Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_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: 2412736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 12
Found at i:1678366 original size:41 final size:40
Alignment explanation
Indices: 1678273--1678377 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 40
1678263 TCTTACTTAG
* * **
1678273 TAAGTCCTTCAGGTCATC-AGTAAGTCTTTCGAGCAAATTCT
1 TAAGTCCTTC-GGTCATCTA-TAAGTCTTTCAAGCAAAATAA
* *
1678314 TAAATCATTCGGGTCATCTATAAGTCTTTCAAG-AAAGATAA
1 TAAGTCCTTC-GGTCATCTATAAGTCTTTCAAGCAAA-ATAA
*
1678355 TAAGTCCTTCGGTCATCTGTAAG
1 TAAGTCCTTCGGTCATCTATAAG
1678378 ACCTTCAGGT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 15 0.29
41 36 0.69
42 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
TAAGTCCTTCGGTCATCTATAAGTCTTTCAAGCAAAATAA
Found at i:1678438 original size:18 final size:19
Alignment explanation
Indices: 1678409--1678445 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1678399 ATATGGTGAT
1678409 AAAAATGCTAAAAAAGAAA
1 AAAAATGCTAAAAAAGAAA
*
1678428 AAAAATG-TAAAAATGAAA
1 AAAAATGCTAAAAAAGAAA
1678446 GAAGTCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.73, C:0.03, G:0.11, T:0.14
Consensus pattern (19 bp):
AAAAATGCTAAAAAAGAAA
Found at i:1678905 original size:17 final size:17
Alignment explanation
Indices: 1678883--1678917 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1678873 ACCTATATAT
* *
1678883 TATTATTAATATTGTTA
1 TATTATAAATATTATTA
1678900 TATTATAAATATTATTA
1 TATTATAAATATTATTA
1678917 T
1 T
1678918 TAAACCAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATAAATATTATTA
Found at i:1680181 original size:109 final size:110
Alignment explanation
Indices: 1679934--1680181 Score: 257
Period size: 109 Copynumber: 2.3 Consensus size: 110
1679924 TAGGTCCCCC
* * *
1679934 TAAGTTTAGCGTGTTTTTACA-TTTTGGTCACTTGTAGGGACTAAATCTGTTATTTTCCCTTTTT
1 TAAGTTTAGCGTGTTTTTACACTTTTAGTCATTTGTAGGGACTAAATCTATTATTTTCCCTTTTT
*
1679998 CTTGTGTGTCGTAATTTTTTGGTATATTCACTGTTTAGTCCCTCA
66 CTTGTGTGTCATAATTTTTTGGTATATTCACTGTTTAGTCCCTCA
* *
1680043 -AAATTTAGCGTGGTTTTT---CTTTCTAGTCATTTGT-GAGGATTGAAA-CTATTATTTTCCC-
1 TAAGTTTAGCGT-GTTTTTACACTTT-TAGTCATTTGTAG-GGACT-AAATCTATTATTTTCCCT
* * * *
1680101 TTTTCTT-TGCATGTTATATATTTTTTTGTATATTTATTGTTTAGTCCCT-A
62 TTTTCTTGTG--TGTCATA-ATTTTTTGGTATATTCACTGTTTAGTCCCTCA
*
1680151 TAAGTCTAGCGTGTTTTTACACTTTT-GTCAT
1 TAAGTTTAGCGTGTTTTTACACTTTTAGTCAT
1680182 ACGTAGTGAC
Statistics
Matches: 115, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
106 2 0.02
107 11 0.10
108 47 0.41
109 50 0.43
110 1 0.01
111 4 0.03
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (110 bp):
TAAGTTTAGCGTGTTTTTACACTTTTAGTCATTTGTAGGGACTAAATCTATTATTTTCCCTTTTT
CTTGTGTGTCATAATTTTTTGGTATATTCACTGTTTAGTCCCTCA
Found at i:1684773 original size:17 final size:17
Alignment explanation
Indices: 1684751--1684783 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1684741 GATTTTTTTC
1684751 AACTTTTAAATTATTTG
1 AACTTTTAAATTATTTG
*
1684768 AACTTTTATATTATTT
1 AACTTTTAAATTATTT
1684784 ATTTTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
AACTTTTAAATTATTTG
Found at i:1684923 original size:17 final size:17
Alignment explanation
Indices: 1684891--1684929 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1684881 AAGTTATAAA
**
1684891 ATATTAAATTTGAATTT
1 ATATTAAATTAAAATTT
*
1684908 TTATTAAATTAAAATTT
1 ATATTAAATTAAAATTT
1684925 ATATT
1 ATATT
1684930 TGGATATGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATTAAATTAAAATTT
Found at i:1689641 original size:65 final size:64
Alignment explanation
Indices: 1689527--1689719 Score: 271
Period size: 65 Copynumber: 3.0 Consensus size: 64
1689517 TAGAGTGAAC
* * *
1689527 AAGTTCAGATCACCCATATGACTCATGTACCTTTGTGGTGCATGGGGTGGAGTGATAATTGAATA
1 AAGTACAGATCACTC-TATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA
* *
1689592 AAGTATAGATCACTCGTATGACTCATGTACTTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA
1 AAGTACAGATCACTC-TATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA
* * * * *
1689657 CATTACAGATCAATC-ATAACTCATGTACCTTTGTGGTGCGTGAGGTGGAGTGATAATTGAATA
1 AAGTACAGATCACTCTATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA
1689720 CTGCAAAGAT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 45 0.39
65 70 0.61
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (64 bp):
AAGTACAGATCACTCTATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA
Found at i:1689730 original size:63 final size:64
Alignment explanation
Indices: 1689547--1689731 Score: 248
Period size: 63 Copynumber: 2.9 Consensus size: 64
1689537 CACCCATATG
* ** * * *
1689547 ACTCATGTACCTTTGTGGTGCATGGGGTGGAGTGATAATTGAATAAAGTATAGATCACTCGTATG
1 ACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTAAAGATCAATCG-ATA
* *
1689612 ACTCATGTACTTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAT-TACAGATCAATC-ATA
1 ACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATAC-TGTAAAGATCAATCGATA
* *
1689675 ACTCATGTACCTTTGTGGTGCGTGAGGTGGAGTGATAATTGAATACTGCAAAGATCA
1 ACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTAAAGATCA
1689732 CTCAATGTGA
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
62 1 0.01
63 53 0.50
65 53 0.50
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (64 bp):
ACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTAAAGATCAATCGATA
Found at i:1689980 original size:34 final size:34
Alignment explanation
Indices: 1689941--1690023 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
1689931 CAGTGCAGTA
*
1689941 AAAGGAACGATATAGGAAAAAGAATAA-TATAGTG
1 AAAGGAACGATACAGGAAAAAGAATAAGTATA-TG
** * *
1689975 AAAGGATTGGTACAGGAAAAAGAGTAAGTATATG
1 AAAGGAACGATACAGGAAAAAGAATAAGTATATG
*
1690009 ATAATGAACGATACA
1 A-AAGGAACGATACA
1690024 AGTTTAATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
34 25 0.66
35 13 0.34
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (34 bp):
AAAGGAACGATACAGGAAAAAGAATAAGTATATG
Found at i:1693668 original size:3 final size:3
Alignment explanation
Indices: 1693655--1693705 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
1693645 ATTGTTTTAC
1693655 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1693700 ATT ATT
1 ATT ATT
1693706 TATGAAGATT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1694810 original size:15 final size:15
Alignment explanation
Indices: 1694790--1694819 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1694780 ATCTAGGCAT
1694790 TGATATCAATTGTTA
1 TGATATCAATTGTTA
1694805 TGATATCAATTGTTA
1 TGATATCAATTGTTA
1694820 GAGTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
TGATATCAATTGTTA
Found at i:1695506 original size:72 final size:70
Alignment explanation
Indices: 1695422--1695622 Score: 194
Period size: 72 Copynumber: 2.8 Consensus size: 70
1695412 AATTTAAACA
* * * *
1695422 TTTTAAATCATATAATATATAATTTTAAAAAATCGGTTTTTGAAAATATATA-ATATGGTTTTGA
1 TTTTAAAACATATATTATATAATTTTAAAAAATC--TTTTTGAAAATATATATATATAGTTTTAA
*
1695486 AAA-TAT
64 AAACAAT
* * * *
1695492 GTTTTAAAAACATATATTATATAGTTTGAAAAACA-ATTTTTGAAAACATATAATATATAGTTTT
1 -TTTT-AAAACATATATTATATAATTTTAAAAA-ATCTTTTTGAAAATATAT-ATATATAGTTTT
1695556 AAAAACAAT
62 AAAAACAAT
* *
1695565 TTTTGCAAACATATATTATATAATTTGAAAAACAT-TTTTTGAAATATATATATATATA
1 TTTT-AAAACATATATTATATAATTTTAAAAA-ATCTTTTTGAAA-ATATATATATATA
1695623 TATATATTAT
Statistics
Matches: 110, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
70 14 0.13
71 5 0.05
72 83 0.75
73 8 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (70 bp):
TTTTAAAACATATATTATATAATTTTAAAAAATCTTTTTGAAAATATATATATATAGTTTTAAAA
ACAAT
Found at i:1695538 original size:36 final size:36
Alignment explanation
Indices: 1695493--1695624 Score: 183
Period size: 36 Copynumber: 3.6 Consensus size: 36
1695483 TGAAAATATG
*
1695493 TTTTAAAAACATATATTATATAGTTTGAAAAACAAT
1 TTTTGAAAACATATATTATATAGTTTGAAAAACAAT
* *
1695529 TTTTGAAAACATATAATATATAGTTTTAAAAACAAT
1 TTTTGAAAACATATATTATATAGTTTGAAAAACAAT
* * *
1695565 TTTTGCAAACATATATTATATAATTTGAAAAACATT
1 TTTTGAAAACATATATTATATAGTTTGAAAAACAAT
*
1695601 TTTTGAAATATATATATATATATA
1 TTTTGAAA-ACATATAT-TATATA
1695625 TATATTATAG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 71 0.85
37 7 0.08
38 6 0.07
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (36 bp):
TTTTGAAAACATATATTATATAGTTTGAAAAACAAT
Found at i:1695704 original size:25 final size:25
Alignment explanation
Indices: 1695646--1695709 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 25
1695636 TTTGAAAAAC
*
1695646 AGTTTTT-GAAAACGTATAATATAT
1 AGTTTTTAAAAAACGTATAATATAT
*
1695670 GGTTTTTTTAAAAAACGTATAATATAT
1 AG--TTTTTAAAAAACGTATAATATAT
1695697 AGTTTTTAAAAAA
1 AGTTTTTAAAAAA
1695710 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.03
25 11 0.32
26 5 0.15
27 17 0.50
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (25 bp):
AGTTTTTAAAAAACGTATAATATAT
Found at i:1695716 original size:39 final size:39
Alignment explanation
Indices: 1695673--1695797 Score: 164
Period size: 39 Copynumber: 3.2 Consensus size: 39
1695663 AATATATGGT
1695673 TTTTTTAAAAAACGTATAATATATAGTTTTTAAAAAATA
1 TTTTTTAAAAAACGTATAATATATAGTTTTTAAAAAATA
*
1695712 TTTTTTAAAAACCGTATAATATATAGTTTTTAAAAAATA
1 TTTTTTAAAAAACGTATAATATATAGTTTTTAAAAAATA
* * *
1695751 -CTTTTGAAAAA-GTATAATATATATATATTTTAGAAAAAATA
1 TTTTTTAAAAAACGTATAATATATA-GT-TTTT--AAAAAATA
1695792 TTTTTT
1 TTTTTT
1695798 TTAATTTGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
37 12 0.16
38 9 0.12
39 42 0.56
41 8 0.11
42 4 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (39 bp):
TTTTTTAAAAAACGTATAATATATAGTTTTTAAAAAATA
Found at i:1695743 original size:64 final size:65
Alignment explanation
Indices: 1695621--1695748 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 65
1695611 TATATATATA
* * *
1695621 TATATATATTATAGTTTTGAAAAACAGTTTTTGAAAACGTATAATATATGGTTTTTTTAAAAAAC
1 TATATATATTATAGTTTTAAAAAACAGTTTTTAAAAACGTATAATATATAG-TTTTTTAAAAAAC
1695686 G
65 G
* *
1695687 TATA-ATA-TATAGTTTTTAAAAAATATTTTTTAAAAACCGTATAATATATAG-TTTTTAAAAAA
1 TATATATATTATAG-TTTTAAAAAACAGTTTTTAAAAA-CGTATAATATATAGTTTTTTAAAAAA
1695749 TACTTTTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
64 16 0.29
65 22 0.40
66 17 0.31
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (65 bp):
TATATATATTATAGTTTTAAAAAACAGTTTTTAAAAACGTATAATATATAGTTTTTTAAAAAACG
Found at i:1695853 original size:26 final size:27
Alignment explanation
Indices: 1695824--1695874 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
1695814 TTATCGGTTA
1695824 TTTTATGTATTTTTTATT-TATTTTGT
1 TTTTATGTATTTTTTATTCTATTTTGT
* *
1695850 TTTTTTTTATTTTTTATTCTATTTT
1 TTTTATGTATTTTTTATTCTATTTT
1695875 TAGGTCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (27 bp):
TTTTATGTATTTTTTATTCTATTTTGT
Found at i:1695954 original size:27 final size:27
Alignment explanation
Indices: 1695916--1695969 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1695906 GGATAAAGGA
1695916 GCCCAACTGGGTGCCTAACCCAACAAG
1 GCCCAACTGGGTGCCTAACCCAACAAG
*
1695943 GCCCAA-TCGGGTGCCTAACCCAGCAAG
1 GCCCAACT-GGGTGCCTAACCCAACAAG
1695970 ACCTAACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.28, C:0.37, G:0.24, T:0.11
Consensus pattern (27 bp):
GCCCAACTGGGTGCCTAACCCAACAAG
Found at i:1699414 original size:131 final size:135
Alignment explanation
Indices: 1699176--1699443 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 135
1699166 GGTACCGATT
1699176 AATTTGTCGGTTGCCTTAATTACCAAAAAAAATTGAAATTGAAATTGAAATTTAAAAATTCAATA
1 AATTTGTCGGTTGCCTTAATTACCAAAAAAAATTGAAATTGAAATTGAAATTTAAAAATTCAATA
1699241 CAAAAACTAATTACCTTTGATAGATTGAAATTGTCCTAAAAATATCAAATTACTG-TAAATAATA
66 C-AAAACTAATTACCTTTGATAGATTGAAATTGTCCTAAAAATATCAAATTACTGTTAAATAATA
1699305 GAATAA
130 GAATAA
1699311 AATTTGTCGGTTGCCTTAATTA-C-AAAAAAATTGAAATTGAAATTGAAATTTAAAAATTCAATA
1 AATTTGTCGGTTGCCTTAATTACCAAAAAAAATTGAAATTGAAATTGAAATTTAAAAATTCAATA
1699374 C-AAACTAATTACCTTTGATAGATTGAAATTGTCCTAAAAATATCAAATTACTGTTAAATAATAG
66 CAAAACTAATTACCTTTGATAGATTGAAATTGTCCTAAAAATATCAAATTACTGTTAAATAATAG
1699438 AATAA
131 AATAA
1699443 A
1 A
1699444 TAACATAAAT
Statistics
Matches: 132, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
131 52 0.39
132 16 0.12
133 41 0.31
134 1 0.01
135 22 0.17
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (135 bp):
AATTTGTCGGTTGCCTTAATTACCAAAAAAAATTGAAATTGAAATTGAAATTTAAAAATTCAATA
CAAAACTAATTACCTTTGATAGATTGAAATTGTCCTAAAAATATCAAATTACTGTTAAATAATAG
AATAA
Found at i:1709931 original size:124 final size:123
Alignment explanation
Indices: 1709710--1710058 Score: 563
Period size: 124 Copynumber: 2.8 Consensus size: 123
1709700 CGATCCGTTA
1709710 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCT-CTTCGTTGTGAAGTTGAGCTTT
* * *
1709775 GAATTGGATATCTTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATACTACTTGTG
65 GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATACTACTTATG
* *
1709834 GGCACGATATCCTTCGCCGTGAAGTTGAAATCGTGTATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTC-TTCGTTGTGAAGTTGAGCTTT
* * * *
1709899 GAATTGGATGTCCTTCGTTGTGAAGTTAAAATCCAATCTAGAGATAGATGCTGCTTATG
65 GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATACTACTTATG
* * *
1709958 GGTACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTTCTTCGTTGTGGAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGC-TCTTCGTTGTGAAGTTGAGCTTT
1710023 GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
65 GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1710059 GGATTGTTTC
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
123 1 0.00
124 204 0.99
125 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (123 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCTTCGTTGTGAAGTTGAGCTTTG
AATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATACTACTTATG
Found at i:1710113 original size:60 final size:60
Alignment explanation
Indices: 1710020--1710300 Score: 298
Period size: 60 Copynumber: 4.7 Consensus size: 60
1710010 GGAGTTGAGC
* * *
1710020 TTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAAATGGT
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGA
* * * *
1710080 TTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAATATTGAGTAAGTTTCACCAAATTGGA
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCC-A-A-GGA-T-TGTTTCACCAAATTGGA
* * * *
1710145 TTTGAGTTGGATATCCTTTGTTGTGAAGTTGAAATCTAAGTATTGTTTCACCAAATTGGC
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGA
* * ** ** **** *
1710205 TTTGAGTTGGATATCCTTCGTTTTGAAGTTGAAATCTAA-TCTTGAAT-A-TTGTTTGGC
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGA
1710262 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1710301 TCTTTTGTAA
Statistics
Matches: 190, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
57 42 0.22
58 1 0.01
59 5 0.03
60 86 0.45
61 2 0.01
62 2 0.01
63 3 0.02
64 2 0.01
65 47 0.25
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (60 bp):
TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGA
Found at i:1712344 original size:7 final size:7
Alignment explanation
Indices: 1712291--1712366 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
1712281 TTTTTCTTCA
*
1712291 CTTTTTC
1 CTTTTTT
1712298 CTTTGTTT
1 CTTT-TTT
*
1712306 TTTTTTAT
1 CTTTTT-T
1712314 CTTTTTT
1 CTTTTTT
*
1712321 -TATTTT
1 CTTTTTT
* *
1712327 CTCTTTG
1 CTTTTTT
1712334 CTTTTTT
1 CTTTTTT
*
1712341 CTTTGTT
1 CTTTTTT
*
1712348 -TTTTCT
1 CTTTTTT
1712354 CTTTTTT
1 CTTTTTT
1712361 CTTTTT
1 CTTTTT
1712367 GTTCTGATTG
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
6 9 0.17
7 33 0.62
8 11 0.21
ACGTcount: A:0.03, C:0.14, G:0.04, T:0.79
Consensus pattern (7 bp):
CTTTTTT
Found at i:1712360 original size:11 final size:11
Alignment explanation
Indices: 1712292--1712353 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 11
1712282 TTTTCTTCAC
*
1712292 TTTTTCCTTTG
1 TTTTTTCTTTG
*
1712303 TTTTTT-TTTA
1 TTTTTTCTTTG
* *
1712313 TCTTTT-TTTA
1 TTTTTTCTTTG
*
1712323 TTTTCTCTTTG
1 TTTTTTCTTTG
1712334 CTTTTTTCTTTG
1 -TTTTTTCTTTG
1712346 TTTTTTCT
1 TTTTTTCT
1712354 CTTTTTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
10 16 0.38
11 16 0.38
12 10 0.24
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTG
Found at i:1712883 original size:14 final size:14
Alignment explanation
Indices: 1712864--1712891 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1712854 AGTCTAGAAA
1712864 GATAATTGAGTGAC
1 GATAATTGAGTGAC
1712878 GATAATTGAGTGAC
1 GATAATTGAGTGAC
1712892 TTTGTTGACC
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:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
GATAATTGAGTGAC
Found at i:1714390 original size:15 final size:15
Alignment explanation
Indices: 1714358--1714402 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1714348 TTGAATGATG
* *
1714358 AAAATGATA-AAAAT
1 AAAATGAAAGAAAAA
1714372 AAAATGAAAGAAAAA
1 AAAATGAAAGAAAAA
1714387 AAAATGAAAGGAAAAA
1 AAAATGAAA-GAAAAA
1714403 GTTAGTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 8 0.30
15 13 0.48
16 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (15 bp):
AAAATGAAAGAAAAA
Found at i:1714400 original size:16 final size:16
Alignment explanation
Indices: 1714366--1714402 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1714356 TGAAAATGAT
1714366 AAAAATAAAATGAAAG
1 AAAAATAAAATGAAAG
1714382 AAAAA-AAAATGAAAGG
1 AAAAATAAAATGAAA-G
1714398 AAAAA
1 AAAAA
1714403 GTTAGTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAATAAAATGAAAG
Found at i:1718622 original size:13 final size:14
Alignment explanation
Indices: 1718601--1718632 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1718591 AATCTCAAAC
1718601 AATTA-AATTTT-A
1 AATTACAATTTTCA
1718613 AATTACAATTTTCA
1 AATTACAATTTTCA
1718627 AATTAC
1 AATTAC
1718633 TTTTAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTACAATTTTCA
Found at i:1720000 original size:26 final size:28
Alignment explanation
Indices: 1719959--1720019 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
1719949 AAAATATAAG
* *
1719959 AAAAATGTATTAAAAATATTAGAGTATT
1 AAAAATGTATTAAAAATATTAAAATATT
1719987 AAAAAT-TA-TAAAAATATTAAAATATT
1 AAAAATGTATTAAAAATATTAAAATATT
*
1720013 AACAATG
1 AAAAATG
1720020 AAGAAGTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 21 0.72
27 2 0.07
28 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAAATGTATTAAAAATATTAAAATATT
Found at i:1726073 original size:115 final size:114
Alignment explanation
Indices: 1725915--1726148 Score: 423
Period size: 115 Copynumber: 2.0 Consensus size: 114
1725905 TACATCGTGT
*
1725915 ATTTTATCATCTCATGATGTATCATTCAAGACTTCTGAAATGACATAATATATCGTTGAAGACTA
1 ATTTTATCATCTCATGATGTATCATTCAAGACCTCTGAAATGACATAATATATCGTTGAAGACTA
1725980 ACTTCTCAAATGTAATGGAATAAAGCAACATACTAAATGGATCTATCAA
66 ACTTCTCAAATGTAATGGAATAAAGCAACATACTAAATGGATCTATCAA
*
1726029 ATTTTATCATCTCATGAATGTATCATTCAAGACCTCTGAAATGACATAATATATTGTTGAAGACT
1 ATTTTATCATCTCATG-ATGTATCATTCAAGACCTCTGAAATGACATAATATATCGTTGAAGACT
* *
1726094 AACTTTTCAAATGTAATGGAATAAAGCAACATAGTAAATGGATCTATCAA
65 AACTTCTCAAATGTAATGGAATAAAGCAACATACTAAATGGATCTATCAA
1726144 ATTTT
1 ATTTT
1726149 CACTTGAACG
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
114 16 0.14
115 99 0.86
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (114 bp):
ATTTTATCATCTCATGATGTATCATTCAAGACCTCTGAAATGACATAATATATCGTTGAAGACTA
ACTTCTCAAATGTAATGGAATAAAGCAACATACTAAATGGATCTATCAA
Found at i:1726650 original size:2 final size:2
Alignment explanation
Indices: 1726637--1726673 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1726627 GAAGTCTTTA
*
1726637 AT AT AC 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 AT AT A
1726674 CACACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1732102 original size:23 final size:22
Alignment explanation
Indices: 1732076--1732140 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
1732066 CAGCTCATAT
1732076 AATTGCACCTAAGTGCCATGTAG
1 AATTGCACCT-AGTGCCATGTAG
* **
1732099 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCATGTAG
1732122 AATTGCACCGTAGTGCCAT
1 AATTGCACC-TAGTGCCAT
1732141 ATAATAATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (22 bp):
AATTGCACCTAGTGCCATGTAG
Found at i:1732280 original size:103 final size:103
Alignment explanation
Indices: 1732155--1732475 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
1732145 TAATGTCCAT
1732155 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1732220 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1732258 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1732323 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1732361 AAGGACCACATATCATTCCTTAAGAATCATATATATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1732426 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1732464 AAGGACCACATA
1 AAGGACCACATA
1732476 GACCCTCTAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1732992 original size:19 final size:20
Alignment explanation
Indices: 1732955--1732992 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1732945 TTTTTTATTA
*
1732955 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1732975 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1732993 TCTAGCGTTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1739071 original size:23 final size:22
Alignment explanation
Indices: 1739045--1739108 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
1739035 CAGCTCATAT
*
1739045 AATTACACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
** *
1739068 AATTGCATCGGAGTGCCGCGTAG
1 AATTGCA-CCTAGTGCCACGTAG
1739091 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
1739109 TATAATAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 1 0.03
23 30 0.94
24 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:1739253 original size:103 final size:103
Alignment explanation
Indices: 1739124--1739444 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
1739114 TAATGTCCAT
*
1739124 AAGGACCACATACCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
1739189 GAATTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
1739227 AAAGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1739292 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1739330 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1739395 GACTTCACATATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1739433 AAGGACCACATA
1 AAGGACCACATA
1739445 GACCCTCTAC
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1739962 original size:19 final size:20
Alignment explanation
Indices: 1739925--1739962 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1739915 TTTTTTATTA
*
1739925 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1739945 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1739963 TCTAGCGTTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1741508 original size:25 final size:24
Alignment explanation
Indices: 1741461--1741584 Score: 63
Period size: 25 Copynumber: 5.0 Consensus size: 24
1741451 AAATCCTAAT
* **
1741461 TAAAATACTAAAACATATTTAAAC
1 TAAAATACTAAAACAAAGATAAAC
*
1741485 TAAAATACCTAAAACAAAGATAAAA
1 TAAAATA-CTAAAACAAAGATAAAC
* * *
1741510 TATAAA-AATAATATACTAAA-ACTTAAT
1 TA-AAATACTAA-A-AC-AAAGA-TAAAC
** **
1741537 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAAGATAAAC
*
1741561 TAAAATGCCTAAAACAAAGATAAA
1 TAAAAT-ACTAAAACAAAGATAAA
1741585 TATATGTTTA
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
24 20 0.27
25 31 0.42
26 10 0.14
27 12 0.16
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAAGATAAAC
Found at i:1741544 original size:76 final size:75
Alignment explanation
Indices: 1741397--1741589 Score: 266
Period size: 76 Copynumber: 2.6 Consensus size: 75
1741387 TAAACACTTA
* * * * *
1741397 AAAACTATTTAAACTAAAATATCTAAAA-AATA-ATAATAT-TTAAAATAATATTCTAAATCCTA
1 AAAACTATTTAAACTAAAATACCTAAAACAA-AGATAAAATATAAAAATAATATACTAAAACCTA
1741459 ATTAAAATACT
65 ATTAAAATACT
*
1741470 AAAACATATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATACTAAAACTTA
1 AAAAC-TATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATACTAAAACCTA
1741535 ATTAAAATACT
65 ATTAAAATACT
*
1741546 AAAACCTATTTAAACTAAAATGCCTAAAACAAAGATAAATATAT
1 AAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAA-ATAT
1741590 GTTTAAAATA
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
73 5 0.05
74 23 0.21
75 8 0.07
76 66 0.62
77 5 0.05
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (75 bp):
AAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATACTAAAACCTAA
TTAAAATACT
Found at i:1741558 original size:19 final size:19
Alignment explanation
Indices: 1741522--1741559 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1741512 TAAAAATAAT
*
1741522 ATACTAAAACTTAATTAAA
1 ATACTAAAACCTAATTAAA
*
1741541 ATACTAAAACCTATTTAAA
1 ATACTAAAACCTAATTAAA
1741560 CTAAAATGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACTAAAACCTAATTAAA
Found at i:1747233 original size:21 final size:21
Alignment explanation
Indices: 1747208--1747247 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1747198 TAATAGCATC
*
1747208 CAATAGCGCCCGTGACGGCTG
1 CAATAGCGCCCGCGACGGCTG
1747229 CAATAGCGCCCGCGACGGC
1 CAATAGCGCCCGCGACGGC
1747248 CACAATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.38, G:0.33, T:0.10
Consensus pattern (21 bp):
CAATAGCGCCCGCGACGGCTG
Found at i:1747253 original size:21 final size:21
Alignment explanation
Indices: 1747208--1747253 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1747198 TAATAGCATC
* **
1747208 CAATAGCGCCCGTGACGGCTG
1 CAATAGCGCCCGCGACGGCCA
1747229 CAATAGCGCCCGCGACGGCCA
1 CAATAGCGCCCGCGACGGCCA
1747250 CAAT
1 CAAT
1747254 CACAGTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.37, G:0.28, T:0.11
Consensus pattern (21 bp):
CAATAGCGCCCGCGACGGCCA
Found at i:1749170 original size:9 final size:8
Alignment explanation
Indices: 1749148--1749224 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
1749138 TTATTTGATT
*
1749148 TAAAAAAA
1 TAAAAATA
1749156 TAAAAATA
1 TAAAAATA
1749164 TATAAAATA
1 TA-AAAATA
1749173 TAAAAATA
1 TAAAAATA
1749181 TTCAAGAAAT-
1 -T-AA-AAATA
*
1749191 TAAATATA
1 TAAAAATA
1749199 -ATAAAATA
1 TA-AAAATA
*
1749207 TCAAAA-A
1 TAAAAATA
1749214 TAAAAAT-
1 TAAAAATA
1749221 TAAA
1 TAAA
1749225 TTAATGAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
7 14 0.25
8 26 0.46
9 10 0.18
10 2 0.04
11 4 0.07
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Found at i:1749175 original size:17 final size:17
Alignment explanation
Indices: 1749150--1749215 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
1749140 ATTTGATTTA
*
1749150 AAAAAATAAAAATATAT
1 AAAATATAAAAATATAT
1749167 AAAATATAAAAATAT-T
1 AAAATATAAAAATATAT
*
1749183 CAAGAA-AT-TAAATATAAT
1 -AA-AATATAAAAATAT-AT
1749201 AAAATATCAAAAATA
1 AAAATAT-AAAAATA
1749216 AAAATTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 9 0.23
17 22 0.56
18 3 0.08
19 5 0.13
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAATATAAAAATATAT
Found at i:1752664 original size:29 final size:29
Alignment explanation
Indices: 1752619--1752677 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1752609 ATTTTCACCT
*
1752619 AACTAAATTGATTTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1752648 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1752677 A
1 A
1752678 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1757321 original size:29 final size:29
Alignment explanation
Indices: 1757279--1757337 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1757269 ATTTTCACCT
1757279 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
1757308 AACTAAATTGATGTAAGTAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1757337 A
1 A
1757338 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1761630 original size:24 final size:22
Alignment explanation
Indices: 1761603--1761647 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
1761593 GAGTATATAT
1761603 AATAAAAAAATAATCATAAAATAA
1 AATAAAAAAATAA--ATAAAATAA
*
1761627 AATAAAGAAATAAATAAAATA
1 AATAAAAAAATAAATAAAATA
1761648 TATATAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AATAAAAAAATAAATAAAATAA
Found at i:1761716 original size:29 final size:31
Alignment explanation
Indices: 1761669--1761726 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
1761659 GAGTAGTATC
1761669 AATTAAATAATAAAAAAATA-AA-ATAAACA
1 AATTAAATAATAAAAAAATAGAACATAAACA
*
1761698 AATTAAGATAAT-ATAAAATAGAACATAAA
1 AATTAA-ATAATAAAAAAATAGAACATAAA
1761727 AAGGATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 13 0.52
30 7 0.28
31 5 0.20
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (31 bp):
AATTAAATAATAAAAAAATAGAACATAAACA
Found at i:1762853 original size:6 final size:6
Alignment explanation
Indices: 1762842--1762866 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1762832 TTAAATGAAT
1762842 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
1762867 TAAAAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:1762872 original size:15 final size:15
Alignment explanation
Indices: 1762850--1762884 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1762840 ATAAAATAAA
1762850 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
* *
1762865 AATAAAAATGATAAT
1 AATAAAAATAAAAAT
1762880 AATAA
1 AATAA
1762885 TATAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:1763059 original size:38 final size:38
Alignment explanation
Indices: 1762910--1763198 Score: 222
Period size: 36 Copynumber: 7.9 Consensus size: 38
1762900 ACAATATATA
1762910 TTTCAAAAATATTTTT-AAACTATATA-T-TATA--TT
1 TTTCAAAAATATTTTTAAAACTATATATTATATAGTTT
** *
1762943 TTT-AAAGAACGTTTTCAAAACTATATATTATATAG--T
1 TTTCAAA-AATATTTTTAAAACTATATATTATATAGTTT
* *
1762979 TTTCAAAAATAATTTTAAAAATAT-TA-TATA-AG--T
1 TTTCAAAAATATTTTTAAAACTATATATTATATAGTTT
*
1763012 TTTCGAAAAATGTTTTTAAAACTATATATTATATAGTTT
1 TTTC-AAAAATATTTTTAAAACTATATATTATATAGTTT
** *
1763051 TTTCAAAAA-AAATTTAAAATTATATATTATATAAGTTT
1 TTTCAAAAATATTTTTAAAACTATATATTATAT-AGTTT
*
1763089 TTTCAAAAAAATATTTTAAAAACTATATATTATATA-TATAT
1 TTTC--AAAAATATTTTTAAAACTATATATTATATAGT-T-T
*
1763130 TTTC-AAAATGA-TTTCAAAACTATATATTATATA---T
1 TTTCAAAAAT-ATTTTTAAAACTATATATTATATAGTTT
** * *
1763164 TTTCAAAAGCATTTTCAAAAACTATACATTATATA
1 TTTCAAAAATATTTT-TAAAACTATATATTATATA
1763199 TTATTATGTT
Statistics
Matches: 210, Mismatches: 24, Indels: 41
0.76 0.09 0.15
Matches are distributed among these distances:
32 3 0.01
33 16 0.08
34 37 0.18
35 11 0.05
36 41 0.20
37 24 0.11
38 40 0.19
39 7 0.03
40 7 0.03
41 24 0.11
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (38 bp):
TTTCAAAAATATTTTTAAAACTATATATTATATAGTTT
Found at i:1763133 original size:41 final size:40
Alignment explanation
Indices: 1763029--1763246 Score: 162
Period size: 41 Copynumber: 5.6 Consensus size: 40
1763019 AAATGTTTTT
1763029 AAAACTATATATTATATAGT-T-TTTTCAAAAAAA-ATTT-
1 AAAACTATATATTATATA-TATATTTTCAAAAAAATATTTA
* *
1763066 AAAATTATATATTATATA-AGTTTTTTCAAAAAAATATTTTA
1 AAAACTATATATTATATATA-TATTTTCAAAAAAATA-TTTA
*
1763107 AAAACTATATATTATATATATATTTTC---AAAATGATTTC
1 AAAACTATATATTATATATATATTTTCAAAAAAAT-ATTTA
**
1763145 AAAAC--TATA-TAT-TATATATTTTCAAAAGCAT-TTTCA
1 AAAACTATATATTATATATATATTTTCAAAAAAATATTT-A
* *
1763181 AAAACTATACATTATATATTATTATGTTTTC--AAAAA-ATTTC
1 AAAACTATATATTATATA-TA-TA--TTTTCAAAAAAATATTTA
1763222 AAAACTATAATATATATATATATAT
1 AAAACTAT-ATAT-TATATATATAT
1763247 ATATATATAT
Statistics
Matches: 146, Mismatches: 12, Indels: 44
0.72 0.06 0.22
Matches are distributed among these distances:
34 11 0.08
35 6 0.04
36 9 0.06
37 21 0.14
38 28 0.19
39 6 0.04
40 5 0.03
41 35 0.24
42 14 0.10
43 6 0.04
44 5 0.03
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (40 bp):
AAAACTATATATTATATATATATTTTCAAAAAAATATTTA
Found at i:1763166 original size:34 final size:35
Alignment explanation
Indices: 1762893--1763200 Score: 199
Period size: 34 Copynumber: 8.5 Consensus size: 35
1762883 AATATAATAT
* * **
1762893 AAACTATACAATATATA-TTTCAAAAAT-ATTTTT
1 AAACTATATATTATATATTTTCAAAAATGATTTCA
* *
1762926 AAACTATATATTATAT-TTTT-AAAGAACGTTTTCA
1 AAACTATATATTATATATTTTCAAA-AATGATTTCA
* *
1762960 AAACTATATATTATATAGTTTTCAAAAATAATTTTA
1 AAACTATATATTATATA-TTTTCAAAAATGATTTCA
* * *
1762996 AAAATAT-TA-TATA-AGTTTTCGAAAAATGTTTTTA
1 AAACTATATATTATATA-TTTTC-AAAAATGATTTCA
**
1763030 AAACTATATATTATATAGTTTTTTCAAAAAAAATTT-A
1 AAACTATATATTATATA---TTTTCAAAAATGATTTCA
* *
1763067 AAATTATATATTATATAAGTTTTTTCAAAAAAAT-ATTTTAA
1 AAACTATATATTATAT-A---TTTTC--AAAAATGA-TTTCA
1763108 AAACTATATATTATATATATATTTTC-AAAATGATTTCA
1 AAAC--TATA-TAT-TATATATTTTCAAAAATGATTTCA
1763146 AAACTATATATTATATATTTTC-AAAA-GCATTTTCAA
1 AAACTATATATTATATATTTTCAAAAATG-A-TTTC-A
*
1763182 AAACTATACATTATATATT
1 AAACTATATATTATATATT
1763201 ATTATGTTTT
Statistics
Matches: 227, Mismatches: 23, Indels: 47
0.76 0.08 0.16
Matches are distributed among these distances:
32 3 0.01
33 27 0.12
34 56 0.25
35 11 0.05
36 43 0.19
37 20 0.09
38 30 0.13
39 7 0.03
40 8 0.04
41 9 0.04
43 4 0.02
44 4 0.02
45 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATATTTTCAAAAATGATTTCA
Found at i:1763199 original size:38 final size:37
Alignment explanation
Indices: 1762903--1763244 Score: 209
Period size: 38 Copynumber: 9.2 Consensus size: 37
1762893 AAACTATACA
* *
1762903 ATATATA-TTTCAAAAATATTTT-TAAACTATATA-T
1 ATATATATTTTCAAAAAAATTTTCAAAACTATATATT
**
1762937 -TATAT-TTTT-AAAGAACGTTTTCAAAACTATATATT
1 ATATATATTTTCAAA-AAAATTTTCAAAACTATATATT
*
1762972 ATATA-GTTTTCAAAAATAATTTT--AAA--A-ATATT
1 ATATATATTTTCAAAAA-AATTTTCAAAACTATATATT
** *
1763004 ATATA-AGTTTTCGAAAAATGTTTTTAAAACTATATATT
1 ATATATA-TTTTC-AAAAAAATTTTCAAAACTATATATT
* * *
1763042 ATATAGTTTTTTCAAAAAAAATTT-AAAATTATATATT
1 ATATA-TATTTTCAAAAAAATTTTCAAAACTATATATT
* *
1763079 ATATAAGTTTTTTCAAAAAAATATTTTAAAAACTATATATTAT
1 ATAT-A-TATTTTC-AAAAAA-ATTTTCAAAACTATATA-T-T
**
1763122 ATATATATTTTCAAAATGA-TTTCAAAACTATATA-T
1 ATATATATTTTCAAAAAAATTTTCAAAACTATATATT
**
1763157 -TATATATTTTCAAAAGCATTTTCAAAAACTATACATTATAT
1 ATATATATTTTCAAAAAAATTTTC-AAAACTAT--A-TAT-T
*
1763198 ATTATTATGTTTTC-AAAAAA-TTTCAAAACTATAATATAT
1 A-TA-TATATTTTCAAAAAAATTTTCAAAACTAT-ATAT-T
1763237 ATATATAT
1 ATATATAT
1763245 ATATATATAT
Statistics
Matches: 249, Mismatches: 26, Indels: 63
0.74 0.08 0.19
Matches are distributed among these distances:
32 13 0.05
33 24 0.10
34 31 0.12
35 12 0.05
36 18 0.07
37 28 0.11
38 44 0.18
39 20 0.08
40 9 0.04
41 25 0.10
42 6 0.02
43 11 0.04
44 8 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
ATATATATTTTCAAAAAAATTTTCAAAACTATATATT
Found at i:1763236 original size:2 final size:2
Alignment explanation
Indices: 1763227--1763262 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1763217 ATTTCAAAAC
1763227 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1763263 TCGAAATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1764009 original size:84 final size:84
Alignment explanation
Indices: 1763895--1764691 Score: 929
Period size: 84 Copynumber: 9.5 Consensus size: 84
1763885 AACTCAAAAT
* * * * * * *
1763895 TTTTGTTGACATATAGCCCTTCTTGACTTGAGTTATGCTGTAAATTGACGTGCCTTTGAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA-TGATGTGCCTTGGAGCTGAG
* *
1763960 TGTAATCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* ** *
1763980 -TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGCGCATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
1764044 GTAGTTGAACTCAAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * *
1764063 TTTTGGTGGCAGATAGCCCTTCTAGCCTTGAGTTATACTGCAAATGATGTGTCTTGGAGCTGAGC
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
1764128 GTAGTCGAACTAGAAGGTA
66 GTAGTCGAACTCGAAGGTC
* * * * * *
1764147 TTTGGTTGGCAGATAACCCTTCTATCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGC
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1764212 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * *
1764231 TTTTGGTGGA-AGATAACCCTTCTAGCCTTGAGCTATGATGTAAATGATATGCCTTGAAGTTGAG
1 TTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
1764295 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * *
1764315 TTTGGTT-AGCAGATAACCCTTCTATCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTAAG
1 TTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* * *
1764379 CGTAGTAGAACTTGAAGATC
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
1764399 TTTTGGTGACAGATAGCCCTTCTAGCCTTAAGTTATACTACAAATGATGTGCCTTGGAGCTGAGA
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1764464 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * * * * *
1764483 TCTTATTGGCAAATAGCCTTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAACTGAGC
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
1764548 ATAGTCAAACTCTAAGGTC
66 GTAGTCGAACTCGAAGGTC
* *
1764567 TTTTGGTGGA-AGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
1 TTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* *
1764631 CATAGTCTAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
*
1764651 TTTTGTT-AGCAGATAACCCTTATAGCCTTGAGTTATGCTGC
1 TTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1764692 TAATAGTTTC
Statistics
Matches: 599, Mismatches: 105, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
82 2 0.00
83 37 0.06
84 554 0.92
85 6 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (84 bp):
TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:1766047 original size:95 final size:94
Alignment explanation
Indices: 1765879--1766064 Score: 266
Period size: 95 Copynumber: 2.0 Consensus size: 94
1765869 TCAATATATA
* * * *
1765879 ACCTTTATCAGGTTAGCTAAATCTTGTCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGG
* *
1765944 ACAGCTCAAGCTTTATTGTATAGTATAATT
66 ACAACTCAAACTTTATTGTAT-GTATAATT
* * *
1765974 ACCTTTATCAGGCTAGCTGAATATTATCCATAAATCTAGGGCGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCT-TAGAGG
1766038 GACAACTCAAACTTTATTGTATGTATA
65 GACAACTCAAACTTTATTGTATGTATA
1766065 TATATATATA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 7 0.09
95 74 0.91
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAACTTTATTGTATGTATAATT
Found at i:1771402 original size:21 final size:21
Alignment explanation
Indices: 1771378--1771431 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1771368 TATTTCAAAA
*
1771378 ATATTTTTTTAACTATATATT
1 ATATTTTTTAAACTATATATT
1771399 ATATTTTTTAAACTATATATT
1 ATATTTTTTAAACTATATATT
*
1771420 ATAATTTTTAAA
1 ATATTTTTTAAA
1771432 AAAAGTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTTTAAACTATATATT
Found at i:1771553 original size:40 final size:39
Alignment explanation
Indices: 1771452--1771603 Score: 150
Period size: 40 Copynumber: 3.9 Consensus size: 39
1771442 AAAACTATAG
*
1771452 TTTTCAAAAATGATTTT-AAA--A-ATATTATATAAGTT
1 TTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
*** *
1771487 TTCAAAAAAATGTTTTTAAAACTATATATTATATAATTT
1 TTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
** *
1771526 TTTTCAAAAATGTTTTTTTTAATTATATATTATATAAGTT
1 TTTTCAAAAATG-TTTTTAAAACTATATATTATATAAGTT
* *
1771566 TTTTCAAAAAAATGTTTTAAAAACTATACATATATATA
1 TTTTC--AAAAATGTTTTTAAAACTATATAT-TATATA
1771604 TATATATATA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
35 13 0.14
36 3 0.03
38 1 0.01
39 22 0.24
40 28 0.30
41 12 0.13
42 13 0.14
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (39 bp):
TTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
Found at i:1771569 original size:42 final size:40
Alignment explanation
Indices: 1771473--1771603 Score: 140
Period size: 39 Copynumber: 3.2 Consensus size: 40
1771463 GATTTTAAAA
*
1771473 ATATTATATAAGTTTTCAAAAAAATG-TTTTTAAAACTAT
1 ATATTATATAATTTTTCAAAAAAATGTTTTTTAAAACTAT
*** ** *
1771512 ATATTATATAATTTTTTTCAAAAATGTTTTTTTTAATTAT
1 ATATTATATAATTTTTCAAAAAAATGTTTTTTAAAACTAT
*
1771552 ATATTATATAAGTTTTTTCAAAAAAATG-TTTTAAAAACTAT
1 ATATTATATAA--TTTTTCAAAAAAATGTTTTTTAAAACTAT
*
1771593 ACATATATATA
1 ATAT-TATATA
1771604 TATATATATA
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
39 22 0.30
40 21 0.29
41 12 0.16
42 18 0.25
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (40 bp):
ATATTATATAATTTTTCAAAAAAATGTTTTTTAAAACTAT
Found at i:1771602 original size:2 final size:2
Alignment explanation
Indices: 1771590--1771620 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1771580 TTTTAAAAAC
*
1771590 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1771621 CAAAATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1771651 original size:35 final size:34
Alignment explanation
Indices: 1771602--1771758 Score: 133
Period size: 36 Copynumber: 4.5 Consensus size: 34
1771592 TACATATATA
*
1771602 TATATATATATATATATATCAAAATGATTTCAAAAC
1 TATATAT-TATATATATTTCAAAA-GATTTCAAAAC
1771638 TATATA-T-TATATATTTCAAAAGCATTTTCAAAAAC
1 TATATATTATATATATTTCAAAAG-A-TTTC-AAAAC
* * * *
1771673 TATATA-TATATGT-TTTCAAAAAAATTAAAAAC
1 TATATATTATATATATTTCAAAAGATTTCAAAAC
* * * *
1771705 TATATAATATATATATTTTCGAAATGTTTTCGAAAC
1 TATATATTATATATA-TTTC-AAAAGATTTCAAAAC
*
1771741 TATATAGTATATATATTT
1 TATATATTATATATATTT
1771759 TAGAAAACCG
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
32 12 0.12
33 22 0.22
34 6 0.06
35 27 0.27
36 33 0.33
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (34 bp):
TATATATTATATATATTTCAAAAGATTTCAAAAC
Found at i:1771667 original size:34 final size:33
Alignment explanation
Indices: 1771604--1771754 Score: 121
Period size: 35 Copynumber: 4.4 Consensus size: 33
1771594 CATATATATA
*
1771604 TATATATATATATATATCAAAATGA-TTTCAAAAC
1 TATATAT-TATATATTTCAAAA-GATTTTCAAAAC
1771638 TATATATTATATATTTCAAAAGCATTTTCAAAAAC
1 TATATATTATATATTTCAAAAG-ATTTTC-AAAAC
* ** *
1771673 TATATA-TATATGTTTTCAAAA-AAATTAAAAAC
1 TATATATTATAT-ATTTCAAAAGATTTTCAAAAC
* *
1771705 TATATAATATATATATTTTCGAAATG-TTTTCGAAAC
1 TATAT-AT-TATATA-TTTC-AAAAGATTTTCAAAAC
*
1771741 TATATAGTATATAT
1 TATATATTATATAT
1771755 ATTTTAGAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 21
0.74 0.09 0.16
Matches are distributed among these distances:
32 11 0.12
33 19 0.20
34 22 0.23
35 29 0.31
36 14 0.15
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (33 bp):
TATATATTATATATTTCAAAAGATTTTCAAAAC
Found at i:1780752 original size:83 final size:85
Alignment explanation
Indices: 1780604--1780769 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 85
1780594 ATGTCAAAAC
1780604 AGACATTGATTTGAGGCACCCCTCTCGGTGCCGGTGGGATCCCTGTTAGCTCGAACTTGCCTAGC
1 AGACATTGATTTGAGGCACCCCTCTCGGTGCCGGTGGGATCCCTGTTAGCTCGAACTTGCCTAGC
1780669 -AATTGTTGTCCTTGGTCAA
66 AAATTGTTGTCCTTGGTCAA
1780688 AGACATTGATTTGAGGCACCCCTCTCGGTGCC-GTGGGATCCCTGTTAGCTCGAACTTGCCTAGC
1 AGACATTGATTTGAGGCACCCCTCTCGGTGCCGGTGGGATCCCTGTTAGCTCGAACTTGCCTAGC
1780752 AAATTGTTGTCCTTGGTC
66 AAATTGTTGTCCTTGGTC
1780770 CGAGCCCTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
83 32 0.40
84 49 0.60
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.30
Consensus pattern (85 bp):
AGACATTGATTTGAGGCACCCCTCTCGGTGCCGGTGGGATCCCTGTTAGCTCGAACTTGCCTAGC
AAATTGTTGTCCTTGGTCAA
Found at i:1782829 original size:39 final size:40
Alignment explanation
Indices: 1782784--1782893 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 40
1782774 AAAACATATA
*** *
1782784 TTTGAAAACGTATAATATATAGTTTTTTTTTAAAATGA-T
1 TTTGAAAACGTATAATATATAGTTTTTTAAAAAAACGATT
* *
1782823 TTTGAAAACATATAATGTATAG--TTTTAAAAAAACGATT
1 TTTGAAAACGTATAATATATAGTTTTTTAAAAAAACGATT
1782861 TTTGAAAACGTATAATATATA-TTTTTTAAAAAA
1 TTTGAAAACGTATAATATATAGTTTTTTAAAAAA
1782894 TATTAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 10 0.17
38 20 0.33
39 30 0.50
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (40 bp):
TTTGAAAACGTATAATATATAGTTTTTTAAAAAAACGATT
Found at i:1782952 original size:36 final size:36
Alignment explanation
Indices: 1782743--1783000 Score: 186
Period size: 38 Copynumber: 6.9 Consensus size: 36
1782733 ATTTCAAACG
* * * *
1782743 TAATTTTTAAAAGCATATAGTATAT-GCTTTGAAAACA
1 TAATTTTGAAAA-CATATAATATATAG-TTTTAAAAAA
* **
1782780 T-ATATTTGAAAACGTATAATATATAGTTTTTTTTTAAAA
1 TAAT-TTTGAAAACATATAATATATAG---TTTTAAAAAA
* *
1782819 TGATTTTGAAAACATATAATGTATAGTTTTAAAAAA
1 TAATTTTGAAAACATATAATATATAGTTTTAAAAAA
* *
1782855 -ACGATTTTTGAAAACGTATAATATATATTTTTTAAAAAA
1 TA--A-TTTTGAAAACATATAATATATA-GTTTTAAAAAA
** * * *
1782894 T-A-TTAAAAAAAAGATAATATATAATTTTAAAAAA
1 TAATTTTGAAAACATATAATATATAGTTTTAAAAAA
*
1782928 TAATTTTGAAAACATAT-ATAATATAGTTTTCGAAAACA
1 TAATTTTGAAAACATATAAT-ATATAGTTTT--AAAAAA
*
1782966 TACTTTTGAAAACATATAATATATAGTTGTTAAAA
1 TAATTTTGAAAACATATAATATATAGTT-TTAAAA
1783001 TGATTTTTTT
Statistics
Matches: 175, Mismatches: 29, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
34 11 0.06
35 19 0.11
36 38 0.22
37 15 0.09
38 49 0.28
39 41 0.23
40 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (36 bp):
TAATTTTGAAAACATATAATATATAGTTTTAAAAAA
Found at i:1783071 original size:36 final size:35
Alignment explanation
Indices: 1783018--1783089 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
1783008 TTTTAAAAAC
1783018 ATATATAATATAGTTTTTGAAAAACATATTTTTTGA
1 ATATATAATATAGTTTTTGAAAAACAT-TTTTTTGA
* **
1783054 ATATAT-ATATAGTTTTTTTAAAATGATTTTTTTGA
1 ATATATAATATAG-TTTTTGAAAAACATTTTTTTGA
1783089 A
1 A
1783090 AACGTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 15 0.47
36 17 0.53
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (35 bp):
ATATATAATATAGTTTTTGAAAAACATTTTTTTGA
Found at i:1783098 original size:35 final size:37
Alignment explanation
Indices: 1782931--1783105 Score: 142
Period size: 39 Copynumber: 4.6 Consensus size: 37
1782921 TAAAAAATAA
* * **
1782931 TTTTGAAAACATATATAATATAGTTTTCGAAAA-CATAC
1 TTTTGAAAACATATATAATATA-TTTT-TAAAATGATTT
*
1782969 TTTTGAAAACATATA-ATATATAGTTGTTAAAATGATTTT
1 TTTTGAAAACATATATA-ATATA-TTTTTAAAATGA-TTT
* **
1783008 TTTTAAAAACATATATAATATAGTTTTTGAAAAACATATT
1 TTTTGAAAACATATATAATATA-TTTTT-AAAATGAT-TT
* * *
1783048 TTTTGAATATATATATAGT-T-TTTTTAAAATGATTT
1 TTTTGAAAACATATATAATATATTTTTAAAATGATTT
*
1783083 TTTTGAAAACGTATATAATATAT
1 TTTTGAAAACATATATAATATAT
1783106 AATCTTTGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
35 17 0.15
36 7 0.06
37 11 0.10
38 25 0.23
39 27 0.25
40 23 0.21
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (37 bp):
TTTTGAAAACATATATAATATATTTTTAAAATGATTT
Found at i:1783106 original size:77 final size:76
Alignment explanation
Indices: 1782931--1783104 Score: 223
Period size: 75 Copynumber: 2.3 Consensus size: 76
1782921 TAAAAAATAA
*
1782931 TTTTGAAAACATATATAATATAGTTTTCG-AAAACATACTTTTGAAAACATATAATATATAGTTG
1 TTTTGAAAACATATATAATATAGTTTTTGAAAAACATACTTTTG--AACATATAATATATAGTTG
1782995 TTAAAATGATTTT
64 TTAAAATGATTTT
* *
1783008 TTTTAAAAACATATATAATATAGTTTTTGAAAAACATATTTTTTG-A-ATAT-ATATATAGTTTT
1 TTTTGAAAACATATATAATATAGTTTTTGAAAAACATA-CTTTTGAACATATAATATATAG--TT
*
1783070 TTTAAAATGA-TTT
63 GTTAAAATGATTTT
*
1783083 TTTTGAAAACGTATATAATATA
1 TTTTGAAAACATATATAATATA
1783105 TAATCTTTGA
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
74 8 0.09
75 27 0.31
76 12 0.14
77 27 0.31
78 8 0.09
79 5 0.06
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (76 bp):
TTTTGAAAACATATATAATATAGTTTTTGAAAAACATACTTTTGAACATATAATATATAGTTGTT
AAAATGATTTT
Found at i:1783126 original size:22 final size:21
Alignment explanation
Indices: 1783095--1783149 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
1783085 TTGAAAACGT
*
1783095 ATATAATATATAATCTTTGAAA
1 ATATATTATATAATCTTTG-AA
** *
1783117 ATATATTATATTTTTTTTGAA
1 ATATATTATATAATCTTTGAA
1783138 ATATATTATATA
1 ATATATTATATA
1783150 TTATATAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
ATATATTATATAATCTTTGAA
Found at i:1783200 original size:4 final size:4
Alignment explanation
Indices: 1783185--1783233 Score: 71
Period size: 4 Copynumber: 11.8 Consensus size: 4
1783175 TATATTTTCT
*
1783185 TTTA TCTTA TTTA TTTA TTTA TTTA TTTA TTTTA TGTA TTTA TTTA TTT
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
1783234 TTATTTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 33 0.80
5 8 0.20
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:1783214 original size:25 final size:25
Alignment explanation
Indices: 1783185--1783233 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1783175 TATATTTTCT
*
1783185 TTTATCTTATTTATTTATTTATTTA
1 TTTATCTTATGTATTTATTTATTTA
*
1783210 TTTATTTTATGTATTTATTTATTT
1 TTTATCTTATGTATTTATTTATTT
1783234 TTATTTTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTATCTTATGTATTTATTTATTTA
Found at i:1785242 original size:28 final size:27
Alignment explanation
Indices: 1785202--1785255 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
1785192 TAATTGTTGC
* *
1785202 TTTCAAGCACTGGTTCGACGACATAATG
1 TTTCAAGAACTGGCTCGACG-CATAATG
*
1785230 TTTCAAGAACTGGCTCGATGCATAAT
1 TTTCAAGAACTGGCTCGACGCATAAT
1785256 ATAAACGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (27 bp):
TTTCAAGAACTGGCTCGACGCATAATG
Found at i:1785924 original size:29 final size:29
Alignment explanation
Indices: 1785889--1785962 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
1785879 GAGGTTAGAT
* *
1785889 TAATATTTATCTAAAGTTTAGGATTAAAA
1 TAATATTTATCTAAAGTTTAAGATCAAAA
* *
1785918 TGATATTTTTCTAAAGTTTAAGATCAAAA
1 TAATATTTATCTAAAGTTTAAGATCAAAA
1785947 TAATATTCTATCTAAA
1 TAATATT-TATCTAAA
1785963 TTTCAAAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 31 0.82
30 7 0.18
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (29 bp):
TAATATTTATCTAAAGTTTAAGATCAAAA
Found at i:1786082 original size:21 final size:21
Alignment explanation
Indices: 1786041--1786083 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1786031 TGGTTCAATG
* *
1786041 ATAAAAATGTAACATTTAATA
1 ATAAAAATGTAACAATAAATA
1786062 ATAAAAATGATAA-AATAAATA
1 ATAAAAATG-TAACAATAAATA
1786083 A
1 A
1786084 ATTAATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAAAAATGTAACAATAAATA
Found at i:1789698 original size:6 final size:6
Alignment explanation
Indices: 1789687--1789717 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1789677 ATACTTGACC
*
1789687 TCAAAT TCAAAT TGAAAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT T
1789718 AACATTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (6 bp):
TCAAAT
Found at i:1789706 original size:12 final size:12
Alignment explanation
Indices: 1789689--1789726 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1789679 ACTTGACCTC
1789689 AAATTCAAATTG
1 AAATTCAAATTG
*
1789701 AAATTCAAATTC
1 AAATTCAAATTG
1789713 AAATT-AACATTG
1 AAATTCAA-ATTG
1789725 AA
1 AA
1789727 TTTACATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (12 bp):
AAATTCAAATTG
Found at i:1790683 original size:21 final size:21
Alignment explanation
Indices: 1790659--1790700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1790649 TTTATGGGCA
* *
1790659 GGGAATCGGTACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
1790680 GGGAACCGATACCCCTTCAAG
1 GGGAACCGATACCCATTCAAG
1790701 CGAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:1791993 original size:31 final size:31
Alignment explanation
Indices: 1791904--1792031 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
1791894 AGACTCGAGG
1791904 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
1791935 GTTTTACCTATG-TCTTTC-GAGATATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
1791967 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
1791998 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
1792029 GTT
1 GTT
1792032 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
31 53 0.66
32 27 0.34
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:1792051 original size:30 final size:30
Alignment explanation
Indices: 1791990--1792086 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
1791980 CTAAGGAACA
* * ***
1791990 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
1792021 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
1792051 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
1792081 TCTGGA
1 TATGGA
1792087 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:1792087 original size:30 final size:30
Alignment explanation
Indices: 1792017--1792089 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
1792007 GGTTCTTCGG
* *
1792017 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1792047 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1792077 GACCTCTGGATAG
1 GACCTCTGGATAG
1792090 GTCCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:1793104 original size:2 final size:2
Alignment explanation
Indices: 1793097--1793128 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1793087 CAAACACAAT
1793097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1793129 ACTCTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1793424 original size:85 final size:85
Alignment explanation
Indices: 1793277--1793577 Score: 347
Period size: 85 Copynumber: 3.5 Consensus size: 85
1793267 GAATAGTTAA
* * * * *
1793277 GAAGTGACATATGACTGAGAAGATA-AGGATGTGAATAGTTAAGATTCTCTATGATTGAAAATTA
1 GAAGTGACATATGACTGA-AAAAAACAGGACGTGAATAGTTAAGATTCTCTATGAATGGAAATTA
* *
1793341 TTGTTGTACCTATTATGAATT
65 TTGTTGTACCAATTCTGAATT
*
1793362 GAAGTGACATATGACTGAAAAAAACAGGACGTGAATAGTTAAGATTCTCTATGAATGGAAATTAG
1 GAAGTGACATATGACTGAAAAAAACAGGACGTGAATAGTTAAGATTCTCTATGAATGGAAATTAT
** *
1793427 TGTTGTACCCGTTCTGATTT
66 TGTTGTACCAATTCTGAATT
* * * * *
1793447 AAAGTGACATATGACTGAAAAGAACATGACGTGAATAGTTAAGATTATCTTTCG-ATGGAAATTA
1 GAAGTGACATATGACTGAAAAAAACAGGACGTGAATAGTTAAGATTCTCTAT-GAATGGAAATTA
*
1793511 TTGTTGTATCAATTCT-AATTT
65 TTGTTGTACCAATTCTGAA-TT
* * ** **
1793532 GAAGTGACATATGTCTGAGAAAATTATAACGTGAATAGTTAAGATT
1 GAAGTGACATATGACTGAAAAAAACAGGACGTGAATAGTTAAGATT
1793578 ATGTGTCAAC
Statistics
Matches: 186, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
84 5 0.03
85 180 0.97
86 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (85 bp):
GAAGTGACATATGACTGAAAAAAACAGGACGTGAATAGTTAAGATTCTCTATGAATGGAAATTAT
TGTTGTACCAATTCTGAATT
Found at i:1793780 original size:85 final size:84
Alignment explanation
Indices: 1793591--1793919 Score: 366
Period size: 77 Copynumber: 3.9 Consensus size: 84
1793581 TGTCAACGTA
* * * * ** *
1793591 AATTATTTTAATTTATCTGATTTGATGTGATATGTCAATGAAAAGAAAATGATGTGAATACATCA
1 AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAAGCAAAGGACATGAATA-AT-T
* *
1793656 TAGATTCTTTGATTCTTAGTCAAT
64 TAGATTCTCTAATTCTTA---AAT
* *
1793680 GGAAATTATTTCAATTTATCTAATTTGTGGTGATATGTCAATGAAAAGCAAAGGACATGAATAAT
1 ---AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAAGCAAAGGACATGAATAAT
1793745 TTAGATTCTCTAATTCTCTAAAT
63 TTAGATTCTCTAATTCT-TAAAT
* * * *
1793768 AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAACCAAAGAACGTGAATAGTTTA
1 AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAAGCAAAGGACATGAATAATTTA
1793833 GA-T-TCT-A----TAAAT
66 GATTCTCTAATTCTTAAAT
** *
1793845 AATTATTTCAGCTTATCTGATTTGAGGTGATATGTCAATGAAAAACAAAGGACATGAATAATTTA
1 AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAAGCAAAGGACATGAATAATTTA
1793910 GATTCTCTAA
66 GATTCTCTAA
1793920 AATGTTTAAA
Statistics
Matches: 210, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
77 66 0.31
78 1 0.00
79 3 0.01
80 1 0.00
82 1 0.00
83 3 0.01
84 1 0.00
85 61 0.29
88 3 0.01
90 14 0.07
91 4 0.02
92 52 0.25
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (84 bp):
AATTATTTCAATTTATCTGATTTGAGGTGATATGTCAATGAAAAGCAAAGGACATGAATAATTTA
GATTCTCTAATTCTTAAAT
Found at i:1797255 original size:14 final size:14
Alignment explanation
Indices: 1797236--1797275 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
1797226 TTTGCCCATT
1797236 AAAAAATATTTTTA
1 AAAAAATATTTTTA
1797250 AAAAAATA-TTTTA
1 AAAAAATATTTTTA
*
1797263 AAAATAT-TTTTTA
1 AAAAAATATTTTTA
1797276 TGTTATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAAAATATTTTTA
Found at i:1797265 original size:11 final size:12
Alignment explanation
Indices: 1797234--1797272 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
1797224 CCTTTGCCCA
1797234 TTAAAAAATATTT
1 TTAAAAAATA-TT
1797247 TTAAAAAAATATT
1 TT-AAAAAATATT
1797260 TT-AAAAATATT
1 TTAAAAAATATT
1797271 TT
1 TT
1797273 TTATGTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.44
13 6 0.24
14 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:1797498 original size:17 final size:16
Alignment explanation
Indices: 1797476--1797544 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
1797466 CCGTGTCCCG
*
1797476 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
1797493 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
*
1797508 ACCCGGATTTTGCGGGT
1 ACCCGGATATT-CGGGT
* *
1797525 ACCC-GCTAATCGGGT
1 ACCCGGATATTCGGGT
1797540 ACCCG
1 ACCCG
1797545 ATACCCGGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 20 0.48
16 7 0.17
17 15 0.36
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:1797508 original size:15 final size:15
Alignment explanation
Indices: 1797488--1797544 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
1797478 CCGGATGTTA
1797488 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
1797503 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
*
1797519 GCGGGTACCCGCTAAT
1 -CGGGTACCCGGTAAT
1797535 CGGGTACCCG
1 CGGGTACCCG
1797545 ATACCCGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 21 0.60
16 4 0.11
17 10 0.29
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:1797512 original size:32 final size:32
Alignment explanation
Indices: 1797476--1797544 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
1797466 CCGTGTCCCG
*
1797476 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGCTAATCGGGT
* *
1797508 ACCCGGATTTTGCGGGTACCCGCTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGCTAATCGGGT
1797540 ACCCG
1 ACCCG
1797545 ATACCCGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGCTAATCGGGT
Found at i:1804670 original size:31 final size:30
Alignment explanation
Indices: 1804611--1804670 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
1804601 TCATATTCTA
*
1804611 TTTGATTTTATTATAAAAAAAGTTAATAAT
1 TTTGATTTTATTATAAAAAAAGTAAATAAT
1804641 TTTGATGTTTAATTA-AAAAATAA-TAAATAA
1 TTTGAT-TTT-ATTATAAAAA-AAGTAAATAA
1804671 AATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 6 0.23
31 14 0.54
32 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTGATTTTATTATAAAAAAAGTAAATAAT
Found at i:1811130 original size:29 final size:29
Alignment explanation
Indices: 1811084--1811140 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1811074 TACCAGAAAT
* *
1811084 ATTTTTATAAATATGTAAAGATATTATTA
1 ATTTTTATAAATAGGTAAAAATATTATTA
1811113 ATTTTT-TAAATAGGGTAAAAATATTATT
1 ATTTTTATAAATA-GGTAAAAATATTATT
1811141 TTAACAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (29 bp):
ATTTTTATAAATAGGTAAAAATATTATTA
Found at i:1812139 original size:2 final size:2
Alignment explanation
Indices: 1812134--1812176 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1812124 TTTTTCTTAA
1812134 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1812175 AT
1 AT
1812177 TTATTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1815818 original size:35 final size:33
Alignment explanation
Indices: 1815779--1815863 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
1815769 GTATTTCAGT
1815779 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
1815814 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
1815849 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
1815864 TAAAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:1820894 original size:39 final size:39
Alignment explanation
Indices: 1820851--1820936 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
1820841 GAAGAGACAC
* * *
1820851 CTCAGTTGCCAACTCCAAAAGAGTGCGTTGAGGAAAAAT
1 CTCAGTTGCCAACACCAAAAGAGTCCGTTGAAGAAAAAT
**** *
1820890 CTCAGTTGGTGGCACCGAAAGAGTCCGTTGAAGAAAAAT
1 CTCAGTTGCCAACACCAAAAGAGTCCGTTGAAGAAAAAT
1820929 CTCAGTTG
1 CTCAGTTG
1820937 TTGACCGCAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (39 bp):
CTCAGTTGCCAACACCAAAAGAGTCCGTTGAAGAAAAAT
Found at i:1824662 original size:21 final size:23
Alignment explanation
Indices: 1824618--1824663 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
1824608 ACTAAATATT
1824618 ATTATACAAATTTTAATGATTTA
1 ATTATACAAATTTTAATGATTTA
*
1824641 ATTA-ACAAATTTT-ATTATTTA
1 ATTATACAAATTTTAATGATTTA
1824662 AT
1 AT
1824664 AGTTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 9 0.41
23 4 0.18
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTATACAAATTTTAATGATTTA
Found at i:1824671 original size:28 final size:28
Alignment explanation
Indices: 1824629--1824693 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
1824619 TTATACAAAT
*
1824629 TTTAATGATTTAATTAACAAATTTTATTA
1 TTTAAT-AGTTAATTAACAAATTTTATTA
1824658 TTTAATAGTTAATTAACAAATTTTATTA
1 TTTAATAGTTAATTAACAAATTTTATTA
1824686 -TTAATAGT
1 TTTAATAGT
1824694 AAGAATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 8 0.23
28 21 0.60
29 6 0.17
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTAATAGTTAATTAACAAATTTTATTA
Found at i:1825818 original size:15 final size:16
Alignment explanation
Indices: 1825788--1825830 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
1825778 ATTTGAGTAG
*
1825788 TTTAATTATTTTATAT
1 TTTAATTATTTAATAT
1825804 TTTAA-TATTTAATAT
1 TTTAATTATTTAATAT
*
1825819 ATTAATTATTTA
1 TTTAATTATTTA
1825831 TAATTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATTATTTAATAT
Found at i:1828603 original size:7 final size:7
Alignment explanation
Indices: 1828591--1828616 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1828581 TAAATCAATA
1828591 AAACAGT
1 AAACAGT
1828598 AAACAGT
1 AAACAGT
1828605 AAACAGT
1 AAACAGT
1828612 AAACA
1 AAACA
1828617 TGCGAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.15, G:0.12, T:0.12
Consensus pattern (7 bp):
AAACAGT
Found at i:1828730 original size:95 final size:95
Alignment explanation
Indices: 1828602--1828777 Score: 280
Period size: 95 Copynumber: 1.9 Consensus size: 95
1828592 AACAGTAAAC
* * * *
1828602 AGTAAACAGTAAACATGCGAAGATAATAAACCAATATCAAAATCAGTAAACAATATAATCATCTC
1 AGTAAACAGTAAACATACCAAGACAATAAACCAATATCAAAATCAGTAAACAATAAAATCATCTC
1828667 CAATAAAATAGTAAAACAAATCAATACAAT
66 CAATAAAATAGTAAAACAAATCAATACAAT
* * * *
1828697 AGTAAATAGTAAACATACCAAGACAGTAAACCAATATCAAAATCATTAAATAATAAAATCATCTC
1 AGTAAACAGTAAACATACCAAGACAATAAACCAATATCAAAATCAGTAAACAATAAAATCATCTC
1828762 CAATAAAATAGTAAAA
66 CAATAAAATAGTAAAA
1828778 TAATAAAATG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (95 bp):
AGTAAACAGTAAACATACCAAGACAATAAACCAATATCAAAATCAGTAAACAATAAAATCATCTC
CAATAAAATAGTAAAACAAATCAATACAAT
Found at i:1832072 original size:19 final size:19
Alignment explanation
Indices: 1832048--1832085 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1832038 TAACCATAGC
*
1832048 AAAGCA-AAGCAAAGTACAA
1 AAAGCACAA-CAAAGCACAA
1832067 AAAGCACAACAAAGCACAA
1 AAAGCACAACAAAGCACAA
1832086 CCAAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.63, C:0.21, G:0.13, T:0.03
Consensus pattern (19 bp):
AAAGCACAACAAAGCACAA
Found at i:1835640 original size:20 final size:21
Alignment explanation
Indices: 1835617--1835665 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1835607 TGACAAACTT
*
1835617 GTTGGAATTTGAC-AAACCCG
1 GTTGAAATTTGACTAAACCCG
1835637 GTTGAAATTTGACTAAA-CCG
1 GTTGAAATTTGACTAAACCCG
*
1835657 ATTGAAATT
1 GTTGAAATT
1835666 GGACAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
GTTGAAATTTGACTAAACCCG
Found at i:1835723 original size:20 final size:20
Alignment explanation
Indices: 1835690--1835729 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1835680 CTAGCACAAT
*
1835690 TAGTTTGAAATTGACAAAAC
1 TAGTTGGAAATTGACAAAAC
* *
1835710 TAGTTGGAATTTGATAAAAC
1 TAGTTGGAAATTGACAAAAC
1835730 CGATTTAGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (20 bp):
TAGTTGGAAATTGACAAAAC
Found at i:1836174 original size:92 final size:91
Alignment explanation
Indices: 1836013--1836195 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 91
1836003 AATTGAAGGG
1836013 CAAAAATACGTTGTTGCGAAATAGAAGGCCTTACATGAAAACTCGTAGTTTTGAAATCGAGGCAT
1 CAAAAATACGTTGTTGCGAAATAGAAGGCCTTACATGAAAACTCGTAGTTTTGAAATCGAGGCAT
1836078 TTTGGTTTTGCAAAATAGAAGTGAGGC
66 TTTGGTTTTGC-AAATAGAAGTGAGGC
1836105 CAAAAATACGTTGTTGCGAAATAGAAGGCCTTACATGAACAACTCGTAGTTTTGAAATCGAGGCA
1 CAAAAATACGTTGTTGCGAAATAGAAGGCCTTACATGAA-AACTCGTAGTTTTGAAATCGAGGCA
1836170 -TTTGGTTTTGCAAATAGAAGTGAGGC
65 TTTTGGTTTTGCAAATAGAAGTGAGGC
1836196 ATTTTTGAAA
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
91 15 0.17
92 50 0.56
93 25 0.28
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (91 bp):
CAAAAATACGTTGTTGCGAAATAGAAGGCCTTACATGAAAACTCGTAGTTTTGAAATCGAGGCAT
TTTGGTTTTGCAAATAGAAGTGAGGC
Found at i:1839849 original size:103 final size:105
Alignment explanation
Indices: 1839717--1839920 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 105
1839707 TGTGGTGTTT
1839717 TGTTATTTTTACTTTGTTAAGGTGCTATATGATGGGAAATGTGTGGTTGGTTAGTGATGTGAAG-
1 TGTTATTTTTACTTTGTTAAGGTGCTATATGATGGGAAATGTGTGGTTGGTTAGTGATGTGAAGA
*
1839781 AAA-CAAGAGCATAGGGGAAGCTAAGAAGAATGACGGTTG
66 AAACCAAGAGCATAGGGCAAGCTAAGAAGAATGACGGTTG
1839820 TGTTATTTTTACTTTGTTAAGGTGCTATATGATGGGAAATGTGTGGTTGGTTAGTGATGTGAAGA
1 TGTTATTTTTACTTTGTTAAGGTGCTATATGATGGGAAATGTGTGGTTGGTTAGTGATGTGAAGA
1839885 AAACCAAGAGCATAGGGCAAGCTAAGAAGAATGACG
66 AAACCAAGAGCATAGGGCAAGCTAAGAAGAATGACG
1839921 TGGCATCACA
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 64 0.65
104 3 0.03
105 31 0.32
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (105 bp):
TGTTATTTTTACTTTGTTAAGGTGCTATATGATGGGAAATGTGTGGTTGGTTAGTGATGTGAAGA
AAACCAAGAGCATAGGGCAAGCTAAGAAGAATGACGGTTG
Found at i:1846839 original size:18 final size:18
Alignment explanation
Indices: 1846816--1846886 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
1846806 AGGGATTATA
**
1846816 AGTGGTCATTTTGGACAT
1 AGTGGTCATTCGGGACAT
*
1846834 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
* *
1846852 AGTGGCCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
* *
1846870 AGTGGCCCTTCGGGACA
1 AGTGGTCATTCGGGACA
1846887 AATTTTTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:1851468 original size:21 final size:20
Alignment explanation
Indices: 1851450--1851486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1851440 ATATAAGTGA
*
1851450 TATAT-ATATTTACATAAGT
1 TATATGATATTGACATAAGT
1851469 TATATGATATTGACATAA
1 TATATGATATTGACATAA
1851487 TGAATGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (20 bp):
TATATGATATTGACATAAGT
Found at i:1852332 original size:18 final size:18
Alignment explanation
Indices: 1852281--1852333 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
1852271 AGGGATTATA
* *
1852281 AGTGGTCCTTCTAGAAAT
1 AGTGGTCCTTCTGGACAT
1852299 AGTGGTCCTTCTGGACAT
1 AGTGGTCCTTCTGGACAT
*
1852317 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCTGGACA
1852334 AATTTTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCTGGACAT
Found at i:1858495 original size:21 final size:21
Alignment explanation
Indices: 1858471--1858533 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
1858461 TTCAAGGGTT
1858471 TCATAGGTCATTCGGGACAAC
1 TCATAGGTCATTCGGGACAAC
*
1858492 TCATAGGTCATTCGGGACATAG
1 TCATAGGTCATTCGGGACA-AC
*
1858514 TCACAGGTCATTCGGGACAA
1 TCATAGGTCATTCGGGACAA
1858534 ATTTCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (21 bp):
TCATAGGTCATTCGGGACAAC
Found at i:1858524 original size:22 final size:21
Alignment explanation
Indices: 1858475--1858533 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 21
1858465 AGGGTTTCAT
*
1858475 AGGTCATTCGGGACAACTCAT
1 AGGTCATTCGGGACAACTCAC
*
1858496 AGGTCATTCGGGACATAGTCAC
1 AGGTCATTCGGGACA-ACTCAC
1858518 AGGTCATTCGGGACAA
1 AGGTCATTCGGGACAA
1858534 ATTTCATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
AGGTCATTCGGGACAACTCAC
Found at i:1858983 original size:12 final size:12
Alignment explanation
Indices: 1858966--1858991 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1858956 TGTTGGCATG
1858966 TAAATAGAGTCT
1 TAAATAGAGTCT
1858978 TAAATAGAGTCT
1 TAAATAGAGTCT
1858990 TA
1 TA
1858992 TAGTATGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (12 bp):
TAAATAGAGTCT
Found at i:1864769 original size:65 final size:66
Alignment explanation
Indices: 1864648--1864770 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 66
1864638 CCATTCAACA
* *
1864648 GGTACCGATACCCTCTCAAACGAAAAGAATTATAGAATGTCATAAGGGTACCGATACCCGCAGTT
1 GGTACCGATACCCTCTCAAACGAAAAGAATGACAGAATGTCATAAGGGTACCGATACCCGCAGTT
1864713 G
66 G
* * *
1864714 GGTACCGATACCCTC-CTGAACGAAAA-AATGGCAGAATGTCGTAAGGGTACCGATACC
1 GGTACCGATACCCTCTC-AAACGAAAAGAATGACAGAATGTCATAAGGGTACCGATACC
1864771 TCCAGGGGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
65 28 0.55
66 23 0.45
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.20
Consensus pattern (66 bp):
GGTACCGATACCCTCTCAAACGAAAAGAATGACAGAATGTCATAAGGGTACCGATACCCGCAGTT
G
Found at i:1864807 original size:65 final size:65
Alignment explanation
Indices: 1864648--1864791 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 65
1864638 CCATTCAACA
* ***
1864648 GGTACCGATACCCT-CTCAAACGAAAAGAATTATAGAATGTCATAAGGGTACCGATACCCGCAGT
1 GGTACCGATACCCTCCT-GAACGAAAA-AATGGCAGAATGTCATAAGGGTACCGATACCCGCAGT
*
1864712 TG
64 GG
*
1864714 GGTACCGATACCCTCCTGAACGAAAAAATGGCAGAATGTCGTAAGGGTACCGATACCTC-CAG-G
1 GGTACCGATACCCTCCTGAACGAAAAAATGGCAGAATGTCATAAGGGTACCGATACC-CGCAGTG
1864777 G
65 G
*
1864778 GTGTATCGATACCC
1 G-GTACCGATACCC
1864792 CCTAAGGGGA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
64 2 0.03
65 41 0.60
66 23 0.34
67 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (65 bp):
GGTACCGATACCCTCCTGAACGAAAAAATGGCAGAATGTCATAAGGGTACCGATACCCGCAGTGG
Found at i:1865365 original size:21 final size:21
Alignment explanation
Indices: 1865339--1865378 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1865329 GTAGAGGGTT
*
1865339 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCATTCGGGACAAC
1865360 TCATAGGTCATTCGGGACA
1 TCATAGGTCATTCGGGACA
1865379 TATTCACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
TCATAGGTCATTCGGGACAAC
Found at i:1871355 original size:144 final size:144
Alignment explanation
Indices: 1870914--1872037 Score: 1276
Period size: 144 Copynumber: 7.8 Consensus size: 144
1870904 CTTTTCATGA
* * * *
1870914 AAGTATTC-ATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATATTAAAGTATCAATAA
1 AAGTA-TCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCTATAC
* * * **** * ** *
1870978 TTGTTATAAAAGTATCGATACATTTAGGACAGTATGCTCTATCAAACAATTTTTAT-AACAAAGT
65 TTGTTATGACAGTATCAATAC-TTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAA-AACGT
* *
1871042 ATCGATACACATATATA
128 ATCGATACACATAGATC
** * * * * *
1871059 AAGTATCAATCTTTATAATTTCGAAACAAAATATACAATATCTTCAATATCAAAGCATCAATACT
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCTATACT
* * * * *
1871124 TGTTATGAAAGTACCGATACTTTTTTTTCTGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
66 TGTTATGACAGTATCAATAC-TTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
1871189 CGATACACATAGATC
130 CGATACACATAGATC
* * * *
1871204 AAGTATCGATCTTTCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCATAGTATCTATATT
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCTATACT
* * * * * * *
1871269 TGTCATGACAGTATCGATACTTTTATCCAATATGCTATCTCAAACAATTTGCATGAAAATGTATT
66 TGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTATC
*
1871334 GACACACATAGATC
131 GATACACATAGATC
* ** *
1871348 AATTATCGGTCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAATTAT-TGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCT-ATAC
* * * *
1871412 TTGTTATGACAGTACCAATACTTTTTTCAAGTATGCTCTCTCAAATAATTTGCATGAAAACATAT
65 TTGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
1871477 CGATACACATAGATC
130 CGATACACATAGATC
* *
1871492 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGAAATATCTTCAATATCAAAGTAT-TGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCT-ATAC
* *
1871556 TTGTTATGACAGTATCAATA-TTTTTTCCAGTATGCTCTCTTAAACAATTTCCATGAAAACGTAT
65 TTGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
*
1871620 CGATACATATAGATC
130 CGATACACATAGATC
* * * * *
1871635 AAGTATCGATCTTGCTTATTTTGAAACAAAATATGCAATATCTTTATTGTCAAAGTATCGATACT
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCTATACT
* *
1871700 TG-TATTGACAGTATCAAAATGTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTA
66 TGTTA-TGACAGTATCAATA-CTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTA
* ** * *
1871764 TTGATACTTATATATA
129 TCGATACACATAGATC
** * * * *
1871780 AAGTATCAATCTTTATAATTTTGACACAAAATATGCAATATATTCAATGTCAAAGTAT-TGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCT-ATAC
* ** ** *
1871844 TTGTTTTGACAGTATTGATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACATAT
65 TTGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
* * *
1871909 CGATATATATAGATT
130 CGATACACATAGATC
* * * *
1871924 AAGTATCAATCTTGCATATTTCGAAACAAAATATCCAATATATTCAATG--AATATGTATCGATA
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAA-A-GTATCTATA
* * ***
1871987 CTTTTTATGATAGTATCAATACTTTTTGATAGTATGCTCTCTCAAACAATT
64 CTTGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATT
1872038 GTCGTGAAAA
Statistics
Matches: 845, Mismatches: 122, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
142 4 0.00
143 127 0.15
144 399 0.47
145 312 0.37
146 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (144 bp):
AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAAAGTATCTATACT
TGTTATGACAGTATCAATACTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGTATC
GATACACATAGATC
Found at i:1872018 original size:19 final size:21
Alignment explanation
Indices: 1871978--1872021 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
1871968 CAATGAATAT
*
1871978 GTATCGATACTTTTTATGATA
1 GTATCAATACTTTTTATGATA
1871999 GTATCAATAC-TTTT-TGATA
1 GTATCAATACTTTTTATGATA
1872018 GTAT
1 GTAT
1872022 GCTCTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 4 0.18
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (21 bp):
GTATCAATACTTTTTATGATA
Found at i:1872046 original size:144 final size:144
Alignment explanation
Indices: 1870914--1872299 Score: 1239
Period size: 144 Copynumber: 9.6 Consensus size: 144
1870904 CTTTTCATGA
* *
1870914 AAGTATTC-ATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATATTAA-AGTATCAATA
1 AAGTA-TCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAAT-GTAATAGTATCGATA
* * * * *** * * ** *
1870977 ATTGTTATAAAAGTATCGATACATTTAGGACAGTATGCTCTATCAAACAATTTTTAT-AACAAAG
64 CTTGTTATGACAGTATCAATAC-TTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAA-AACG
* *
1871041 TATCGATACACATATATA
127 TATCGATACACATAGATC
** * * * * *
1871059 AAGTATCAATCTTTATAATTTCGAAACAAAATATACAATATCTTCAATATCAA-AGCATCAATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGT-AATAGTATCGATAC
* * * * *
1871123 TTGTTATGAAAGTACCGATACTTTTTTTTCTGTATGCTCTCTCAAACAATTTGCATGAAAACGTA
65 TTGTTATGACAGTATCAATACTTTTTTAT-AGTATGCTCTCTCAAACAATTTGCATGAAAACGTA
1871188 TCGATACACATAGATC
129 TCGATACACATAGATC
* * * * *
1871204 AAGTATCGATCTTTCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCATAGTATCTATATT
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTAATAGTATCGATACT
* * * ** * * * *
1871269 TGTCATGACAGTATCGATACTTTTATCCAATATGCTATCTCAAACAATTTGCATGAAAATGTATT
66 TGTTATGACAGTATCAATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACGTATC
*
1871334 GACACACATAGATC
131 GATACACATAGATC
* ** * *
1871348 AATTATCGGTCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTCAA-ATTATTGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGT-AATAGTATCGATAC
* * *
1871412 TTGTTATGACAGTACCAATACTTTTTTCA-AGTATGCTCTCTCAAATAATTTGCATGAAAACATA
65 TTGTTATGACAGTATCAATACTTTTTT-ATAGTATGCTCTCTCAAACAATTTGCATGAAAACGTA
1871476 TCGATACACATAGATC
129 TCGATACACATAGATC
* * *
1871492 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGAAATATCTTCAATATCAA-AGTATTGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGT-AATAGTATCGATAC
** * *
1871556 TTGTTATGACAGTATCAATA-TTTTTTCCAGTATGCTCTCTTAAACAATTTCCATGAAAACGTAT
65 TTGTTATGACAGTATCAATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
*
1871620 CGATACATATAGATC
130 CGATACACATAGATC
* * * *
1871635 AAGTATCGATCTTGCTTATTTTGAAACAAAATATGCAATATCTTTATTGTCAA-AGTATCGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGT-AATAGTATCGATAC
* * **
1871699 TTG-TATTGACAGTATCAAAATGTTTTTTCCAGTATGCTCTCTCAAACAATTTGCATGAAAACGT
65 TTGTTA-TGACAGTATCAATA-CTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACGT
* ** * *
1871763 ATTGATACTTATATATA
128 ATCGATACACATAGATC
** * * * * *
1871780 AAGTATCAATCTTTATAATTTTGACACAAAATATGCAATATATTCAATGTCAA-AGTATTGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGT-AATAGTATCGATAC
* ** *
1871844 TTGTTTTGACAGTATTGATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACATAT
65 TTGTTATGACAGTATCAATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACGTAT
* * *
1871909 CGATATATATAGATT
130 CGATACACATAGATC
* * *
1871924 AAGTATCAATCTTGCATATTTCGAAACAAAATATCCAATATATTCAATG-AATATGTATCGATAC
1 AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTAATA-GTATCGATAC
* * * * *
1871988 TTTTTATGATAGTATCAATACTTTTTGATAGTATGCTCTCTCAAACAA-TTGTCGTGAAAAAGTA
65 TTGTTATGACAGTATCAATACTTTTTTATAGTATGCTCTCTCAAACAATTTG-CATGAAAACGTA
* * *
1872052 TCAAT-CTGA-ATATATG
129 TCGATAC--ACATAGATC
* * *
1872068 AAGTATCAA-CATT--TATATTTTCAAAACAATAA-ATGCAA-AT-TGGTGAA-GGAATATGTAT
1 AAGTATCAATC-TTGCT-TA-TTTCGAAACAA-AATATGCAATATCT--TCAATGTAATA-GTAT
* * * *
1872126 CGATACTTGTTATAGA-AGTATCAATA-TTGTTTCAATATTATGC-CT-TGACAAAAAATTAGCA
59 CGATACTTGTTAT-GACAGTATCAATACTT-TTT-TATAGTATGCTCTCT--CAAACAATTTGCA
* * *
1872187 TGACAAA-GTATTGATACATATATAT-
119 TGA-AAACGTATCGATACACATAGATC
** * * * *
1872212 AACGTATCAATCTTTATAATTTCAAAAAAAAATATGCAATATCTTCAATGT-ATATGTATCAATA
1 AA-GTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTAATA-GTATCGATA
* *
1872276 -TTGTTATGGCAGTATCGATACTTT
64 CTTGTTATGACAGTATCAATACTTT
1872300 ATGACATTAT
Statistics
Matches: 1047, Mismatches: 151, Indels: 87
0.81 0.12 0.07
Matches are distributed among these distances:
142 5 0.00
143 139 0.13
144 499 0.48
145 388 0.37
146 14 0.01
147 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (144 bp):
AAGTATCAATCTTGCTTATTTCGAAACAAAATATGCAATATCTTCAATGTAATAGTATCGATACT
TGTTATGACAGTATCAATACTTTTTTATAGTATGCTCTCTCAAACAATTTGCATGAAAACGTATC
GATACACATAGATC
Found at i:1873530 original size:43 final size:43
Alignment explanation
Indices: 1873469--1873594 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
1873459 TTTTAACTGA
* *
1873469 TTAGGTTATCAATATTTTACCGTTTACATTATTATTATACCGG
1 TTAGGTTATAAATATTTTATCGTTTACATTATTATTATACCGG
* *
1873512 TTAGGTTATAAATATTTTATCATTTAAATTATTATTATACCGG
1 TTAGGTTATAAATATTTTATCGTTTACATTATTATTATACCGG
* * *
1873555 TTATGTTGTAAATATTCTATCGTTTACATTATTATTATAC
1 TTAGGTTATAAATATTTTATCGTTTACATTATTATTATAC
1873595 TGGTAGTAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (43 bp):
TTAGGTTATAAATATTTTATCGTTTACATTATTATTATACCGG
Found at i:1873751 original size:102 final size:98
Alignment explanation
Indices: 1873628--1873879 Score: 326
Period size: 102 Copynumber: 2.5 Consensus size: 98
1873618 GTTGTGCATG
* * * *
1873628 TTTTTTTAACTGGTTAAGTTGTAATTATTTTACCGTTTACACTATTATTAAACCTACAAACAAAC
1 TTTTTTTAACCGGTTAGGTTGTAA-TATTTTACTGTTTACATTATTATTAAACCTACAAACAAAC
*
1873693 TGGTAGCAAGTTTAAAGTAATAGGTTGAGCCTATTAC
65 TGGTAGCAAGTTT-AAGTAATAGGTTGAGCCTA--AA
* *
1873730 TTTTTTTAACCGGTTAGGTTGTACATATTTTACTGTTTACATTATTTTTAAACCTATAAACAAAC
1 TTTTTTTAACCGGTTAGGTTGTA-ATATTTTACTGTTTACATTATTATTAAACCTACAAACAAAC
* *
1873795 TGGTAGTAAGTTTAAGTAATAGGTTGTGCCTAAA
65 TGGTAGCAAGTTTAAGTAATAGGTTGAGCCTAAA
* *
1873829 TTGTTTTAACTC-GTTAGGTTGTAAATATTTTTAATGTTTACATTATTATTA
1 TTTTTTTAAC-CGGTTAGGTTGT-AATA-TTTTACTGTTTACATTATTATTA
1873880 TATTTGTACC
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
99 23 0.17
100 23 0.17
101 18 0.13
102 69 0.51
103 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (98 bp):
TTTTTTTAACCGGTTAGGTTGTAATATTTTACTGTTTACATTATTATTAAACCTACAAACAAACT
GGTAGCAAGTTTAAGTAATAGGTTGAGCCTAAA
Found at i:1874525 original size:26 final size:25
Alignment explanation
Indices: 1874461--1874514 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
1874451 TTGCAGGTAA
1874461 AGTTAAACAGATTTTTTCGTAAATT
1 AGTTAAACAGATTTTTTCGTAAATT
1874486 AGTTAAACAGATTTTTTCGTAAATT
1 AGTTAAACAGATTTTTTCGTAAATT
1874511 AGTT
1 AGTT
1874515 TTTAGGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (25 bp):
AGTTAAACAGATTTTTTCGTAAATT
Found at i:1875226 original size:6 final size:6
Alignment explanation
Indices: 1875212--1875258 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
1875202 CCAATACTTA
* *
1875212 AATTTC AATTCC AATTTC AATTTC AATTTC AATTTC AATTTT AATTT
1 AATTTC AATTTC AATTTC AATTTC AATTTC AATTTC AATTTC AATTT
1875259 GATCGTCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
AATTTC
Found at i:1875401 original size:33 final size:33
Alignment explanation
Indices: 1875364--1875437 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 33
1875354 TGATATGGAG
1875364 TAATCAACCAACAACTCATC-GAAAAATCTCGAC
1 TAATCAACCAACAACTCATCGGAAAAA-CTCGAC
* *
1875397 TAATCAATCAACAACTCATCGGAAAAACTCGAG
1 TAATCAACCAACAACTCATCGGAAAAACTCGAC
1875430 TAATCAAC
1 TAATCAAC
1875438 TAACCAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 31 0.84
34 6 0.16
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (33 bp):
TAATCAACCAACAACTCATCGGAAAAACTCGAC
Done.