genome.fa.s148.2.7.7.80.10.50.1000.8.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: Scaffold148
Parameters: 2 7 7 80 10 50 1000
Length:  1464219

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1072 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)
1144737--1145162	212	2.0	212	99	0	843	29	12	20	37	1.90
1145176--1145205	13	2.3	13	94	0	51	36	16	16	30	1.91
1145247--1145277	16	2.0	15	93	6	53	45	16	19	19	1.86
1148391--1148555	84	2.0	84	82	7	201	24	19	3	52	1.62
1152124--1152170	23	2.0	23	95	0	85	40	0	6	53	1.27
1153680--1153729	20	2.4	21	86	3	66	38	16	18	28	1.91
1156678--1156732	20	2.8	20	88	5	76	32	14	12	40	1.84
1164838--1164912	20	3.8	20	78	7	89	42	13	12	32	1.80
1164835--1164912	40	2.0	39	87	2	111	42	14	11	32	1.81
1165527--1168393	115	24.9	116	88	3	4005	23	16	31	28	1.96
1165527--1168393	144	19.9	145	89	3	4001	23	16	31	28	1.96
1165527--1168393	29	99.4	29	88	3	4053	23	16	31	28	1.96
1169609--1169687	12	6.6	11	83	11	86	1	2	10	86	0.73
1169621--1169687	1	67.0	1	75	0	62	0	1	10	88	0.59
1169621--1169686	9	6.9	9	81	16	71	0	1	10	87	0.60
1169609--1169687	23	3.3	23	84	10	97	1	2	10	86	0.73
1183623--1183697	20	3.8	20	78	7	89	40	13	13	33	1.83
1183620--1183697	40	2.0	39	87	2	111	39	14	12	33	1.84
1184512--1184571	31	1.9	31	100	0	120	63	6	0	30	1.20
1187009--1187034	13	2.0	13	100	0	52	30	15	15	38	1.88
1186988--1187052	32	2.0	34	87	6	98	27	13	16	41	1.87
1188083--1188144	32	1.9	32	83	0	79	43	4	12	38	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188124--1188165	21	2.0	21	85	0	57	33	2	19	45	1.63
1188209--1188565	179	2.0	179	88	2	529	38	12	9	38	1.77
1189018--1189186	58	2.9	58	83	10	229	35	13	14	36	1.85
1189553--1189633	35	2.2	37	87	8	114	32	1	2	64	1.15
1189580--1189633	7	7.7	7	73	22	51	33	0	0	66	0.92
1190155--1190262	37	2.9	37	90	2	144	55	3	8	32	1.47
1190177--1190262	37	2.3	37	95	0	154	54	2	9	33	1.45
1190177--1190262	19	4.7	18	70	11	75	54	2	9	33	1.45
1190422--1190493	37	1.9	37	89	10	112	56	2	6	33	1.40
1190441--1190493	19	2.9	18	72	5	61	54	1	9	33	1.43
1190814--1190877	30	2.2	30	77	8	69	39	1	0	59	1.07
1190823--1190875	11	5.2	10	77	11	54	32	1	0	66	1.03
1191229--1191285	30	1.9	30	82	13	73	45	5	0	49	1.24
1191588--1191630	17	2.4	18	84	3	52	79	0	18	2	0.85
1192207--1192261	5	10.8	5	74	18	51	45	0	1	52	1.11
1193470--1193513	21	2.2	21	92	8	74	45	0	0	54	0.99
1194499--1194538	20	2.0	20	85	0	53	57	0	0	42	0.98
1194553--1194589	13	3.0	13	84	7	51	56	0	2	40	1.13
1202431--1202495	29	2.2	30	88	2	96	63	6	10	20	1.48
1205513--1205553	19	2.0	21	86	9	59	41	0	7	51	1.30
1205584--1205621	18	2.1	19	85	14	53	57	0	0	42	0.98
1205597--1205639	14	3.1	14	75	0	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206507--1206567	32	1.9	32	89	0	95	24	1	21	52	1.56
1206506--1206576	32	2.2	32	82	0	88	29	2	19	47	1.64
1213878--1213927	23	2.2	23	96	0	91	48	22	12	18	1.80
1214420--1214444	12	2.1	12	100	0	50	44	0	8	48	1.32
1215257--1215298	13	3.3	13	80	3	50	28	0	0	71	0.86
1215260--1215308	18	2.7	18	79	17	57	30	0	0	69	0.89
1215761--1215791	15	2.1	15	100	0	62	58	0	6	35	1.24
1216048--1216114	28	2.3	29	75	17	75	55	1	13	29	1.47
1217097--1217177	32	2.5	33	81	4	101	25	2	33	38	1.70
1221880--1221956	22	3.5	22	90	0	118	29	5	29	35	1.79
1222562--1222615	25	2.1	26	82	3	65	44	3	1	50	1.30
1223601--1223645	24	2.0	24	86	8	67	57	4	0	37	1.19
1224160--1224212	15	3.5	15	84	5	70	71	0	1	26	0.96
1224506--1224530	9	2.8	9	100	0	50	0	24	0	76	0.80
1224627--1224678	16	3.1	16	80	5	50	36	3	0	59	1.16
1224619--1224684	24	2.8	23	86	6	87	36	3	0	60	1.12
1224807--1224859	20	2.8	18	77	8	61	20	1	1	75	0.99
1224807--1224860	19	2.8	20	76	15	60	22	1	1	74	1.02
1225764--1225789	3	8.7	3	100	0	52	34	0	0	65	0.93
1227745--1227803	32	1.9	30	83	13	75	59	10	10	20	1.58
1228084--1228109	13	2.0	13	100	0	52	30	15	15	38	1.88
1228063--1228127	32	2.0	34	90	6	107	27	12	15	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228158--1228231	20	3.7	20	82	8	78	29	17	13	39	1.88
1230172--1230214	20	2.1	20	82	4	50	9	27	44	18	1.80
1230646--1230683	13	2.9	13	96	0	67	31	15	18	34	1.92
1232764--1232794	15	2.1	15	93	0	53	12	22	16	48	1.80
1234597--1234641	21	2.1	21	84	8	56	22	20	4	53	1.63
1236525--1236583	32	1.9	30	83	13	75	59	10	10	20	1.58
1236864--1236889	13	2.0	13	100	0	52	30	15	15	38	1.88
1236843--1236907	32	2.0	34	90	6	107	27	12	15	44	1.82
1236959--1237014	20	2.8	20	86	5	69	32	16	12	39	1.85
1237617--1237660	14	3.0	14	80	9	52	36	20	15	27	1.93
1237682--1237803	14	8.5	14	76	6	93	31	23	19	24	1.98
1237686--1237794	29	3.8	28	77	9	94	33	22	20	23	1.97
1237682--1237805	43	2.9	43	76	2	133	32	24	19	24	1.98
1241109--1241496	180	2.2	178	81	7	430	37	11	10	40	1.76
1242817--1243464	167	3.9	163	78	4	609	50	8	9	31	1.65
1242941--1243544	332	1.8	334	78	5	693	50	7	9	32	1.63
1253648--1253721	20	3.7	20	89	3	105	29	13	14	41	1.85
1256091--1256214	52	2.4	50	76	5	140	30	23	8	37	1.85
1256225--1256294	28	2.5	27	78	17	72	22	32	15	28	1.95
1256247--1256421	79	2.2	79	81	6	221	28	26	14	31	1.95
1256357--1256465	51	2.1	51	85	6	141	31	24	12	31	1.93
1256119--1256608	237	2.1	239	83	4	607	27	24	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268966--1269041	1	76.0	1	73	0	62	86	9	3	0	0.68
1268966--1269041	26	2.9	25	86	7	98	86	9	3	0	0.68
1268968--1269030	8	7.9	8	86	13	85	87	11	1	0	0.62
1268966--1269040	16	4.6	16	83	3	87	86	9	4	0	0.68
1270196--1270936	62	11.7	62	80	11	740	24	26	19	28	1.99
1270251--1270622	196	1.9	197	91	3	606	24	26	19	29	1.99
1270191--1270879	258	2.7	258	97	1	1285	24	27	19	28	1.99
1270712--1270936	122	1.9	121	85	2	317	26	26	20	26	1.99
1270956--1271046	42	2.1	44	80	8	107	16	20	13	49	1.79
1270918--1271210	160	1.8	159	95	0	532	20	25	14	39	1.90
1271952--1272005	20	2.7	20	77	5	56	29	12	16	40	1.86
1274399--1274472	28	2.7	27	85	8	96	22	32	18	25	1.97
1274432--1274601	79	2.2	79	84	2	225	27	27	13	31	1.94
1274537--1274650	51	2.2	51	87	3	158	30	27	12	29	1.93
1274636--1274712	28	2.8	28	84	7	86	22	29	20	27	1.98
1274588--1274795	107	1.9	107	87	1	301	25	27	15	31	1.96
1274349--1274790	237	1.9	237	90	0	713	26	27	14	31	1.94
1277982--1278007	13	2.0	13	100	0	52	30	15	15	38	1.88
1280218--1280352	52	2.6	51	80	9	148	31	25	10	32	1.90
1280285--1280433	79	1.9	80	84	1	201	28	26	14	30	1.95
1280365--1280585	51	4.3	52	87	2	268	29	24	12	33	1.92
1280519--1280725	106	1.9	108	85	3	285	28	26	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282637--1282685	21	2.4	21	90	6	75	28	6	12	53	1.62
1293926--1294003	38	2.1	38	100	0	156	34	10	19	35	1.85
1298656--1298688	16	2.1	16	100	0	66	30	18	18	33	1.94
1300127--1300294	84	2.0	82	95	2	300	28	23	11	36	1.90
1303402--1303462	21	2.8	23	83	11	67	57	0	0	42	0.98
1303490--1303522	15	2.2	15	89	10	50	39	0	0	60	0.97
1303530--1303569	19	2.1	19	85	4	53	67	0	2	30	1.04
1303742--1303777	2	18.0	2	88	0	54	44	0	2	52	1.15
1307444--1307472	3	9.7	3	100	0	58	34	0	0	65	0.93
1311580--1311654	36	2.1	37	92	2	125	41	2	13	42	1.58

Tables:   1   2   3   4   5   6   7   8   9