Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001082.1 Hibiscus syriacus cultivar Beakdansim tig00002141_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: 70169
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:2982 original size:35 final size:35
Alignment explanation
Indices: 2909--2982 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 35
2899 TTTGAAATTT
* **
2909 ATATAATATAAAATGTTTTAAAAGGAAATTATTTA
1 ATATAATATAAAATGTATTAAAAGGAAATTATCAA
*
2944 ATATATTAGTAAAATGTATTAAAA-GAAACTTA-CAA
1 ATATAATA-TAAAATGTATTAAAAGGAAA-TTATCAA
2979 ATAT
1 ATAT
2983 TTTTTATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (35 bp):
ATATAATATAAAATGTATTAAAAGGAAATTATCAA
Found at i:3785 original size:109 final size:112
Alignment explanation
Indices: 3648--3987 Score: 530
Period size: 109 Copynumber: 3.1 Consensus size: 112
3638 TCGGTTTGTA
**
3648 TCGATACTTTATAAAAATATATTAATCCATAATAATATAACAGGT-AAAAAATGACAAAACC-GT
1 TCGATACTTTATAAAAATATATCGATCCATAATAATATAACAGGTAAAAAAATGACAAAACCGGT
*
3711 CTATAAATGAC-AAACAGGTAAAGCGTTACTGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGTTATTGGATATATTGAAAGTG
3757 TCGATACTTTATAAAAATATATCGATCCATAAT-A-ATAACAGGTAAAAAAATGAC-AAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAATAATATAACAGGTAAAAAAATGACAAAACCGGT
* * *
3819 TTATAAATGACAAAACAAGTAAAGCGTTGTTGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGTTATTGGATATATTGAAAGTG
* *
3866 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAATAATATAACAGGTAAAAAAATGACAAAACCGGT
* * * *
3931 CTATAAATGACAAAACAGGTAAAACGCTATTGGATATGTTGATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGTTATTGGATATATTGAAAGTG
3978 TCGATACTTT
1 TCGATACTTT
3988 TTTTAAGTAT
Statistics
Matches: 210, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
107 14 0.07
108 23 0.11
109 94 0.45
110 1 0.00
111 20 0.10
112 58 0.28
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (112 bp):
TCGATACTTTATAAAAATATATCGATCCATAATAATATAACAGGTAAAAAAATGACAAAACCGGT
CTATAAATGACAAAACAGGTAAAGCGTTATTGGATATATTGAAAGTG
Found at i:4313 original size:180 final size:182
Alignment explanation
Indices: 3860--4483 Score: 890
Period size: 180 Copynumber: 3.5 Consensus size: 182
3850 GGATATATTG
* * *
3860 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
* ** * ** *
3925 ACCGGTCTATAAATGACAAAACAGGTAAA-ACGCTATTGGATATGTTGATAGTGTCGATACTTT-
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGA-GCTACCGGATATGTTGAAAGTGTCGATACTTTA
*
3988 TTTTAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* * *
4041 AAAGTGTCGATGCTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC-AA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
* * * *
4105 ATCGGTCTCG-AATGATAAAATCGGTAAAGAGCTACCGGATATGTTGAAAGTATTGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
* *
4169 TATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAATTTATAGC-C-AAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* *
4219 AAAGTGTCGATACTTTATAAAAATATATCGATCTATATCAATATAACAAGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
* *
4284 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTGCCGGATATGTTGAAAGTGTCGATAATTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
* * *
4349 TATAAATATTGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* *
4401 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAATAATAT-ACAA-T-AAAATATGA-TAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
* *
4462 ATCGATCTCGAAATAACAAAAC
66 ATCGGTCTCGAAATGACAAAAC
4484 TGATAGTAAA
Statistics
Matches: 399, Mismatches: 38, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
178 82 0.21
179 64 0.16
180 144 0.36
181 65 0.16
182 44 0.11
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
Found at i:5156 original size:23 final size:23
Alignment explanation
Indices: 5123--5170 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5113 AAATATGTCA
*
5123 ATATAACCGCTACCTATTACATT
1 ATATAACCGCTACCTAATACATT
* *
5146 ATATAAGCGCTACCTAATATATT
1 ATATAACCGCTACCTAATACATT
5169 AT
1 AT
5171 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAACCGCTACCTAATACATT
Found at i:6159 original size:23 final size:23
Alignment explanation
Indices: 6104--6160 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
6094 TTAGTTAGAA
* *
6104 AATATATCAATATAACCGCTATCT
1 AATATAT-TATATAACCGCTACCT
* * *
6128 ATTACATTATATAAGCGCTACCT
1 AATATATTATATAACCGCTACCT
6151 AATATATTAT
1 AATATATTAT
6161 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (23 bp):
AATATATTATATAACCGCTACCT
Found at i:6545 original size:989 final size:973
Alignment explanation
Indices: 4574--6417 Score: 2715
Period size: 989 Copynumber: 1.9 Consensus size: 973
4564 TAAAATCCAG
* * * * *
4574 TAAGAAAATAACAAAAATTTTGCAGTAACGAAAGAATAACATTGGGAAACCTACCATGCTATCAG
1 TAAGAAAACAACAAAAACTTTACAGTAACAAAAGAATAACATTGGAAAACCTACCATGCTATCAG
*
4639 TTTCTCAAAGAACAAAAACCCAAAACATACATCTTTTAACGCAAACTTATTATATACTCTTATTA
66 TTTCTCAAAGAACAAAAACCCAAAACATACATCTCTTAACGCAAACTTATTATATACTCTTATTA
* *
4704 TCTCTATAAGATAAAGTTAGGTCAGTTTTAGTTTTATTTTTTGTTAGGATTTTGTGTCATTGAAA
131 TCTCCATAAGATAAAGTTAGGTCAGTTTTAG---T-TTTTTGGTTAGGATTTTGTGTCATTGAAA
*
4769 CTGTTGATTGAAGAACTTAAAATGGTGCACGCATAAGTGTCAATGCATTTATGAAAAGTATCGAT
192 CTGTTGATTGAAGAACTCAAAATGGTGCACGCATAAGTGTCAATGCATTTATGAAAAGTATCGAT
*
4834 CCAAAAAACATCGAAATCGATAATTATTATGTAACAAGTAAATTTACAATGTAACCGGTAAAAAT
257 CCAAAAAACATCGAAATCGATAATTATTATGTAACAAGTAAATTTACAATGTAACCGATAAAAAT
* * *
4899 ATATTGGTTAATTAGCAAATATGTTAACATTATGTATCGACACTCTTTAAATATGTGTCGATACT
322 ACACTGGTTAATTAGCAAATAAGTTAACATTATGTATCGACACTCTTTAAATATGTGTCGATACT
* *
4964 TTTTTCCTAAAATGAAAACACAACGAGGTGCACGCATAAAATGTCGATACATTTAAAATTGTATT
387 TTTTTCCCAAAATGAAAACACAACGAGGTGCACGCATAAAATGTCGATACATTTAAAATTGTATC
* *
5029 AATCCAAAAAACATCAAAACCGATAATTATAATGTAATAGGTAATTTGTAATGTTACCGGTTTAA
452 AATCCAAAAAACATCAAAACCGATAATTATAATATAATAGGTAATTTATAATGTTACCGGTTTAA
* *
5094 ATATACATGTTTAGTTAGAAAATATGTCAATATAACCGCTACCTATTACATTATATAAGCGCTAC
517 ATATACATATTTAGTTAGAAAATATATCAATATAACCGCTACCTATTACATTATATAAGCGCTAC
5159 CTAATATATTATTGTACTTGATAATATTTTCTGTTAAATGATATATCATAATCGATCACTTAATT
582 CTAATATATTATTGTACTTGATAATA-TTTCTGTT-AATG--ATATCATAATCGATCAC-TAA-T
* *
5224 AATAAATCACGCCATTTTTTAACCGTTTTTAAGACGCCGCACAAAACAAGTCCCCTGTATCGACC
641 AATAAATCACG-CA--TTATAA-C-ATTTTAAGA-----CACAAAAC-A--CCCCTGTATCGACC
*
5289 CTTAGCTGGATTCCTGTTGTATCGGTAAAAACAATCTCAAAGTCTTAAATGTAAAAGCCACATAA
693 CTTAGCTGGATTCCTGTTGTATCAGTAAAAACAATCTCAAAGTCTTAAATGTAAAAGCCACATAA
*
5354 AAGGTATTTATCTTTTGTAAATTTTTTTAAATATATTTTATAATAATAATTAAAATAAATTTGTA
758 AAGGTATTTATCTTTTGTAAATTTTTTTAAATATATTTTATAATAAAAATTAAAATAAATTTGTA
*
5419 AAAAAATAGATTCTATATTAGATATAAAATATACGTGAAAGTTGACCGAAATAATAAAATCGGTA
823 AAAAAATAGATTCTATATTAGATATAAAATATACGTGAAAGTTGACCAAAATAATAAAATC-GTA
* * * * * * * *
5484 GTAAAAAGTGTGTTTAAGTGGTTATTTTTATTTCAGAATATTTATTTTTAATACAAAAAGTTGAA
887 ATAAAAAGTGTGTTTAACTGATGATATATATATCAAAATATTTATTTTTAATACAAAAAGTTGAA
*** *
5549 TATTTTAAGCAAAATTC-A--G
952 TAAAATAAGCAAAATTCTATTT
* *
5568 TAAGAAAATAACAAAAACTTTACAGTAACAAAAGAATAACATTGGAAAA-CTCACCATTCTATCA
1 TAAGAAAACAACAAAAACTTTACAGTAACAAAAGAATAACATTGGAAAACCT-ACCATGCTATCA
5632 GTTTCTCAAAGAACAAAAACCCAGAAAC-TGACATCTCTTAACGCAAACTTATTATATACTCTTA
65 GTTTCTCAAAGAACAAAAACCCA-AAACAT-ACATCTCTTAACGCAAACTTATTATATACTCTTA
5696 TTATCTCCATAAGAT-AAGTTAGGTCAGTTTTAG-TTTTTGGTTAGGATTTTGTGTCATTGAAAC
128 TTATCTCCATAAGATAAAGTTAGGTCAGTTTTAGTTTTTTGGTTAGGATTTTGTGTCATTGAAAC
* * * *
5759 TGTTGATTGAAGAACTCAAACTGGTGCTCGCATAAGTGTCGATGCATTTATGAAAAGTATTGATC
193 TGTTGATTGAAGAACTCAAAATGGTGCACGCATAAGTGTCAATGCATTTATGAAAAGTATCGATC
* * *
5824 CAAAAAATATCGAAATCGATAATTATTATGTAACAGGTAAATTTACAATGTACCCGATAAAAATA
258 CAAAAAACATCGAAATCGATAATTATTATGTAACAAGTAAATTTACAATGTAACCGATAAAAATA
*
5889 CACTGGTTAATTAGCAAATAAGTTTACATTATGTATCGACACTCTTTAAATATGTGTCGATACTT
323 CACTGGTTAATTAGCAAATAAGTTAACATTATGTATCGACACTCTTTAAATATGTGTCGATACTT
*
5954 TTTTCCCAAAATGAAAACACAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCA
388 TTTTCCCAAAATGAAAACACAACGAGGTGCACGCATAAAATGTCGATACATTTAAAATTGTATCA
*
6019 ATCCCAAAAACATCAAAACCGATAATTATAATATAATAGGTAAATTTATAATGTTACCGGTTTAA
453 ATCCAAAAAACATCAAAACCGATAATTATAATATAATAGGT-AATTTATAATGTTACCGGTTTAA
* *
6084 ATATACCTATTTAGTTAGAAAATATATCAATATAACCGCTATCTATTACATTATATAAGCGCTAC
517 ATATACATATTTAGTTAGAAAATATATCAATATAACCGCTACCTATTACATTATATAAGCGCTAC
*
6149 CTAATATATTATTGTACTTGATAATA-TT-T-TT-A-G-T-T-A-AAT-GAT-A-TAA-CAT-AA
582 CTAATATATTATTGTACTTGATAATATTTCTGTTAATGATATCATAATCGATCACTAATAATAAA
** * *
6200 -C-CG-A-TATAA-ATTTTAA-A-A-AATTC-CCCCTGTGTCGGCCCTTAGCTGGATTCCTGTTG
647 TCACGCATTATAACATTTTAAGACACAAAACACCCCTGTATCGACCCTTAGCTGGATTCCTGTTG
6256 TATCAGTAAAAACAATCTCAAAGTCTTAAATGTAAAAGCCACATAAAAGGTATTTATCTTTTGTA
712 TATCAGTAAAAACAATCTCAAAGTCTTAAATGTAAAAGCCACATAAAAGGTATTTATCTTTTGTA
*
6321 AATTTTTTTAAATATATTTTATAATAAAAATTAAAATAAATTTGTAATAAAATAGATTCTATATT
777 AATTTTTTTAAATATATTTTATAATAAAAATTAAAATAAATTTGTAAAAAAATAGATTCTATATT
6386 AGATATAAAATATACGTGAAAGTTGA-CAAAAT
842 AGATATAAAATATACGTGAAAGTTGACCAAAAT
6418 TTAAAATTTA
Statistics
Matches: 804, Mismatches: 42, Indels: 55
0.89 0.05 0.06
Matches are distributed among these distances:
947 5 0.01
948 184 0.23
952 3 0.00
953 1 0.00
959 1 0.00
960 6 0.01
963 4 0.00
966 1 0.00
968 2 0.00
969 1 0.00
970 2 0.00
971 2 0.00
973 3 0.00
975 1 0.00
976 3 0.00
977 3 0.00
978 1 0.00
979 1 0.00
980 1 0.00
983 1 0.00
984 1 0.00
986 2 0.00
987 1 0.00
988 2 0.00
989 312 0.39
990 109 0.14
993 2 0.00
994 98 0.12
995 51 0.06
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (973 bp):
TAAGAAAACAACAAAAACTTTACAGTAACAAAAGAATAACATTGGAAAACCTACCATGCTATCAG
TTTCTCAAAGAACAAAAACCCAAAACATACATCTCTTAACGCAAACTTATTATATACTCTTATTA
TCTCCATAAGATAAAGTTAGGTCAGTTTTAGTTTTTTGGTTAGGATTTTGTGTCATTGAAACTGT
TGATTGAAGAACTCAAAATGGTGCACGCATAAGTGTCAATGCATTTATGAAAAGTATCGATCCAA
AAAACATCGAAATCGATAATTATTATGTAACAAGTAAATTTACAATGTAACCGATAAAAATACAC
TGGTTAATTAGCAAATAAGTTAACATTATGTATCGACACTCTTTAAATATGTGTCGATACTTTTT
TCCCAAAATGAAAACACAACGAGGTGCACGCATAAAATGTCGATACATTTAAAATTGTATCAATC
CAAAAAACATCAAAACCGATAATTATAATATAATAGGTAATTTATAATGTTACCGGTTTAAATAT
ACATATTTAGTTAGAAAATATATCAATATAACCGCTACCTATTACATTATATAAGCGCTACCTAA
TATATTATTGTACTTGATAATATTTCTGTTAATGATATCATAATCGATCACTAATAATAAATCAC
GCATTATAACATTTTAAGACACAAAACACCCCTGTATCGACCCTTAGCTGGATTCCTGTTGTATC
AGTAAAAACAATCTCAAAGTCTTAAATGTAAAAGCCACATAAAAGGTATTTATCTTTTGTAAATT
TTTTTAAATATATTTTATAATAAAAATTAAAATAAATTTGTAAAAAAATAGATTCTATATTAGAT
ATAAAATATACGTGAAAGTTGACCAAAATAATAAAATCGTAATAAAAAGTGTGTTTAACTGATGA
TATATATATCAAAATATTTATTTTTAATACAAAAAGTTGAATAAAATAAGCAAAATTCTATTT
Found at i:6630 original size:14 final size:15
Alignment explanation
Indices: 6598--6636 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
6588 TCCATACTTA
6598 TTTATTAAATATATTT
1 TTTA-TAAATATATTT
6614 TTTATAAATAT-TTT
1 TTTATAAATATATTT
6628 TTTAATAAA
1 TTT-ATAAA
6637 ATGTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATAAATATATTT
Found at i:6764 original size:14 final size:14
Alignment explanation
Indices: 6745--6790 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6735 ATATTTTGTA
6745 AAATTTAACTATTT
1 AAATTTAACTATTT
6759 AAATTT-A-T-TTT
1 AAATTTAACTATTT
6770 AAATTTAACTATTT
1 AAATTTAACTATTT
6784 AAATTTA
1 AAATTTA
6791 TTTTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.31
12 2 0.07
13 2 0.07
14 16 0.55
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTTAACTATTT
Found at i:6772 original size:11 final size:11
Alignment explanation
Indices: 6756--6802 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 11
6746 AATTTAACTA
6756 TTTAAATTTAT
1 TTTAAATTTAT
6767 TTTAAATTTAACT
1 TTTAAATTT-A-T
6780 ATTTAAATTTAT
1 -TTTAAATTTAT
6792 TTTAAAATTTA
1 TTT-AAATTTA
6803 AAATATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 12 0.38
12 9 0.28
13 2 0.06
14 9 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:6775 original size:25 final size:26
Alignment explanation
Indices: 6743--6803 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 26
6733 TAATATTTTG
6743 TAAAATTTAACTATTTAAATTTATTT
1 TAAAATTTAACTATTTAAATTTATTT
6769 T-AAATTTAACTATTTAAATTTATTT
1 TAAAATTTAACTATTTAAATTTATTT
6794 TAAAATTTAA
1 TAAAATTTAA
6804 AATATGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
TAAAATTTAACTATTTAAATTTATTT
Found at i:8869 original size:23 final size:23
Alignment explanation
Indices: 8819--8868 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
8809 TTAATGATAC
*
8819 TTTTTAAATTTTAATAATTTTAT
1 TTTTTAAATTTAAATAATTTTAT
*
8842 ATTTTAAATTTAAATAA-TTTAT
1 TTTTTAAATTTAAATAATTTTAT
8864 TTTTT
1 TTTTT
8869 TCATTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTAAATTTAAATAATTTTAT
Found at i:10316 original size:118 final size:118
Alignment explanation
Indices: 10120--10500 Score: 394
Period size: 118 Copynumber: 3.2 Consensus size: 118
10110 TAAAGATCTC
* ** * * * * **
10120 ATTGTTTAATTATGCATGATGGTTTA-ATACGAGCTCTTGGTATTTGTGTCATACCTAAGATGAT
1 ATTGTTTAATTATGCATGGTGGTTTATATATAAGTTATTGGTATTGGTGTCAAATATAAGATGAT
*** * * * * *
10184 -ATTTTGATTAAGATAATGAACAATGAAAGATGCTCGAAGAGAAATAATGTCCC
66 GA-ACCGAATAAGATAATGAACAATGAGAGATGCTCAAAGAGAAATAGTGTCCT
* * * * * *
10237 ATTGCTTAATTCTGTATGGTGGTTTATATATGAGTTATTGGTGTTGGTGTCAAACT-TAAGGTGA
1 ATTGTTTAATTATGCATGGTGGTTTATATATAAGTTATTGGTATTGGTGTCAAA-TATAAGATGA
* * *
10301 TGATA-TGAATAAGATAATGAACAATGAGAGATGCTCAAACATAAATAGTGTCCT
65 TGA-ACCGAATAAGATAATGAACAATGAGAGATGCTCAAAGAGAAATAGTGTCCT
* *
10355 ATTGTTTAATTATGCACGGTGGTTTATATATAAGTTTTTGGTATTGGTGTCAAATATAAGATGAT
1 ATTGTTTAATTATGCATGGTGGTTTATATATAAGTTATTGGTATTGGTGTCAAATATAAGATGAT
* * *
10420 GAACCGAATAAAATAATGAATAGTGAGAGA-GACTCAAAGAGAAATAGTGTCCT
66 GAACCGAATAAGATAATGAACAATGAGAGATG-CTCAAAGAGAAATAGTGTCCT
* *
10473 ATTATTTAATTTTGCATGGTGGTTTATA
1 ATTGTTTAATTATGCATGGTGGTTTATA
10501 AACGAGCACT
Statistics
Matches: 221, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
117 25 0.11
118 194 0.88
119 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (118 bp):
ATTGTTTAATTATGCATGGTGGTTTATATATAAGTTATTGGTATTGGTGTCAAATATAAGATGAT
GAACCGAATAAGATAATGAACAATGAGAGATGCTCAAAGAGAAATAGTGTCCT
Found at i:10494 original size:236 final size:224
Alignment explanation
Indices: 9978--10500 Score: 523
Period size: 236 Copynumber: 2.3 Consensus size: 224
9968 ATAAGATAAC
*
9978 AACAATGAGAGAGGCTCAAAGA-AAATAGTGT-TTCATTGTTTAATTTTGTATGGTGGTTTATAT
1 AACAATGAGAGA-GCTCAAAGAGAAATAGTGTCCT-ATTGTTTAATTTTGTATGGTGGTTTATAT
* * * *
10041 ACAAATATTTTGTGTTGATGTTAGACATAAGATGATGATTTGAATAAGATAATGAACAATGAGAG
64 ACAAATATTTGGTGTTGATGTCAAACATAAGATGATGATATGAATAAGATAATGAACAATGAGAG
* * *
10106 ATGCTAAAGATCTCATTGTTTAATTATGCATGATGGTTTAATACGAGCTCTTGGTATTTGTGTCA
129 ATGCTAAAGATCTCATTGTTTAATTATGCACGATGGTTTAATACAAGCTCTTGGTATTGGTGTCA
* * *** * *
10171 TACCTAAGATGATATTTTGATTAAGATAATG
194 AACATAAGATGATATACCGAATAAAATAATG
* * * * * *
10202 AACAATGAAAGATGCTCGAAGAGAAATAATGTCCCATTGCTTAATTCTGTATGGTGGTTTATATA
1 AACAATGAGAGA-GCTCAAAGAGAAATAGTGTCCTATTGTTTAATTTTGTATGGTGGTTTATATA
** * * * *
10267 TGAGT-TATTGGTGTTGGTGTCAAACTTAAGGTGATGATATGAATAAGATAATGAACAATGAGAG
65 CAAATAT-TTGGTGTTGATGTCAAACATAAGATGATGATATGAATAAGATAATGAACAATGAGAG
* * * * * *
10331 ATGCTCAAACATAAATAGTGTCCTATTGTTTAATTATGCACGGTGGTTTATATATAAGTTTTTGG
129 ATG------C-TAAAGA-TCT-C-ATTGTTTAATTATGCACGATGGTTTA-ATACAAGCTCTTGG
*
10396 TATTGGTGTCAAATATAAGATGATGA-ACCGAATAAAATAATG
183 TATTGGTGTCAAACATAAGATGAT-ATACCGAATAAAATAATG
* * * *
10438 AATAGTGAGAGAGACTCAAAGAGAAATAGTGTCCTATTATTTAATTTTGCATGGTGGTTTATA
1 AACAATGAGAGAG-CTCAAAGAGAAATAGTGTCCTATTGTTTAATTTTGTATGGTGGTTTATA
10501 AACGAGCACT
Statistics
Matches: 238, Mismatches: 45, Indels: 20
0.79 0.15 0.07
Matches are distributed among these distances:
224 20 0.08
225 91 0.38
231 1 0.00
232 5 0.02
233 2 0.01
234 1 0.00
235 25 0.11
236 92 0.39
237 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (224 bp):
AACAATGAGAGAGCTCAAAGAGAAATAGTGTCCTATTGTTTAATTTTGTATGGTGGTTTATATAC
AAATATTTGGTGTTGATGTCAAACATAAGATGATGATATGAATAAGATAATGAACAATGAGAGAT
GCTAAAGATCTCATTGTTTAATTATGCACGATGGTTTAATACAAGCTCTTGGTATTGGTGTCAAA
CATAAGATGATATACCGAATAAAATAATG
Found at i:21141 original size:21 final size:21
Alignment explanation
Indices: 21115--21164 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
21105 CACCAGTCGT
*
21115 TGCGATTTTGGACTATCGAAA
1 TGCGATTTTCGACTATCGAAA
** * *
21136 TGCGATAGTCGACTATCGCAT
1 TGCGATTTTCGACTATCGAAA
21157 TGCGATTT
1 TGCGATTT
21165 ACATATTCGC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (21 bp):
TGCGATTTTCGACTATCGAAA
Found at i:21199 original size:21 final size:21
Alignment explanation
Indices: 21170--21237 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
21160 GATTTACATA
21170 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
21191 TTCGGATTGCGATAATCCAAG
1 TTCGCATTGCGATAGTCCAAG
21212 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
21233 TTCGC
1 TTCGC
21238 GTAGCGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:21623 original size:18 final size:19
Alignment explanation
Indices: 21602--21638 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21592 AAATATAAGT
*
21602 ATTAATTTTA-ATATTAAA
1 ATTAAGTTTACATATTAAA
21620 ATTAAGTTTACATATTAAA
1 ATTAAGTTTACATATTAAA
21639 TACTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTAAGTTTACATATTAAA
Found at i:25108 original size:22 final size:24
Alignment explanation
Indices: 25080--25129 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
25070 TAAAGAAGAT
*
25080 AAAAATGT-GCTTAAAAACAAA-G
1 AAAAATGTAGCATAAAAACAAATG
*
25102 AAAAATGTATCATAAAAACAAATG
1 AAAAATGTAGCATAAAAACAAATG
25126 AAAA
1 AAAA
25130 CGTGTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 11 0.46
24 5 0.21
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (24 bp):
AAAAATGTAGCATAAAAACAAATG
Found at i:25117 original size:23 final size:23
Alignment explanation
Indices: 25091--25146 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
25081 AAAATGTGCT
*
25091 TAAAAACAAA-GAAAAATGTATCA
1 TAAAAACAAATG-AAAACGTATCA
*
25114 TAAAAACAAATGAAAACGTGTCA
1 TAAAAACAAATGAAAACGTATCA
*
25137 TAAAGACAAA
1 TAAAAACAAA
25147 ATTATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (23 bp):
TAAAAACAAATGAAAACGTATCA
Found at i:25807 original size:29 final size:29
Alignment explanation
Indices: 25753--25809 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
25743 TCTTGCATTG
*
25753 TATTTTTTTTCTTCTATACTACATTTTTCT
1 TATTTTTTTTCTCCTATACTA-ATTTTTCT
*
25783 TATTTTTTTTCTCCATGTACT-ATTTTT
1 TATTTTTTTTCTCC-TATACTAATTTTT
25810 AAAAAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.25
30 13 0.54
31 5 0.21
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (29 bp):
TATTTTTTTTCTCCTATACTAATTTTTCT
Found at i:26909 original size:10 final size:10
Alignment explanation
Indices: 26896--26933 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
26886 ATATTTCTAA
26896 AAAAATAATG
1 AAAAATAATG
*
26906 AAAAATGA-G
1 AAAAATAATG
26915 AAAAA-AATG
1 AAAAATAATG
26924 AAAAATAATG
1 AAAAATAATG
26934 TGGTGAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 1 0.04
9 12 0.50
10 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (10 bp):
AAAAATAATG
Found at i:28208 original size:58 final size:60
Alignment explanation
Indices: 28155--28268 Score: 160
Period size: 58 Copynumber: 1.9 Consensus size: 60
28145 TATAATTATG
* *
28155 AATAGTCAGATGATCATTTTGTAAGTTTTAATAGTT-GAAGA-GTAACAAAATAATGCCT
1 AATAGTCAGATGATCATTTTGTAACTTTTAATAGTTAGAAGACGTAACAAAATAATGCAT
* * * *
28213 TATAGTTAGATGATCATTTTGTAACTTTTAATAGTTAGGAGACTTAACAAAATAAT
1 AATAGTCAGATGATCATTTTGTAACTTTTAATAGTTAGAAGACGTAACAAAATAAT
28269 ATCCTATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 33 0.67
59 4 0.08
60 12 0.24
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (60 bp):
AATAGTCAGATGATCATTTTGTAACTTTTAATAGTTAGAAGACGTAACAAAATAATGCAT
Found at i:28453 original size:21 final size:23
Alignment explanation
Indices: 28413--28459 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
28403 ATCATTAGGC
*
28413 CACTCACTCATTTCCTTTCAACT
1 CACTCACTCATATCCTTTCAACT
28436 CACTCACTCA-AT-CTTTCAACT
1 CACTCACTCATATCCTTTCAACT
28457 CAC
1 CAC
28460 CTCCTCCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
22 1 0.04
23 10 0.43
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.34
Consensus pattern (23 bp):
CACTCACTCATATCCTTTCAACT
Found at i:28669 original size:15 final size:16
Alignment explanation
Indices: 28649--28685 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
28639 CCCATCGCCG
28649 CCTCCACC-GTCTCC-A
1 CCTCCACCAG-CTCCTA
28664 CCTCCACCAGCTCCTA
1 CCTCCACCAGCTCCTA
28680 CCTCCA
1 CCTCCA
28686 ACTACTGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.16, C:0.59, G:0.05, T:0.19
Consensus pattern (16 bp):
CCTCCACCAGCTCCTA
Found at i:31898 original size:2 final size:2
Alignment explanation
Indices: 31893--31939 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
31883 TTTTTATAAC
31893 TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31936 TA TA
1 TA TA
31940 CTTTTCATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32465 original size:120 final size:115
Alignment explanation
Indices: 32219--32484 Score: 320
Period size: 120 Copynumber: 2.3 Consensus size: 115
32209 AAACAAAAAT
* * *
32219 TCAAGTCA-TCCACCACGCCGCTCTTCATAGTAAAATCTCTAATTTCTAAAATTCCTAATTTCGT
1 TCAAGTCATTCCACCACACCGCTCTTCATAGTAAAATCTCTAATTTATAAAATTCCTAATTTCAT
*
32283 CCTAAAACCACTAAAAATCTATCTATTTCCTCCTACTCCATCTGCTACAG
66 CCTAAAACCACTAAAAATCTATCTATTTCCTCCTACTCCATCTGATACAG
* * * *
32333 TTAAATCATTCCA-CAGCACCGCTCTTCGTCGTAAAATCTCTAATTTATAAAATTAATTCCTAAT
1 TCAAGTCATTCCACCA-CACCGCTCTTCATAGTAAAATCTCTAATTTAT--AA--AATTCCTAAT
* * * * *
32397 TTCATCTTAAAACCACTAAAATTCTAATTTTTTTCCTCCTACTCTATCTGATACAG
61 TTCATCCTAAAACCACTAAAAATCT-ATCTATTTCCTCCTACTCCATCTGATACAG
* * *
32453 TCAAGTCATTCCATCACGCCGCTTTTCATAGT
1 TCAAGTCATTCCACCACACCGCTCTTCATAGT
32485 CGATGGGTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
114 8 0.06
115 32 0.26
117 2 0.02
119 32 0.26
120 49 0.39
121 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (115 bp):
TCAAGTCATTCCACCACACCGCTCTTCATAGTAAAATCTCTAATTTATAAAATTCCTAATTTCAT
CCTAAAACCACTAAAAATCTATCTATTTCCTCCTACTCCATCTGATACAG
Found at i:34488 original size:25 final size:25
Alignment explanation
Indices: 34460--34510 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
34450 CCGCCTAATG
*
34460 GCCACCATCC-ATGCTTTCGTGGATT
1 GCCACCA-CCTATGCTTCCGTGGATT
*
34485 GCCATCACCTATGCTTCCGTGGATT
1 GCCACCACCTATGCTTCCGTGGATT
34510 G
1 G
34511 TAAATTGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (25 bp):
GCCACCACCTATGCTTCCGTGGATT
Found at i:35795 original size:31 final size:31
Alignment explanation
Indices: 35760--35825 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
35750 ATTCATTTTT
35760 TAAACTTTGGTCTAAATTTCAATTTTCACGA
1 TAAACTTTGGTCTAAATTTCAATTTTCACGA
35791 TAAACTTTGGTCTAAATTTCAATTTTCACGA
1 TAAACTTTGGTCTAAATTTCAATTTTCACGA
35822 TAAA
1 TAAA
35826 GACAATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (31 bp):
TAAACTTTGGTCTAAATTTCAATTTTCACGA
Found at i:38561 original size:21 final size:21
Alignment explanation
Indices: 38513--38587 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
38503 CATGAAATAT
* *
38513 ATATTTTAAAATTTTCCTCTT-
1 ATATTTTAAAATTTT-ATATTA
*
38534 ATTTTTTAAAATTTTATATTA
1 ATATTTTAAAATTTTATATTA
* *
38555 ATATTTT--TATTTATAAATTA
1 ATATTTTAAAATTT-TATATTA
38575 ATAATTTTAAAAT
1 AT-ATTTTAAAAT
38588 ATAAATTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 4 0.10
20 11 0.26
21 25 0.60
23 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTAAAATTTTATATTA
Found at i:45403 original size:2 final size:2
Alignment explanation
Indices: 45396--45425 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45386 TGCATATGAA
45396 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
45426 TAGGGTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49219 original size:120 final size:120
Alignment explanation
Indices: 49003--49238 Score: 454
Period size: 120 Copynumber: 2.0 Consensus size: 120
48993 ACATAAAATT
49003 TCATTTATTCATAACCAAATATGCATACACTGCACATGTTATTCCACCTTTTAAACATTGTTATA
1 TCATTTATTCATAACCAAATATGCATACACTGCACATGTTATTCCACCTTTTAAACATTGTTATA
*
49068 CCATCTTCATATTTCCGTACATCAAGGCTTTCCGAGGACTTCTTTGCAGATAATC
66 CCATCTTCATATTTCCGTACATCAAGACTTTCCGAGGACTTCTTTGCAGATAATC
*
49123 TCATTTATTCATAACCAAATATGTATACACTGCACATGTTATTCCACCTTTTAAACATTGTTATA
1 TCATTTATTCATAACCAAATATGCATACACTGCACATGTTATTCCACCTTTTAAACATTGTTATA
49188 CCATCTTCATATTTCCGTACATCAAGACTTTCCGAGGACTTCTTTGCAGAT
66 CCATCTTCATATTTCCGTACATCAAGACTTTCCGAGGACTTCTTTGCAGAT
49239 GATGCCTTCG
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (120 bp):
TCATTTATTCATAACCAAATATGCATACACTGCACATGTTATTCCACCTTTTAAACATTGTTATA
CCATCTTCATATTTCCGTACATCAAGACTTTCCGAGGACTTCTTTGCAGATAATC
Found at i:60397 original size:24 final size:24
Alignment explanation
Indices: 60346--60409 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
60336 CCCTCATTCC
* *
60346 TGAACACATAAACAAACATGTTGA
1 TGAACATATAAACGAACATGTTGA
*
60370 TGAACATATAAACGAATATGTTTG-
1 TGAACATATAAACGAACATG-TTGA
*
60394 TGAACGT-TAAACGAAC
1 TGAACATATAAACGAAC
60410 CTAAAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 8 0.24
24 23 0.68
25 3 0.09
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (24 bp):
TGAACATATAAACGAACATGTTGA
Found at i:61091 original size:24 final size:23
Alignment explanation
Indices: 61047--61098 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
61037 GAGCTACCAC
61047 TAAACAAACATTTTGACGAACAT
1 TAAACAAACATTTTGACGAACAT
* *
61070 ATAAACAAATATGTTTG-TGAACAT
1 -TAAACAAACAT-TTTGACGAACAT
61094 TAAAC
1 TAAAC
61099 GAATCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 16 0.64
25 4 0.16
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (23 bp):
TAAACAAACATTTTGACGAACAT
Found at i:62953 original size:59 final size:59
Alignment explanation
Indices: 62842--62953 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
62832 TAAGACTGTT
* *
62842 ATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATTTCCATACTATGATTTC
1 ATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATTTACAAACTATGATTTC
* **
62901 ATTCTAAATTGGTCCTCAAACTTTTTGGCCATTTCAATTTCA-TTACAAACTAT
1 ATTCTAAATTAGTCCTCAAAC-TTTTGAACATTTCAATTTCATTTACAAACTAT
62954 ATGTATATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 29 0.62
60 18 0.38
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (59 bp):
ATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATTTACAAACTATGATTTC
Found at i:63239 original size:60 final size:60
Alignment explanation
Indices: 63081--63239 Score: 142
Period size: 60 Copynumber: 2.7 Consensus size: 60
63071 ATGAATTTGG
* ** * * ** **
63081 GGATGAAATTAGAGGATTCAAAAGTTT-GGGACCAATTTAGGATGATAATCATAGTTTGG
1 GGATGAAATGAGAATATTCAAAAGTTTAAGGACTAATTTACAATGATAATCATAGTTTAA
* * * * * * *
63140 GGATGAAATTAGAATGTTCAAAAGCTCAAGGATTTATTTACAATGATAGTCATAGTTTAA
1 GGATGAAATGAGAATATTCAAAAGTTTAAGGACTAATTTACAATGATAATCATAGTTTAA
*
63200 GGATGAAAATGA-AATATTCAAAAGTTTAAGAACTAATTTA
1 GGATG-AAATGAGAATATTCAAAAGTTTAAGGACTAATTTA
63240 AAAATAAAAA
Statistics
Matches: 77, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
59 22 0.29
60 50 0.65
61 5 0.06
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (60 bp):
GGATGAAATGAGAATATTCAAAAGTTTAAGGACTAATTTACAATGATAATCATAGTTTAA
Found at i:63440 original size:14 final size:15
Alignment explanation
Indices: 63409--63441 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
63399 GTTAAAAAGA
*
63409 AAAAAATATTTGTAT
1 AAAAAATATTTATAT
63424 AAAAAATATTTAT-T
1 AAAAAATATTTATAT
63438 AAAA
1 AAAA
63442 TTAAATTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAAAATATTTATAT
Done.