genome.fa.s173.2.7.7.80.10.50.1000.9.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  9  of  16  ( 1814 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)
1114515--1114539	2	12.5	2	100	0	50	52	48	0	0	1.00
1116669--1116696	2	14.0	2	100	0	56	0	50	0	50	1.00
1117532--1117595	29	2.1	31	88	5	96	64	0	1	34	1.03
1117538--1117593	21	2.7	21	79	15	62	62	0	0	37	0.95
1117564--1117593	13	2.3	13	94	0	51	60	0	0	40	0.97
1119748--1119781	16	2.2	16	89	5	52	41	0	0	58	0.98
1120221--1120276	14	4.1	14	77	13	53	39	0	0	60	0.97
1120222--1120275	27	2.0	26	86	13	74	40	0	0	59	0.98
1120327--1120385	20	2.8	21	84	7	66	40	1	0	57	1.09
1120354--1120396	20	2.2	19	91	4	68	41	0	2	55	1.12
1120398--1120442	21	2.1	21	87	0	63	55	0	0	44	0.99
1120492--1120557	18	3.8	17	75	11	62	42	1	0	56	1.08
1120740--1120782	20	2.2	20	87	4	61	11	23	13	51	1.74
1123074--1123112	21	1.9	21	94	5	71	46	12	20	20	1.83
1124135--1124188	20	2.7	20	88	8	74	29	18	12	38	1.88
1128806--1128960	83	1.9	83	84	2	213	27	14	29	29	1.95
1131479--1131508	15	2.1	15	93	6	53	0	16	0	83	0.65
1132361--1132409	24	2.0	24	84	11	64	55	14	2	28	1.51
1135892--1135918	2	13.5	2	100	0	54	48	0	0	51	1.00
1137167--1138159	89	10.9	89	75	10	679	37	15	16	31	1.89
1137662--1137767	54	1.9	55	90	1	169	33	19	11	35	1.88
1137570--1137999	143	3.0	143	83	3	533	37	14	13	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137802--1137910	55	2.0	55	89	3	166	35	13	11	38	1.82
1141261--1141327	10	6.9	10	73	13	59	70	2	1	25	1.10
1141264--1141326	9	6.7	9	75	10	54	71	3	1	23	1.09
1141522--1141584	28	2.3	28	81	8	76	63	1	4	30	1.24
1141532--1141656	58	2.3	53	78	15	139	62	1	5	30	1.28
1141530--1141698	11	14.5	11	70	16	94	65	1	5	27	1.21
1141530--1141699	23	7.2	22	73	14	94	65	1	5	27	1.21
1141596--1141698	33	3.2	33	92	1	163	68	0	4	26	1.09
1142119--1142152	2	17.5	2	87	6	52	44	2	0	52	1.16
1142127--1142152	13	2.0	13	100	0	52	46	0	0	53	1.00
1144306--1144398	36	2.8	34	76	15	97	32	21	12	33	1.91
1144830--1144889	19	3.5	19	70	25	69	36	16	8	38	1.79
1144825--1144902	32	2.4	32	100	0	156	37	16	10	35	1.83
1145351--1146268	155	5.9	154	81	4	888	37	21	18	22	1.94
1148050--1148109	17	3.5	17	88	0	84	3	25	20	51	1.62
1148577--1148611	15	2.2	16	90	5	54	2	28	0	68	1.04
1150333--1150381	23	2.2	23	85	3	64	42	2	8	46	1.45
1150462--1150517	21	2.6	21	80	8	60	33	0	7	58	1.25
1150702--1150741	20	2.1	18	86	9	53	22	2	2	72	1.09
1150970--1151320	2	200.0	2	70	25	217	46	0	2	49	1.20
1150967--1151320	7	51.3	7	72	17	181	46	0	2	49	1.20
1150958--1151023	9	7.1	9	86	8	80	60	1	0	37	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153627--1153701	20	3.8	20	74	0	69	41	13	13	32	1.83
1154312--1155325	28	35.3	29	85	6	1163	23	18	30	27	1.97
1154312--1155327	228	4.4	227	86	5	1277	23	18	31	27	1.97
1156560--1156604	17	2.6	17	89	3	72	0	2	15	82	0.77
1156561--1156601	8	4.9	8	85	8	55	0	2	12	85	0.70
1160484--1160554	13	5.0	13	79	18	70	33	16	16	32	1.92
1160592--1160617	13	2.0	13	100	0	52	30	15	15	38	1.88
1161023--1161088	1	66.0	1	72	0	51	86	9	3	1	0.74
1161022--1161088	12	5.6	12	79	10	75	85	10	2	1	0.78
1161024--1161086	23	2.7	23	92	0	99	85	9	3	1	0.77
1161023--1161068	7	6.4	7	83	11	58	86	10	0	2	0.64
1161023--1161091	16	4.5	16	76	5	63	85	8	4	1	0.78
1162145--1162395	60	4.4	59	82	10	281	27	29	19	23	1.98
1162411--1162790	61	6.4	60	77	11	360	25	27	20	26	1.99
1162423--1162790	121	3.1	119	83	7	443	25	27	21	26	1.99
1162440--1162784	182	1.9	176	83	6	442	24	26	20	27	1.99
1162807--1162910	42	2.5	42	80	4	120	17	24	13	45	1.84
1162815--1163036	119	1.9	117	80	10	265	20	25	14	39	1.91
1162927--1163026	42	2.4	42	78	8	107	18	30	11	41	1.84
1166175--1166350	79	2.2	79	87	2	246	26	27	15	30	1.96
1166305--1166376	28	2.6	28	90	0	108	23	29	19	27	1.98
1166334--1166509	79	2.2	79	84	2	237	27	27	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174608--1174682	20	3.8	19	78	7	87	41	12	13	33	1.81
1175247--1175985	29	24.9	29	84	7	846	21	18	32	27	1.97
1175247--1175985	60	12.4	58	83	8	846	21	18	32	27	1.97
1175241--1175985	208	3.6	205	88	4	1030	22	17	32	27	1.97
1177206--1177259	1	54.0	1	81	0	54	0	0	11	88	0.50
1177196--1177259	12	5.2	12	83	10	76	1	1	10	85	0.72
1177206--1177259	13	4.3	13	79	15	69	0	0	11	88	0.50
1177208--1177259	14	3.6	14	89	7	77	0	0	11	88	0.52
1177206--1177260	23	2.4	23	93	0	92	0	0	12	87	0.55
1177206--1177260	10	6.0	9	78	19	60	0	0	12	87	0.55
1187892--1187963	20	3.6	19	77	7	72	40	12	11	36	1.79
1187885--1187963	40	2.0	39	90	2	122	40	12	11	35	1.79
1189042--1189289	52	4.8	52	87	3	349	33	18	25	21	1.96
1189037--1189289	101	2.5	102	88	2	346	33	18	26	21	1.96
1189306--1189542	28	8.3	28	86	4	298	18	17	28	36	1.93
1189516--1189605	34	2.6	34	78	3	101	35	12	31	21	1.90
1189582--1189698	29	4.0	28	86	5	137	29	17	27	25	1.97
1191136--1191222	6	14.7	6	78	14	67	0	2	12	85	0.70
1191145--1191222	20	3.9	19	82	12	95	0	2	11	85	0.68
1191136--1191220	27	3.2	25	81	9	98	0	2	12	84	0.71
1191136--1191221	41	2.1	41	85	6	113	0	2	12	84	0.71
1191154--1191222	1	69.0	1	76	0	66	0	2	8	88	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205013--1205141	52	2.5	52	98	0	249	27	18	17	35	1.94
1205150--1205174	13	1.9	13	100	0	50	36	16	16	32	1.90
1205235--1205262	13	2.2	13	100	0	56	39	14	14	32	1.86
1205217--1205281	33	2.0	32	90	3	103	38	13	12	35	1.83
1207513--1207641	27	4.9	27	82	4	138	24	6	23	46	1.75
1212106--1212207	27	3.9	26	78	8	100	22	6	23	47	1.75
1212164--1212209	24	1.9	24	91	8	76	19	8	26	45	1.79
1213406--1213453	21	2.2	21	85	10	62	58	0	0	41	0.98
1214626--1214667	17	2.5	17	88	7	59	66	0	0	33	0.92
1215519--1215557	6	6.5	6	87	0	51	2	20	12	64	1.40
1217587--1217648	31	1.9	33	87	6	92	45	1	3	50	1.27
1218608--1218650	21	2.0	21	86	0	59	34	0	0	65	0.93
1218610--1218660	26	2.0	26	84	0	66	33	0	1	64	1.05
1220315--1220346	2	16.0	2	100	0	64	50	0	0	50	1.00
1221156--1221186	2	15.5	2	100	0	62	48	0	0	51	1.00
1224280--1224312	17	1.9	17	93	0	57	69	0	3	27	1.03
1224886--1224915	6	5.0	6	100	0	60	50	33	0	16	1.46
1225242--1225274	15	2.2	15	94	0	57	18	3	24	54	1.57
1225289--1225326	16	2.3	17	86	4	51	10	10	28	50	1.70
1226128--1226164	16	2.3	16	95	0	65	13	13	29	43	1.82
1230530--1230593	33	1.9	33	96	0	119	67	1	0	31	1.00
1230552--1230623	5	14.6	5	72	16	53	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230544--1230623	26	3.2	25	80	10	92	65	0	0	35	0.93
1230544--1230616	23	3.4	22	83	10	89	67	0	0	32	0.91
1230607--1230688	10	8.0	11	66	17	52	53	0	1	45	1.08
1230612--1230687	32	2.3	31	82	10	89	53	0	1	44	1.08
1230644--1230692	20	2.4	21	80	16	59	57	0	0	42	0.99
1230645--1230714	27	2.6	27	76	14	65	57	1	0	41	1.08
1230543--1230721	28	6.6	27	69	22	78	60	0	0	37	1.05
1231479--1231517	6	6.5	6	87	0	51	2	20	12	64	1.40
1238655--1238752	18	5.7	18	74	13	98	38	9	11	40	1.73
1238655--1238802	18	8.8	16	75	14	88	37	10	10	41	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16