genome.fa.s7.2.7.7.80.10.50.1000.7.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  7  of  37  ( 4421 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)
1071890--1072498	307	2.0	307	99	0	1209	29	18	16	35	1.93
1073807--1073837	15	2.1	15	93	0	53	12	22	16	48	1.80
1075640--1075684	21	2.1	21	84	8	56	22	20	4	53	1.63
1077899--1077924	13	2.0	13	100	0	52	30	15	15	38	1.88
1084700--1084804	41	2.6	41	85	0	156	31	12	19	37	1.88
1088414--1089052	52	12.4	52	84	2	597	32	18	25	23	1.97
1088422--1089032	310	2.0	310	82	1	758	32	18	25	23	1.97
1089094--1089318	59	3.8	58	82	3	272	34	14	26	24	1.94
1089094--1089322	117	2.0	117	85	3	309	33	13	26	25	1.94
1089363--1089519	58	2.7	58	83	0	197	36	14	23	24	1.93
1089153--1089590	197	2.2	198	83	0	563	34	15	24	25	1.95
1089696--1089768	30	2.5	28	80	8	83	30	16	24	28	1.96
1091216--1091292	40	1.9	40	89	0	118	36	15	19	28	1.92
1091889--1091927	12	3.2	12	82	13	53	17	0	2	79	0.84
1092248--1092442	90	2.1	90	81	8	225	30	13	26	30	1.94
1092851--1093002	79	1.9	79	82	0	187	40	13	17	28	1.88
1093646--1093854	112	1.9	113	84	7	282	38	17	14	29	1.89
1094377--1094419	19	2.3	19	91	0	68	9	11	0	79	0.95
1094455--1094495	21	1.9	22	90	5	66	4	14	0	80	0.87
1094434--1094502	31	2.2	31	87	12	97	5	15	2	75	1.12
1095777--1095818	12	3.4	12	86	3	57	38	4	26	30	1.77
1098299--1098324	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098383--1098435	20	2.7	20	100	0	106	33	20	15	30	1.93
1100878--1100903	13	2.0	13	100	0	52	38	15	15	30	1.88
1102975--1103005	15	2.1	15	93	0	53	12	22	16	48	1.80
1104809--1104853	21	2.1	21	84	8	56	22	20	4	53	1.63
1107068--1107093	13	2.0	13	100	0	52	30	15	15	38	1.88
1108103--1108580	153	3.1	154	79	5	495	41	20	14	23	1.89
1109109--1109149	13	3.2	13	86	3	57	17	0	2	80	0.82
1109987--1110031	11	3.8	12	83	13	58	2	15	0	82	0.77
1109983--1110022	20	2.0	20	95	0	71	5	12	0	82	0.82
1109985--1110031	20	2.2	23	85	11	64	2	14	0	82	0.75
1110289--1110330	14	2.9	14	80	13	50	61	2	7	28	1.35
1110393--1111209	331	2.5	328	82	6	956	50	8	10	30	1.66
1110407--1111230	165	5.0	164	81	7	897	50	8	10	31	1.66
1112629--1112691	32	2.0	32	84	6	83	33	7	19	39	1.80
1117431--1117462	16	2.0	16	100	0	64	43	18	12	25	1.85
1124794--1124901	28	3.9	28	84	10	134	32	17	27	22	1.96
1124889--1125032	51	2.8	49	78	6	144	32	11	25	30	1.91
1127378--1127465	20	4.8	20	77	18	109	40	15	17	26	1.89
1127378--1127447	33	2.1	33	97	0	131	38	15	18	27	1.91
1127358--1127465	53	2.0	53	87	3	155	40	15	15	27	1.88
1127400--1127427	13	2.2	13	100	0	56	35	14	17	32	1.90
1131463--1131514	19	2.7	20	84	6	70	28	11	15	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133577--1133619	20	2.1	20	82	4	50	9	27	44	18	1.80
1134051--1134088	13	2.9	13	88	0	58	34	15	15	34	1.90
1140723--1140761	21	1.9	20	84	5	51	61	10	2	25	1.41
1145757--1145844	24	3.7	24	72	14	92	26	20	13	39	1.90
1148435--1148490	12	4.9	11	81	12	60	75	0	21	3	0.96
1148435--1148505	23	3.0	23	80	10	74	73	0	21	5	1.04
1149224--1149260	19	1.9	19	88	0	56	27	8	0	64	1.21
1152202--1152231	2	15.0	2	92	0	51	53	0	46	0	1.00
1158009--1158060	27	1.9	27	88	0	77	30	9	32	26	1.89
1160096--1160169	20	3.6	20	77	13	78	37	9	13	39	1.77
1160881--1161625	104	7.3	104	76	7	515	36	17	22	23	1.94
1160877--1161919	52	20.7	51	70	10	461	36	16	23	23	1.94
1161040--1161877	299	2.8	297	82	3	929	36	17	22	23	1.95
1161499--1161770	143	1.9	143	82	1	339	35	17	22	24	1.95
1161643--1161919	101	2.7	102	82	2	331	37	16	22	24	1.94
1161926--1161992	33	2.0	33	85	0	89	26	17	28	26	1.98
1161996--1162112	27	4.2	27	80	9	121	32	11	33	23	1.90
1162071--1162153	41	2.0	41	86	4	114	36	9	30	24	1.87
1162139--1162509	34	11.1	34	75	10	311	38	11	29	21	1.88
1162139--1162550	67	6.1	67	80	7	417	37	11	29	21	1.88
1162112--1162553	167	2.7	164	78	10	452	37	11	29	21	1.88
1162139--1162550	133	3.1	133	83	4	474	37	11	29	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169102--1169176	20	3.8	19	77	7	78	41	13	13	32	1.83
1169736--1170541	28	27.9	29	87	5	1068	22	16	31	28	1.96
1169736--1170544	57	14.0	57	87	5	1112	22	16	31	28	1.96
1171763--1171817	1	55.0	1	81	0	56	0	1	9	89	0.57
1171770--1171817	13	3.8	13	86	5	71	0	0	10	89	0.48
1171763--1171819	25	2.3	24	88	5	87	0	1	10	87	0.61
1171763--1171819	12	4.7	12	89	4	87	0	1	10	87	0.61
1176845--1176957	52	2.2	52	91	0	181	29	17	18	34	1.94
1177576--1177909	48	6.8	52	78	9	294	33	16	24	26	1.96
1177632--1177909	48	5.8	48	81	6	314	32	16	24	26	1.96
1177929--1177998	28	2.5	28	90	0	113	17	14	30	38	1.89
1177929--1178243	30	10.5	30	77	9	173	27	15	28	28	1.96
1178020--1178087	35	2.0	35	91	2	111	41	11	27	19	1.86
1178064--1178239	29	6.0	29	80	8	178	26	17	28	27	1.97
1193530--1193641	52	2.2	52	90	0	170	30	16	17	34	1.93
1194293--1194585	48	6.0	52	78	11	151	33	15	23	27	1.95
1194323--1194593	48	5.6	48	80	7	311	32	16	23	27	1.96
1194617--1194682	28	2.4	28	84	0	87	19	13	27	39	1.89
1194613--1194958	30	11.5	30	76	10	185	27	13	28	30	1.94
1194750--1194958	29	7.1	29	79	6	179	26	15	29	28	1.96
1194767--1194927	88	1.8	86	85	2	223	23	15	29	31	1.95
1210257--1210384	52	2.5	52	88	1	177	29	16	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210285--1210404	52	2.3	52	82	2	143	31	15	20	32	1.94
1210456--1210524	20	3.8	19	73	26	78	47	11	11	28	1.75
1210458--1210557	33	3.0	33	94	0	164	42	14	12	32	1.82
1210480--1210537	13	3.9	13	73	26	53	39	13	13	32	1.85
1228067--1228131	20	3.1	21	79	16	73	40	9	13	36	1.77
1234811--1234857	16	2.8	16	87	6	58	38	4	8	48	1.53
1235259--1235311	24	2.2	25	83	10	65	50	0	5	43	1.25
1235307--1235385	16	5.3	14	73	20	63	56	0	1	41	1.07
1235307--1235337	13	2.3	13	94	5	53	58	0	0	41	0.98
1235309--1235404	14	6.4	14	77	15	70	60	0	1	38	1.04
1235613--1235638	13	2.0	13	100	0	52	69	0	30	0	0.89
1235742--1235809	11	6.0	11	76	6	55	25	0	2	72	0.99
1235744--1235804	23	2.7	23	78	0	68	26	0	1	72	0.94
1236040--1236086	23	2.0	23	84	8	60	44	0	2	53	1.12
1239246--1239303	26	2.2	26	96	0	107	60	1	6	31	1.33
1239967--1240109	70	2.1	69	93	1	241	30	15	19	34	1.93
1241691--1241769	41	2.0	40	82	7	97	44	8	11	35	1.72
1242130--1242171	21	2.0	21	100	0	84	38	14	19	28	1.90
1242183--1242250	33	2.1	33	94	5	120	23	16	17	42	1.88
1248357--1248410	12	4.5	12	76	0	54	33	18	27	20	1.96
1248398--1248446	18	2.7	18	96	0	89	42	20	22	14	1.88
1258852--1258907	21	2.7	21	83	2	78	41	3	23	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266734--1266763	15	2.0	15	100	0	60	53	6	0	40	1.27
1267034--1267114	41	2.0	41	90	0	126	33	16	17	33	1.92
1268848--1268934	44	2.0	43	84	6	113	47	13	11	27	1.78
1276633--1276664	2	16.0	2	100	0	64	50	0	0	50	1.00
1276659--1276723	32	2.0	32	96	0	121	47	9	13	29	1.74
1281165--1281417	52	4.9	50	77	4	193	33	15	23	27	1.94
1281174--1281417	103	2.4	103	81	3	267	34	15	22	27	1.94
1281501--1281627	66	1.9	67	88	4	195	17	18	29	34	1.94
1281635--1281821	30	6.3	30	78	3	162	28	11	33	26	1.91
1281635--1281821	60	3.1	59	75	11	182	28	11	33	26	1.91

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