genome.fa.s9625.2.7.7.80.10.50.1000.23.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  23  of  25  ( 2922 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6499590--6499650	21	2.9	21	92	0	77	26	36	24	13	1.92
6500102--6500130	15	1.9	15	100	0	58	37	6	0	55	1.27
6501271--6501295	12	2.1	12	100	0	50	28	32	40	0	1.57
6505527--6505556	11	2.8	11	95	5	53	66	0	0	33	0.92
6505569--6505609	3	13.3	3	84	5	55	70	0	2	26	0.99
6505569--6505709	59	2.4	58	74	18	137	72	2	4	19	1.16
6506966--6506998	12	2.6	13	85	9	50	75	3	0	21	0.93
6506958--6507008	19	2.7	18	84	6	57	74	1	3	19	1.07
6507005--6507190	38	4.9	38	78	13	138	52	4	0	43	1.22
6507033--6507168	38	3.6	37	84	9	177	49	5	0	44	1.26
6507158--6507184	2	13.5	2	100	0	54	48	0	0	51	1.00
6507114--6507219	53	2.0	52	90	5	169	47	5	0	47	1.26
6507119--6507269	53	2.9	53	81	8	161	46	7	0	45	1.35
6507066--6507279	90	2.4	89	76	7	211	46	7	0	45	1.36
6507243--6507294	25	2.1	25	96	0	95	42	7	5	44	1.57
6509483--6509710	54	4.2	54	89	0	321	31	14	17	36	1.89
6512456--6512483	14	2.0	14	100	0	56	42	7	0	50	1.30
6519099--6519212	60	1.9	60	85	0	156	34	12	13	40	1.81
6520531--6520565	16	2.1	17	94	5	63	31	8	25	34	1.86
6530920--6530960	20	2.0	21	95	4	75	34	19	19	26	1.96
6533004--6533063	22	2.7	23	79	7	70	46	8	18	26	1.77
6536148--6536187	18	2.2	18	100	0	80	5	32	20	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6539395--6539516	63	2.0	61	82	9	149	42	9	10	36	1.73
6540310--6540358	25	2.0	25	87	0	71	30	20	18	30	1.96
6541009--6541069	25	2.4	25	88	0	86	59	1	4	34	1.29
6541079--6541168	45	2.0	45	86	4	128	24	7	27	40	1.83
6541341--6541421	38	2.1	38	88	0	117	28	7	23	40	1.81
6544381--6544630	27	8.9	27	75	11	173	42	4	15	38	1.66
6544381--6544630	54	4.4	54	73	10	214	42	4	15	38	1.66
6544400--6544617	118	1.8	118	95	0	391	42	3	15	39	1.63
6553940--6553970	14	2.3	13	94	5	53	22	0	29	48	1.51
6554017--6554084	11	6.3	11	70	14	52	39	0	2	57	1.14
6554013--6554058	19	2.6	18	77	16	51	41	0	0	58	0.98
6554040--6554094	25	2.2	24	78	12	58	38	0	5	56	1.23
6555341--6555390	18	2.8	18	84	0	64	30	30	22	18	1.97
6555397--6555429	16	2.1	16	94	0	57	48	30	3	18	1.63
6559516--6559569	21	2.5	22	85	11	76	25	25	16	31	1.97
6562208--6562242	18	1.9	18	94	0	61	28	8	0	62	1.24
6563083--6563237	64	2.4	67	84	3	208	29	18	21	29	1.97
6563252--6563292	21	2.0	21	100	0	82	36	19	19	24	1.95
6565018--6565141	57	2.2	59	83	5	164	44	21	5	28	1.75
6565018--6565142	29	4.3	29	88	2	153	44	22	5	28	1.75
6570216--6570257	11	3.5	11	82	17	57	66	14	16	2	1.35
6570222--6570265	14	3.4	14	81	18	67	63	15	15	4	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6570216--6570265	25	2.0	25	100	0	100	64	16	16	4	1.44
6570555--6570710	64	2.4	65	88	1	224	29	21	21	28	1.98
6571167--6571241	28	2.7	28	80	0	96	36	25	17	21	1.95
6572174--6572244	19	3.6	19	92	5	115	26	25	16	30	1.97
6572175--6572270	40	2.4	39	84	8	115	27	26	16	30	1.97
6578638--6578688	14	3.6	14	91	2	66	23	7	0	68	1.15
6578715--6578766	20	2.5	21	81	9	61	19	11	9	59	1.59
6579902--6579970	16	4.2	17	74	3	63	43	28	11	15	1.82
6580828--6580882	24	2.3	24	77	0	56	38	18	18	25	1.93
6580893--6580949	23	2.5	23	85	0	60	33	22	21	22	1.97
6581039--6581125	44	2.0	44	84	4	113	35	19	13	31	1.91
6584438--6584533	32	2.8	34	80	15	99	46	4	2	46	1.33
6584477--6584851	37	10.0	36	77	16	133	45	6	3	44	1.47
6584490--6584903	38	10.9	36	82	9	375	45	7	3	43	1.49
6584443--6584941	111	4.5	111	77	13	415	45	7	3	44	1.47
6584556--6584941	75	5.1	73	80	9	370	44	8	3	43	1.49
6585624--6589357	247	15.2	245	81	4	3503	26	19	23	30	1.98
6585624--6589357	164	22.8	163	77	6	2721	26	19	23	30	1.98
6593223--6593247	6	4.2	6	100	0	50	68	0	0	32	0.90
6593385--6593431	14	3.1	14	84	9	58	70	2	12	14	1.26
6593528--6593581	17	3.3	17	71	23	53	64	0	12	22	1.27
6593514--6593588	32	2.3	32	93	6	125	68	0	10	21	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6594512--6594570	26	2.3	26	84	0	73	13	23	20	42	1.88
6594830--6594871	7	6.0	7	83	8	50	57	0	0	42	0.99
6594911--6594967	21	2.6	21	81	15	71	47	5	5	42	1.48
6594946--6595217	37	7.2	36	80	7	258	45	6	4	42	1.52
6594950--6595217	75	3.6	74	82	7	274	45	7	4	42	1.52
6596188--6596246	26	2.3	26	85	5	75	15	23	20	40	1.90
6596517--6596543	14	1.9	14	100	0	54	51	0	0	48	1.00
6596585--6596641	21	2.6	21	81	15	71	47	5	5	42	1.48
6596624--6596929	75	4.1	73	80	8	287	45	8	4	42	1.54
6596620--6596891	37	7.2	36	80	7	258	45	6	4	42	1.52
6596924--6596962	2	19.5	2	94	0	69	48	2	0	48	1.15
6597507--6597887	84	4.6	82	80	2	354	24	18	24	32	1.97
6597544--6597847	163	1.8	167	82	3	391	25	19	23	31	1.97
6600754--6600784	16	2.0	16	93	6	55	74	6	12	6	1.21
6601726--6601750	6	4.2	6	100	0	50	68	0	0	32	0.90
6601863--6601970	54	2.0	54	81	15	125	67	1	15	14	1.32
6601947--6601987	13	3.2	13	80	13	57	80	0	4	14	0.87
6603232--6603271	10	4.0	11	81	18	52	55	0	0	45	0.99
6603225--6603268	14	2.9	15	83	13	54	59	0	0	40	0.98
6603255--6603731	37	13.4	36	73	17	301	46	6	2	44	1.43
6603259--6603478	32	6.4	32	71	21	117	45	5	2	47	1.39
6603254--6603603	38	9.6	38	80	14	325	46	5	2	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6603254--6603731	75	6.7	73	77	15	412	46	6	2	44	1.43
6603526--6603660	64	2.1	64	91	0	216	49	5	2	42	1.40
6603562--6603617	27	2.0	28	89	3	87	50	5	3	41	1.43
6603562--6603628	25	2.5	27	83	7	75	50	4	2	41	1.37
6603726--6603767	2	22.0	2	83	9	52	54	2	0	42	1.13
6605437--6605494	3	19.3	3	100	0	116	67	0	0	32	0.91
6610431--6610461	2	15.5	2	100	0	62	51	0	0	48	1.00
6614182--6614250	17	3.9	17	92	3	111	13	23	46	17	1.83
6614226--6614259	14	2.4	14	95	0	59	11	26	47	14	1.79
6614247--6614306	9	6.3	9	79	11	66	28	30	26	15	1.96
6614250--6614306	19	2.9	19	87	5	78	29	31	24	14	1.94
6614253--6614307	20	2.8	20	88	2	76	29	30	23	16	1.96
6617966--6618007	21	2.0	21	100	0	84	47	14	0	38	1.44
6619769--6620397	317	2.0	317	94	0	1114	37	16	18	27	1.92
6624701--6624761	25	2.4	25	91	2	95	44	6	4	44	1.51
6624726--6624875	37	3.9	37	81	12	146	44	6	9	40	1.61
6624726--6624875	74	2.0	76	88	5	223	44	6	9	40	1.61
6624865--6624943	40	2.0	41	85	7	108	45	7	6	40	1.58
6624986--6625072	5	18.2	5	77	14	78	37	0	1	60	1.04
6624991--6625065	24	3.2	24	80	12	93	38	0	1	60	1.06
6624986--6625070	37	2.2	39	82	14	97	37	0	1	61	1.04
6629960--6630018	24	2.5	24	85	0	73	35	23	20	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6632560--6632618	26	2.3	27	91	5	95	22	10	1	66	1.31
6637165--6637247	32	2.6	32	84	3	105	34	25	15	24	1.95
6637871--6638054	38	4.8	38	77	11	160	47	5	8	39	1.56
6638042--6638070	2	14.5	2	100	0	58	51	0	0	48	1.00
6637944--6638050	37	2.9	35	79	9	99	48	6	8	36	1.59
6638166--6638230	5	13.8	5	80	19	70	35	0	0	64	0.94
6638166--6638225	14	4.4	14	88	10	81	36	0	0	63	0.95
6638166--6638230	34	2.0	32	88	11	96	35	0	0	64	0.94
6638182--6638230	14	3.9	12	82	17	64	32	0	0	67	0.91
6642783--6642985	37	5.3	38	72	15	143	42	5	10	41	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25