genome.fa.s8478.2.7.7.80.10.50.1000.6.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: VEPZ01008478.1 Hibiscus syriacus cultivar Beakdansim tig00111309_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1476524

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 822 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)
1010130--1010205	11	6.5	11	72	23	59	64	3	2	28	1.25
1011610--1011661	3	17.0	3	78	11	52	59	0	1	38	1.08
1011588--1011660	37	2.0	36	82	12	87	56	0	1	42	1.08
1011588--1011657	28	2.6	25	82	13	68	55	0	1	42	1.08
1015555--1015581	2	13.5	2	100	0	54	51	0	0	48	1.00
1019678--1019704	13	2.1	13	100	0	54	0	0	7	92	0.38
1021052--1021185	39	3.4	39	75	4	119	36	14	20	27	1.92
1021249--1021478	40	5.8	40	78	6	234	36	14	22	26	1.93
1021236--1021474	120	2.0	120	86	3	338	37	14	21	26	1.92
1023789--1023822	16	2.1	16	88	5	50	73	8	14	2	1.19
1026647--1026676	14	2.1	14	100	0	60	40	10	13	36	1.78
1033859--1033989	65	2.0	65	95	0	235	44	15	9	30	1.79
1034428--1034466	20	2.1	19	86	13	55	48	28	2	20	1.62
1035387--1035491	20	5.2	20	70	4	77	34	11	10	43	1.75
1035372--1035491	40	3.0	40	80	7	145	34	12	10	43	1.76
1038500--1038683	44	4.2	44	79	8	133	30	14	21	33	1.93
1039028--1039080	21	2.5	21	93	0	88	1	35	20	41	1.64
1045389--1045648	45	5.8	45	93	1	425	40	6	21	30	1.80
1047042--1047083	22	2.0	21	90	9	68	33	2	35	28	1.70
1048617--1048659	20	2.2	20	86	0	59	32	25	13	27	1.94
1058991--1059021	2	15.5	2	100	0	62	48	0	0	51	1.00
1061449--1061473	13	1.9	13	100	0	50	48	0	28	24	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064235--1064325	42	2.2	42	82	4	112	26	23	16	34	1.95
1075958--1076050	3	31.0	3	91	4	152	34	2	0	63	1.07
1077451--1077520	17	3.9	17	73	12	50	42	2	1	52	1.24
1078238--1078273	18	2.1	18	89	5	56	33	2	0	63	1.08
1079895--1079935	20	2.0	20	85	0	55	19	12	9	58	1.61
1082724--1082775	26	2.0	25	92	3	86	69	11	15	3	1.32
1082761--1082825	11	5.8	11	76	7	51	78	1	16	3	0.96
1082771--1082827	18	3.0	19	79	7	55	75	1	19	3	1.04
1084928--1085142	110	2.0	108	83	9	276	33	14	21	30	1.94
1087662--1087716	22	2.5	22	85	5	76	32	16	14	36	1.89
1088104--1088540	113	3.9	114	95	1	772	41	14	16	27	1.87
1088479--1088580	40	2.5	40	93	3	170	51	8	21	17	1.72
1088363--1088693	154	2.2	153	92	0	536	43	12	19	24	1.85
1088517--1088936	113	3.7	113	87	3	583	38	14	20	27	1.91
1088250--1088809	267	2.1	267	90	1	863	41	13	18	26	1.87
1088518--1088936	227	1.8	228	89	1	662	38	14	20	27	1.91
1088139--1088919	380	2.1	380	89	1	1183	40	13	18	26	1.88
1088981--1089039	17	3.4	17	70	25	59	49	11	23	15	1.77
1095496--1095598	36	2.9	36	94	0	179	43	15	15	25	1.86
1099745--1099802	20	2.6	22	76	10	57	29	20	24	25	1.99
1100730--1100777	23	2.1	23	100	0	96	25	8	27	39	1.84
1105148--1105178	15	2.1	15	100	0	62	25	19	0	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105233--1105292	29	2.1	29	84	6	77	40	13	3	43	1.60
1106354--1106403	21	2.4	20	77	9	55	56	2	2	40	1.22
1126604--1126637	14	2.4	14	90	9	52	41	23	20	14	1.89
1141706--1141897	43	4.4	43	74	10	126	33	15	16	33	1.91
1145176--1145217	18	2.3	18	95	0	75	52	0	30	16	1.44
1145261--1145707	42	10.7	42	80	7	473	34	19	17	28	1.94
1145261--1145713	83	5.4	83	82	5	486	34	19	17	28	1.94
1145284--1145707	124	3.4	124	84	4	516	34	19	17	28	1.94
1147119--1147186	26	2.8	24	80	14	68	47	0	2	50	1.16
1147152--1147204	23	2.2	24	86	3	72	49	0	0	50	1.00
1147162--1147208	12	4.1	11	76	17	51	51	0	0	48	1.00
1147210--1147273	18	3.6	18	71	23	55	45	6	1	46	1.37
1147301--1147363	33	1.9	33	90	6	101	52	0	0	47	1.00
1147310--1147395	11	7.1	13	66	26	55	50	0	2	47	1.14
1163557--1163596	20	1.9	22	85	10	57	32	7	0	60	1.25
1170238--1170296	31	1.9	31	92	0	100	47	6	22	23	1.75
1171609--1171633	2	12.5	2	100	0	50	52	0	0	48	1.00
1186798--1186867	34	2.1	32	89	5	104	21	31	15	31	1.95
1187150--1187191	21	2.0	21	95	0	75	26	28	21	23	1.99
1187203--1187269	19	3.5	19	91	0	89	35	13	10	40	1.79
1187335--1187425	31	3.0	31	96	3	168	42	17	6	32	1.75
1187584--1187633	24	2.1	24	96	0	91	32	2	8	58	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190141--1190210	34	2.1	32	89	5	104	21	31	15	31	1.95
1190458--1190548	31	3.0	31	95	3	159	42	16	6	34	1.74
1190664--1190735	32	2.2	33	83	11	96	40	20	8	30	1.82
1190664--1190747	32	2.6	32	81	3	89	40	22	8	28	1.83
1194680--1194715	18	2.0	18	94	0	63	30	22	19	27	1.98
1201146--1201216	30	2.4	30	86	6	92	52	4	9	33	1.54
1201165--1201216	15	3.5	15	74	10	54	50	5	11	32	1.62
1201556--1201617	26	2.3	26	86	13	81	53	1	0	45	1.10
1201555--1201630	28	2.7	27	81	18	86	55	1	0	43	1.08
1201585--1201696	28	3.8	28	74	12	84	50	0	0	47	1.13
1201668--1201701	17	2.0	17	88	0	50	58	0	0	41	0.98
1201662--1201778	50	2.4	49	75	13	116	49	0	2	47	1.15
1203444--1203471	3	9.3	3	100	0	56	64	0	0	35	0.94
1204495--1204527	6	5.7	6	92	3	50	33	48	18	0	1.48
1205030--1205070	5	7.6	5	97	2	55	0	19	53	26	1.45
1205033--1205074	6	7.5	6	97	2	63	0	16	54	28	1.42
1205208--1205259	20	2.6	20	96	0	95	44	23	23	9	1.82
1206518--1206542	4	6.2	4	100	0	50	52	0	0	48	1.00
1209353--1209422	35	2.0	35	100	0	140	28	14	2	54	1.54
1211361--1211398	14	2.7	14	84	12	51	73	0	15	10	1.09
1211648--1211683	17	2.0	17	89	10	54	72	0	2	25	0.98
1211758--1211804	2	24.0	2	87	12	71	48	0	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221702--1221787	44	2.0	43	81	6	102	15	20	0	63	1.30
1240282--1240346	27	2.4	28	85	12	91	70	3	7	18	1.24
1240480--1240515	17	2.0	17	89	10	54	72	0	2	25	0.98
1241536--1241574	16	2.4	16	91	0	69	12	15	38	33	1.85
1241625--1241673	18	2.8	17	81	12	55	53	0	0	46	1.00
1241615--1241666	18	2.8	19	71	14	54	53	1	1	42	1.23
1243313--1243345	3	11.0	3	100	0	66	66	0	0	33	0.92
1247694--1247756	31	2.0	31	93	0	108	25	11	34	28	1.90
1254830--1255083	128	2.0	128	94	0	445	28	24	19	27	1.99
1256760--1256833	31	2.4	32	88	4	107	32	1	28	37	1.66
1257856--1258130	4	68.8	4	100	0	550	25	0	24	50	1.50
1263815--1263922	54	2.0	55	88	3	164	39	3	12	43	1.61
1263900--1263978	29	2.7	29	96	0	140	46	0	11	41	1.40
1266535--1266690	42	3.7	41	75	10	138	33	14	21	30	1.93
1268391--1268475	22	3.9	22	79	0	89	18	22	28	30	1.97
1275343--1275428	22	4.1	22	75	14	74	18	22	29	30	1.97
1275370--1275443	18	3.9	18	70	19	60	18	21	32	27	1.97
1275352--1275444	40	2.3	40	88	3	134	18	22	31	27	1.97
1278722--1278749	2	14.0	2	100	0	56	50	0	0	50	1.00
1279408--1279744	6	57.3	6	94	4	607	17	0	32	49	1.47
1283057--1283097	7	5.7	7	97	2	73	0	41	0	58	0.98
1284567--1284631	31	2.1	31	85	5	87	21	21	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289604--1289674	21	3.4	21	76	0	61	40	21	33	4	1.72
1289664--1289733	21	3.3	21	81	0	95	44	18	32	4	1.69
1289654--1289748	42	2.3	42	78	15	108	46	17	29	6	1.73
1290051--1290167	44	2.7	43	84	3	130	30	17	20	30	1.96
1290071--1290167	44	2.2	44	88	0	149	30	20	19	28	1.97
1290159--1290317	43	3.7	42	76	9	126	33	27	15	23	1.95
1290202--1290384	43	4.3	43	79	1	143	33	26	15	25	1.95
1295937--1295976	19	2.1	19	100	0	80	30	0	27	42	1.56
1300736--1301864	565	2.0	564	91	0	1848	32	15	22	28	1.95
1302212--1302267	18	2.8	20	81	15	71	28	32	17	21	1.96

Tables:   1   2   3   4   5   6   7