Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006633.1 Hibiscus syriacus cultivar Beakdansim tig00016301_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: 95510
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:437 original size:16 final size:17
Alignment explanation
Indices: 408--439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
398 TAGTTATCTT
408 AAAAAATTATTTAATTC
1 AAAAAATTATTTAATTC
425 AAAAAATTA-TTAATT
1 AAAAAATTATTTAATT
440 TACTAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATTATTTAATTC
Found at i:879 original size:67 final size:67
Alignment explanation
Indices: 744--871 Score: 188
Period size: 65 Copynumber: 1.9 Consensus size: 67
734 AGCAACGATA
* * *
744 TTAATGAGCTTAACGAGCAATGGGTCAAGCAACAAAATTTCTTAATGAACACGAGTCGAGCAAAA
1 TTAATGAGCTTAACGAGCAACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAAAA
809 TT
66 TT
* * *
811 TTAATGAGCTTAACGAGC-ACGAGTCGAGCAAC-AAATTTCTTAACGAGCACGAGTTGAGCAA
1 TTAATGAGCTTAACGAGCAACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAA
872 CAAATTTTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 26 0.47
66 11 0.20
67 18 0.33
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (67 bp):
TTAATGAGCTTAACGAGCAACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAAAA
TT
Found at i:891 original size:31 final size:30
Alignment explanation
Indices: 752--896 Score: 121
Period size: 30 Copynumber: 4.6 Consensus size: 30
742 TATTAATGAG
* * *
752 CTTAACGAGCAATGGGTCAAGCAACAAAATTT
1 CTTAACGAGC-ACGAGTCGAGCAAC-AAATTT
* * *
784 CTTAATGAACACGAGTCGAGCAA-AATTTTAAT
1 CTTAACGAGCACGAGTCGAGCAACAA-ATT--T
816 GAGCTTAACGAGCACGAGTCGAGCAACAAATTT
1 ---CTTAACGAGCACGAGTCGAGCAACAAATTT
*
849 CTTAACGAGCACGAGTTGAGCAACAAATTTT
1 CTTAACGAGCACGAGTCGAGCAACAAA-TTT
* *
880 GTTAACAAGCACGAGTC
1 CTTAACGAGCACGAGTC
897 AACATTGCCC
Statistics
Matches: 92, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.02
30 28 0.30
31 27 0.29
32 9 0.10
33 1 0.01
35 23 0.25
36 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (30 bp):
CTTAACGAGCACGAGTCGAGCAACAAATTT
Found at i:5132 original size:9 final size:9
Alignment explanation
Indices: 5118--5151 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
5108 TATTCACAAC
5118 TTTTTTCTT
1 TTTTTTCTT
5127 TTTTTTCTTT
1 TTTTTTC-TT
5137 TTTTTTCTT
1 TTTTTTCTT
5146 TTTTTT
1 TTTTTT
5152 TAATTGTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:5139 original size:11 final size:10
Alignment explanation
Indices: 5118--5152 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
5108 TATTCACAAC
5118 TTTTTTC-TT
1 TTTTTTCTTT
5127 TTTTTTCTTT
1 TTTTTTCTTT
5137 TTTTTTCTTT
1 TTTTTTCTTT
5147 TTTTTT
1 TTTTTT
5153 AATTGTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:13391 original size:20 final size:20
Alignment explanation
Indices: 13366--13439 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
13356 TTAGTAAGGT
13366 AGTATCGATACTCTAGTCTG
1 AGTATCGATACTCTAGTCTG
* *
13386 AGTATCGATACTCTGGTGCTC
1 AGTATCGATACTCTAGT-CTG
* *
13407 AGGTATCGATAGTACTAGCCTG
1 A-GTATCGATACT-CTAGTCTG
*
13429 AGTATTGATAC
1 AGTATCGATAC
13440 AAAAATTAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.37
21 11 0.26
22 13 0.30
23 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (20 bp):
AGTATCGATACTCTAGTCTG
Found at i:21388 original size:51 final size:51
Alignment explanation
Indices: 21331--21432 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
21321 AATGAAATTT
21331 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
1 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
* *
21382 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGTTGTTATTATAATGA
1 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
21433 TATTGACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (51 bp):
ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
Found at i:21977 original size:17 final size:17
Alignment explanation
Indices: 21952--21993 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
21942 GAAAGTATTT
*
21952 TGAGGGTAAAATATTGA
1 TGAGAGTAAAATATTGA
21969 TGAGAGTAAAATATTGA
1 TGAGAGTAAAATATTGA
21986 TGAGAGTA
1 TGAGAGTA
21994 TAAAGGAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
TGAGAGTAAAATATTGA
Found at i:22504 original size:117 final size:118
Alignment explanation
Indices: 22294--22531 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 118
22284 TAAAAAGTAC
* * *
22294 ATATGTATTCTATGATGTTTTAGGATCATGTGGTTCAAATTTGGTAAAAAAAAATGGACTTACAA
1 ATATGTATTATATGATATTTTAGGATCATGTGGTTCAAATTTGGT--AAAAAAATGGACTTAAAA
*
22359 TGAAGAAGGATTTGAAAGAATAATGAAATCATGGATTAAATTGTAAAACTGACAA
64 TGAAGAAGGATTTGAAAGAATAATGAAATCAGGGATTAAATTGTAAAACTGACAA
*
22414 ATATGTATTATGTGATATTTTAGGATCATGTGGTTCAAATTTGGT-AAAAAATGGACTTAAAATG
1 ATATGTATTATATGATATTTTAGGATCATGTGGTTCAAATTTGGTAAAAAAATGGACTTAAAATG
*
22478 AAGAAGGCA-TTGAAAGAATAATGAAATCAGGGATTAAATTGTAAAACTGGCAA
66 AAGAAGG-ATTTGAAAGAATAATGAAATCAGGGATTAAATTGTAAAACTGACAA
22531 A
1 A
22532 ATACTTAGTC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
117 68 0.61
118 1 0.01
120 42 0.38
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (118 bp):
ATATGTATTATATGATATTTTAGGATCATGTGGTTCAAATTTGGTAAAAAAATGGACTTAAAATG
AAGAAGGATTTGAAAGAATAATGAAATCAGGGATTAAATTGTAAAACTGACAA
Found at i:22902 original size:122 final size:122
Alignment explanation
Indices: 22685--22929 Score: 445
Period size: 122 Copynumber: 2.0 Consensus size: 122
22675 GCTCACCCTT
*
22685 ACTTCTCATTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGCTTTT
1 ACTTCTCATTATATATCATACTCATTAGCATCCATTTATCTTTAAATGGAAACAAATATGCTTTT
*
22750 TGAACGAATTAGGGGAATGAGTTTCAAATACTCAGATTATGGATGTGTTGAGAAATC
66 TGAACGAATTAGGGGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
* *
22807 ACTTCTCGTTATATATCATACTCATTAGCATCCATTTATCTTTAAATGGAAACAAATATGTTTTT
1 ACTTCTCATTATATATCATACTCATTAGCATCCATTTATCTTTAAATGGAAACAAATATGCTTTT
*
22872 TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
66 TGAACGAATTAGGGGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
22929 A
1 A
22930 GGCTCATTAA
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 118 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (122 bp):
ACTTCTCATTATATATCATACTCATTAGCATCCATTTATCTTTAAATGGAAACAAATATGCTTTT
TGAACGAATTAGGGGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
Found at i:24780 original size:19 final size:19
Alignment explanation
Indices: 24756--24796 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
24746 AGTTTAAAGT
24756 GTTATTCGCAATCGCGTCG
1 GTTATTCGCAATCGCGTCG
24775 GTTATTCGCAATCGCGTCG
1 GTTATTCGCAATCGCGTCG
24794 GTT
1 GTT
24797 GCCGCAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (19 bp):
GTTATTCGCAATCGCGTCG
Found at i:24804 original size:18 final size:19
Alignment explanation
Indices: 24762--24805 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
24752 AAGTGTTATT
**
24762 CGCAATCGCGTCGGTTATT
1 CGCAATCGCGTCGGTTAGC
24781 CGCAATCGCGTCGGTT-GC
1 CGCAATCGCGTCGGTTAGC
24799 CGCAATC
1 CGCAATC
24806 TCGATCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.25
Consensus pattern (19 bp):
CGCAATCGCGTCGGTTAGC
Found at i:26689 original size:5 final size:5
Alignment explanation
Indices: 26679--26703 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26669 TACTCTGATG
26679 TTGCA TTGCA TTGCA TTGCA TTGCA
1 TTGCA TTGCA TTGCA TTGCA TTGCA
26704 GCGTGAGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTGCA
Found at i:28151 original size:24 final size:24
Alignment explanation
Indices: 28124--28187 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
28114 AATAAAAAAG
28124 GAAATAATCTCTAATATTTACAAA
1 GAAATAATCTCTAATATTTACAAA
28148 GAAATAATCTCTAATATTTACAAA
1 GAAATAATCTCTAATATTTACAAA
*
28172 GAAATAATATCTAATA
1 GAAATAATCTCTAATA
28188 ATAAGTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (24 bp):
GAAATAATCTCTAATATTTACAAA
Found at i:30199 original size:21 final size:21
Alignment explanation
Indices: 30173--30227 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
30163 TTACAATGGT
*
30173 TGTAGGAATTTCAGTAGTGAC
1 TGTAGGATTTTCAGTAGTGAC
*
30194 TGTAGGATTTTCAGTAGTGGC
1 TGTAGGATTTTCAGTAGTGAC
30215 TGTAGGATTTTCA
1 TGTAGGATTTTCA
30228 ACAGGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (21 bp):
TGTAGGATTTTCAGTAGTGAC
Found at i:32457 original size:17 final size:17
Alignment explanation
Indices: 32435--32470 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
32425 TTTTCAGTAT
32435 GGTCAGAAGCAGGTGTA
1 GGTCAGAAGCAGGTGTA
32452 GGTCAGAAGCAGGTGTA
1 GGTCAGAAGCAGGTGTA
32469 GG
1 GG
32471 GCTTTGCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.44, T:0.17
Consensus pattern (17 bp):
GGTCAGAAGCAGGTGTA
Found at i:47123 original size:3 final size:3
Alignment explanation
Indices: 47115--47207 Score: 177
Period size: 3 Copynumber: 31.0 Consensus size: 3
47105 TGAAATTCTT
*
47115 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47163 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47208 AAGCGATGGA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:49010 original size:22 final size:23
Alignment explanation
Indices: 48977--49033 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
48967 ATATAGCAAA
*
48977 ATTATAAT-TATAACG-TATGTT
1 ATTAAAATATATAACGTTATGTT
*
48998 ATTCAAATATAT-ACGTTATGTT
1 ATTAAAATATATAACGTTATGTT
* *
49020 TTTAAAATTTATAA
1 ATTAAAATATATAA
49034 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 9 0.32
22 18 0.64
23 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (23 bp):
ATTAAAATATATAACGTTATGTT
Found at i:61096 original size:17 final size:17
Alignment explanation
Indices: 61063--61101 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
61053 TTAAGAGGAA
61063 AAATCCTCACAAAATTCC
1 AAATCCTCACAAAATT-C
*
61081 AAATCCTTAC-AAATTC
1 AAATCCTCACAAAATTC
61097 AAATC
1 AAATC
61102 ACTGGAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCCTCACAAAATTC
Found at i:63316 original size:87 final size:87
Alignment explanation
Indices: 63170--63332 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
63160 TATGTTATAT
63170 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTAAATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTAAATAATGTAATAGAT
63235 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
63257 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTAAATAATGTAATAGAT
63322 AGCGCTTATAT
66 AGCGCTTATAT
63333 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTAAATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:63774 original size:182 final size:182
Alignment explanation
Indices: 63467--65959 Score: 3958
Period size: 182 Copynumber: 13.6 Consensus size: 182
63457 TGCGTTCACA
** * * *
63467 TTTTGTCATTTATAGACCGATTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
63532 TTTATAAAGTATCGACACTTTATTGGCGCTAAAACTTCTTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
63596 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCTCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
63649 TTTTGTCATTGCGAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
63714 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * * * * * *
63779 TACTTATAATAAATTATCGACACTTATAATAAATTATC-G-A-CACTTTCAACATA
131 TACTTATAATAAATTATCGACACTT-TCA-ACATAACCGGTAGCGCTTT--ACCTG
**** *** *** * * *
63832 ACCGGT-AGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATA
1 TTTTGTCATTTCGAGACCGGTTTTGTCA--T----A----TTTT-T-ACA-TGTTA-----TAT-
63896 TTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT
47 -TGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT
63961 TTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCT
111 TTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCT
64026 TTACCTG
176 TTACCTG
64033 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
64098 TTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCTTCTCTAATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCT-TTTAAATTCCAAAAGTGTCG
*
64160 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
64213 TTTTGTCATTTCGTGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
64278 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
64342 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
64394 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
64459 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTTTTCTCTTTTAAATTCCAAAAGTGTCGG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * * *
64524 TACTTATAATAATTTATCAACACTTTCAACATATCCGGTAGCGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
64576 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
64641 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
64706 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
64758 TTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
64823 TTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
64885 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
64938 TTTTGTCATTTTGAGACCGGTTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACAT
1 TTTTGTCATTTCGAGACCGG-TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACAT
65003 TTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCG
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
*
65067 ATACATATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
65120 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
65185 TTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65250 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
65302 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
65367 TTTATAAAATATCAACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65432 TACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
65484 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATTGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
65549 TTTATAAAGTATCGACACGTTATTGACGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
65611 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
65664 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
65729 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65793 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
65845 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
65910 TTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
65960 AAAGGTAAAA
Statistics
Matches: 2141, Mismatches: 125, Indels: 90
0.91 0.05 0.04
Matches are distributed among these distances:
178 4 0.00
179 39 0.02
180 396 0.18
181 465 0.22
182 1046 0.49
183 14 0.01
184 8 0.00
188 1 0.00
189 4 0.00
190 2 0.00
191 1 0.00
192 8 0.00
193 1 0.00
194 1 0.00
195 4 0.00
196 1 0.00
200 9 0.00
201 8 0.00
202 124 0.06
203 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:63803 original size:20 final size:20
Alignment explanation
Indices: 63775--63823 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
63765 TCCAAAAGTG
*
63775 TCGATACTTATAATAAATTA
1 TCGACACTTATAATAAATTA
63795 TCGACACTTATAATAAATTA
1 TCGACACTTATAATAAATTA
63815 TCGACACTT
1 TCGACACTT
63824 TCAACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (20 bp):
TCGACACTTATAATAAATTA
Found at i:65332 original size:726 final size:725
Alignment explanation
Indices: 63467--65959 Score: 4423
Period size: 726 Copynumber: 3.4 Consensus size: 725
63457 TGCGTTCACA
*
63467 TTTTGTCATTTAT-AGACCGATTTTATCATATTTTTACATGTTATATTATTATGGATCGATACAT
1 TTTTGTCATTT-TGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACAT
*
63531 TTTTATAAAGTATCGACACTTTATTGGCGCTAAAACTTCTTCTCTTATT-AATTCCAAAAGTGTC
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTT-TTAAATTCCAAAAGTGTC
* * * *
63595 GATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCTCTTTACCTGTTTTGTCATTG
128 GATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTT
*
63660 CGAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTA
193 CGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTA
* *
63725 TCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATA
258 TCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAA--GT-G-T-C--------
*
63790 AATTATCGACACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTT
310 -A--AT----ACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTT
*
63855 GTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTA
368 GTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTA
*
63920 TAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACT
433 TAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACT
63985 TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGAC
498 TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGAC
64050 CGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACA
563 CGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACA
*
64115 CGTTATTGGCGCTATAACTTCTTCTCTAATTAATTCCAAAAGTCGATACTTATAATAAATTATCG
628 CGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCG
*
64180 ACACTTTCAACATAACCGGTAGCGCTTTACATG
693 ACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
64213 TTTTGTCATTTCGTGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
64278 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
64343 ACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
131 ACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
64408 GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
196 GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
* * * ** *
64473 ACACTTTATTGGCGCTATAACTTTTTCTCTTTTAAATTCCAAAAGTGTCGGTACTTATAATAATT
261 ACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATAATAAAT
* *
64538 TATCAACACTTTCAACATATCCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
326 TATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
64603 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGC
391 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGC
64668 GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
456 GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
*
64733 AACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTACATG
521 AACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATG
64798 TTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCTT
586 TTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCTT
64863 CTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
651 CTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
64928 GCTTTACCTG
716 GCTTTACCTG
* *
64938 TTTTGTCATTTTGAGACCGGTTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACAT
1 TTTTGTCATTTTGAGACCGG-TTTTATCATATTTTTACATGTTATATTATTATGGATCGATACAT
65003 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGA
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65068 TACATATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
130 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
65133 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
65198 GACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATAATAAA
260 GACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATAATAAA
65263 TTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
325 TTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
* *
65328 CATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAATATCAACACTTTATTGG
390 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGG
65393 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
455 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
* *
65458 CAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACAT
520 CAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACAT
* * *
65523 GTTATATTGTTATGGATTGATACATTTTTATAAAGTATCGACACGTTATTGACGCTATAACTTCT
585 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCT
65588 TCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAG
650 TCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAG
65653 CGCTTTACCTG
715 CGCTTTACCTG
*
65664 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
65729 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
65794 ACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
131 ACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
65859 GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
196 GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
65924 ACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
261 ACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
65960 AAAGGTAAAA
Statistics
Matches: 1700, Mismatches: 44, Indels: 27
0.96 0.02 0.02
Matches are distributed among these distances:
725 696 0.41
726 707 0.42
729 1 0.00
740 1 0.00
741 1 0.00
742 1 0.00
743 2 0.00
744 2 0.00
745 195 0.11
746 94 0.06
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (725 bp):
TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
ACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATTGACGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATAATAAAT
TATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGC
GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
AACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATG
TTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACGTTATTGGCGCTATAACTTCTT
CTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
GCTTTACCTG
Found at i:66652 original size:11 final size:11
Alignment explanation
Indices: 66636--66660 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66626 ATCCCGTAAC
66636 ACCGTATATTA
1 ACCGTATATTA
66647 ACCGTATATTA
1 ACCGTATATTA
66658 ACC
1 ACC
66661 TGCCGTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:71200 original size:19 final size:19
Alignment explanation
Indices: 71172--71219 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
71162 TCTTTTGTTT
*
71172 CGAGAGAAACTATCTCAAG
1 CGAGAAAAACTATCTCAAG
71191 CGAGAAAAACTATCTCAAG
1 CGAGAAAAACTATCTCAAG
71210 CGAGATAAAA
1 CGAGA-AAAA
71220 TCTTCTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (19 bp):
CGAGAAAAACTATCTCAAG
Found at i:71240 original size:39 final size:39
Alignment explanation
Indices: 71197--71481 Score: 446
Period size: 39 Copynumber: 7.3 Consensus size: 39
71187 CAAGCGAGAA
* * *
71197 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
* * * *
71236 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGATGG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
* *
71275 AAACTATCTCAAGCGAGACAAAATCTTCTGTTTCAAGAG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
*
71314 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGAG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
71353 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
*
71392 AAACTATCTCAAGAGAGACAAAATCTTATGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
*
71431 AAACTATCTCAAGAGAGACAAAATCTTCTATTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
71470 AAACGT-TCTCAA
1 AAAC-TATCTCAA
71482 AGTTATGTGT
Statistics
Matches: 235, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 234 1.00
40 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (39 bp):
AAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGG
Found at i:71670 original size:36 final size:36
Alignment explanation
Indices: 71506--71684 Score: 119
Period size: 36 Copynumber: 4.9 Consensus size: 36
71496 AGAGAAACTA
* * * *
71506 TCTCAAGGGAGATAAAATTTG-TTTTGAGAAAAAGATG
1 TCTCAAGTGAGACAAAATTTGTTTTTAAG-AAAA-TTG
* * * * **
71543 TCTAAAGTAAGACAAAAGTTATTTTTAAGGAAAACAG
1 TCTCAAGTGAGACAAAATTTGTTTTTAA-GAAAATTG
** * * *
71580 TCTCAAGTGAGATTAATTTTG-TTTTAAGGAAGATTA
1 TCTCAAGTGAGACAAAATTTGTTTTTAA-GAAAATTG
* * * *
71616 TCTCCAGCGATACGAAATTTGTTTTTAAGAAAATTG
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAAAATTG
* *
71652 TCTCAAGTGAGACAAAATTTATTTTTATGAAAA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAAAA
71685 ATCATCTCAA
Statistics
Matches: 105, Mismatches: 34, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
36 59 0.56
37 36 0.34
38 9 0.09
39 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (36 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAAGAAAATTG
Found at i:71695 original size:37 final size:37
Alignment explanation
Indices: 71547--71701 Score: 120
Period size: 36 Copynumber: 4.2 Consensus size: 37
71537 AAGATGTCTA
* *
71547 AAGTAAGACAAAAGTTATTTTTAAGGAAAA-CAGTCTC
1 AAGTGAGACAAAATTTATTTTTAAGGAAAATCA-TCTC
** * *
71584 AAGTGAGA-TTAATTT-TGTTTTAAGGAAGATTATCTC
1 AAGTGAGACAAAATTTAT-TTTTAAGGAAAATCATCTC
* * * * * **
71620 CAGCGATACGAAATTTGTTTTTAA-GAAAATTGTCTC
1 AAGTGAGACAAAATTTATTTTTAAGGAAAATCATCTC
* *
71656 AAGTGAGACAAAATTTATTTTTATGAAAAATCATCTC
1 AAGTGAGACAAAATTTATTTTTAAGGAAAATCATCTC
*
71693 AAGCGAGAC
1 AAGTGAGAC
71702 GACCCTTTGT
Statistics
Matches: 90, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
35 1 0.01
36 52 0.58
37 36 0.40
38 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (37 bp):
AAGTGAGACAAAATTTATTTTTAAGGAAAATCATCTC
Found at i:72889 original size:18 final size:17
Alignment explanation
Indices: 72858--72905 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
72848 TTCTCATCCA
72858 TTTTTCTTTGTTTTTTC
1 TTTTTCTTTGTTTTTTC
*
72875 TTTTTCTTTGCTTTTTTG
1 TTTTTCTTTG-TTTTTTC
72893 TTTTTCTTT-TTTT
1 TTTTTCTTTGTTTT
72906 GCTCTTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 4 0.14
17 10 0.34
18 15 0.52
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTC
Found at i:73151 original size:2 final size:2
Alignment explanation
Indices: 73144--73199 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
73134 ACAACAAGGG
73144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73186 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
73200 GGATAAATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77153 original size:16 final size:16
Alignment explanation
Indices: 77132--77164 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77122 ATATTAACAA
77132 GTAATGTACAAATGTG
1 GTAATGTACAAATGTG
*
77148 GTAATGTATAAATGTG
1 GTAATGTACAAATGTG
77164 G
1 G
77165 CTTAAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (16 bp):
GTAATGTACAAATGTG
Found at i:80093 original size:27 final size:28
Alignment explanation
Indices: 80025--80094 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
80015 AAATTTAAAA
*
80025 TTAAATAATTATTAAAAATTATTTTTATC
1 TTAAATAA-TATTAAAAATTATATTTATC
* * *
80054 ATAACTAAT-TTAAAATTTATATTTAT-
1 TTAAATAATATTAAAAATTATATTTATC
*
80080 TTAATTAATATTAAA
1 TTAAATAATATTAAA
80095 TTAATAGAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.21
27 20 0.59
28 1 0.03
29 6 0.18
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (28 bp):
TTAAATAATATTAAAAATTATATTTATC
Found at i:84649 original size:17 final size:17
Alignment explanation
Indices: 84629--84670 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
84619 ACTACTTCCC
84629 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
84646 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
84663 TTAATGAA
1 TAAATGAA
84671 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:95473 original size:20 final size:20
Alignment explanation
Indices: 95448--95485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95438 CTCATTTTTA
95448 CTCTCAAT-TCTCTTTCAATG
1 CTCTCAATGTCT-TTTCAATG
95468 CTCTCAATGTCTTTTCAA
1 CTCTCAATGTCTTTTCAA
95486 CTCTCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (20 bp):
CTCTCAATGTCTTTTCAATG
Done.