genome.fa.s8645.2.7.7.80.10.50.1000.9.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

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

This is table  9  of  22  ( 2605 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)
1573338--1573445	39	2.6	43	82	12	127	47	12	0	39	1.47
1574015--1574064	26	1.9	26	87	0	73	14	38	28	20	1.91
1574481--1574551	37	1.9	36	82	2	88	57	2	1	38	1.22
1575470--1575519	23	2.2	22	82	10	64	44	0	2	54	1.11
1575473--1575519	24	2.0	23	87	4	67	46	0	2	51	1.13
1577253--1577286	17	2.0	17	94	0	59	8	23	5	61	1.47
1580994--1581077	31	2.7	31	87	7	127	35	5	16	41	1.73
1586767--1586834	35	1.9	35	87	0	100	44	19	0	36	1.51
1586828--1586898	35	2.1	34	86	5	99	40	0	14	45	1.44
1586839--1586912	35	2.1	35	90	2	114	35	0	18	45	1.50
1595765--1595891	44	3.2	44	65	28	127	25	1	12	59	1.42
1595737--1595968	76	3.0	78	84	11	286	29	1	12	56	1.44
1595762--1595974	76	2.9	74	90	4	297	28	0	12	58	1.41
1595950--1595990	20	2.0	20	85	9	55	29	0	19	51	1.47
1596070--1596113	12	3.7	12	87	0	70	9	25	2	63	1.35
1596566--1596599	17	2.0	17	88	0	50	23	0	2	73	0.97
1602154--1602256	5	20.2	5	72	11	75	21	4	1	71	1.14
1602160--1602200	22	1.9	21	90	5	64	14	4	2	78	1.03
1604117--1604243	44	3.2	44	65	28	127	25	1	12	60	1.41
1604114--1604329	76	2.9	75	90	4	312	28	0	12	58	1.40
1610822--1611063	55	4.4	55	80	1	261	27	26	20	26	1.99
1610825--1611064	110	2.2	110	87	1	338	27	26	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610906--1611056	28	5.5	28	65	15	82	27	26	20	25	1.99
1610822--1611141	55	5.8	56	77	5	210	28	25	19	26	1.99
1610825--1611141	110	2.9	109	79	6	284	28	26	19	26	1.99
1618377--1618593	115	1.9	115	85	3	303	26	12	17	43	1.85
1619389--1619455	23	2.9	22	80	12	73	71	1	2	23	1.08
1619400--1619452	13	3.9	14	83	16	58	71	1	1	24	1.06
1620379--1620455	34	2.3	34	84	2	93	54	9	11	24	1.65
1620731--1620761	2	15.5	2	100	0	62	48	0	0	51	1.00
1622699--1622815	38	3.1	37	80	4	119	47	0	2	49	1.21
1624195--1624404	23	9.2	23	82	5	257	46	1	30	21	1.60
1624195--1624404	46	4.6	46	86	2	291	46	1	30	21	1.60
1624204--1624426	68	3.3	66	79	9	243	47	2	27	22	1.63
1625299--1625352	2	27.0	2	84	0	54	46	7	0	46	1.31
1625297--1625327	10	3.1	10	100	0	62	38	0	0	61	0.96
1625314--1625362	24	2.0	24	92	0	80	48	18	0	32	1.48
1625319--1625358	20	2.0	20	95	0	71	50	17	0	32	1.47
1626565--1626605	21	1.9	22	85	5	57	51	12	2	34	1.52
1629834--1629880	21	2.2	21	84	0	58	36	14	25	23	1.93
1633987--1634031	14	3.1	14	84	6	54	20	8	0	71	1.12
1633987--1634054	15	4.5	15	76	8	57	22	5	2	69	1.24
1634001--1634055	5	10.6	5	80	7	65	21	1	3	72	1.09
1638715--1638741	14	1.9	14	100	0	54	66	0	11	22	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640004--1640120	40	2.8	41	79	11	114	26	12	20	40	1.88
1640032--1640120	40	2.2	42	85	4	119	26	12	20	40	1.88
1640164--1640248	44	1.9	44	82	0	107	31	17	20	30	1.95
1640414--1640471	21	2.8	21	89	0	89	46	20	10	22	1.81
1643111--1643192	41	2.0	42	85	2	112	35	6	20	37	1.78
1643134--1643507	41	9.2	41	80	3	299	36	16	17	29	1.92
1650148--1650190	19	2.2	20	95	4	79	25	0	0	74	0.82
1650148--1650190	10	4.4	10	94	5	79	25	0	0	74	0.82
1650148--1650206	28	2.1	28	87	6	84	22	0	0	77	0.76
1651130--1651182	3	18.7	3	88	11	85	69	0	0	30	0.88
1651371--1651797	135	3.2	135	80	4	398	30	15	21	32	1.94
1651888--1651943	27	2.1	27	96	0	103	41	7	16	35	1.75
1658120--1658251	34	3.6	34	74	20	129	35	11	24	28	1.90
1658065--1658308	79	3.1	79	92	0	407	35	11	25	26	1.91
1658154--1658421	124	2.2	124	92	0	437	33	12	26	28	1.92
1658323--1658470	34	4.0	34	73	19	127	37	10	22	29	1.88
1658278--1658461	79	2.3	79	91	1	289	34	11	25	28	1.91
1658075--1658461	203	1.9	203	93	0	666	34	12	25	27	1.92
1658278--1658487	79	2.7	79	85	1	269	37	11	22	28	1.89
1658472--1658590	46	2.6	46	90	0	184	47	10	18	22	1.79
1664445--1664497	26	2.0	26	100	0	106	50	7	3	37	1.49
1667461--1667512	3	18.3	3	78	11	56	63	0	3	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667991--1668150	82	1.9	83	80	1	187	32	20	17	30	1.95
1667934--1668171	83	2.9	82	70	10	200	32	19	17	30	1.95
1679154--1679189	2	18.0	2	100	0	72	50	0	0	50	1.00
1679179--1679260	45	1.9	43	80	14	98	63	2	1	32	1.15
1679171--1679268	53	1.9	51	82	12	121	62	2	1	34	1.14
1679163--1679281	60	2.0	61	90	5	188	60	1	1	36	1.17
1679187--1679284	28	3.4	28	75	20	110	64	2	2	31	1.16
1681166--1681232	28	2.4	28	82	0	80	8	20	17	52	1.72
1694277--1694314	20	1.9	20	100	0	76	36	10	28	23	1.88
1696610--1696692	44	2.0	41	83	11	105	56	4	2	36	1.34
1702219--1702253	18	1.9	18	88	0	52	28	2	8	60	1.41
1705056--1705115	31	2.0	29	87	6	84	33	16	20	30	1.94
1707916--1707942	2	13.5	2	100	0	54	48	0	0	51	1.00
1708984--1709026	17	2.5	17	100	0	86	51	4	6	37	1.50
1712184--1712209	11	2.4	11	100	0	52	38	19	19	23	1.93
1713829--1713893	3	21.7	3	100	0	130	32	0	0	67	0.91
1716370--1716491	53	2.3	53	94	0	208	44	5	19	30	1.74
1717684--1717721	19	2.0	20	89	5	60	68	5	5	21	1.29
1720648--1720916	124	2.2	124	88	1	396	29	20	17	31	1.96
1720642--1721087	42	10.9	41	74	8	318	30	20	17	32	1.95
1720642--1721028	124	3.1	122	82	4	325	29	20	17	32	1.95
1720772--1721070	164	1.8	164	87	1	447	29	20	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722512--1722578	31	2.3	29	85	10	84	46	8	16	28	1.77
1725123--1725165	19	2.1	20	83	12	52	27	11	4	55	1.55
1726290--1726427	43	3.2	43	87	2	197	24	26	20	28	1.99
1733282--1733335	20	2.7	20	80	8	65	35	11	31	22	1.89
1739384--1739428	20	2.3	19	81	11	54	35	15	31	17	1.92
1739384--1739434	20	2.6	19	74	20	50	37	15	29	17	1.91
1739459--1739529	22	3.5	22	75	9	62	28	15	26	29	1.96
1739854--1740390	54	9.9	54	87	1	729	27	17	21	33	1.96
1745125--1745205	32	2.5	31	80	9	92	38	24	18	18	1.93
1745298--1745330	16	2.1	16	100	0	66	24	24	12	39	1.89
1745376--1745454	40	2.0	40	85	12	108	48	3	2	45	1.34
1745988--1746035	17	2.8	17	90	0	78	22	12	16	47	1.80
1746618--1746680	30	2.1	30	82	5	74	39	7	0	52	1.31
1746657--1746841	57	3.2	57	76	11	187	36	8	3	51	1.49
1746735--1746854	22	5.3	22	77	13	104	37	7	4	50	1.50
1746764--1746841	14	5.4	14	75	20	54	38	7	2	51	1.44
1746835--1747935	2	553.0	2	63	22	170	40	6	3	49	1.44
1746835--1747931	22	51.2	22	66	21	248	40	6	3	49	1.44
1746835--1747516	65	10.8	65	69	21	241	37	7	3	51	1.45
1747051--1747225	85	2.1	83	85	6	228	37	8	2	52	1.46
1746962--1747614	306	2.2	295	76	14	684	38	7	2	51	1.44
1747348--1747531	90	2.0	98	88	8	276	36	6	2	53	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747384--1747602	90	2.4	89	82	12	254	38	4	2	53	1.36
1747435--1747707	141	1.9	143	80	11	321	41	4	2	51	1.36
1747637--1747707	21	3.2	21	80	13	65	47	1	2	47	1.25
1747516--1747722	102	2.0	100	83	7	258	43	2	3	49	1.34
1747864--1747932	11	6.8	10	70	20	54	42	4	2	50	1.37
1747797--1747935	37	3.9	36	76	11	108	48	5	2	43	1.39
1747483--1747910	13	31.8	13	66	20	109	45	4	3	46	1.40
1757045--1757475	74	5.9	74	86	1	562	32	19	11	37	1.87
1757069--1757390	38	8.7	36	68	8	171	30	20	11	38	1.87
1757504--1757553	23	2.2	23	96	0	91	38	22	8	32	1.83

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