATGACTCTTTCAC
1994696 CACCCATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.19, C:0.39, G:0.03, T:0.39
Consensus pattern (16 bp):
TCCATGACTCTTTCAC
Found at i:2009568 original size:20 final size:20
Alignment explanation
Indices: 2009516--2009610 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
2009506 GAAACTTAAA
* *
2009516 ATCGCAACACAAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
2009536 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
2009556 ATCGCAACGCGAATTTAACT
1 ATCGCAACGCGAAAATGACT
* **
2009576 ATCGCAACGC-TAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
2009595 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
2009611 CGTAACGCGA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2010034 original size:22 final size:22
Alignment explanation
Indices: 2010008--2010064 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
2009998 GATGGAGATA
2010008 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* * *
2010030 GACGGATTTCGTCGGAGATGTG
1 GACGGATTTCGCCAGAGATGGG
*
2010052 GACGGATGTCGCC
1 GACGGATTTCGCC
2010065 GTAGAGAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:2010254 original size:20 final size:20
Alignment explanation
Indices: 2010225--2010297 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
2010215 ATTTTGTATT
2010225 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
2010245 ATCACGTTGCAATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
*
2010265 ATCGCGTTACGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
2010285 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
2010298 TTACATATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:2020506 original size:17 final size:17
Alignment explanation
Indices: 2020484--2020518 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2020474 TCATAAAACT
2020484 ACCCTCATTGGACTATC
1 ACCCTCATTGGACTATC
2020501 ACCCTCATTGGACTATC
1 ACCCTCATTGGACTATC
2020518 A
1 A
2020519 TAACCTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (17 bp):
ACCCTCATTGGACTATC
Found at i:2020761 original size:20 final size:20
Alignment explanation
Indices: 2020714--2020752 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2020704 TTTGAGATTA
2020714 AGATTTT-TGGGAATTTTTTG
1 AGATTTTAT-GGAATTTTTTG
2020734 AGATTTTATGGAATTTTTT
1 AGATTTTATGGAATTTTTT
2020753 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (20 bp):
AGATTTTATGGAATTTTTTG
Found at i:2020818 original size:23 final size:23
Alignment explanation
Indices: 2020771--2020818 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2020761 AAATAAAAAT
* ** *
2020771 AATAATATTTTTAAATTATTTTA
1 AATAAAATTTTTAAAAAATTATA
2020794 AATAAAATTTTTAAAAAATTATA
1 AATAAAATTTTTAAAAAATTATA
2020817 AA
1 AA
2020819 CGTACCGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATAAAATTTTTAAAAAATTATA
Found at i:2030266 original size:61 final size:61
Alignment explanation
Indices: 2030171--2030294 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
2030161 GTTATCAATC
2030171 CTAACATTAAGATCAGTTTATTTTAATTGAGAATACCTTTTTGATGGTTGCTACTATGACG
1 CTAACATTAAGATCAGTTTATTTTAATTGAGAATACCTTTTTGATGGTTGCTACTATGACG
* * *
2030232 CTAACATTAAGATCAGTTTATTTTAATTGAGAATACGTTTTTGATGGTTGTTACTTTGACG
1 CTAACATTAAGATCAGTTTATTTTAATTGAGAATACCTTTTTGATGGTTGCTACTATGACG
2030293 CT
1 CT
2030295 CGATCAGATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (61 bp):
CTAACATTAAGATCAGTTTATTTTAATTGAGAATACCTTTTTGATGGTTGCTACTATGACG
Found at i:2054695 original size:19 final size:19
Alignment explanation
Indices: 2054671--2054718 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
2054661 TCTACAGTTG
*
2054671 TCGTTGCGATTTTTTAAAT
1 TCGTTGCGATTTTTCAAAT
2054690 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTTCAAAT
2054709 TCGTTGCGAT
1 TCGTTGCGAT
2054719 AGTTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (19 bp):
TCGTTGCGATTTTTCAAAT
Found at i:2055482 original size:21 final size:21
Alignment explanation
Indices: 2055439--2055482 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2055429 ACAACTGTAG
** *
2055439 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
2055460 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
2055481 AC
1 AC
2055483 GCGAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:2055634 original size:19 final size:19
Alignment explanation
Indices: 2055612--2055650 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2055602 AATGAAGTTA
2055612 TTTTCTCTATATTATATAT
1 TTTTCTCTATATTATATAT
2055631 TTTTCTCTATATTATATAT
1 TTTTCTCTATATTATATAT
2055650 T
1 T
2055651 AAGTGACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCTCTATATTATATAT
Found at i:2059995 original size:24 final size:24
Alignment explanation
Indices: 2059964--2060036 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
2059954 CCCATCCCAG
* *
2059964 CCACCACCAATACCTGGCGGTGAA
1 CCACCACCAACATCTGGCGGTGAA
2059988 CCACCACCAACATCTGGCGGTGAA
1 CCACCACCAACATCTGGCGGTGAA
2060012 CCACCACCAACATCTGGCGGTGAA
1 CCACCACCAACATCTGGCGGTGAA
2060036 C
1 C
2060037 AACTACTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.29, C:0.38, G:0.21, T:0.12
Consensus pattern (24 bp):
CCACCACCAACATCTGGCGGTGAA
Found at i:2064446 original size:17 final size:17
Alignment explanation
Indices: 2064424--2064463 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2064414 TTTGAATCAA
*
2064424 ATAATTATATATTATTT
1 ATAATTAGATATTATTT
2064441 ATAATTAGATATTATTT
1 ATAATTAGATATTATTT
2064458 A-AATTA
1 ATAATTA
2064464 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATAATTAGATATTATTT
Found at i:2067751 original size:20 final size:19
Alignment explanation
Indices: 2067700--2067752 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
2067690 TTGTTATTTT
*
2067700 TAACAAGTTCCGATCCTCA
1 TAACAAGTTTCGATCCTCA
*
2067719 TAACAAGTATCGATCCTCA
1 TAACAAGTTTCGATCCTCA
2067738 TAACAAAGTTTCGAT
1 TAAC-AAGTTTCGAT
2067753 ATTTTGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (19 bp):
TAACAAGTTTCGATCCTCA
Found at i:2067992 original size:54 final size:54
Alignment explanation
Indices: 2067838--2068100 Score: 207
Period size: 54 Copynumber: 4.9 Consensus size: 54
2067828 TAACGTTATA
* * *
2067838 GGTTGTGCCTTGTTATTTTTAACCA-GTTACCTTATAACTAT-GACTAACATTTAA-
1 GGTTGCGCCTTGTTATTTTTAA-CAGGTTACCTTATAAGT-TGGAGTAACA-TTAAC
* * * * * * *
2067892 GATTACGCCTTGTT-TTTTAAAAATTGGTAATCTTATAAGTAGGAGTAACATTAAC
1 GGTTGCGCCTTGTTATTTTTAACA--GGTTACCTTATAAGTTGGAGTAACATTAAC
* * *
2067947 GGTTGTGCCTTGTTATTTTTAACAGGTTACCTTATAAGTTGGAGTAACGTTAAT
1 GGTTGCGCCTTGTTATTTTTAACAGGTTACCTTATAAGTTGGAGTAACATTAAC
* * *** * *
2068001 GGTTGCGCCTTG-TATTTTTAACTGGTTACCTTACAAGTAAAAGTAACGTTTAC
1 GGTTGCGCCTTGTTATTTTTAACAGGTTACCTTATAAGTTGGAGTAACATTAAC
* * *
2068054 GGTTGCGCCTTGTTTTGTTTTTATC--GTTACCTTATAAGATGGAGTAA
1 GGTTGCGCCTTG--TTATTTTTAACAGGTTACCTTATAAGTTGGAGTAA
2068101 AACGTTAACG
Statistics
Matches: 165, Mismatches: 35, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
52 1 0.01
53 52 0.32
54 68 0.41
55 29 0.18
56 15 0.09
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTTGCGCCTTGTTATTTTTAACAGGTTACCTTATAAGTTGGAGTAACATTAAC
Found at i:2068046 original size:53 final size:53
Alignment explanation
Indices: 2067935--2068066 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 53
2067925 TATAAGTAGG
* * * ***
2067935 AGTAACATTAACGGTTGTGCCTTGTTATTTTTAACAGGTTACCTTATAAGTTGG
1 AGTAACGTTAACGGTTGCGCCTTG-TATTTTTAACAGGTTACCTTACAAGTAAA
* *
2067989 AGTAACGTTAATGGTTGCGCCTTGTATTTTTAACTGGTTACCTTACAAGTAAA
1 AGTAACGTTAACGGTTGCGCCTTGTATTTTTAACAGGTTACCTTACAAGTAAA
*
2068042 AGTAACGTTTACGGTTGCGCCTTGT
1 AGTAACGTTAACGGTTGCGCCTTGT
2068067 TTTGTTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 47 0.69
54 21 0.31
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (53 bp):
AGTAACGTTAACGGTTGCGCCTTGTATTTTTAACAGGTTACCTTACAAGTAAA
Found at i:2068141 original size:15 final size:15
Alignment explanation
Indices: 2068121--2068159 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2068111 GTTATCTTAC
2068121 AAGGAAGTAGGAGAA
1 AAGGAAGTAGGAGAA
2068136 AAGGAAGTAGGAGAA
1 AAGGAAGTAGGAGAA
*
2068151 ACGGAAGTA
1 AAGGAAGTA
2068160 TCGATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.38, T:0.08
Consensus pattern (15 bp):
AAGGAAGTAGGAGAA
Found at i:2068727 original size:107 final size:107
Alignment explanation
Indices: 2068535--2068914 Score: 382
Period size: 108 Copynumber: 3.7 Consensus size: 107
2068525 TATATTATAG
* ** * * *
2068535 ATATTCATAACATTATAATTAATTAACTTATTTTGTTTTCGTGGAAT-TGTCTAAG-CTCCATCA
1 ATATTTATAACAAAATAAGTAATTAACTTATTTTGTTATCGT--AATATTTCTAAGACTCCATCA
*
2068598 GCTTAAACTTTGGTAACATTTTAGGCGCAACCTAATATGTTAATA
64 GCTTAAACTTTGGTAATATTTTAGGCGCAA-CTAATATGTTAATA
*
2068643 ATATTTATAACAAAATAAGTAATT-ACTTATTTTGTTATCGTAATATTTATAAGACTCCATCAGC
1 ATATTTATAACAAAATAAGTAATTAACTTATTTTGTTATCGTAATATTTCTAAGACTCCATCAGC
*
2068707 TTAAACTTTGGT-A-ATGTT---------T--TATGTTAATA
66 TTAAACTTTGGTAATATTTTAGGCGCAACTAATATGTTAATA
* * ** *
2068736 ATATTTATAAAAAAACAAGTAATTAA-TCTATTTTGTTATCGTGGTATTTCTAAGACTCCATTAG
1 ATATTTATAACAAAATAAGTAATTAACT-TATTTTGTTATCGTAATATTTCTAAGACTCCATCAG
* *
2068800 CTTAAACATTGGTAATATTTTAGGCGCAAACTAATATGTTACTA
65 CTTAAACTTTGGTAATATTTTAGGCGC-AACTAATATGTTAATA
* * * * * * *
2068844 ATATTTATAACAAAATAAATAATTAATTTATTTTATTATCATGAGATTTCTAAGGC-CCATCAGC
1 ATATTTATAACAAAATAAGTAATTAACTTATTTTGTTATCGTAATATTTCTAAGACTCCATCAGC
2068908 TTAAACT
66 TTAAACT
2068915 CTCATAACAT
Statistics
Matches: 226, Mismatches: 27, Indels: 39
0.77 0.09 0.13
Matches are distributed among these distances:
93 33 0.15
94 45 0.20
95 2 0.01
96 4 0.02
105 7 0.03
106 8 0.04
107 51 0.23
108 75 0.33
109 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (107 bp):
ATATTTATAACAAAATAAGTAATTAACTTATTTTGTTATCGTAATATTTCTAAGACTCCATCAGC
TTAAACTTTGGTAATATTTTAGGCGCAACTAATATGTTAATA
Found at i:2068795 original size:94 final size:93
Alignment explanation
Indices: 2068633--2068821 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 93
2068623 CGCAACCTAA
* * *
2068633 TATGTTAATAATATTTATAACAAAATAAGTAATTACTTATTTTGTTATCGTAATATTTATAAGAC
1 TATGTTAATAATATTTATAAAAAAACAAGTAATTAATTATTTTGTTATCGTAATATTTATAAGAC
* *
2068698 TCCATCAGCTTAAACTTTGGTAATGTTT
66 TCCATCAGCTTAAACATTGGTAATATTT
** *
2068726 TATGTTAATAATATTTATAAAAAAACAAGTAATTAATCTATTTTGTTATCGTGGTATTTCTAAGA
1 TATGTTAATAATATTTATAAAAAAACAAGTAATTAAT-TATTTTGTTATCGTAATATTTATAAGA
*
2068791 CTCCATTAGCTTAAACATTGGTAATATTT
65 CTCCATCAGCTTAAACATTGGTAATATTT
2068820 TA
1 TA
2068822 GGCGCAAACT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 34 0.40
94 52 0.60
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (93 bp):
TATGTTAATAATATTTATAAAAAAACAAGTAATTAATTATTTTGTTATCGTAATATTTATAAGAC
TCCATCAGCTTAAACATTGGTAATATTT
Found at i:2078892 original size:2 final size:2
Alignment explanation
Indices: 2078887--2078914 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2078877 ATATATATAT
2078887 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2078915 GTTGGTTCAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2085231 original size:2 final size:2
Alignment explanation
Indices: 2085224--2085263 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2085214 TCACCCTTCA
2085224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2085264 GATTTAGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2085816 original size:88 final size:88
Alignment explanation
Indices: 2085663--2085837 Score: 282
Period size: 88 Copynumber: 2.0 Consensus size: 88
2085653 TCCCTATATA
**
2085663 TATTACTAATATGGATACATTTTGACGATGGTACGCTTAGTTGTGACATTTTAAGAAAAAATAAA
1 TATTACTAATATGGATACAAATTGACGATGGTACGCTTAGTTGTGACATTTTAAGAAAAAATAAA
2085728 TTTTAAAATATTATATATTTATC
66 TTTTAAAATATTATATATTTATC
* *
2085751 TATTACTAATATGGATACAAATTGAC-ATTGGTACGTTTAGTTGT-ATCATTTTAAGAAAAATTA
1 TATTACTAATATGGATACAAATTGACGA-TGGTACGCTTAGTTGTGA-CATTTTAAGAAAAAATA
2085814 AATTTTAAAATATTATATATTTAT
64 AATTTTAAAATATTATATATTTAT
2085838 ACACAATTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
87 2 0.02
88 79 0.98
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (88 bp):
TATTACTAATATGGATACAAATTGACGATGGTACGCTTAGTTGTGACATTTTAAGAAAAAATAAA
TTTTAAAATATTATATATTTATC
Found at i:2086832 original size:16 final size:16
Alignment explanation
Indices: 2086809--2086849 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2086799 GGAGTGAAAT
*
2086809 TTAA-TTTTATATAAA
1 TTAATTTTTACATAAA
2086824 TTAATTTTTACATAAA
1 TTAATTTTTACATAAA
*
2086840 GTAATTTTTA
1 TTAATTTTTA
2086850 AATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAATTTTTACATAAA
Found at i:2087707 original size:16 final size:16
Alignment explanation
Indices: 2087684--2087724 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2087674 GGAGTGAAAT
*
2087684 TTAA-TTTTATATAAA
1 TTAATTTTTACATAAA
2087699 TTAATTTTTACATAAA
1 TTAATTTTTACATAAA
*
2087715 GTAATTTTTA
1 TTAATTTTTA
2087725 AATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAATTTTTACATAAA
Found at i:2088453 original size:878 final size:877
Alignment explanation
Indices: 2086762--2088516 Score: 3331
Period size: 878 Copynumber: 2.0 Consensus size: 877
2086752 ATAAAAAAAG
*
2086762 AAGATAAAAATACAAGGGGTTTTTGGGTTTAGTCGGTGGAGTGAAATTTAATTTTATATAAATTA
1 AAGATAAAAATACAAGGGGTTTTTGGGTTTAGTAGGTGGAGTGAAATTTAATTTTATATAAATTA
2086827 ATTTTTACATAAAGTAATTTTTAAATTTTTATTTTTCGTTTTATTTTTTGTGAGATCAATTTTTT
66 ATTTTTACATAAAGTAATTTTTAAATTTTTATTTTTCGTTTTATTTTTTGTGAGATCAATTTTTT
*
2086892 TATGGAACAATTGACTTCATAATCTTAGATGTGATAATATTTGAGTTTAACTCTCTTCAAAGTTT
131 TATGGAACAATTGACTTCATAATCTTAGATGTGATAATATTTGAGTTCAACTCTCTTCAAAGTTT
2086957 AAAGATTTTAAGTAAAAATAATAGTAAAAATATATTCTTATCCTCCTAAATGATAAAAAAACTAC
196 AAAGATTTTAAGTAAAAATAATAGTAAAAATATATTCTTATCCTCCTAAATGATAAAAAAACTAC
*
2087022 TTTGATCCTTTAAAAAAAAAGTGTTGTATAAAACACATTATATATAAAATTTAAAAAACTTAAAA
261 TTTGATCCTTTAAAAAAAAAGTATTGTATAAAACACATTATATATAAAATTTAAAAAACTTAAAA
*
2087087 AAAAATGGTAAAAATATTTAAAAATCCAAAAAAATAAAATTAAAAAAACATTCTCTTTTATTTAA
326 AAAAATGGTAAAAATATTTAAAAATCCAAAAAAATAAAATTAAAAAAACATTCTCGTTTATTTAA
*
2087152 ACAGCAGGGAACAAAAGCCTAACACTCCCAGCACAGTGATCTCCTAATCGATGTTGGCACTGTTG
391 ACAGCAGAGAACAAAAGCCTAACACTCCCAGCACAGTGATCTCCTAATCGATGTTGGCACTGTTG
2087217 TTCATTCTGTGAGGATTGTAAACATGTTTGAAACTTTCTAAACACCTACACTGCATCCTCTTCTA
456 TTCATTCTGTGAGGATTGTAAACATGTTTGAAACTTTCTAAACACCTACACTGCATCCTCTTCTA
2087282 AACATGTCATACCTCTCTTTTTCCTGTCATCAACATTTTAAAAAAAGTGTAGAACCATCACTTTT
521 AACATGTCATACCTCTCTTTTTCCTGTCATCAACATTTTAAAAAAAGTGTAGAACCATCACTTTT
2087347 ATGTTCTTTTGCCGTGCCGATTCTTGTAAACCGATGGGAAACCCAAGAAAACTGGTTTGCTCATG
586 ATGTTCTTTTGCCGTGCCGATTCTTGTAAACCGATGGGAAACCCAAGAAAACTGGTTTGCTCATG
*
2087412 TATAAATTTGCAGGTGTTATCTTTCAAACTGGCATTCTGACTACCACTACCATGTGTTTCACTCG
651 TATAAATTTGCAGGTGTTATCTTTCAAACTGGCATTCTAACTACCACTACCATGTGTTTCACTCG
2087477 GCCTAAATGGCTGCCGAAACGCCGCTGCTTTCTATGGTGGGTGCAAAAGGGCTGTCCGGCAGATT
716 GCCTAAATGGCTGCCGAAACGCCGCTGCTTTCTATGGTGGGTGCAAAAGGGCTGTCCGGCAGATT
2087542 ATATCCTTCGCTGCAGTTTCGAAACAGCCGTTA-CACATGAAGCCCGTAATTGAGAATTACA-GT
781 ATATCCTTCGCTGCAGTTTCGAAACAGCCGTTACCACATGAAGCCCGTAATTGAGAATTACAGGT
2087605 ACCTCCAAGGGAGACTTTAAGAAACGTAATTT
846 ACCTCCAAGGGAGACTTTAAGAAACGTAATTT
2087637 AAGATAAAAATA-ATAGGGGTTTTTGGGTTTAGTAGGTGGAGTGAAATTTAATTTTATATAAATT
1 AAGATAAAAATACA-AGGGGTTTTTGGGTTTAGTAGGTGGAGTGAAATTTAATTTTATATAAATT
2087701 AATTTTTACATAAAGTAATTTTTAAATTTTTATTTTTCGTTTTATTTTTTGTGAGATCAATTTTT
65 AATTTTTACATAAAGTAATTTTTAAATTTTTATTTTTCGTTTTATTTTTTGTGAGATCAATTTTT
2087766 TTATGGAACAATTGACTTCATAATCTTAGATGTGATAATATTTGAGTTCAACTCTCTTCAAAGTT
130 TTATGGAACAATTGACTTCATAATCTTAGATGTGATAATATTTGAGTTCAACTCTCTTCAAAGTT
*
2087831 TAAAGATTTTAAGTAAAAATAATAGTAAAAATATATTCTTGTCCTCCTAAATGATAAAAAAAAAA
195 TAAAGATTTTAAGTAAAAATAATAGTAAAAATATATTCTTATCCTCCTAAATGAT---AAAAAAA
*
2087896 CTACTTTGATCCTTTTTTAAAAAAAAGTATTGTATAAAACACATTATATATAAAATTTAAAAAAC
257 CTACTTTGATCC--TTTAAAAAAAAAGTATTGTATAAAACACATTATATATAAAATTTAAAAAAC
* *
2087961 TT-AAAAAAATTGGTAAAAATATTTAAAAATCC-AAAAAATAAAATTAAAAAAGCATTCTCGTTT
320 TTAAAAAAAAATGGTAAAAATATTTAAAAATCCAAAAAAATAAAATTAAAAAAACATTCTCGTTT
2088024 ATTTAAACAGCAGAGAACAAAAGCCTAACACTCCCAGCACAGTGATCTCCTAATCGATGTTGGCA
385 ATTTAAACAGCAGAGAACAAAAGCCTAACACTCCCAGCACAGTGATCTCCTAATCGATGTTGGCA
2088089 CTGTTGTTCATTCTGTGAGGATTGTAAACATGTTTGAAACTTTCTAAACACCTACACTGCATCCT
450 CTGTTGTTCATTCTGTGAGGATTGTAAACATGTTTGAAACTTTCTAAACACCTACACTGCATCCT
2088154 CTTCTAAACATGTCATACCTCTCTTTTTCCTGTCATCAACATTTTAAAAAAAGTGTAGAACCATC
515 CTTCTAAACATGTCATACCTCTCTTTTTCCTGTCATCAACATTTTAAAAAAAGTGTAGAACCATC
2088219 ACTTTTATGTTCTTTTGCCGTGCCGATTCTTGTAAACCGATGGGAAACCCAAGAAAACTGGTTTG
580 ACTTTTATGTTCTTTTGCCGTGCCGATTCTTGTAAACCGATGGGAAACCCAAGAAAACTGGTTTG
2088284 CTCATGTATAAATTTGCAGGTGTTATCTTTCAAACTGGCATTCTAACTACCACTACCATGTGTTT
645 CTCATGTATAAATTTGCAGGTGTTATCTTTCAAACTGGCATTCTAACTACCACTACCATGTGTTT
2088349 CACTCGGCCTAAATGGCTGCCGAAACGCCGCTGCTTTCTATGGTGGGTGCAAAAGGGCTGTCCGG
710 CACTCGGCCTAAATGGCTGCCGAAACGCCGCTGCTTTCTATGGTGGGTGCAAAAGGGCTGTCCGG
2088414 CAGATTATATCCTTCGCTGCAGTTTCGAAACAGCCGTTACCACATGAAGCCCGTAATTGAGAATT
775 CAGATTATATCCTTCGCTGCAGTTTCGAAACAGCCGTTACCACATGAAGCCCGTAATTGAGAATT
2088479 ACAGGTACCTCCAAGGGAGACTTTAAGAAACGTAATTT
840 ACAGGTACCTCCAAGGGAGACTTTAAGAAACGTAATTT
2088517 TCATACCTCT
Statistics
Matches: 862, Mismatches: 10, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
874 1 0.00
875 244 0.28
878 475 0.55
879 57 0.07
880 85 0.10
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (877 bp):
AAGATAAAAATACAAGGGGTTTTTGGGTTTAGTAGGTGGAGTGAAATTTAATTTTATATAAATTA
ATTTTTACATAAAGTAATTTTTAAATTTTTATTTTTCGTTTTATTTTTTGTGAGATCAATTTTTT
TATGGAACAATTGACTTCATAATCTTAGATGTGATAATATTTGAGTTCAACTCTCTTCAAAGTTT
AAAGATTTTAAGTAAAAATAATAGTAAAAATATATTCTTATCCTCCTAAATGATAAAAAAACTAC
TTTGATCCTTTAAAAAAAAAGTATTGTATAAAACACATTATATATAAAATTTAAAAAACTTAAAA
AAAAATGGTAAAAATATTTAAAAATCCAAAAAAATAAAATTAAAAAAACATTCTCGTTTATTTAA
ACAGCAGAGAACAAAAGCCTAACACTCCCAGCACAGTGATCTCCTAATCGATGTTGGCACTGTTG
TTCATTCTGTGAGGATTGTAAACATGTTTGAAACTTTCTAAACACCTACACTGCATCCTCTTCTA
AACATGTCATACCTCTCTTTTTCCTGTCATCAACATTTTAAAAAAAGTGTAGAACCATCACTTTT
ATGTTCTTTTGCCGTGCCGATTCTTGTAAACCGATGGGAAACCCAAGAAAACTGGTTTGCTCATG
TATAAATTTGCAGGTGTTATCTTTCAAACTGGCATTCTAACTACCACTACCATGTGTTTCACTCG
GCCTAAATGGCTGCCGAAACGCCGCTGCTTTCTATGGTGGGTGCAAAAGGGCTGTCCGGCAGATT
ATATCCTTCGCTGCAGTTTCGAAACAGCCGTTACCACATGAAGCCCGTAATTGAGAATTACAGGT
ACCTCCAAGGGAGACTTTAAGAAACGTAATTT
Found at i:2092956 original size:72 final size:74
Alignment explanation
Indices: 2092861--2093003 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 74
2092851 TTTTTAAAAG
2092861 AAAATATTTCGAAGAAAAAATATTGAAGAGAGAATAAAAGAATTAA-GACAAAGTTTAACAAAAT
1 AAAATATTTCGAAGAAAAAATATTGAAGAGAGAATAAAAGAATTAAGGACAAA-TTTAACAAAAT
2092925 AATTATAGTT
65 AATTATAGTT
*** **
2092935 AAAATATTTC-AA-AAAAAATATTGAAGAGTTTATAAAAGAATTAAGGTGAAATTTAACAAAATA
1 AAAATATTTCGAAGAAAAAATATTGAAGAGAGAATAAAAGAATTAAGGACAAATTTAACAAAATA
2092998 ATTATA
66 ATTATA
2093004 ATAAAAAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
72 47 0.75
73 6 0.10
74 10 0.16
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (74 bp):
AAAATATTTCGAAGAAAAAATATTGAAGAGAGAATAAAAGAATTAAGGACAAATTTAACAAAATA
ATTATAGTT
Found at i:2109071 original size:44 final size:45
Alignment explanation
Indices: 2108992--2109083 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 45
2108982 AATATTTTCT
*
2108992 TATTAGTTTAATATATATATTATTTCTATGTAGTTGTAGAGATTA
1 TATTAGTTTAATAAATATATTATTTCTATGTAGTTGTAGAGATTA
* *
2109037 TATT-GTTGTAATAAATATA-TATTTGTATTTAGTTGTAGAGATTA
1 TATTAGTT-TAATAAATATATTATTTCTATGTAGTTGTAGAGATTA
2109081 TAT
1 TAT
2109084 AGACAAATGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 29 0.67
45 14 0.33
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (45 bp):
TATTAGTTTAATAAATATATTATTTCTATGTAGTTGTAGAGATTA
Found at i:2121657 original size:33 final size:33
Alignment explanation
Indices: 2121620--2121730 Score: 204
Period size: 33 Copynumber: 3.4 Consensus size: 33
2121610 CTGGTCAATT
2121620 GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
1 GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
2121653 GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
1 GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
*
2121686 GGAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
1 GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
*
2121719 GGAGAAGAAGAA
1 GAAGAAGAAGAA
2121731 CTAATGGAAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.51, C:0.08, G:0.35, T:0.05
Consensus pattern (33 bp):
GAAGAAGAAGAAGAAAGTGAAAGGTACGAGCCA
Found at i:2123404 original size:2 final size:2
Alignment explanation
Indices: 2123397--2123429 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2123387 CTTAAACATG
2123397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2123430 AAGTTGGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2129419 original size:26 final size:26
Alignment explanation
Indices: 2129390--2129439 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2129380 TTCTTTTATG
*
2129390 TTCTCAGATTCTGG-GGAAGTGTGAGT
1 TTCTCA-ATCCTGGAGGAAGTGTGAGT
*
2129416 TTCTGAATCCTGGAGGAAGTGTGA
1 TTCTCAATCCTGGAGGAAGTGTGA
2129440 AAGATAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.32
Consensus pattern (26 bp):
TTCTCAATCCTGGAGGAAGTGTGAGT
Found at i:2129482 original size:2 final size:2
Alignment explanation
Indices: 2129475--2129504 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2129465 TGAAGAGGTA
2129475 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
2129505 CAGTTCAGAT
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:2133968 original size:6 final size:6
Alignment explanation
Indices: 2133952--2133996 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
2133942 CTCGATAAAT
* *
2133952 ACTCG- ACTCGA ACTCGA GCTCG- ACTCGA ACTCGA GCTCG- ACTCGA
1 ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA
2133997 GTTCTTAACG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
5 13 0.39
6 20 0.61
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (6 bp):
ACTCGA
Found at i:2133975 original size:17 final size:17
Alignment explanation
Indices: 2133953--2133996 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
2133943 TCGATAAATA
2133953 CTCGACTCGAACTCGAG
1 CTCGACTCGAACTCGAG
2133970 CTCGACTCGAACTCGAG
1 CTCGACTCGAACTCGAG
2133987 CTCGACTCGA
1 CTCGACTCGA
2133997 GTTCTTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (17 bp):
CTCGACTCGAACTCGAG
Found at i:2133997 original size:11 final size:11
Alignment explanation
Indices: 2133953--2133997 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
2133943 TCGATAAATA
*
2133953 CTCGACTCGAA
1 CTCGACTCGAG
2133964 CTCGAGCTCGA-
1 CTCGA-CTCGAG
2133975 CTCGAACTCGAG
1 CTCG-ACTCGAG
2133987 CTCGACTCGAG
1 CTCGACTCGAG
2133998 TTCTTAACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (11 bp):
CTCGACTCGAG
Found at i:2134339 original size:16 final size:16
Alignment explanation
Indices: 2134318--2134360 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
2134308 TCGAGTCGAG
2134318 TCGAGCTC-AGCAATAC
1 TCGAGCTCGA-CAATAC
2134334 TCGAGCTCGACAATAC
1 TCGAGCTCGACAATAC
2134350 TCGAGCTCGAC
1 TCGAGCTCGAC
2134361 TCAGCTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (16 bp):
TCGAGCTCGACAATAC
Found at i:2135834 original size:26 final size:24
Alignment explanation
Indices: 2135805--2135870 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
2135795 CTATTTAAAA
2135805 AATAATATTATATTATTAAA-ATTTT
1 AATAATA-TATATT-TTAAATATTTT
2135830 CAATAA-ATATATTTTAAATATTTT
1 -AATAATATATATTTTAAATATTTT
*
2135854 AATAATAAATAATTTTA
1 AATAATATAT-ATTTTA
2135871 TAAAATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 10 0.28
24 14 0.39
25 7 0.19
26 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAATATATATTTTAAATATTTT
Found at i:2135882 original size:26 final size:26
Alignment explanation
Indices: 2135831--2135884 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
2135821 TAAAATTTTC
* **
2135831 AATAAATATATTTTAAATATTTTAAT
1 AATAAATATATTTTAAAAATAATAAT
2135857 AATAAATA-ATTTTATAAAATAATAAT
1 AATAAATATATTTTA-AAAATAATAAT
2135883 AA
1 AA
2135885 AATAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAAATATATTTTAAAAATAATAAT
Found at i:2137742 original size:48 final size:48
Alignment explanation
Indices: 2137684--2137905 Score: 356
Period size: 48 Copynumber: 4.6 Consensus size: 48
2137674 TGAACAAAGT
2137684 TGAAGAGGAACAAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGA
1 TGAAGAGGAACAAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGA
* *
2137732 TGAAGAGGAACAAGAAGAGAAGGCTGATGATGAATCGAAAGGAGAAGA
1 TGAAGAGGAACAAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGA
*
2137780 TGAAGAGGAGCAAGAAGAGAAGGCTGATA-ATGAATTGAAAGGAGAAGA
1 TGAAGAGGAACAAGAAGAGAAGGCTGA-AGATGAATTGAAAGGAGAAGA
* * *
2137828 TGAAGAGGAACAAGAAGAGAACGCTGAAGCTGAATTGAAAAGAGAAGA
1 TGAAGAGGAACAAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGA
* *
2137876 TGAAGAAGAACAAGAAGAGAATGCTGAAGA
1 TGAAGAGGAACAAGAAGAGAAGGCTGAAGA
2137906 AAGTGAGGAG
Statistics
Matches: 160, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 1 0.01
48 159 0.99
ACGTcount: A:0.50, C:0.06, G:0.34, T:0.11
Consensus pattern (48 bp):
TGAAGAGGAACAAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGA
Found at i:2140477 original size:18 final size:18
Alignment explanation
Indices: 2140456--2140491 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2140446 GGATGAATCT
*
2140456 GAAGAAGAGGAAGAGGAA
1 GAAGAAAAGGAAGAGGAA
2140474 GAAGAAAAGGAAGAGGAA
1 GAAGAAAAGGAAGAGGAA
2140492 CAGAATGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (18 bp):
GAAGAAAAGGAAGAGGAA
Found at i:2144080 original size:27 final size:27
Alignment explanation
Indices: 2144050--2144119 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
2144040 GGCACCCGTG
*
2144050 AGTTCTCCTCCTTCATCGTCTCCAGCA
1 AGTTCTCCTCCTTCATCGACTCCAGCA
*
2144077 AGTTCTCCGCCATT-ATCGACTCCAGCA
1 AGTTCTCCTCC-TTCATCGACTCCAGCA
2144104 AGTTCTCCTCCTTCAT
1 AGTTCTCCTCCTTCAT
2144120 TGTCCCCGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 34 0.89
28 2 0.05
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (27 bp):
AGTTCTCCTCCTTCATCGACTCCAGCA
Found at i:2146715 original size:20 final size:21
Alignment explanation
Indices: 2146690--2146741 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2146680 TTTTCCCAAT
*
2146690 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2146710 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2146731 TCGCAATGCGA
1 TCGCAATGCGA
2146742 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2146755 original size:20 final size:20
Alignment explanation
Indices: 2146730--2146843 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
2146720 AATTGGGAAA
*
2146730 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2146750 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
2146770 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
2146791 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2146811 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2146831 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2146844 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2146774 original size:61 final size:61
Alignment explanation
Indices: 2146727--2146843 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
2146717 GCGAATTGGG
* * * * *
2146727 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
2146788 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
2146844 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2147419 original size:19 final size:19
Alignment explanation
Indices: 2147359--2147439 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
2147349 TTCGAGAATG
2147359 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
2147379 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
2147395 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
2147412 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
2147431 AAAATCGCA
1 AAAATCGCA
2147440 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2147481 original size:20 final size:19
Alignment explanation
Indices: 2147435--2147600 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
2147425 GAAACCAAAA
*
2147435 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2147454 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
2147473 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
2147493 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
2147509 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2147526 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2147540 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2147559 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2147579 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2147599 TC
1 TC
2147601 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 41 0.34
20 49 0.41
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2147516 original size:39 final size:39
Alignment explanation
Indices: 2147440--2147516 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2147430 CAAAATCGCA
* **
2147440 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
2147479 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
2147517 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:2147525 original size:33 final size:33
Alignment explanation
Indices: 2147488--2147575 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
2147478 GTTGCGATTT
* *
2147488 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
2147521 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
2147554 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
2147576 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:2149611 original size:42 final size:42
Alignment explanation
Indices: 2149551--2149673 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
2149541 GCCCGACTCG
* * *
2149551 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2149593 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2149635 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2149674 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2149631 original size:21 final size:21
Alignment explanation
Indices: 2149607--2149673 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2149597 TCATTCCTCG
2149607 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2149628 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2149649 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2149670 AGAG
1 AGAG
2149674 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2151050 original size:14 final size:14
Alignment explanation
Indices: 2151031--2151066 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2151021 ATTGTTTAAT
2151031 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2151045 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2151059 TGATTTGT
1 TGATTTGT
2151067 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2151217 original size:19 final size:19
Alignment explanation
Indices: 2151193--2151251 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
2151183 GAAATTAGCG
2151193 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2151212 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2151226 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2151245 TTGCGAT
1 TTGCGAT
2151252 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2151217 original size:33 final size:34
Alignment explanation
Indices: 2151174--2151250 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
2151164 AAAAGTACTA
*
2151174 TCGCAATGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
* **
2151207 TCGCATTGCG-ATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
2151240 TCGCATTGCGA
1 TCGCATTGCGA
2151251 TAGTAATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (34 bp):
TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
Found at i:2153507 original size:20 final size:20
Alignment explanation
Indices: 2153482--2153539 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2153472 AATCATTTGA
2153482 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
2153502 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
2153522 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
2153540 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:2153583 original size:14 final size:16
Alignment explanation
Indices: 2153564--2153635 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 16
2153554 AAAATCGCAG
2153564 TGCGATTTTC-TCG-T
1 TGCGATTTTCTTCGAT
2153578 TGCGATTTTCATTTCGCAT
1 TGCGATTTTC--TTCG-AT
2153597 TGCGATTTTCATTTCGCAT
1 TGCGATTTTC--TTCG-AT
2153616 TGCGATTTTC-TCG-T
1 TGCGATTTTCTTCGAT
2153630 TGCGAT
1 TGCGAT
2153636 AGCCATTTCG
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
14 17 0.32
16 3 0.06
17 3 0.06
19 30 0.57
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (16 bp):
TGCGATTTTCTTCGAT
Found at i:2153599 original size:19 final size:19
Alignment explanation
Indices: 2153577--2153625 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
2153567 GATTTTCTCG
2153577 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2153596 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2153615 TTGCGATTTTC
1 TTGCGATTTTC
2153626 TCGTTGCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2153761 original size:14 final size:14
Alignment explanation
Indices: 2153742--2153778 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2153732 CATCAATTAA
2153742 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2153756 ACAAATCATCTTTT
1 ACAAATCAACATTT
2153770 ACAAATCAA
1 ACAAATCAA
2153779 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2155671 original size:19 final size:19
Alignment explanation
Indices: 2155646--2155731 Score: 111
Period size: 19 Copynumber: 4.5 Consensus size: 19
2155636 CGAAACTTAA
2155646 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAC
* *
2155665 TATCGCAACGCGGAAATGGC
1 AATCGCAACGC-GAAATGAC
* * *
2155685 TATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAC
2155704 AATCGCAACGCGAAATGA-
1 AATCGCAACGCGAAATGAC
2155722 AATCGCAACG
1 AATCGCAACG
2155732 ACAAAATCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
18 10 0.17
19 32 0.54
20 17 0.29
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:2155690 original size:39 final size:38
Alignment explanation
Indices: 2155647--2155720 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
2155637 GAAACTTAAA
**
2155647 ATCGCAACGCGAAATGACTATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAATGAAAATCGCAACGC-GAAATGGCT
*
2155686 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAATG
2155721 AAATCGCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 6 0.19
39 26 0.81
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (38 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGGCT
Found at i:2155779 original size:19 final size:18
Alignment explanation
Indices: 2155757--2155821 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
2155747 GAAACACAAA
2155757 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
2155776 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
2155792 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
2155808 TCGCATTGCGATTT
1 TCGCATTGCGATTT
2155822 TGTCGTTGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 9 0.23
16 8 0.21
18 12 0.31
19 10 0.26
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:2155798 original size:14 final size:14
Alignment explanation
Indices: 2155779--2155836 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2155769 TTTCATTTCG
2155779 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2155793 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2155809 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
2155825 CGTTGTGATTTT
1 CGTTGCGATTTT
2155837 TATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2155847 original size:33 final size:33
Alignment explanation
Indices: 2155762--2155852 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
2155752 ACAAATCGCA
*
2155762 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
2155795 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
* *
2155827 TTGTGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
2155853 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:2155871 original size:20 final size:20
Alignment explanation
Indices: 2155846--2155891 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2155836 TTATTTCGCA
2155846 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
2155866 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
2155886 TTGCGA
1 TTGCGA
2155892 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:2156399 original size:18 final size:18
Alignment explanation
Indices: 2156373--2156417 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2156363 GTCGATCAGA
*
2156373 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
2156391 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
2156409 TGATGGCTC
1 TGATGGCTC
2156418 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:2157761 original size:20 final size:20
Alignment explanation
Indices: 2157736--2157773 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2157726 AATAGTTTCT
2157736 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
2157756 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
2157774 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2158064 original size:22 final size:22
Alignment explanation
Indices: 2158037--2158080 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2158027 GATGGAGATA
2158037 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
2158059 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
2158081 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:2158297 original size:20 final size:20
Alignment explanation
Indices: 2158268--2158361 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
2158258 GATTATGTAT
*
2158268 TATCGTGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2158288 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
2158308 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
2158329 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2158349 TATCGCATTGCGA
1 TATCGCGTTGCGA
2158362 TTTTCCCAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2158339 original size:21 final size:21
Alignment explanation
Indices: 2158306--2158406 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
2158296 TGCGAAAGTA
* * *
2158306 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
2158327 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
2158347 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
2158369 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
2158390 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
2158407 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:2158362 original size:20 final size:20
Alignment explanation
Indices: 2158248--2158362 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
2158238 CGCTTTGAAA
*
2158248 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
** *
2158269 ATCGTGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
2158289 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
2158309 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
2158330 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2158350 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2158363 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.66
21 23 0.31
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2158381 original size:41 final size:41
Alignment explanation
Indices: 2158290--2158424 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
2158280 AAAGTCAGTA
* * * ** *
2158290 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
2158330 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
2158372 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
2158413 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2158425 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:2158416 original size:21 final size:20
Alignment explanation
Indices: 2158351--2158443 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
2158341 ATAGTCAGTA
*
2158351 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
2158372 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
2158392 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
2158413 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
2158433 TCGCATTGCGA
1 TCGCATTGCGA
2158444 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:2158425 original size:41 final size:41
Alignment explanation
Indices: 2158351--2158443 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2158341 ATAGTCAGTA
2158351 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2158392 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2158433 TCGCATTGCGA
1 TCGCATTGCGA
2158444 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:2164409 original size:46 final size:46
Alignment explanation
Indices: 2164356--2164450 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
2164346 CCTCACTGGC
2164356 AGTAATCCGAGTGAGGTTCAGATTGTTATTGATAAATTGCATGCAA
1 AGTAATCCGAGTGAGGTTCAGATTGTTATTGATAAATTGCATGCAA
2164402 AGTAATCCGAGTGAGGTTCAGATTGTTATTGATAAATTGCATGCAA
1 AGTAATCCGAGTGAGGTTCAGATTGTTATTGATAAATTGCATGCAA
2164448 AGT
1 AGT
2164451 TTGCCTTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (46 bp):
AGTAATCCGAGTGAGGTTCAGATTGTTATTGATAAATTGCATGCAA
Found at i:2167518 original size:104 final size:104
Alignment explanation
Indices: 2167335--2167539 Score: 257
Period size: 104 Copynumber: 2.0 Consensus size: 104
2167325 AACAGATTCG
** * * * *
2167335 TATTTGTGTTTACAAATTATTTTGATTTAATTCACAATTTGAATTCAATTTGATCATTATTAAAT
1 TATTTGTGTTTACAAATTATTTAAATTTAATTCACAATTTAAATTCAATTCGATCATGATCAAAT
* * * * *
2167400 TTGGTTTAAGTGTCAACAAATTAAATTAATGAATCTCAT
66 TTAGCTTAAATGTCAACAAATCAAATTAATAAATCTCAT
* ** **
2167439 TATTTGTGTTTATAAATTATTTAAATTTAATTTTCAATTTAAATTCAATTCGATCATGATCATGT
1 TATTTGTGTTTACAAATTATTTAAATTTAATTCACAATTTAAATTCAATTCGATCATGATCAAAT
*
2167504 TTAGCTTAAATGTCAACATATCAAATTAATAAATCT
66 TTAGCTTAAATGTCAACAAATCAAATTAATAAATCT
2167540 ATTCCTTTCT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 84 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (104 bp):
TATTTGTGTTTACAAATTATTTAAATTTAATTCACAATTTAAATTCAATTCGATCATGATCAAAT
TTAGCTTAAATGTCAACAAATCAAATTAATAAATCTCAT
Found at i:2171020 original size:6 final size:6
Alignment explanation
Indices: 2171009--2171037 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2170999 GTGATAATTT
2171009 AATATA AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATAT
2171038 TTATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:2171099 original size:20 final size:19
Alignment explanation
Indices: 2171047--2171100 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
2171037 TTTATTTTAT
2171047 TTTATTTTATTAA-ATTAA
1 TTTATTTTATTAATATTAA
2171065 TTTATTTTGATTAATATTAA
1 TTTATTTT-ATTAATATTAA
2171085 TTTATTTTATATAATA
1 TTTATTTTAT-TAATA
2171101 ATTGATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 18 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATTTTATTAATATTAA
Found at i:2171689 original size:32 final size:32
Alignment explanation
Indices: 2171629--2171689 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
2171619 TATTTTTATA
* *
2171629 TTTTAAATTAAAAATAAATATATTTAAATCTT
1 TTTTAAATTAAAAATAAATAAATATAAATCTT
* * *
2171661 TTTTAAATTATAATTAATTAAATATAAAT
1 TTTTAAATTAAAAATAAATAAATATAAAT
2171690 ACACTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TTTTAAATTAAAAATAAATAAATATAAATCTT
Found at i:2175859 original size:30 final size:30
Alignment explanation
Indices: 2175779--2175859 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
2175769 TGAGGAGTGG
* *
2175779 ATTCCTCCACCTCCTCCTGACACTGAACAA
1 ATTCCTCCACCTCCTCCTGATAATGAACAA
*
2175809 ATTCCACCACCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCTCCTCCTGATAATGAACAA
* *
2175839 GTTCCTCCACCTCCGCCTGAT
1 ATTCCTCCACCTCCTCCTGAT
2175860 GAGCCTCCCG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.25, C:0.42, G:0.09, T:0.25
Consensus pattern (30 bp):
ATTCCTCCACCTCCTCCTGATAATGAACAA
Found at i:2181746 original size:4 final size:4
Alignment explanation
Indices: 2181737--2181766 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
2181727 ACAAACTTGG
*
2181737 ATGT ATGT ATAT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
2181767 ATATTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2183129 original size:14 final size:14
Alignment explanation
Indices: 2183110--2183137 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2183100 ATCATAACAA
2183110 AATTATATAACTAT
1 AATTATATAACTAT
2183124 AATTATATAACTAT
1 AATTATATAACTAT
2183138 TCTTTCACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:2186504 original size:21 final size:21
Alignment explanation
Indices: 2186478--2186519 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2186468 TTGTGTCTAC
2186478 AATATGCGTGTATGCGCTCAT
1 AATATGCGTGTATGCGCTCAT
2186499 AATATGCGTGTATGCGCTCAT
1 AATATGCGTGTATGCGCTCAT
2186520 TATCAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
AATATGCGTGTATGCGCTCAT
Found at i:2204130 original size:11 final size:11
Alignment explanation
Indices: 2204110--2204139 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2204100 AAAAAAATGA
2204110 TTTTTC-TTTT
1 TTTTTCTTTTT
2204120 TTTTTCTTTTT
1 TTTTTCTTTTT
2204131 TTTTTCTTT
1 TTTTTCTTT
2204140 AGAGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTCTTTTT
Done.