genome.fa.s407.2.7.7.80.10.50.1000.8.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  8  of  28  ( 3302 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)
1107956--1107999	23	1.9	23	85	0	61	22	2	2	72	1.07
1116276--1116343	19	3.6	18	83	13	66	85	2	5	5	0.83
1116283--1116343	14	4.5	13	80	10	59	85	1	6	6	0.81
1116294--1116343	17	3.0	17	77	11	50	86	2	8	4	0.78
1117309--1118178	61	14.3	61	81	4	823	27	26	16	29	1.97
1117309--1118178	243	3.6	243	82	4	875	27	26	16	29	1.97
1118198--1118598	82	4.9	81	84	6	436	20	21	13	44	1.85
1118203--1118520	41	7.6	42	80	5	360	21	19	12	46	1.83
1118493--1118621	36	3.5	35	73	14	109	19	24	14	41	1.89
1118453--1118622	76	2.2	74	83	4	205	20	23	14	41	1.89
1119204--1119279	30	2.5	30	89	0	116	22	21	19	36	1.95
1119233--1119348	50	2.3	50	82	2	153	25	18	15	40	1.90
1121670--1122025	79	4.5	78	81	5	387	27	24	12	35	1.92
1121663--1122027	158	2.3	157	83	4	432	27	24	12	35	1.92
1121962--1122079	52	2.3	51	85	4	150	27	27	12	32	1.93
1121803--1122220	208	2.0	209	81	6	499	28	25	12	33	1.92
1123659--1123696	2	19.0	2	100	0	76	50	0	0	50	1.00
1127302--1127341	5	7.8	5	97	2	71	40	0	0	60	0.97
1127462--1127507	22	2.1	22	84	4	58	39	2	2	56	1.24
1131810--1131843	15	2.3	15	94	0	59	64	0	0	35	0.94
1135732--1135769	20	1.9	20	100	0	76	39	10	18	31	1.85
1138402--1138445	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138678--1138713	15	2.4	15	90	9	56	58	0	0	41	0.98
1139026--1139072	21	2.3	20	86	10	69	53	0	0	46	1.00
1139118--1139152	9	4.0	9	88	3	54	42	0	0	57	0.99
1139094--1139151	17	3.3	17	84	15	66	39	0	0	60	0.97
1140479--1140503	2	12.5	2	100	0	50	48	0	0	52	1.00
1140610--1140643	7	4.9	7	96	0	59	0	23	0	76	0.79
1141686--1141723	6	6.3	6	87	0	58	50	0	0	50	1.00
1142171--1142391	34	6.5	33	80	9	248	41	25	7	25	1.82
1142171--1142391	102	2.2	101	87	1	334	41	25	7	25	1.82
1146798--1147017	34	6.5	33	79	9	237	40	27	7	24	1.82
1146800--1147017	68	3.2	67	81	3	267	40	27	7	24	1.82
1146798--1147017	102	2.2	101	86	1	323	40	27	7	24	1.82
1147871--1147925	22	2.6	21	94	2	92	38	21	3	36	1.71
1151377--1151436	21	2.9	21	77	5	59	35	23	5	36	1.77
1152462--1152505	17	2.4	19	85	7	56	34	4	2	59	1.30
1152954--1153005	27	1.9	27	84	7	70	40	1	0	57	1.10
1153094--1153127	16	2.1	16	94	0	59	52	0	0	47	1.00
1153249--1153289	18	2.2	19	86	4	57	56	0	0	43	0.99
1153264--1153298	18	1.9	18	88	0	52	57	5	0	37	1.23
1153782--1153825	8	5.2	8	80	20	54	38	0	0	61	0.96
1153782--1153856	17	4.2	19	77	17	70	40	0	0	60	0.97
1153800--1153850	18	3.0	18	83	13	56	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153811--1153856	18	2.6	18	86	6	58	41	0	0	58	0.98
1154236--1154313	33	2.4	34	79	14	83	60	2	0	37	1.11
1155624--1155754	50	2.6	50	84	3	167	30	15	17	36	1.91
1155771--1155813	21	2.0	23	86	9	63	41	13	11	32	1.81
1161101--1161217	58	2.0	58	94	0	207	35	5	11	47	1.63
1161204--1161331	62	2.1	62	96	0	238	40	17	6	35	1.75
1165096--1165472	163	2.3	165	85	4	485	32	9	8	49	1.64
1165708--1165754	20	2.3	20	85	3	58	25	19	19	36	1.95
1165961--1166004	10	4.4	10	91	5	63	79	0	20	0	0.73
1167775--1167813	21	1.9	21	94	5	71	15	20	17	46	1.84
1169825--1169870	24	2.0	24	87	12	69	36	6	2	54	1.39
1170947--1170985	17	2.3	17	86	0	51	66	5	0	28	1.12
1179325--1179357	16	2.1	16	100	0	66	18	18	0	63	1.31
1182313--1182387	20	3.8	20	80	0	96	33	13	12	41	1.81
1182313--1182390	40	2.0	39	89	2	120	33	12	12	41	1.82
1196393--1196452	9	6.7	9	78	18	63	86	8	3	1	0.74
1196390--1196435	13	3.6	13	91	2	76	91	8	0	0	0.43
1196390--1196442	17	3.1	17	88	2	79	90	7	1	0	0.52
1196389--1196435	25	1.9	25	95	4	87	89	10	0	0	0.49
1196390--1196442	1	53.0	1	80	0	61	90	7	1	0	0.52
1196389--1196435	12	3.8	12	94	5	85	89	10	0	0	0.49
1197670--1198497	29	28.2	28	85	7	976	29	32	16	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197670--1198497	57	14.1	57	83	7	984	29	32	16	21	1.95
1199054--1199128	20	3.8	20	76	0	87	34	12	12	41	1.79
1199054--1199131	40	2.0	39	87	2	111	34	11	12	41	1.80
1199148--1199198	20	2.5	20	96	0	93	41	11	11	35	1.78
1203780--1203843	19	3.7	19	72	23	77	32	10	18	37	1.86
1203781--1203856	32	2.4	32	93	0	125	31	13	19	35	1.90
1206241--1206583	52	6.6	50	71	13	210	30	27	11	31	1.91
1206241--1206583	51	6.6	52	71	13	204	30	27	11	31	1.91
1206308--1206699	107	3.7	107	74	11	360	29	27	12	31	1.93
1206248--1206693	209	2.1	211	90	0	698	29	28	11	30	1.92
1206598--1206830	79	2.9	78	76	8	220	28	27	12	32	1.92
1217126--1217150	13	1.9	13	100	0	50	36	16	16	32	1.90
1217255--1217354	52	1.9	52	95	0	182	35	20	17	28	1.94
1218206--1218271	19	3.8	19	77	22	90	33	12	18	36	1.88
1218207--1218269	32	2.0	32	100	0	126	33	12	19	34	1.89
1218226--1218250	13	1.9	13	100	0	50	36	16	16	32	1.90
1218309--1218336	13	2.2	13	100	0	56	32	17	14	35	1.90
1218292--1218357	33	2.0	33	88	5	98	28	18	13	39	1.89
1219280--1219318	20	2.0	20	89	0	60	23	17	12	46	1.83
1222388--1222426	20	2.0	20	89	0	60	23	17	12	46	1.83
1227187--1227252	7	9.6	7	73	17	50	84	13	0	1	0.68
1227197--1227271	10	7.9	9	80	16	73	85	10	2	1	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227186--1227273	11	7.5	12	78	15	62	85	11	2	1	0.75
1227208--1227273	1	66.0	1	75	0	60	87	9	3	0	0.63
1227185--1227271	19	4.4	19	82	10	95	83	12	2	1	0.79
1227185--1227273	21	4.2	20	82	15	92	84	12	2	1	0.78
1227185--1227270	20	4.0	21	81	7	93	83	12	2	1	0.80
1227198--1227271	37	2.0	38	86	7	107	85	10	2	1	0.77
1228241--1229219	55	17.3	54	83	9	1085	26	29	21	22	1.99
1232397--1232697	52	5.8	51	69	12	207	29	27	12	30	1.93
1232456--1232805	108	3.3	108	70	14	330	28	27	13	30	1.94
1232611--1232731	52	2.4	52	84	5	149	31	24	12	31	1.92
1232564--1232731	50	3.3	51	80	5	196	29	25	13	32	1.93
1232396--1232839	209	2.1	210	90	0	692	28	27	13	30	1.94
1232744--1232967	79	2.8	79	79	5	247	27	27	13	31	1.94
1232456--1232869	107	3.9	106	72	10	344	28	27	13	30	1.94
1234339--1234675	92	3.7	92	84	2	417	30	27	11	30	1.92
1234343--1234675	184	1.8	184	86	3	483	30	26	12	30	1.92
1234925--1234970	18	2.5	19	82	6	51	67	6	8	17	1.39
1235192--1236906	85	20.3	84	76	7	1264	19	21	12	46	1.82
1235314--1235699	42	9.1	43	66	12	154	19	19	13	47	1.83
1235241--1235720	42	11.4	42	65	13	119	18	20	12	48	1.81
1235191--1236923	169	10.2	168	78	5	1357	19	21	12	46	1.83
1235792--1236873	43	25.6	43	66	11	129	19	21	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235192--1236906	254	6.8	252	77	5	1404	19	21	12	46	1.82
1235192--1236880	592	2.9	588	78	5	1720	19	21	12	46	1.83
1239179--1239233	19	2.9	19	81	2	67	34	16	18	30	1.93
1241001--1241033	16	2.1	16	88	11	50	33	9	9	48	1.66
1258680--1258705	8	3.2	8	100	0	52	15	0	23	61	1.33
1258860--1258898	13	3.0	13	88	0	60	28	15	20	35	1.93
1261364--1261388	13	1.9	13	100	0	50	32	16	16	36	1.90
1261376--1261428	20	2.6	21	82	8	65	37	15	16	30	1.90
1261488--1261513	13	2.0	13	100	0	52	38	15	15	30	1.88
1261470--1261533	33	2.0	32	90	3	101	39	20	14	26	1.90

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