genome.fa.s8027.2.7.7.80.10.50.1000.7.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  7  of  38  ( 4505 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)
1087668--1087774	53	2.0	54	83	5	137	34	14	24	27	1.93
1088141--1088198	22	2.6	22	94	2	98	32	17	13	36	1.89
1088871--1089040	76	2.3	74	85	2	214	26	19	21	32	1.97
1089666--1089737	3	25.0	3	71	13	53	33	1	1	63	1.11
1089670--1089746	17	4.4	18	71	14	63	35	2	1	61	1.18
1091072--1091127	23	2.7	19	84	15	67	30	3	0	66	1.09
1092141--1092192	24	2.2	24	96	0	95	25	25	32	17	1.97
1095657--1095685	13	2.1	14	93	6	51	55	3	0	41	1.17
1098398--1098461	31	2.1	31	93	0	110	37	12	29	20	1.89
1100665--1100728	31	2.1	31	90	0	101	37	14	26	21	1.92
1102903--1102952	22	2.3	23	86	6	68	18	12	14	56	1.68
1106298--1106325	14	2.0	14	100	0	56	35	14	21	28	1.92
1112956--1113046	43	2.1	43	89	4	139	36	21	18	23	1.95
1113958--1113989	13	2.3	15	89	10	50	75	9	6	9	1.20
1116181--1116206	3	8.7	3	100	0	52	69	0	30	0	0.89
1117402--1117426	2	12.5	2	100	0	50	52	0	0	48	1.00
1125706--1125760	24	2.3	24	96	0	101	7	16	16	60	1.57
1127168--1127221	28	1.9	28	81	7	65	31	9	14	44	1.77
1127863--1127933	21	3.5	20	83	14	83	38	18	14	29	1.90
1133957--1134254	43	6.9	43	94	0	515	16	27	25	30	1.97
1134240--1134269	15	2.0	15	100	0	60	26	6	40	26	1.81
1134197--1134307	58	1.9	58	88	3	170	18	22	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139418--1139488	30	2.4	29	77	9	74	32	11	14	42	1.81
1141117--1141157	2	20.5	2	94	0	73	48	2	0	48	1.14
1152946--1153064	60	2.0	60	81	3	141	31	13	7	47	1.70
1156083--1156125	21	2.0	21	100	0	86	25	18	13	41	1.88
1157827--1157962	28	4.9	28	89	0	200	29	27	17	25	1.98
1169620--1169722	29	3.6	29	68	15	95	41	10	6	40	1.66
1173678--1173843	90	1.8	90	96	0	305	36	11	6	46	1.65
1181299--1181465	90	1.9	90	94	2	300	35	11	5	46	1.64
1185385--1185469	26	3.2	26	69	18	84	63	7	7	22	1.44
1185356--1185506	54	2.8	55	86	4	200	62	8	8	20	1.50
1185392--1185481	28	3.3	27	75	12	103	65	7	5	21	1.39
1185398--1185481	27	3.2	26	72	12	89	64	8	5	21	1.43
1186903--1186984	39	2.1	39	86	0	110	36	9	25	28	1.88
1187081--1187131	20	2.5	20	93	0	84	31	23	25	19	1.98
1187251--1187359	42	2.6	40	81	8	121	30	22	22	24	1.99
1187101--1187582	226	2.1	225	89	0	730	31	18	23	25	1.97
1187690--1187752	21	3.3	21	62	25	57	41	6	25	26	1.79
1187628--1187988	36	10.1	36	82	9	393	37	13	20	27	1.90
1187720--1187972	137	1.8	137	90	1	409	38	14	20	26	1.91
1193471--1193610	26	5.3	25	68	22	81	61	11	10	17	1.56
1193497--1193585	28	3.3	27	70	19	78	62	8	7	20	1.49
1193446--1193610	54	3.1	53	86	4	215	61	11	10	16	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201009--1201079	20	3.5	20	79	11	72	46	12	16	23	1.82
1208880--1209203	162	2.0	162	95	1	578	29	20	16	33	1.95
1212136--1212164	2	14.5	2	100	0	58	51	0	0	48	1.00
1230929--1230965	15	2.5	15	86	0	56	45	0	5	48	1.25
1232471--1232559	25	3.6	25	89	0	133	34	25	16	22	1.95
1238249--1238290	19	2.2	19	95	0	75	47	14	9	28	1.75
1241144--1241535	36	10.9	35	73	17	197	43	5	7	43	1.56
1241236--1241260	13	1.9	13	100	0	50	40	8	8	44	1.63
1241207--1241536	35	9.3	37	75	12	216	43	5	7	43	1.56
1241144--1241411	37	7.1	37	77	14	205	44	5	6	42	1.54
1241373--1241470	33	3.0	33	79	13	94	44	6	8	40	1.59
1242199--1242241	20	2.4	17	81	14	50	25	25	39	9	1.85
1243481--1243552	30	2.3	31	86	9	94	37	4	20	37	1.72
1247342--1247386	2	23.0	2	95	4	83	51	0	0	48	1.00
1249709--1249742	12	2.7	13	86	9	52	41	5	8	44	1.60
1251918--1251973	20	2.8	20	94	0	94	26	17	28	26	1.98
1255828--1255866	21	1.9	20	89	5	60	33	7	2	56	1.41
1257779--1257928	65	2.3	64	79	5	160	34	18	18	28	1.94
1260209--1260267	11	5.2	11	76	13	57	38	0	11	49	1.40
1260292--1260389	25	3.9	25	89	0	151	41	0	20	37	1.52
1263212--1263268	29	2.0	28	90	10	89	17	24	15	42	1.88
1269474--1269657	82	2.2	83	83	5	221	32	13	21	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269528--1269685	82	1.9	82	84	2	210	31	13	22	32	1.92
1270123--1270169	20	2.2	22	85	7	62	44	12	14	27	1.82
1272052--1272251	41	4.9	41	69	7	127	32	17	24	26	1.97
1272050--1272251	83	2.4	83	87	0	271	32	17	24	26	1.97
1282027--1282139	10	11.8	9	70	12	64	16	25	28	29	1.97
1282048--1282145	19	5.2	18	80	12	99	15	27	29	27	1.96
1282142--1282182	5	7.8	5	84	10	55	19	53	21	4	1.63
1282141--1282189	22	2.2	22	100	0	98	18	48	22	10	1.77
1282179--1282209	7	4.4	7	100	0	62	16	29	29	25	1.96
1283078--1283154	31	2.5	31	80	2	91	14	25	29	29	1.95
1289385--1289497	10	11.8	9	72	12	73	15	25	29	29	1.96
1289406--1289503	19	5.2	18	82	12	108	14	27	30	27	1.95
1289386--1289490	29	3.6	28	84	6	120	15	25	28	30	1.96
1289385--1289501	38	3.0	38	83	12	132	16	25	29	29	1.97
1289517--1289557	5	7.8	5	84	10	55	19	53	21	4	1.63
1289499--1289547	17	2.9	17	96	0	89	20	48	20	10	1.78
1289554--1289584	7	4.4	7	91	0	53	19	29	25	25	1.99
1296761--1296873	10	11.8	9	73	12	73	18	26	27	27	1.98
1296761--1296877	19	6.1	20	80	10	102	18	26	27	27	1.98
1296761--1296836	29	2.5	31	81	10	104	19	27	25	27	1.99
1296770--1296855	29	3.0	28	81	10	93	18	29	26	25	1.98
1296875--1296932	17	3.3	17	92	4	89	17	43	24	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296903--1296966	7	9.4	7	89	6	105	15	31	28	25	1.96
1297836--1297912	31	2.5	31	82	2	100	14	25	31	28	1.95
1297836--1297959	63	2.0	63	82	6	153	16	27	29	26	1.97
1298617--1298727	58	1.9	59	90	5	181	26	17	22	34	1.96
1299546--1299572	14	1.9	14	100	0	54	3	14	14	66	1.38
1317784--1317820	19	1.9	19	88	0	56	48	5	2	43	1.40
1319357--1319398	16	2.6	16	96	0	75	38	14	11	35	1.83
1319793--1319837	23	2.0	23	86	8	65	60	0	4	35	1.17
1338605--1338656	25	2.2	23	83	13	61	67	11	11	9	1.43
1340951--1341112	40	4.1	40	100	0	324	22	17	27	32	1.96
1341216--1341325	47	2.4	47	86	4	145	38	9	20	32	1.84
1343055--1343085	6	5.2	6	100	0	62	16	16	35	32	1.91
1344149--1344224	18	4.1	18	77	6	73	76	2	18	2	1.02
1344149--1344223	6	12.3	6	74	16	57	76	2	18	2	1.03
1348186--1348307	40	3.0	40	100	0	244	22	17	27	32	1.96
1348411--1348520	47	2.4	47	86	4	145	38	9	20	32	1.84
1355135--1355465	112	3.0	105	85	6	398	35	17	16	30	1.92
1355193--1355465	112	2.4	112	89	1	422	36	17	15	30	1.91
1361777--1361868	41	2.2	41	82	3	105	38	10	20	30	1.87
1362294--1362611	44	7.2	44	89	2	469	40	12	22	24	1.88
1375688--1375735	23	2.1	23	84	7	62	60	0	12	27	1.32
1376491--1376531	20	2.0	20	95	0	73	58	12	4	24	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377141--1377178	20	2.0	20	89	5	60	47	0	2	50	1.15
1377287--1377329	18	2.4	18	100	0	86	34	9	23	32	1.87
1388417--1388467	23	2.3	22	93	3	84	23	21	33	21	1.97
1407317--1407350	12	2.8	12	90	0	50	29	20	0	50	1.49
1412897--1412932	18	1.9	19	88	5	56	61	2	0	36	1.11
1413124--1413304	90	2.0	90	97	0	344	38	14	8	37	1.78
1414316--1414581	34	8.0	32	68	18	127	46	5	7	40	1.54
1414319--1414581	69	4.0	64	76	15	243	46	5	7	40	1.54
1427299--1427366	29	2.4	28	76	18	68	26	7	10	55	1.59
1431908--1431950	8	5.4	8	83	10	61	27	0	2	69	1.00

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38