Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_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: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 17
Found at i:1619846 original size:61 final size:60
Alignment explanation
Indices: 1619602--1619872 Score: 151
Period size: 61 Copynumber: 4.5 Consensus size: 60
1619592 TAAAAATTAT
* * * * ** *
1619602 GTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 GTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATCG-CGTTGCGATTTAATG-TTCGC
* * * * * * * * *
1619663 ATTGTGA-TTTACGTATTCTCGTTGCGAT-TTA-TAGATACGCGTTGCGATTTACATATTCTC
1 GTTGCGATTTTACGGATACGCGTTGCGATGTCACGA-AT-CGCGTTGCGATTTA-ATGTTCGC
* * * * * ** *
1619723 GTTGCGA-TTTACGGATACGCGTTGGGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 GTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATCG-CGTTGCGATTTAATG-TTCGC
*
1619784 GTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAATCGCGTTGCGATTTATATGTTCGC
1 GTTGCGATTTTACGGATACGCGTTGCGAT-GTCACGAATCGCGTTGCGATTTA-ATGTTCGC
* ** *
1619845 GTTGTGATTTT-CATATTCGCGTTGCGAT
1 GTTGCGATTTTACGGATACGCGTTGCGAT
1619873 TCTGGAAAAT
Statistics
Matches: 159, Mismatches: 41, Indels: 21
0.72 0.19 0.10
Matches are distributed among these distances:
60 56 0.35
61 77 0.48
62 24 0.15
63 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (60 bp):
GTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATCGCGTTGCGATTTAATGTTCGC
Found at i:1619848 original size:81 final size:81
Alignment explanation
Indices: 1619602--1619873 Score: 282
Period size: 81 Copynumber: 3.4 Consensus size: 81
1619592 TAAAAATTAT
* * *
1619602 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTG
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
* ** * *
1619667 TGATTTACGTATTCTC
66 CGATTTATATGTTCGC
* *
1619683 GTTGCGATTTATAGATACGCGTTGCGA-TTTACATATTCTCGTTGCGATTTACGGATACGCGTTG
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
* * *
1619747 GGATTT-TACGTATTGTC
66 CGATTTATATGT-TCG-C
* * * * *
1619764 GTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGT
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGAT-TTACGGATA-CGCGT
1619827 TGCGATTTATATGTTCGC
64 TGCGATTTATATGTTCGC
* * * *
1619845 GTTGTGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACAGATACGCGTTGCGATT
1619874 CTGGAAAATC
Statistics
Matches: 158, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 40 0.25
81 77 0.49
82 35 0.22
83 5 0.03
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (81 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
CGATTTATATGTTCGC
Found at i:1619951 original size:20 final size:20
Alignment explanation
Indices: 1619861--1619955 Score: 59
Period size: 20 Copynumber: 4.7 Consensus size: 20
1619851 ATTTTCATAT
*
1619861 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATTCTGG-AGA
** * *
1619882 TCGCAATGCGAATT-TGTACTA
1 TCGCGTTGCG-ATTCTGGA-GA
1619903 TCGCGTTGCGATTCTGG-GA
1 TCGCGTTGCGATTCTGGAGA
* ***
1619922 ACTTATTTGCGATTCTGGAGA
1 TC-GCGTTGCGATTCTGGAGA
1619943 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1619956 TTTATTTCGC
Statistics
Matches: 53, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
19 2 0.04
20 24 0.45
21 24 0.45
22 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
TCGCGTTGCGATTCTGGAGA
Found at i:1620171 original size:25 final size:24
Alignment explanation
Indices: 1620116--1620171 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1620106 TTTATGTGAC
* * *
1620116 TAAAATAAACATTTCTTAGTAATA
1 TAAAATAAACATTTCTAACTAAGA
*
1620140 TAAAATAATCATTTCTAACCTAAGA
1 TAAAATAAACATTTCTAA-CTAAGA
1620165 TAAAATA
1 TAAAATA
1620172 TATTTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAAATAAACATTTCTAACTAAGA
Found at i:1620612 original size:15 final size:15
Alignment explanation
Indices: 1620571--1620630 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
1620561 TAACATTTTT
*
1620571 AATAACAATGACTCC
1 AATAACAACGACTCC
*
1620586 ATTAACAACGACTCC
1 AATAACAACGACTCC
* * *
1620601 AATAATAGCGACTGC
1 AATAACAACGACTCC
* *
1620616 GATAACGACGACTCC
1 AATAACAACGACTCC
1620631 GGTAATAAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (15 bp):
AATAACAACGACTCC
Found at i:1626100 original size:59 final size:58
Alignment explanation
Indices: 1626010--1626159 Score: 140
Period size: 59 Copynumber: 2.6 Consensus size: 58
1626000 TGCATATTTT
* * * **
1626010 GGGATTGCAGTAAAGGATCCCTACTATATATGGCATGAACA-ACATTATGTATCATATTC
1 GGGATTGCACTAAAGGATACCTAATGCATATGG--TGAACAGACATTATGTATCATATTC
* * ** * *
1626069 GGGACTGCACTAAAGGATACCTAGTGCATATGGTGGGCATGACCTTATGTGTCATATTC
1 GGGATTGCACTAAAGGATACCTAATGCATATGGTGAACA-GACATTATGTATCATATTC
** *
1626128 AAGATTGCACTAAAGGATACTTAATGCATATG
1 GGGATTGCACTAAAGGATACCTAATGCATATG
1626160 ATGGGCATGA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 4 0.05
59 70 0.95
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (58 bp):
GGGATTGCACTAAAGGATACCTAATGCATATGGTGAACAGACATTATGTATCATATTC
Found at i:1626165 original size:59 final size:59
Alignment explanation
Indices: 1626054--1626185 Score: 183
Period size: 59 Copynumber: 2.2 Consensus size: 59
1626044 ATGAACAACA
* ** * *
1626054 TTATGTATCATATTCGGGACTGCACTAAAGGATACCTAGTGCATATGGTGGGCATGACC
1 TTATGTGTCATATTCAAGACTGCACTAAAGGATACCTAATGCATATGATGGGCATGACC
* *
1626113 TTATGTGTCATATTCAAGATTGCACTAAAGGATACTTAATGCATATGATGGGCATGACC
1 TTATGTGTCATATTCAAGACTGCACTAAAGGATACCTAATGCATATGATGGGCATGACC
* *
1626172 TTATATGCCATATT
1 TTATGTGTCATATT
1626186 TGGTTTAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (59 bp):
TTATGTGTCATATTCAAGACTGCACTAAAGGATACCTAATGCATATGATGGGCATGACC
Found at i:1630412 original size:11 final size:12
Alignment explanation
Indices: 1630382--1630416 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1630372 TTGAAAATGT
1630382 GCATTTTTAGGA
1 GCATTTTTAGGA
1630394 GCATTTTTAGGA
1 GCATTTTTAGGA
1630406 GCA-TTTTAGGA
1 GCATTTTTAGGA
1630417 TTATAATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (12 bp):
GCATTTTTAGGA
Found at i:1633865 original size:29 final size:30
Alignment explanation
Indices: 1633800--1633872 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
1633790 AGTCGATAGT
* * *
1633800 CGCCCATCACCTTGCTTATCAAAAGCTTAGC
1 CGCCTATCACCTTGCTTATC-AAAGCCTAAC
*
1633831 CGCCTATCACTTTGCTTATC-AAGCCTAAC
1 CGCCTATCACCTTGCTTATCAAAGCCTAAC
* *
1633860 TGCCTACCACCTT
1 CGCCTATCACCTT
1633873 TCAGAAGACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 17 0.49
31 18 0.51
ACGTcount: A:0.23, C:0.37, G:0.11, T:0.29
Consensus pattern (30 bp):
CGCCTATCACCTTGCTTATCAAAGCCTAAC
Found at i:1634643 original size:16 final size:17
Alignment explanation
Indices: 1634613--1634654 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1634603 ATCCTATTGC
*
1634613 ATCCATTATCTTTAT-TT
1 ATCC-TTATCATTATATT
1634630 ATCCTTATCATTATATT
1 ATCCTTATCATTATATT
*
1634647 ACCCTTAT
1 ATCCTTAT
1634655 TGTTTCTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (17 bp):
ATCCTTATCATTATATT
Found at i:1636024 original size:157 final size:155
Alignment explanation
Indices: 1635761--1636108 Score: 513
Period size: 158 Copynumber: 2.2 Consensus size: 155
1635751 TCAAAATGTA
* *
1635761 CTTCCCTTGTAGT-TAGA-ATACTTTTCCATGGATTCCCCCACGAAACGATATTGATTTGATGAA
1 CTTCCCTTGTAGTCGAGAGAT--TTTTCCATGGATTCCCCCACGAAACAATATTGATTTGATGAA
* *
1635824 AAAATAGTACAAGATCATAGAAAAGAAATCTCAAGAAAATCATTTGAATAAAAGGATG-CCCCTT
64 AAAATAGTACAAAATCATAGAAAAGAAATCTCAAGAAAATCATTAGAATAAAAGGATGCCCCCTT
* *
1635888 TTTATGTGAACATTCCTCGAAAACGAG
129 TTTATGTAAACAATCCTCGAAAACGAG
* *
1635915 CTTCCCTTGTAGTCGAGAGATTTTTTCATAGATTCCCCGCACGAAACAATATTGATTTGATGAAA
1 CTTCCCTTGTAGTCGAGAGATTTTTCCATGGATTCCCC-CACGAAACAATATTGATTTGATG-AA
*
1635980 AAAATAGTACAAAAATCATATAAAAGAAATCTCAAGAAAATCATTAGAATAAAAGGATGCCCCCT
64 AAAATAGTAC-AAAATCATAGAAAAGAAATCTCAAGAAAATCATTAGAATAAAAGGATGCCCCCT
* *
1636045 TTTTATGTAAACAATCCTCGGAAACGTG
128 TTTTATGTAAACAATCCTCGAAAACGAG
* *
1636073 CTTCCCTTGTAGTCGGGAGACTTTTCCATGGATTCC
1 CTTCCCTTGTAGTCGAGAGATTTTTCCATGGATTCC
1636109 TCACATAGAA
Statistics
Matches: 173, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
154 28 0.16
155 25 0.14
156 14 0.08
157 45 0.26
158 61 0.35
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (155 bp):
CTTCCCTTGTAGTCGAGAGATTTTTCCATGGATTCCCCCACGAAACAATATTGATTTGATGAAAA
AATAGTACAAAATCATAGAAAAGAAATCTCAAGAAAATCATTAGAATAAAAGGATGCCCCCTTTT
TATGTAAACAATCCTCGAAAACGAG
Found at i:1637506 original size:15 final size:15
Alignment explanation
Indices: 1637486--1637515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1637476 TTGACTATGG
1637486 GATATTTAAATGGAA
1 GATATTTAAATGGAA
*
1637501 GATATTTCAATGGAA
1 GATATTTAAATGGAA
1637516 AGTGGTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (15 bp):
GATATTTAAATGGAA
Found at i:1642860 original size:31 final size:32
Alignment explanation
Indices: 1642825--1642931 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 32
1642815 CTAAGGTGAC
*
1642825 CTTGGGTAGGCTCTGCTA-CCTCGAGATCTTT
1 CTTGGGTAGGCTCTGCTAGCCCCGAGATCTTT
* *
1642856 CTTGGGTAGGCCCTGC-AGCCCCGAGATCTAT
1 CTTGGGTAGGCTCTGCTAGCCCCGAGATCTTT
** *
1642887 CTTGCATAGGC-CT-CGTAGCCCCGAGAACTTT
1 CTTGGGTAGGCTCTGC-TAGCCCCGAGATCTTT
1642918 CTTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
1642932 CAAGTCCCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 57 0.90
32 2 0.03
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (32 bp):
CTTGGGTAGGCTCTGCTAGCCCCGAGATCTTT
Found at i:1655231 original size:10 final size:10
Alignment explanation
Indices: 1655216--1655247 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1655206 ATTGTTTACA
1655216 TTCGAGAAGC
1 TTCGAGAAGC
1655226 TTCGAGAAGC
1 TTCGAGAAGC
*
1655236 TTCTAGAAGC
1 TTCGAGAAGC
1655246 TT
1 TT
1655248 ATTCGAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (10 bp):
TTCGAGAAGC
Found at i:1655585 original size:18 final size:18
Alignment explanation
Indices: 1655562--1655606 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1655552 TTCATGCATA
1655562 TAGTTCATTGAATAAAGT
1 TAGTTCATTGAATAAAGT
*
1655580 TAGTTCATTGAATAATGT
1 TAGTTCATTGAATAAAGT
*
1655598 TATTTCATT
1 TAGTTCATT
1655607 AATCAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (18 bp):
TAGTTCATTGAATAAAGT
Found at i:1656860 original size:14 final size:15
Alignment explanation
Indices: 1656827--1656857 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1656817 ATTATTATAA
1656827 CCACTACATTTTCCC
1 CCACTACATTTTCCC
1656842 CCACTACATTTTCCC
1 CCACTACATTTTCCC
1656857 C
1 C
1656858 ACTTTCCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.32
Consensus pattern (15 bp):
CCACTACATTTTCCC
Found at i:1661377 original size:20 final size:20
Alignment explanation
Indices: 1661349--1661391 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1661339 TATATTGGGC
* *
1661349 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
1661369 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
1661389 TAT
1 TAT
1661392 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:1663792 original size:44 final size:44
Alignment explanation
Indices: 1663743--1663828 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
1663733 TTGGAGGAAG
1663743 TTTCTGAAGGCTCCTCTACTGTGTGAAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCCTCTACTGTGTGAAAGGGTAAGACCTTACCA
* ** *
1663787 TTTCTGAAGGCTCCTCTGCTGTGTGCCATGGTAAGACCTTAC
1 TTTCTGAAGGCTCCTCTACTGTGTGAAAGGGTAAGACCTTAC
1663829 TGGATGTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (44 bp):
TTTCTGAAGGCTCCTCTACTGTGTGAAAGGGTAAGACCTTACCA
Found at i:1667999 original size:45 final size:45
Alignment explanation
Indices: 1667919--1668240 Score: 427
Period size: 45 Copynumber: 7.2 Consensus size: 45
1667909 AATACATCAT
1667919 TATGCACTTT-AACTATA--ATATCTTTTCTGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATA-CTTTTCTGTTGATAATGCACCCA
* *
1667963 TATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
** *
1668008 TATAAATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* *
1668053 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCATCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
*
1668098 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
1668143 TATACATTTCAACTAAAGTATGCTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * **
1668188 TATACATTTCAACTATGGCAT-CCTTTCATGTCAATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTC-TGTTGATAATGCACCCA
1668233 TATGCATT
1 TATGCATT
1668241 AGTATTTTCA
Statistics
Matches: 250, Mismatches: 24, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
43 3 0.01
44 18 0.07
45 226 0.90
46 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:1668825 original size:93 final size:95
Alignment explanation
Indices: 1668664--1668849 Score: 247
Period size: 93 Copynumber: 2.0 Consensus size: 95
1668654 TTGATACCCC
*
1668664 TACTATGGTATCTATACCCCCTTCCTGTATCAATACCAAAATTGCCTTCGATGTAGCCTTGTATT
1 TACTATGGTACCTATACCCCCTTCCTGTATCAATACCAAAATTGCCTTCGATGTAGCCTTGTATT
*
1668729 GATACCCTCATCATGGTATCAATACTACTA
66 GATACCCTCACCATGGTATCAATACTACTA
* **
1668759 TACTATGGTACCTATA-CCCCTT-C-GATATCAATACCAAAATTAG-GTTCGATGT-TTCTTGGT
1 TACTATGGTACCTATACCCCCTTCCTG-TATCAATACCAAAATT-GCCTTCGATGTAGCCTT-GT
* *
1668819 ATTGATACCCTTACCATGGTATCGATACTAC
63 ATTGATACCCTCACCATGGTATCAATACTAC
1668850 ATCGCTCGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
92 4 0.05
93 55 0.68
94 7 0.09
95 15 0.19
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (95 bp):
TACTATGGTACCTATACCCCCTTCCTGTATCAATACCAAAATTGCCTTCGATGTAGCCTTGTATT
GATACCCTCACCATGGTATCAATACTACTA
Found at i:1671338 original size:24 final size:24
Alignment explanation
Indices: 1671311--1671408 Score: 128
Period size: 24 Copynumber: 4.1 Consensus size: 24
1671301 TATATCAAAA
* *
1671311 ATCATAACATAATCCAGGTCAAGT
1 ATCATATCAGAATCCAGGTCAAGT
*
1671335 ATCATATCAAAATCCAGGTCAAGT
1 ATCATATCAGAATCCAGGTCAAGT
1671359 ATTCA-ATCAGAATCCAGGTCAAGT
1 A-TCATATCAGAATCCAGGTCAAGT
*
1671383 ATC-TGATCAGAATCCAGGTCAGGT
1 ATCAT-ATCAGAATCCAGGTCAAGT
1671407 AT
1 AT
1671409 TATAATAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
23 2 0.03
24 62 0.93
25 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (24 bp):
ATCATATCAGAATCCAGGTCAAGT
Found at i:1671418 original size:24 final size:25
Alignment explanation
Indices: 1671321--1671418 Score: 114
Period size: 24 Copynumber: 4.1 Consensus size: 25
1671311 ATCATAACAT
* *
1671321 AATCCAGGTCAAGTATCAT-ATCAA
1 AATCCAGGTCAAGTATTATAATCAG
*
1671345 AATCCAGGTCAAGTATT-CAATCAG
1 AATCCAGGTCAAGTATTATAATCAG
* *
1671369 AATCCAGGTCAAGTA-TCTGATCAG
1 AATCCAGGTCAAGTATTATAATCAG
*
1671393 AATCCAGGTCAGGTATTATAAT-AG
1 AATCCAGGTCAAGTATTATAATCAG
1671417 AA
1 AA
1671419 ATCAAATCGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 58 0.92
25 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (25 bp):
AATCCAGGTCAAGTATTATAATCAG
Found at i:1673931 original size:18 final size:18
Alignment explanation
Indices: 1673904--1673938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1673894 GCCGTTTAAC
1673904 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
1673922 GGTCAGCGGGTTGGGTC
1 GGTCAACGGGTCGGGTC
1673939 AACAGGTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1675246 original size:38 final size:38
Alignment explanation
Indices: 1675195--1675270 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
1675185 CAGACATAAG
* *
1675195 ACATAAAAGCAAAAGGGACA-AGCAAAACAAAAGAAAGA
1 ACATAAAAACAAAAAGGA-AGAGCAAAACAAAAGAAAGA
*
1675233 ACATAAAAACAAAAAGGAAGAGCAAAGCAAAAGAAAGA
1 ACATAAAAACAAAAAGGAAGAGCAAAACAAAAGAAAGA
1675271 TAAAAAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.67, C:0.12, G:0.18, T:0.03
Consensus pattern (38 bp):
ACATAAAAACAAAAAGGAAGAGCAAAACAAAAGAAAGA
Found at i:1676138 original size:18 final size:19
Alignment explanation
Indices: 1676115--1676191 Score: 99
Period size: 18 Copynumber: 4.2 Consensus size: 19
1676105 ATTTTACTTA
1676115 ATTATTATTA-AAATTATT
1 ATTATTATTATAAATTATT
1676133 ATTATTATTATAAA-TATT
1 ATTATTATTATAAATTATT
*
1676151 ATTATTATTATATA-TATT
1 ATTATTATTATAAATTATT
*
1676169 A-TATTATTATTAAATAATT
1 ATTATTATTA-TAAATTATT
1676188 ATTA
1 ATTA
1676192 CAAGCCCAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.15
18 35 0.67
19 7 0.13
20 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTATTATAAATTATT
Found at i:1676191 original size:3 final size:3
Alignment explanation
Indices: 1676115--1676180 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
1676105 ATTTTACTTA
** * *
1676115 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1676162 ATAT ATT A-T ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT A
1676181 AATAATTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 4 0.08
3 45 0.87
4 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1677842 original size:33 final size:33
Alignment explanation
Indices: 1677805--1677872 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1677795 CTGGATGTCC
1677805 ATTTTCTGA-TATTTTTAAATAAATAATTTACTA
1 ATTTT-TGATTATTTTTAAATAAATAATTTACTA
* * * *
1677838 ATTTTTTATTATTTTTATATAAATATTTTATTA
1 ATTTTTGATTATTTTTAAATAAATAATTTACTA
1677871 AT
1 AT
1677873 ATTTATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (33 bp):
ATTTTTGATTATTTTTAAATAAATAATTTACTA
Found at i:1677883 original size:33 final size:33
Alignment explanation
Indices: 1677814--1677884 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
1677804 CATTTTCTGA
*
1677814 TATTTTTAAATAAATAATTTACTAATTTTTTAT
1 TATTTTTAAATAAATAATTTACTAATTTTATAT
* * *
1677847 TATTTTTATATAAATATTTTATTAATATTTAT-T
1 TATTTTTAAATAAATAATTTACTAAT-TTTATAT
1677880 TATTT
1 TATTT
1677885 ATTTATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (33 bp):
TATTTTTAAATAAATAATTTACTAATTTTATAT
Found at i:1683886 original size:7 final size:7
Alignment explanation
Indices: 1683876--1683963 Score: 63
Period size: 7 Copynumber: 12.0 Consensus size: 7
1683866 AAGGAAGAAG
1683876 AAGAAAA
1 AAGAAAA
1683883 AAGAAAGA
1 AAGAAA-A
1683891 AA-AAAGA
1 AAGAAA-A
1683898 AAGAAAA
1 AAGAAAA
*
1683905 AGGAAAA
1 AAGAAAA
1683912 ATGAGAAAA
1 A--AGAAAA
*
1683921 AGGAAAA
1 AAGAAAA
1683928 ATGAGAAAA
1 A--AGAAAA
*
1683937 AGGAAAA
1 AAGAAAA
* *
1683944 ATGAGAA
1 AAGAAAA
1683951 AA-AAAA
1 AAGAAAA
1683957 AAGAAAA
1 AAGAAAA
1683964 TTGAATCAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
6 5 0.08
7 42 0.65
8 6 0.09
9 12 0.18
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:1683892 original size:11 final size:11
Alignment explanation
Indices: 1683855--1683910 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
1683845 CTCATCCAGT
*
1683855 AAAGAAAGAAG
1 AAAGAAAAAAG
* *
1683866 -AAGGAAGAAG
1 AAAGAAAAAAG
1683876 -AAGAAAAAAG
1 AAAGAAAAAAG
1683886 AAAGAAAAAAG
1 AAAGAAAAAAG
*
1683897 AAAGAAAAAGG
1 AAAGAAAAAAG
1683908 AAA
1 AAA
1683911 AATGAGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 17 0.43
11 23 0.57
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:1683918 original size:16 final size:16
Alignment explanation
Indices: 1683899--1683953 Score: 110
Period size: 16 Copynumber: 3.4 Consensus size: 16
1683889 GAAAAAAGAA
1683899 AGAAAAAGGAAAAATG
1 AGAAAAAGGAAAAATG
1683915 AGAAAAAGGAAAAATG
1 AGAAAAAGGAAAAATG
1683931 AGAAAAAGGAAAAATG
1 AGAAAAAGGAAAAATG
1683947 AGAAAAA
1 AGAAAAA
1683954 AAAAAGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (16 bp):
AGAAAAAGGAAAAATG
Found at i:1688707 original size:22 final size:22
Alignment explanation
Indices: 1688678--1688732 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1688668 ATCTACACTC
1688678 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1688700 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1688722 TTCAAAGATGA
1 TTCAAAGATGA
1688733 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1689558 original size:165 final size:165
Alignment explanation
Indices: 1689245--1689571 Score: 523
Period size: 165 Copynumber: 2.0 Consensus size: 165
1689235 CACAAGAATG
*
1689245 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
* **
1689310 CGATTTCCATAGTTTCTCATTTTATCTTTTCAAAAATGAAATTGTTGAAAAGTAAGAAAATGATT
66 AGATTTCCATAGTTTCTCATTCAATCTTTTCAAAAATGAAATTGTTGAAAAGTAAGAAAATGATT
* * *
1689375 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAC
131 TTCTTAGCTATCTTACTTAGTAAACTATTTCCAAC
*
1689410 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
* * *
1689475 AGATTTTCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAATTA-
66 AGATTTCCATAGTTTCTCATTCAATCTTTTC-AAAAATGAAATTGTTGAAAAGTAAGAAAATGAT
1689539 TTTCTATA-CTATCTTACTTAGTAAACTATTTCC
130 TTTCT-TAGCTATCTTACTTAGTAAACTATTTCC
1689572 CACATCCATA
Statistics
Matches: 149, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
165 117 0.79
166 32 0.21
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (165 bp):
AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
AGATTTCCATAGTTTCTCATTCAATCTTTTCAAAAATGAAATTGTTGAAAAGTAAGAAAATGATT
TTCTTAGCTATCTTACTTAGTAAACTATTTCCAAC
Found at i:1689725 original size:73 final size:73
Alignment explanation
Indices: 1689606--1690035 Score: 761
Period size: 73 Copynumber: 5.9 Consensus size: 73
1689596 GGATGTTTTC
*
1689606 ACAGAACTTTATCTCACTTGATATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1689671 CACTCGAA
66 CACTCGAA
1689679 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1689744 CACTCGAA
66 CACTCGAA
* *
1689752 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTTGCTTGAGATAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1689817 CACTCGAA
66 CACTCGAA
*
1689825 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGCTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
1689890 CACTCGAA
66 CACTCGAA
* *
1689898 ACAGAACTTTATATCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
*
1689963 CACTTGAA
66 CACTCGAA
* * *
1689971 ACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTAAGACAGTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
1690036 ATTTCGAGTT
Statistics
Matches: 341, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
73 321 0.94
74 20 0.06
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (73 bp):
ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
CACTCGAA
Found at i:1690269 original size:45 final size:45
Alignment explanation
Indices: 1690205--1690373 Score: 293
Period size: 45 Copynumber: 3.8 Consensus size: 45
1690195 TATTTCCCAT
*
1690205 ATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTC
*
1690250 ATCTGTAAGCCCTTCAGTGCTTGGTGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTC
* *
1690295 ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTCCGAGTC
1 ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTC
*
1690340 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAA
1690374 CATTTCCATC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (45 bp):
ATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTC
Found at i:1690512 original size:18 final size:17
Alignment explanation
Indices: 1690489--1690562 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 17
1690479 ATTTTACTAA
1690489 ATTATTATTAAAATTATT
1 ATTATTA-TAAAATTATT
1690507 ATTATTATAATAATTATT
1 ATTATTATAA-AATTATT
*
1690525 ATTATTATATATATTA-T
1 ATTATTATA-AAATTATT
* *
1690542 ATTATTATTAAATAATT
1 ATTATTATAAAATTATT
1690559 ATTA
1 ATTA
1690563 CAAGCCCAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
16 4 0.08
17 17 0.35
18 27 0.55
19 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTATAAAATTATT
Found at i:1690562 original size:3 final size:3
Alignment explanation
Indices: 1690489--1690551 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
1690479 ATTTTACTAA
** * *
1690489 ATT ATT ATT AAA ATT ATT ATT ATT ATA ATA ATT ATT ATT ATT A-T ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
1690537 ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
1690552 AATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:1692207 original size:33 final size:31
Alignment explanation
Indices: 1692165--1692232 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
1692155 TTCTGATATT
*
1692165 TTTAAATAAATAATTTACTAATTTTTTATTATA
1 TTTAAATAAATAATTTACTAA-TATTTATT-TA
* * *
1692198 TTTAGATAAATATTTTATTAATATTTATTTA
1 TTTAAATAAATAATTTACTAATATTTATTTA
1692229 TTTA
1 TTTA
1692233 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 6 0.19
32 7 0.23
33 18 0.58
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTAAATAAATAATTTACTAATATTTATTTA
Found at i:1695206 original size:2 final size:2
Alignment explanation
Indices: 1695201--1695264 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1695191 ATGTGTGTGT
1695201 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1695243 GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
1695265 AGGAAACTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1696913 original size:22 final size:22
Alignment explanation
Indices: 1696871--1696913 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1696861 TTTATTTTTA
*
1696871 TAAAATTAATATGATATTATTC
1 TAAAATTAATATGATAATATTC
* *
1696893 TAAAATTAATTTTATAATATT
1 TAAAATTAATATGATAATATT
1696914 TTTGTAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAAATTAATATGATAATATTC
Found at i:1701925 original size:93 final size:93
Alignment explanation
Indices: 1701713--1701951 Score: 311
Period size: 93 Copynumber: 2.5 Consensus size: 93
1701703 ATTTATAATA
* * * * *
1701713 AATAATTATCTATCTTTTAAATATTTAAACTTATTTCAACTCAAATAAGGTTTTATCATGTAAAT
1 AATAATTATATATCTTTT-AATATATAAACTTATTTCAACTTAGATAAGGTTTTATCATATAAAT
*
1701778 ATTATATTTTAATAGAATTTGACAATTAT
65 ATTATATTTTAATAGAATTTGACAATTAC
* * * *
1701807 AATAATTATATCTCTTTTATGTATATAAACCTATTTAAACTTAGATAAGGTTTTATCATATAAAT
1 AATAATTATATATCTTTTA-ATATATAAACTTATTTCAACTTAGATAAGGTTTTATCATATAAAT
*
1701872 A-TATATTTTAATAGAATTTGATAATTAC
65 ATTATATTTTAATAGAATTTGACAATTAC
* *
1701900 AA-AAGTTATTTATCTTTTCAATATATAAATTTATTTCAACTTAGATAAGGTT
1 AATAA-TTATATATCTTTT-AATATATAAACTTATTTCAACTTAGATAAGGTT
1701952 CTCTATTTCC
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
92 2 0.02
93 67 0.54
94 56 0.45
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (93 bp):
AATAATTATATATCTTTTAATATATAAACTTATTTCAACTTAGATAAGGTTTTATCATATAAATA
TTATATTTTAATAGAATTTGACAATTAC
Found at i:1706984 original size:15 final size:14
Alignment explanation
Indices: 1706946--1706989 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
1706936 ATTCATAAAT
*
1706946 AAAATAAATGTAATG
1 AAAATGAATGT-ATG
1706961 AATAATGAATGTATG
1 AA-AATGAATGTATG
1706976 CAAAATGAATGTAT
1 -AAAATGAATGTAT
1706990 ACAAGAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.02, G:0.16, T:0.30
Consensus pattern (14 bp):
AAAATGAATGTATG
Found at i:1712289 original size:16 final size:16
Alignment explanation
Indices: 1712278--1712309 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
1712268 TTAATAATAA
1712278 TAATAATAAATAAAAT
1 TAATAATAAATAAAAT
1712294 TAATAATAAATGAAAA
1 TAATAATAAAT-AAAA
1712310 AATGGGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
TAATAATAAATAAAAT
Found at i:1715925 original size:14 final size:16
Alignment explanation
Indices: 1715908--1715939 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1715898 AAATTTGTTT
1715908 ATTT-AAATAA-AATA
1 ATTTAAAATAATAATA
1715922 ATTTAAAATAATAATA
1 ATTTAAAATAATAATA
1715938 AT
1 AT
1715940 AATATAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAATAATAATA
Found at i:1732119 original size:74 final size:76
Alignment explanation
Indices: 1731923--1732124 Score: 302
Period size: 76 Copynumber: 2.7 Consensus size: 76
1731913 GATTCATTCT
* * *
1731923 TTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTT
1 TTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTT
* * *
1731988 ATATTTTATCG
66 AAATATTATCA
1731999 TTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTA-TTTT
1 TTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTT
*
1732063 AAATATTATTA
66 AAATATTATCA
*
1732074 TT-TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA
1 TTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTA
1732125 AGATGTTTTA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
73 5 0.04
74 42 0.36
75 13 0.11
76 57 0.49
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.56
Consensus pattern (76 bp):
TTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTT
AAATATTATCA
Found at i:1732826 original size:17 final size:17
Alignment explanation
Indices: 1732797--1732847 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1732787 TTACTATTAA
*
1732797 TATTTATTATTTTATTAT
1 TATTTATT-TTTTATAAT
1732815 T-TTTACTTTTTTATAAT
1 TATTTA-TTTTTTATAAT
1732832 TATTTATTTTATTATA
1 TATTTATTTT-TTATA
1732848 CCTTTTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTTTTATAAT
Found at i:1734139 original size:23 final size:23
Alignment explanation
Indices: 1734109--1734158 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1734099 TTGTCCATTT
*
1734109 AATATTAATATACCATTATCGTA
1 AATATTAATATACCATTAGCGTA
*
1734132 AATATTAATATATCATTAGCGTA
1 AATATTAATATACCATTAGCGTA
1734155 AATA
1 AATA
1734159 AAAACAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (23 bp):
AATATTAATATACCATTAGCGTA
Found at i:1737411 original size:18 final size:17
Alignment explanation
Indices: 1737385--1737419 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1737375 GTAAATCATG
*
1737385 TATTTTATGTTACTTTTA
1 TATTATATGTTA-TTTTA
1737403 TATTATATGTTATTTTA
1 TATTATATGTTATTTTA
1737420 AAGGCTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTATATGTTATTTTA
Found at i:1744099 original size:81 final size:81
Alignment explanation
Indices: 1743983--1744630 Score: 893
Period size: 81 Copynumber: 8.0 Consensus size: 81
1743973 AATCCTTTAG
* * *** * * * *
1743983 TCTTTTACCCAAAGGCATTTAGTTTTTCATATAACTTGCATGATTGACACCTTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1744048 AAAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
1744064 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCATTCAGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1744129 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * ** *
1744145 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGACATAATTGACAGTTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1744210 ACAGCTAGGCCA-TAA
66 ACAGCTAGGCCATTAA
* * * * *
1744225 TATTTTACTCAAAGGTACTTAACTTTTCATCTAACCGGCTTAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
1744290 ACAACTAGACTATTAA
66 ACAGCTAGGCCATTAA
* * *
1744306 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCATTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1744371 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1744387 TCTTGTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACATCTTTCTGTCATATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1744452 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
1744468 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTATAAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1744533 ACAGCTAAGCGATTAA
66 ACAGCTAGGCCATTAA
* * *
1744549 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTATCAAATCC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1744614 ATAGCTACGCCATTAA
66 ACAGCTAGGCCATTAA
1744630 T
1 T
1744631 ATTATATTTA
Statistics
Matches: 499, Mismatches: 67, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 67 0.13
81 432 0.87
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1744431 original size:242 final size:243
Alignment explanation
Indices: 1744020--1744630 Score: 890
Period size: 242 Copynumber: 2.5 Consensus size: 243
1744010 CATATAACTT
* * *
1744020 GCATGATTGACACCTTTCTGTCAAATACA-AAGCTAGGCCATTAATCTTTTACTCAAAGGTATTT
1 GCATAATTGACACCTTTCTGTCAAATGCACAA-CTAGACCATTAATCTTTTACTCAAAGGTATTT
*
1744084 AACATTTCATCTAACTGGCATAATTGACACCATTCA-GTCAAATGCACAGCTAGGCCATTAATCT
65 AACCTTTCATCTAACTGGCATAATTGACACCATT-ATGTCAAATGCACAGCTAGGCCATTAATCT
* * *
1744148 TTTACTCAAATGTATTTAACCTTTCATCTAACTGACATAATTGACAGT-TTTCTATCAAATGCAC
129 TGTACTCAAAGGTATTTAACATTTCATCTAACTGACATAATTGACA-TCTTTCTATCAAATGCAC
* *
1744212 AGCTAGGCCA-TAATATTTTACTCAAAGGTACTTAACTTTTCATCTAACCG
193 AACTAGGCCATTAATATTTTACTCAAAGGTACTTAACCTTTCATCTAACCG
* *
1744262 GCTTAATTGACACCTTTCTGTCAAATGCACAACTAGACTATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGTCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTA
*
1744327 ACCTTTCATCTAACTGGCATAATTGAAACCATTATGTCAAATGCACAGCTAGGCCATTAATCTTG
66 ACCTTTCATCTAACTGGCATAATTGACACCATTATGTCAAATGCACAGCTAGGCCATTAATCTTG
* * *
1744392 TACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACATCTTTCTGTCATATGCACAAC
131 TACTCAAAGGTATTTAACATTTCATCTAACTGACATAATTGACATCTTTCTATCAAATGCACAAC
* * *
1744457 TAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG
196 TAGGCCATTAATATTTTACTCAAAGGTACTTAACCTTTCATCTAACCG
* * * * *
1744505 GCATAATTGACATCTTTCTATAAAATGCACAGCTA-AGCGATTAATCTTTTACTCAAAGGTATTT
1 GCATAATTGACACCTTTCTGTCAAATGCACAACTAGA-CCATTAATCTTTTACTCAAAGGTATTT
* * * * * *
1744569 AACCTTTCATCTAACTGGCATAATTGACACCTTTTTATCAAATCCATAGCTACGCCATTAAT
65 AACCTTTCATCTAACTGGCATAATTGACACCATTATGTCAAATGCACAGCTAGGCCATTAAT
1744631 ATTATATTTA
Statistics
Matches: 333, Mismatches: 31, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
241 2 0.01
242 182 0.55
243 149 0.45
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (243 bp):
GCATAATTGACACCTTTCTGTCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTA
ACCTTTCATCTAACTGGCATAATTGACACCATTATGTCAAATGCACAGCTAGGCCATTAATCTTG
TACTCAAAGGTATTTAACATTTCATCTAACTGACATAATTGACATCTTTCTATCAAATGCACAAC
TAGGCCATTAATATTTTACTCAAAGGTACTTAACCTTTCATCTAACCG
Found at i:1749371 original size:55 final size:55
Alignment explanation
Indices: 1749116--1749352 Score: 334
Period size: 55 Copynumber: 4.3 Consensus size: 55
1749106 ACACCCGATA
* * * * *
1749116 CCCATACGAAAATTTATACACCTGGTATGAATTTCCTT--GTTTTGCACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTT-CTTAAG-TTTACACATAAAGTG
* *
1749171 CCCATACAAAAATTCATCCACTTAGTATGAATTTCTCAAGTTTACACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* * *
1749226 TCCATCCGAAAATTTATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* *
1749281 GCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
1749336 CCCATACGAAAATTCAT
1 CCCATACGAAAATTCAT
1749353 AAACAAATTA
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
54 2 0.01
55 159 0.98
56 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (55 bp):
CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
Found at i:1753058 original size:55 final size:55
Alignment explanation
Indices: 1752977--1753426 Score: 471
Period size: 55 Copynumber: 8.1 Consensus size: 55
1752967 ACACCCACTA
* * * * * *
1752977 CCCATACGGAAATTTATACACCTAGTATGAATTTCAT-AGTTTTGCACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTG
* * *
1753032 CTCATACGAAAATTCATCCACTTAGTATGAAATTCTTAAGTTTACACATAAAATG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* * *
1753087 CCCATATAGAAAA-TCATCCACTTAGTATGTATTTCTTAAGTTTACACAAAAAGTG
1 CCCATA-CGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
1753142 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* *
1753197 CCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAGGTTT--ACATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* * * *
1753250 CACATATGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAAATAAAGTG
1 CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
* ** ** * * * *
1753305 TCCATAC-ATAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGA-AAATTCATCCACTTAGTATGAATTTCTTAA--GTTTACACATAAAGTG
** ** * * * *
1753362 CCCATAC-AGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGA-AAATTCATCCACTTAGTATGAATTTCTTAA--GTTTACACATAAAGTG
1753419 CCCATACG
1 CCCATACG
1753427 GTAATCATCA
Statistics
Matches: 347, Mismatches: 39, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
53 50 0.14
54 5 0.01
55 211 0.61
56 7 0.02
57 74 0.21
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (55 bp):
CCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTG
Found at i:1753376 original size:57 final size:57
Alignment explanation
Indices: 1753299--1753425 Score: 236
Period size: 57 Copynumber: 2.2 Consensus size: 57
1753289 GTTTACAAAT
* *
1753299 AAAGTGTCCATACATAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1 AAAGTGCCCATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1753356 AAAGTGCCCATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1 AAAGTGCCCATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1753413 AAAGTGCCCATAC
1 AAAGTGCCCATAC
1753426 GGTAATCATC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (57 bp):
AAAGTGCCCATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
Found at i:1753798 original size:19 final size:21
Alignment explanation
Indices: 1753758--1753800 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1753748 TACCCCTACC
1753758 ATGGTATCGATACTACTATATT
1 ATGGTATCGATACTAC-ATATT
1753780 ATGGTATCGATACT-C-TATT
1 ATGGTATCGATACTACATATT
1753799 AT
1 AT
1753801 TGCATTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (21 bp):
ATGGTATCGATACTACATATT
Found at i:1757682 original size:80 final size:81
Alignment explanation
Indices: 1757541--1758190 Score: 837
Period size: 81 Copynumber: 8.1 Consensus size: 81
1757531 GCCTTTAGTA
* * * * *
1757541 TTTTACCCAAAGGCT-TTTATCCTTTCATCTAACTTGCATGATTGACACCA-TTCTATCAAATGC
1 TTTTACTCAAAGG-TATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATGC
1757604 ACAGCTAGGCCATTAATC
64 ACAGCTAGGCCATTAATC
* * * *
1757622 TTTTACTCAAAGGTA-TTAACGTTTCATCTAACTAGCATAAATGA-ATCATTTATGTCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATGCA
*
1757685 CAACTAGGCCATTAATC
65 CAGCTAGGCCATTAATC
* *
1757702 TTTTACTCAAAGGTA-TTAACCTTTCATCTAACTGGTATAATTGACACATTTTTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
*
1757766 AGCTAGGCTATTAATC
66 AGCTAGGCCATTAATC
* *
1757782 TTTTACTCAAAGGTATTTAGCTTTTCATCTAACTGGCATAATTGACACA-TTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
* *
1757846 AGTTAGGTCATTAATC
66 AGCTAGGCCATTAATC
* * *
1757862 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGTAA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
*
1757927 AGCTAGGTCATTAATC
66 AGCTAGGCCATTAATC
* * * * * * *
1757943 CTTTAATCAAAGGTATTTAACATTTCATCTATCTGGCATAACTGACACTTTTCTATCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
*
1758008 AGCTAGGTCATTAATC
66 AGCTAGGCCATTAATC
* * * *
1758024 ATTTACTCAAAGGTATTTAACCTTTCATATAACTGGCATAATTGATACCTTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
* *
1758089 AACTAGGCTATTAATC
66 AGCTAGGCCATTAATC
* * * *
1758105 TTTTACTCAAAGGTATTTAAACTTTCATCTGA-TGGGCATAATTAACACATTTCTGCCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GGCATAATTGACACATTTCTGTCAAATGCA
* * *
1758169 TAGCTTGGCCATTAATG
65 CAGCTAGGCCATTAATC
1758186 TTTTA
1 TTTTA
1758191 TATAAAACAT
Statistics
Matches: 499, Mismatches: 64, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
79 3 0.01
80 213 0.43
81 283 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCAC
AGCTAGGCCATTAATC
Found at i:1758256 original size:2 final size:2
Alignment explanation
Indices: 1758251--1758281 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1758241 CATTATAAAC
1758251 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 A
1758282 ATAAAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1762136 original size:40 final size:40
Alignment explanation
Indices: 1762074--1762195 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
1762064 ACCGTAGTGC
* *** *
1762074 TACATATAAGGTCGTTATCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
1762114 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1762154 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1762194 TA
1 TA
1762196 TAAACCTGCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1766030 original size:25 final size:25
Alignment explanation
Indices: 1765971--1766020 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
1765961 ATTTTTTATC
1765971 AAAAG-AAAATAA-TATAAAATTTTA
1 AAAAGTAAAA-AATTATAAAATTTTA
1765995 AAAAGTAAAAAATTATAAAATTTTA
1 AAAAGTAAAAAATTATAAAATTTTA
1766020 A
1 A
1766021 GAATTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAGTAAAAAATTATAAAATTTTA
Found at i:1767030 original size:17 final size:17
Alignment explanation
Indices: 1767008--1767061 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1766998 AATGTTAATA
1767008 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1767025 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1767042 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1767059 TTT
1 TTT
1767062 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1767753 original size:8 final size:8
Alignment explanation
Indices: 1767740--1767780 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1767730 TCACAAGCTT
1767740 TCAAATTC
1 TCAAATTC
1767748 TCAAATTC
1 TCAAATTC
* *
1767756 CCAAACTC
1 TCAAATTC
1767764 T-AAATTC
1 TCAAATTC
1767771 TCAAATTC
1 TCAAATTC
1767779 TC
1 TC
1767781 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1772450 original size:24 final size:23
Alignment explanation
Indices: 1772423--1772475 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
1772413 ATTAAATAAC
* *
1772423 AAAAATTTAATTTAATTATAATA
1 AAAAATTTAATTCAAATATAATA
1772446 TAAAAATTTAATTCAAATATAATA
1 -AAAAATTTAATTCAAATATAATA
1772470 AAAAAT
1 AAAAAT
1772476 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATTTAATTCAAATATAATA
Found at i:1772455 original size:19 final size:19
Alignment explanation
Indices: 1772431--1772467 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1772421 ACAAAAATTT
1772431 AATTTAATT-ATAATATAAA
1 AATTTAATTCA-AATATAAA
1772450 AATTTAATTCAAATATAA
1 AATTTAATTCAAATATAA
1772468 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTAATTCAAATATAAA
Found at i:1778934 original size:16 final size:17
Alignment explanation
Indices: 1778913--1778950 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1778903 GTAAAATGAT
*
1778913 AATTTCATATT-AATTA
1 AATTTCAAATTCAATTA
1778929 AATTTCAAATTCAATTA
1 AATTTCAAATTCAATTA
*
1778946 TATTT
1 AATTT
1778951 AGTTAAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTCAAATTCAATTA
Found at i:1784573 original size:45 final size:45
Alignment explanation
Indices: 1784524--1784778 Score: 386
Period size: 45 Copynumber: 5.7 Consensus size: 45
1784514 CTTTTATGTT
* * * *
1784524 GATAATGCACCCATATGCATT-TCAACTATGGCATCCTTTCATGGC
1 GATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCATGCC
* *
1784569 GATAATGCACCCATATGCACTATTATTTTGGCATCCTTTCATCCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
* * *
1784614 GATAATGTACCCATGTTCATTATTATTTTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
1784659 GATAATGCACCCATATGCATTATTATTTTGGCATCTTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
1784704 GATAATGCACCCATGTGCATTATTATTTTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
1784749 GATAATGAACCCATATGCATTATTATTTTG
1 GATAATGCACCCATATGCATTATTATTTTG
1784779 TTCATTCATT
Statistics
Matches: 190, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 189 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
Found at i:1785277 original size:20 final size:20
Alignment explanation
Indices: 1785241--1785291 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1785231 TTTTTGATTG
*
1785241 GTATCGATACCTTCCCTTCA
1 GTATCGATACCTCCCCTTCA
*
1785261 GTATCGATACGC-CCCCTTCG
1 GTATCGATAC-CTCCCCTTCA
*
1785281 GTATCGGTACC
1 GTATCGATACC
1785292 GATTGAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (20 bp):
GTATCGATACCTCCCCTTCA
Found at i:1794926 original size:19 final size:19
Alignment explanation
Indices: 1794886--1794970 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
1794876 GCTTTCATAA
*
1794886 TTCAGATTCATAACTC-TT
1 TTCAGATTCAGAACTCATT
*
1794904 TTCAGATTCAGAACCCATT
1 TTCAGATTCAGAACTCATT
*
1794923 TTCAGATTCAAAACTCATT
1 TTCAGATTCAGAACTCATT
* *
1794942 TCCAAATTCAGAACTCATT
1 TTCAGATTCAGAACTCATT
1794961 TTCAGATTCA
1 TTCAGATTCA
1794971 TAGCCCAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
18 14 0.25
19 43 0.75
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (19 bp):
TTCAGATTCAGAACTCATT
Found at i:1795080 original size:34 final size:34
Alignment explanation
Indices: 1795042--1795114 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
1795032 TCCATGTGGT
1795042 ATCATCAGAAACAGAAATATGCACTCCAGGTGCA
1 ATCATCAGAAACAGAAATATGCACTCCAGGTGCA
* * *
1795076 ATCATCAGATACATAAATATGCACTCTAGGTGCA
1 ATCATCAGAAACAGAAATATGCACTCCAGGTGCA
1795110 ATCAT
1 ATCAT
1795115 ATAATGTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (34 bp):
ATCATCAGAAACAGAAATATGCACTCCAGGTGCA
Found at i:1802000 original size:18 final size:19
Alignment explanation
Indices: 1801972--1802045 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
1801962 ACCAGTACTT
1801972 TCATATTTCAGATTCATAAC
1 TCAT-TTTCAGATTCATAAC
*
1801992 TC-TTTTCAGATTCAGAAC
1 TCATTTTCAGATTCATAAC
* * *
1802010 TCGTTTTAAGATTCAAAAC
1 TCATTTTCAGATTCATAAC
*
1802029 TCATTTTCATATTCATA
1 TCATTTTCAGATTCATA
1802046 GCCCAATGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
18 16 0.35
19 28 0.61
20 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (19 bp):
TCATTTTCAGATTCATAAC
Found at i:1802773 original size:35 final size:35
Alignment explanation
Indices: 1802689--1802841 Score: 272
Period size: 35 Copynumber: 4.4 Consensus size: 35
1802679 GAAGATGTTC
*
1802689 TTTTTAGTCACGTACTTGATCTTTTGCTTCTGA-T
1 TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
1802723 TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
1 TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
*
1802758 TTTTTAGTCATGTATTTGATCTTTTGCTTCTGATT
1 TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
*
1802793 TTTTTAGTCACGTATTTGATATTTTGCTTCTGATT
1 TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
1802828 TTTTTAGTCACGTA
1 TTTTTAGTCACGTA
1802842 CTCACCTTGA
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 32 0.28
35 82 0.72
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (35 bp):
TTTTTAGTCACGTATTTGATCTTTTGCTTCTGATT
Found at i:1803678 original size:49 final size:49
Alignment explanation
Indices: 1803569--1803679 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
1803559 TTCTTGTTCT
* * *
1803569 TCTCTTTGTGAAGGTCAAATATGAAAATGTTGGTTATTTTTCTTTCTTC
1 TCTCTTTGTGAAGGTCAAATATAAAAATGTTGGTTATTTTGCTTTCATC
* **
1803618 TTTCTCCGTGAAGGTCAAA-ACTAAAAATGTTGGTTGA-TTTGC-TTCATC
1 TCTCTTTGTGAAGGTCAAATA-TAAAAATGTTGGTT-ATTTTGCTTTCATC
1803666 GTCTCTTTGTGAAG
1 -TCTCTTTGTGAAG
1803680 ATTAAATTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
48 6 0.12
49 43 0.86
50 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.43
Consensus pattern (49 bp):
TCTCTTTGTGAAGGTCAAATATAAAAATGTTGGTTATTTTGCTTTCATC
Found at i:1805976 original size:16 final size:16
Alignment explanation
Indices: 1805955--1805986 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1805945 AGGGAGAGTA
1805955 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
1805971 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
1805987 CAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTCAAACTTGATTT
Found at i:1807562 original size:13 final size:13
Alignment explanation
Indices: 1807558--1807634 Score: 73
Period size: 13 Copynumber: 5.3 Consensus size: 13
1807548 CCGTTTACCC
1807558 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1807571 TACCCGACCCGTT
1 GACCCGACCCGTT
1807584 GACCCGACTCGACTCGTT
1 GACCCGA--C--C-CGTT
1807602 GACCCGACCCGTT
1 GACCCGACCCGTT
1807615 GACCCGTTGACCCGTT
1 GACCC---GACCCGTT
1807631 GACC
1 GACC
1807635 GTTGACTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
13 27 0.50
14 1 0.02
15 1 0.02
16 13 0.24
17 1 0.02
18 11 0.20
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1807581 original size:18 final size:18
Alignment explanation
Indices: 1807536--1807581 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1807526 ACCGGTCACA
*
1807536 ACCCGACCCAACCCGTTT
1 ACCCGACCCGACCCGTTT
1807554 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
1807572 ACCCGACCCG
1 ACCCGACCCG
1807582 TTGACCCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.52, G:0.15, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:1807581 original size:31 final size:31
Alignment explanation
Indices: 1807540--1807620 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
1807530 GTCACAACCC
* *
1807540 GACCCAACCCGTTTACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* * *
1807571 TACCCGACCCGTTGACCCGACTCGACTCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
1807602 GACCCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
1807621 TTGACCCGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.17
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:1807638 original size:7 final size:8
Alignment explanation
Indices: 1807576--1807640 Score: 66
Period size: 8 Copynumber: 8.4 Consensus size: 8
1807566 CCGTTTACCC
1807576 GACCCGTT
1 GACCCGTT
*
1807584 GACCCGACTC
1 GACCCG--TT
*
1807594 GACTCGTT
1 GACCCGTT
1807602 GACCC---
1 GACCCGTT
1807607 GACCCGTT
1 GACCCGTT
1807615 GACCCGTT
1 GACCCGTT
1807623 GACCCGTT
1 GACCCGTT
1807631 GA-CCGTT
1 GACCCGTT
1807638 GAC
1 GAC
1807641 TACTGTTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
7 7 0.15
8 29 0.62
10 6 0.13
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:1808767 original size:18 final size:18
Alignment explanation
Indices: 1808741--1808775 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1808731 TCGAAAGGAC
*
1808741 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1808759 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1808776 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1812566 original size:13 final size:13
Alignment explanation
Indices: 1812547--1812623 Score: 73
Period size: 13 Copynumber: 5.3 Consensus size: 13
1812537 CCCGTTTACC
1812547 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1812560 TACCCGACCCGTT
1 GACCCGACCCGTT
1812573 GACCCGACTCGACTCGTT
1 GACCCGA--C--C-CGTT
1812591 GACCCGACCCGTT
1 GACCCGACCCGTT
1812604 GACCCGTTGACCCGTT
1 GACCC---GACCCGTT
1812620 GACC
1 GACC
1812624 GTTGACTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
13 27 0.50
14 1 0.02
15 1 0.02
16 13 0.24
17 1 0.02
18 11 0.20
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1812568 original size:18 final size:18
Alignment explanation
Indices: 1812526--1812570 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
1812516 ACCGGTCACA
*
1812526 ACCCGACCCAACCCGTTT
1 ACCCGACCCGACCCGTTT
1812544 A-CCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
1812561 ACCCGACCCG
1 ACCCGACCCG
1812571 TTGACCCGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.20, C:0.51, G:0.16, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:1812596 original size:31 final size:31
Alignment explanation
Indices: 1812530--1812609 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
1812520 GTCACAACCC
* *
1812530 GACCCAACCCGTTTA-CCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* * *
1812560 TACCCGACCCGTTGACCCGACTCGACTCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
1812591 GACCCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
1812610 TTGACCCGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.28
31 31 0.72
ACGTcount: A:0.17, C:0.45, G:0.20, T:0.17
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:1812627 original size:7 final size:8
Alignment explanation
Indices: 1812565--1812629 Score: 66
Period size: 8 Copynumber: 8.4 Consensus size: 8
1812555 CCGTTTACCC
1812565 GACCCGTT
1 GACCCGTT
*
1812573 GACCCGACTC
1 GACCCG--TT
*
1812583 GACTCGTT
1 GACCCGTT
1812591 GACCC---
1 GACCCGTT
1812596 GACCCGTT
1 GACCCGTT
1812604 GACCCGTT
1 GACCCGTT
1812612 GACCCGTT
1 GACCCGTT
1812620 GA-CCGTT
1 GACCCGTT
1812627 GAC
1 GAC
1812630 TACTGTTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
7 7 0.15
8 29 0.62
10 6 0.13
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:1813755 original size:18 final size:18
Alignment explanation
Indices: 1813729--1813763 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1813719 TCGAAAGGAC
*
1813729 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1813747 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1813764 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1816999 original size:54 final size:54
Alignment explanation
Indices: 1816936--1817424 Score: 631
Period size: 54 Copynumber: 8.9 Consensus size: 54
1816926 GATTATCAAA
1816936 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* **
1816990 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAAAAATTGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* *
1817044 TCGACACTAAGTGTGCAGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTT
1 TCGGCACTAA--GT---GTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
*** * * *
1817103 TCAATACTAAGTGTGCAATTCACGGAATTCATCATATGTTAATGAAAAACCATT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* * * * * *
1817157 TCTGCATTAAGTGTGCAATTCACAGATTTCATCATATGTTGATGAATAATCATT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* * *
1817211 TCGGCACTAAGTGTGCAATTCATGGAAGTCATCATATGTTGATGAATAATCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* *
1817265 TCGACACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* * *
1817319 TCGGCACTAAATGTGCAATTCACGGAATTCATCATATGTTTATGAATAACCATT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* * * *
1817373 TTGGCACTATA-TGTGCAAATCCACGAAATTCATCAT-TAGTTGATGAAAAACC
1 TCGGCACTA-AGTGTGC-AATTCACGGAATTCATCATAT-GTTGATGAATAACC
1817425 ATACATGCAC
Statistics
Matches: 382, Mismatches: 45, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
54 302 0.79
55 30 0.08
56 2 0.01
57 2 0.01
59 46 0.12
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (54 bp):
TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
Found at i:1822586 original size:54 final size:54
Alignment explanation
Indices: 1822527--1823166 Score: 757
Period size: 54 Copynumber: 11.9 Consensus size: 54
1822517 ATCAAATCGA
* * * *
1822527 CACTAAGTGTGCAATTCATGGAATTCATCATATGTTGGTGAATAACCGTTTTGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * *
1822581 TACTAAGTGTGTAATTCACGGAATTCATCATATTTTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * * *
1822635 AACTATGTGTTCAATTCACGAAATTCATCATATATTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * **
1822689 CACTGA-TGTGCAATTCACAGAATCCATCATATGTTGATGAATAACTGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * *
1822742 CACTGAGCT-TGCAATTCACAGAATTCATCATATGTTGGTGAATAACCGTTTCGG
1 CACTAAG-TGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * * * * *
1822796 CACAAAGCGTGCAATTCACGAAATTTAGCATATGTTTATAAATAACCATTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * *
1822850 TACTCAGTGTGCAATTCACGGAATTTATCATATGTTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* *
1822904 CACTATGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* ** *
1822958 CACTAAGTATGCAATTCACGGAATTCATCATATGTTGATGAATAATTATTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * *
1823012 CACTAAGTGTGCTATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * * *
1823066 CACT-AGATGTGCAATTCACAGAATTCAGCATATGTTGATGAATAATCGTTTTGG
1 CACTAAG-TGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
* * * * * *
1823120 TAGTATGCGTGCAAATCCAAGGAATTCATCAT-TAGTTGATGAATAAC
1 CACTAAGTGTGC-AATTCACGGAATTCATCATAT-GTTGATGAATAAC
1823167 AGTACAAGCA
Statistics
Matches: 503, Mismatches: 76, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
53 48 0.10
54 426 0.85
55 29 0.06
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGG
Found at i:1822910 original size:27 final size:27
Alignment explanation
Indices: 1822880--1822962 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
1822870 GAATTTATCA
1822880 TATGTTGATGAATAACCATTTCGGCAC
1 TATGTTGATGAATAACCATTTCGGCAC
* * * **
1822907 TATG-TG-TGCAATTCACGAAATTCATCA-
1 TATGTTGATG-AA-TAAC-CATTTCGGCAC
1822934 TATGTTGATGAATAACCATTTCGGCAC
1 TATGTTGATGAATAACCATTTCGGCAC
1822961 TA
1 TA
1822963 AGTATGCAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 2 0.05
26 10 0.25
27 16 0.40
28 10 0.25
29 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (27 bp):
TATGTTGATGAATAACCATTTCGGCAC
Found at i:1824899 original size:61 final size:61
Alignment explanation
Indices: 1824803--1824934 Score: 194
Period size: 61 Copynumber: 2.2 Consensus size: 61
1824793 GTTCTATTGG
* * *
1824803 AACTCTATTTCTATTTACTAATAGGATTAGCATAAGTCAAAAGGATGTAATATACAATTTA
1 AACTCTATATCTATTTACTAATAGGATTAGAATAAGTCAAAAGAATGTAATATACAATTTA
* * *
1824864 AACTCTATATCTATTT-TTAAATATGATTAGAATAAGTCAAAAGAATTTAATATACAATTTA
1 AACTCTATATCTATTTACT-AATAGGATTAGAATAAGTCAAAAGAATGTAATATACAATTTA
1824925 AACTCTATAT
1 AACTCTATAT
1824935 TCTCATATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 1 0.02
61 63 0.98
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (61 bp):
AACTCTATATCTATTTACTAATAGGATTAGAATAAGTCAAAAGAATGTAATATACAATTTA
Found at i:1826057 original size:164 final size:166
Alignment explanation
Indices: 1825785--1826115 Score: 639
Period size: 164 Copynumber: 2.0 Consensus size: 166
1825775 AGATTCACAA
1825785 TCTACAACTACTAAGCTTTCATTCAAACCCTCTTTTCATAAGATTTGGCTTTGTTACCCAAAAGG
1 TCTACAACTACTAAGCTTTCATTCAAACCCTCTTTTCATAAGATTTGGCTTTGTTACCCAAAAGG
1825850 GGTTTTAGTAGGGGTTTAAGAAACCTTGAGTTATATCAAGTTTTGTGGGGTTTGAGTGGTAAGGA
66 GGTTTTAGTAGGGGTTTAAGAAACCTTGAGTTATATCAAGTTTTGTGGGGTTTGAGTGGTAAGGA
1825915 AACG-TTTAACTTTGTGTCAAGAATTTCAATGAGTT
131 AACGTTTTAACTTTGTGTCAAGAATTTCAATGAGTT
1825950 TCTACAACTACTAAGCTTTCATTCAAACCCTC-TTTCATAAGATTTGGCTTTGTTACCCAAAAGG
1 TCTACAACTACTAAGCTTTCATTCAAACCCTCTTTTCATAAGATTTGGCTTTGTTACCCAAAAGG
1826014 GGTTTTAGTAGGGGTTTAAGAAACCTTGAGTTATATCAAGTTTTGTGGGGTTTGAGTGGTAAGGA
66 GGTTTTAGTAGGGGTTTAAGAAACCTTGAGTTATATCAAGTTTTGTGGGGTTTGAGTGGTAAGGA
1826079 AACGTTTTTAACTTTGTGTCAAGAATTTCAATGAGTT
131 AACG-TTTTAACTTTGTGTCAAGAATTTCAATGAGTT
1826116 AGTTGCCCAT
Statistics
Matches: 164, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
164 101 0.62
165 32 0.20
166 31 0.19
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (166 bp):
TCTACAACTACTAAGCTTTCATTCAAACCCTCTTTTCATAAGATTTGGCTTTGTTACCCAAAAGG
GGTTTTAGTAGGGGTTTAAGAAACCTTGAGTTATATCAAGTTTTGTGGGGTTTGAGTGGTAAGGA
AACGTTTTAACTTTGTGTCAAGAATTTCAATGAGTT
Found at i:1835474 original size:45 final size:45
Alignment explanation
Indices: 1835346--1835499 Score: 229
Period size: 45 Copynumber: 3.4 Consensus size: 45
1835336 TATAAAATCT
*
1835346 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
1835391 CTTACCATTTAATACCATCAGCTCGTAAGCTTATTTTACTAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
1835437 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
1835482 CTTGCCA-TTATTCCATAA
1 CTTACCATTTATTCCATAA
1835500 CCATATACCA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 10 0.10
45 46 0.47
46 42 0.43
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:1835521 original size:20 final size:20
Alignment explanation
Indices: 1835496--1835538 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1835486 CCATTATTCC
* *
1835496 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
1835516 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
1835536 ATA
1 ATA
1835539 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:1835693 original size:60 final size:59
Alignment explanation
Indices: 1835600--1835729 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 59
1835590 CGCAGTGCAA
* ** * **
1835600 TCCCGAATATGACACATAAGGTCGTGTTCACCATCTGTACTAGGTATCCTTAAGTACATT
1 TCCCGAATATGACACATAAGGTCATGACCACCATATACACTAGGTATCCTTAAGTACA-T
* **
1835660 TCCCGAATATGACACATAAGGTCATGACCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGACCACCATATACACTAGGTATCCTTAAGTACAT
1835719 TCCCGAATATG
1 TCCCGAATATG
1835730 CAGCCTGCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 12 0.20
60 49 0.80
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGACCACCATATACACTAGGTATCCTTAAGTACAT
Found at i:1838292 original size:21 final size:21
Alignment explanation
Indices: 1838266--1838315 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1838256 CAAACCATAA
1838266 GTTATATGATACGAATAAGTT
1 GTTATATGATACGAATAAGTT
*
1838287 GTTATATGATATGAATAAGTT
1 GTTATATGATACGAATAAGTT
*
1838308 ATTATATG
1 GTTATATG
1838316 TACATGATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (21 bp):
GTTATATGATACGAATAAGTT
Found at i:1838743 original size:23 final size:23
Alignment explanation
Indices: 1838716--1838778 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1838706 CATTTTATAT
1838716 GGCACTTCGGTGCATTTCTACAC
1 GGCACTTCGGTGCATTTCTACAC
* ***
1838739 GGCACTTCGGTGCAATTCTATGT
1 GGCACTTCGGTGCATTTCTACAC
1838762 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
1838779 ATACGAGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACAC
Found at i:1839994 original size:20 final size:20
Alignment explanation
Indices: 1839969--1840021 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1839959 CCTCAAGGAT
1839969 TATCGATACTCAGGGTCCAA
1 TATCGATACTCAGGGTCCAA
*
1839989 TATCGATACTCAGGGTCCAG
1 TATCGATACTCAGGGTCCAA
1840009 TATCGATACTCAG
1 TATCGATACTCAG
1840022 AGGGTAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (20 bp):
TATCGATACTCAGGGTCCAA
Found at i:1840030 original size:20 final size:19
Alignment explanation
Indices: 1839969--1840038 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 19
1839959 CCTCAAGGAT
*
1839969 TATCGATACTCAGGGTCCAA
1 TATCGATACTCAGGGT-CAG
1839989 TATCGATACTCAGGGTCCAG
1 TATCGATACTCAGGGT-CAG
1840009 TATCGATACTCAGAGGGT-AG
1 TATCGATACTC--AGGGTCAG
1840029 TATCGATACT
1 TATCGATACT
1840039 GGTGGCAAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
20 42 0.89
22 5 0.11
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (19 bp):
TATCGATACTCAGGGTCAG
Found at i:1840098 original size:17 final size:18
Alignment explanation
Indices: 1840073--1840119 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1840063 GCCAAATTTG
* *
1840073 GTATTGATACTCAG-GGA
1 GTATCGATACTCAGTAGA
* *
1840090 GTATCGATACTAAGTATA
1 GTATCGATACTCAGTAGA
1840108 GTATCGATACTC
1 GTATCGATACTC
1840120 CCTATAGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (18 bp):
GTATCGATACTCAGTAGA
Found at i:1842232 original size:31 final size:31
Alignment explanation
Indices: 1842197--1842257 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1842187 TTTGAATTAA
* *
1842197 CATAA-ATATATTTAATACATAAAAATATATG
1 CATAATATATACTT-ATAAATAAAAATATATG
*
1842228 CATAATATATACTTATAAATATAAATATAT
1 CATAATATATACTTATAAATAAAAATATAT
1842258 AAATTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (31 bp):
CATAATATATACTTATAAATAAAAATATATG
Found at i:1845433 original size:19 final size:19
Alignment explanation
Indices: 1845409--1845445 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1845399 TTATCAGTTG
1845409 CAATTTTGCTCTATCCGAA
1 CAATTTTGCTCTATCCGAA
1845428 CAATTTTGCTCTATCCGA
1 CAATTTTGCTCTATCCGA
1845446 TAGCCGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (19 bp):
CAATTTTGCTCTATCCGAA
Found at i:1851248 original size:32 final size:31
Alignment explanation
Indices: 1851184--1851254 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
1851174 ATGGAAGTGG
*
1851184 AGTGGCCATTTTGTTATAGATTAATAACGTT
1 AGTGACCATTTTGTTATAGATTAATAACGTT
**
1851215 AGTGACCATTTTGTT-TAGAAATTAATATTGTT
1 AGTGACCATTTTGTTATAG--ATTAATAACGTT
1851247 AGTGACCA
1 AGTGACCA
1851255 ATATGTCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 3 0.09
31 14 0.40
32 18 0.51
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (31 bp):
AGTGACCATTTTGTTATAGATTAATAACGTT
Found at i:1852903 original size:16 final size:17
Alignment explanation
Indices: 1852882--1852916 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1852872 ATACAAACAA
1852882 AAAATATA-ATTATAAT
1 AAAATATATATTATAAT
*
1852898 AAAATATATTTTATAAT
1 AAAATATATATTATAAT
1852915 AA
1 AA
1852917 CTCACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATATATTATAAT
Found at i:1853749 original size:393 final size:396
Alignment explanation
Indices: 1853017--1853806 Score: 1135
Period size: 393 Copynumber: 2.0 Consensus size: 396
1853007 TTAGTATTAA
* * * *
1853017 ATTATTAAAATGAAATGTAAATACATAATTGAGTGGAGCCCATGCATTACTAAGGGTGAAATTAT
1 ATTATTAAAATAAAATGTAAATACATAATAGAGTAGAGCCCATGCATTACTAAGGGTAAAATTAT
*
1853082 AATTTGCTTCCAAATGAACATTTGAAAATAAAAAAAGCTAGAAATCCTAGCTTTTGCAATTGGTT
66 AATTTGCTTCCAAATGAACATTTGAAAATAAAAAAAGCTAGAAATCCTAACTTTTGCAATTGGTT
* * * *
1853147 TGAAACCGTCGTTTCCACCACAATTTTTCCTTTCATTTTTTACCATTTGACATTGATTTTACAGT
131 TGAAACCATCATTTCCACCACAATTGTT-CTTTCACTTTTTACCATTTGACATTGATTTTACAGT
* * * * * *
1853212 CAAAACGAATTTTTTAGCTAAAAATATTTTTAGAATGTCACATCAAACGGAACCTAAAACAAAAT
195 CAAAACAAACTTTTTAGCTAAAAATATGTTTAGAAAGTCACACCAAACGGAAACTAAAACAAAAT
* *
1853277 AGTATATAATTTTCTTTACTTCATTTACAACTCTCTAAATTATTTTTAAACCATATAATTGAATT
260 AGTATATAATTTTCTTTACTTCATTTACAACTCTCTAAATTATTTTTAAACCATATAATTAAACT
* *
1853342 AAAAGAAATTCAATATTCCAACATAAGTAAAACCCAAATGTCTCCGTATTTTCTGTGCAAAACCT
325 AAAAGAAATTCAATATTCCAACATAAGTAAAACCCAAATGTCTCCATATTTT-TGTACAAAACCT
1853407 ACAATTCT
389 ACAATTCT
* * * *
1853415 ATTATTAAAATAAAATGTAAATACGTAATAGAGTATAGTCCATGCATTAGTAAGGGTAAAATTAT
1 ATTATTAAAATAAAATGTAAATACATAATAGAGTAGAGCCCATGCATTACTAAGGGTAAAATTAT
* * * ***
1853480 AATTTGCTTCCAAACTTAA-ATTTGAAAAT-GAAAAAGCTAGAAATCCTAATTTTTGTGGTTGGT
66 AATTTGCTTCCAAA-TGAACATTTGAAAATAAAAAAAGCTAGAAATCCTAACTTTTGCAATTGGT
* * **
1853543 TTGAAACCATTATTTTCACTGCAATTGTT-TTTCACTTTTTACCATTTGACATTGATTTTACAGT
130 TTGAAACCATCATTTCCACCACAATTGTTCTTTCACTTTTTACCATTTGACATTGATTTTACAGT
*
1853607 CAAAACAAACTTTTTAGCT-AAAA-GTGTTTAGAAAGTCACACCAAAC-GAAGACTAAAACAAAA
195 CAAAACAAACTTTTTAGCTAAAAATATGTTTAGAAAGTCACACCAAACGGAA-ACTAAAACAAAA
*
1853669 TAGTATACT-ATTTTCTTTACTTCATTTACAACTCTCTAAATTCTTTTTAAACCATATAATTAAA
259 TAGTATA-TAATTTTCTTTACTTCATTTACAACTCTCTAAATTATTTTTAAACCATATAATTAAA
* * * *
1853733 CTAAAAGAAGTTCAATATTCCAACATAAGTAAAACCCAAATGTTTCCATATTTTTTTACATAACC
323 CTAAAAGAAATTCAATATTCCAACATAAGTAAAACCCAAATGTCTCCATATTTTTGTACAAAACC
1853798 TACAATTCT
388 TACAATTCT
1853807 CGGTTAATTG
Statistics
Matches: 350, Mismatches: 39, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
392 20 0.06
393 140 0.40
394 5 0.01
395 51 0.15
397 50 0.14
398 81 0.23
399 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (396 bp):
ATTATTAAAATAAAATGTAAATACATAATAGAGTAGAGCCCATGCATTACTAAGGGTAAAATTAT
AATTTGCTTCCAAATGAACATTTGAAAATAAAAAAAGCTAGAAATCCTAACTTTTGCAATTGGTT
TGAAACCATCATTTCCACCACAATTGTTCTTTCACTTTTTACCATTTGACATTGATTTTACAGTC
AAAACAAACTTTTTAGCTAAAAATATGTTTAGAAAGTCACACCAAACGGAAACTAAAACAAAATA
GTATATAATTTTCTTTACTTCATTTACAACTCTCTAAATTATTTTTAAACCATATAATTAAACTA
AAAGAAATTCAATATTCCAACATAAGTAAAACCCAAATGTCTCCATATTTTTGTACAAAACCTAC
AATTCT
Found at i:1858741 original size:13 final size:12
Alignment explanation
Indices: 1858717--1858761 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
1858707 GGTGGTATCA
1858717 TAGGTAGATAAC
1 TAGGTAGATAAC
*
1858729 TAGTGTAGCTAAC
1 TAG-GTAGATAAC
*
1858742 TAGGTAGATAGC
1 TAGGTAGATAAC
1858754 TTAGGTAG
1 -TAGGTAG
1858762 CTAGTTAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (12 bp):
TAGGTAGATAAC
Found at i:1858751 original size:25 final size:25
Alignment explanation
Indices: 1858717--1858764 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1858707 GGTGGTATCA
1858717 TAGGTAGATAAC-TAGTGTAGCTAAC
1 TAGGTAGATAACTTAG-GTAGCTAAC
*
1858742 TAGGTAGATAGCTTAGGTAGCTA
1 TAGGTAGATAACTTAGGTAGCTA
1858765 GTTAGTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
TAGGTAGATAACTTAGGTAGCTAAC
Found at i:1860227 original size:3 final size:3
Alignment explanation
Indices: 1860219--1860272 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
1860209 TTTTAAAAAA
* * *
1860219 TAT TAT TAT TAT TAAT TAT TGT TAT TAT TGT TAT T-T TAT TAA TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1860264 TATT TAT TA
1 TA-T TAT TA
1860273 CATTTGCAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 34 0.81
4 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1867583 original size:7 final size:6
Alignment explanation
Indices: 1867555--1867635 Score: 71
Period size: 6 Copynumber: 13.5 Consensus size: 6
1867545 ATCTATCGGG
*
1867555 GAAAAA -AAGAAA GAAAAA GAAAAA GGAAAAA G-AAAA GAAAAAA AAAAAA
1 GAAAAA GAA-AAA GAAAAA GAAAAA -GAAAAA GAAAAA G-AAAAA GAAAAA
* *
1867604 AAAAAA GAGAAAA G-AAAA GAAGAA -AAAAA GAA
1 GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA GAA
1867636 TTTGGAACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 16 0.25
6 30 0.48
7 17 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:1867590 original size:5 final size:5
Alignment explanation
Indices: 1867559--1867635 Score: 57
Period size: 5 Copynumber: 14.4 Consensus size: 5
1867549 ATCGGGGAAA
* * *
1867559 AAAAG -AAAG AAAAAG AAAAAGG AAAAAG AAAAG AAAAA AAAAA AAAAA
1 AAAAG AAAAG -AAAAG -AAAA-G -AAAAG AAAAG AAAAG AAAAG AAAAG
*
1867607 AAAGAG AAAAG AAAAG AAGAAA AAAAG AA
1 AAA-AG AAAAG AAAAG AA-AAG AAAAG AA
1867636 TTTGGAACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.06
5 35 0.56
6 18 0.29
7 6 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1867591 original size:24 final size:23
Alignment explanation
Indices: 1867558--1867635 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
1867548 TATCGGGGAA
1867558 AAAAAG-AAAGAAAAAGAAAAAGG
1 AAAAAGAAAAGAAAAAGAAAAA-G
1867581 AAAAAGAAAAG-AAAA-AAAAA-
1 AAAAAGAAAAGAAAAAGAAAAAG
1867601 AAAAA-AAAAGAGAAAAG-AAAAG
1 AAAAAGAAAAGA-AAAAGAAAAAG
1867623 AAGAAA-AAAAGAA
1 AA-AAAGAAAAGAA
1867636 TTTGGAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.10
20 5 0.10
21 8 0.16
22 8 0.16
23 19 0.39
24 4 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAGAAAAAGAAAAAG
Found at i:1867603 original size:31 final size:31
Alignment explanation
Indices: 1867558--1867632 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 31
1867548 TATCGGGGAA
1867558 AAAAAGAAAGAAAAAGAAAAAG-GAAAAAGAAAAG
1 AAAAA-AAA-AAAAA-AAAAAGAG-AAAAGAAAAG
1867592 AAAAAAAAAAAAAAAAAAGAGAAAAGAAAAG
1 AAAAAAAAAAAAAAAAAAGAGAAAAGAAAAG
*
1867623 AAGAAAAAAA
1 AAAAAAAAAA
1867633 GAATTTGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 25 0.64
32 6 0.15
33 3 0.08
34 5 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAAAAGAGAAAAGAAAAG
Found at i:1867631 original size:23 final size:22
Alignment explanation
Indices: 1867559--1867634 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
1867549 ATCGGGGAAA
*
1867559 AAAAGAAAGA-AAAAGAAAAAGG
1 AAAA-AAAGAGAAAAGAAAAAAG
* *
1867581 AAAAAGAAAAGAAAA-AAAAAAA
1 AAAAA-AAGAGAAAAGAAAAAAG
1867603 AAAAAAAGAGAAAAGAAAAGAAG
1 AAAAAAAGAGAAAAGAAAA-AAG
1867626 AAAAAAAGA
1 AAAAAAAGA
1867635 ATTTGGAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.20
22 21 0.47
23 15 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAGAAAAGAAAAAAG
Found at i:1869028 original size:51 final size:52
Alignment explanation
Indices: 1868920--1869111 Score: 280
Period size: 52 Copynumber: 3.7 Consensus size: 52
1868910 TATATTATCT
*
1868920 ATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAGTAATCC
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAGTAATCC
* *
1868972 ATGTGAGGCATCTTGAAGGTTCACATCAGCAT-AAAAAGACAGAAGTAATCC
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAGTAATCC
* * * *
1869023 ATGTGAGGCATCTTGAAGGTTCACATCAGCATGAAAAAGAAAGATA-TTATCC
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGA-AGTAATCC
* *
1869075 ATGTGGGGCATCTTGAAGGCTCATATCAACATGAAAA
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAA
1869112 GGTTGGGATA
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
51 51 0.40
52 77 0.60
53 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (52 bp):
ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAGTAATCC
Found at i:1869112 original size:103 final size:103
Alignment explanation
Indices: 1868920--1869112 Score: 280
Period size: 103 Copynumber: 1.9 Consensus size: 103
1868910 TATATTATCT
* *
1868920 ATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAGTAATCCATGTGAGGCATCT
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGAAAGAAGTAATCCATGTGAGGCATCT
* *
1868985 TGAAGGTTCACATCAGCATAAAAAGACAGAAGTAATCC
66 TGAAGGCTCACATCAACATAAAAAGACAGAAGTAATCC
* * * *
1869023 ATGTGAGGCATCTTGAAGGTTCACATCAGCATGAAAAAGAAAGATA-TTATCCATGTGGGGCATC
1 ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGAAAGA-AGTAATCCATGTGAGGCATC
* *
1869087 TTGAAGGCTCATATCAACATGAAAAG
65 TTGAAGGCTCACATCAACATAAAAAG
1869113 GTTGGGATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 78 0.99
104 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (103 bp):
ATGTGAGGCATCTTGAAGGCTCACATCAACATGAAAAAGAAAGAAGTAATCCATGTGAGGCATCT
TGAAGGCTCACATCAACATAAAAAGACAGAAGTAATCC
Found at i:1871393 original size:43 final size:41
Alignment explanation
Indices: 1871340--1871498 Score: 119
Period size: 46 Copynumber: 3.7 Consensus size: 41
1871330 CACCCGACCA
1871340 TATCTCCTCATCACATAGGAACCGTGTCAACCTTTGATAACC
1 TATCTCCTCATCACATAGGAACCGTGTCAACCTTTGAT-ACC
* * *
1871382 TATCGTCCTCATCACGTAGGAACCGTGTTATCACTTATAGATGGA-C
1 TATC-TCCTCATCACATAGGAACCGTGTCAAC-CTT-T-GAT--ACC
* * * *
1871428 -AGTCGTCCTCATCACGTAGGAACCGTGTCATCATTTG--ACA
1 TA-TC-TCCTCATCACATAGGAACCGTGTCAACCTTTGATACC
* *
1871468 TGATCTCCTTATCACATAGGAGCCGTGTCAA
1 T-ATCTCCTCATCACATAGGAACCGTGTCAA
1871499 TCCTCGATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
39 1 0.01
40 22 0.23
41 2 0.02
42 5 0.05
43 25 0.26
44 4 0.04
45 4 0.04
46 33 0.34
47 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
TATCTCCTCATCACATAGGAACCGTGTCAACCTTTGATACC
Found at i:1871408 original size:129 final size:129
Alignment explanation
Indices: 1871214--1871726 Score: 464
Period size: 129 Copynumber: 3.9 Consensus size: 129
1871204 TGACCTGATT
* * * * **
1871214 TCCTCATCACGTAGGAACCGTGTCACCTCTTTGATAACCAACCGTATTCATCACGTAGGAACCGT
1 TCCTCATCACATAGGAACCGTGTCA-ATCCTTGATAACC-ATCGTCCTCATCACGTAGGAACCGT
1871279 GTTATCATCTTATA-ATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCCGACCATAT
64 GTTATCATCTTATAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCCGACCATAT
1871343 C
129 C
1871344 TCCTCATCACATAGGAACCGTGTCAA-CCTTTGATAACCTATCGTCCTCATCACGTAGGAACCGT
1 TCCTCATCACATAGGAACCGTGTCAATCC-TTGATAACC-ATCGTCCTCATCACGTAGGAACCGT
* * * * ** ***
1871408 GTTATCA-CTTATAGATGGACAG-TCGTCCTCATCACGTAGGAACCGTGTCATCATTTGA-CATG
64 GTTATCATCTTATAGATGGCCAGAAC-TCTTCATCACGTATGAGTCGTGTCATCACCCGACCAT-
1871470 ATC
127 ATC
* * * * * * **
1871473 TCCTTATCACATAGGAGCCGTGTCAATCCTCGATAACCAGAAC-TCTTCATCACGTATGAGTCGT
1 TCCTCATCACATAGGAACCGTGTCAATCCTTGATAACC--ATCGTCCTCATCACGTAGGAACCGT
* ** * * *
1871537 GTTATCACCTT-TAGATGGCCAGAACTCTTCATCATATATAAGTCGTGTCATCACCCGACTAGAT
64 GTTATCATCTTATAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCCGACCATAT
*
1871601 T
129 C
* ** * * * * *
1871602 TCCTCATTATGTAAGAATCGTGTCAATCCTTGATAACCAGTCATCCTCATCACGTAGGAACAGAG
1 TCCTCATCACATAGGAACCGTGTCAATCCTTGATAACCA-TCGTCCTCATCACGTAGGAACCGTG
* * * * *
1871667 TTATCACCCTTCCTAAAGATGGCAAAGAACTCTTCATCATGTATGAGTAGTGTCATCACC
65 TTATCA----TCTTATAGATGGC-CAGAACTCTTCATCACGTATGAGTCGTGTCATCACC
1871727 TGACTAGGTT
Statistics
Matches: 304, Mismatches: 62, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
127 1 0.00
128 12 0.04
129 217 0.71
130 33 0.11
133 2 0.01
134 7 0.02
135 32 0.11
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (129 bp):
TCCTCATCACATAGGAACCGTGTCAATCCTTGATAACCATCGTCCTCATCACGTAGGAACCGTGT
TATCATCTTATAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCCGACCATATC
Found at i:1871963 original size:3 final size:3
Alignment explanation
Indices: 1871955--1872013 Score: 57
Period size: 3 Copynumber: 18.7 Consensus size: 3
1871945 TTTTAAAAAA
* *
1871955 TAT TAT TAT TAT ATAT TAT TAT TAT TAAT TAT TGT TAT TTT TA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
1872001 ATAT TATT TAT TA
1 -TAT TA-T TAT TA
1872014 CATTTGTAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
2 2 0.04
3 33 0.70
4 12 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1871972 original size:13 final size:13
Alignment explanation
Indices: 1871954--1872013 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
1871944 CTTTTAAAAA
1871954 ATATTATTATTAT
1 ATATTATTATTAT
1871967 ATATTATTATTAT
1 ATATTATTATTAT
*
1871980 -TA--ATTATTGT
1 ATATTATTATTAT
*
1871990 -TATTTTTA-TAT
1 ATATTATTATTAT
1872001 ATATTATTTATTA
1 ATATTA-TTATTA
1872014 CATTTGTAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 9 0.24
13 16 0.42
14 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
ATATTATTATTAT
Found at i:1871976 original size:16 final size:16
Alignment explanation
Indices: 1871955--1872013 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
1871945 TTTTAAAAAA
1871955 TATTATTATTATATAT
1 TATTATTATTATATAT
1871971 TATTATTATTA-ATTAT
1 TATTATTATTATA-TAT
* *
1871987 TGTTATTTTTATATA-
1 TATTATTATTATATAT
1872002 TATTATTTATTA
1 TATTA-TTATTA
1872014 CATTTGTAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 5 0.14
16 30 0.83
17 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTATTATATAT
Found at i:1873343 original size:20 final size:21
Alignment explanation
Indices: 1873318--1873356 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1873308 CACCTGCACT
*
1873318 AATGCATCGATGCA-TCATGC
1 AATGCATCCATGCACTCATGC
1873338 AATGCATCCATGCACTCAT
1 AATGCATCCATGCACTCAT
1873357 AAATCGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (21 bp):
AATGCATCCATGCACTCATGC
Found at i:1881607 original size:21 final size:21
Alignment explanation
Indices: 1881570--1881609 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1881560 ACCCCTTTGA
*
1881570 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
1881591 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
1881610 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:1886214 original size:29 final size:30
Alignment explanation
Indices: 1886145--1886203 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1886135 CAATTTAAGG
*
1886145 CAAAATATTTTTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1886175 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1886204 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1886564 original size:20 final size:20
Alignment explanation
Indices: 1886526--1886581 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 20
1886516 TTTGAGTAGA
1886526 AAAATCATCCCCAAACAGCTCC
1 AAAA-CATCCCC-AACAGCTCC
1886548 AAAACATCCCCAACAGCTCC
1 AAAACATCCCCAACAGCTCC
1886568 AAAACATCCCCAAC
1 AAAACATCCCCAAC
1886582 GGCTATATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 23 0.68
21 7 0.21
22 4 0.12
ACGTcount: A:0.43, C:0.43, G:0.04, T:0.11
Consensus pattern (20 bp):
AAAACATCCCCAACAGCTCC
Found at i:1887406 original size:20 final size:21
Alignment explanation
Indices: 1887381--1887473 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
1887371 TTTTCCCAAT
*
1887381 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1887401 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
1887422 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1887442 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1887463 TCGCAATGCGA
1 TCGCAATGCGA
1887474 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1887426 original size:41 final size:41
Alignment explanation
Indices: 1887381--1887473 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1887371 TTTTCCCAAT
1887381 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1887422 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1887463 TCGCAATGCGA
1 TCGCAATGCGA
1887474 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Done.