genome.fa.s106.2.7.7.80.10.50.1000.8.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  8  of  27  ( 3135 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)
1138891--1138924	15	2.3	15	100	0	68	52	5	0	41	1.25
1138813--1138969	55	2.9	55	79	10	193	50	8	1	39	1.40
1139929--1139960	2	16.0	2	100	0	64	50	0	0	50	1.00
1140421--1140484	21	3.0	22	75	6	60	65	0	0	34	0.93
1141659--1141687	2	14.5	2	100	0	58	51	0	0	48	1.00
1144603--1144636	15	2.3	15	100	0	68	35	5	0	58	1.22
1144683--1144727	19	2.4	19	81	7	56	66	2	0	31	1.04
1145860--1145886	2	13.5	2	100	0	54	51	0	48	0	1.00
1147128--1147152	6	4.2	6	100	0	50	16	0	0	84	0.63
1147876--1147910	3	11.7	3	100	0	70	65	0	0	34	0.93
1148676--1148709	2	17.0	2	100	0	68	50	0	0	50	1.00
1159530--1159564	3	11.7	3	100	0	70	31	0	0	68	0.90
1160305--1160342	2	19.0	2	100	0	76	50	0	0	50	1.00
1160703--1160733	2	15.5	2	100	0	62	51	0	0	48	1.00
1164356--1164413	15	3.9	15	70	17	57	62	0	0	37	0.96
1164406--1164439	17	1.9	18	88	5	52	64	2	0	32	1.08
1164883--1164914	3	10.7	3	100	0	64	31	0	0	68	0.90
1165096--1165171	39	1.9	39	100	0	152	28	17	10	43	1.82
1166324--1166369	16	2.9	16	83	0	56	45	0	0	54	0.99
1166344--1166390	20	2.2	21	85	11	60	46	0	0	53	1.00
1166584--1166630	6	7.8	6	93	6	78	65	0	0	34	0.93
1166620--1166701	29	2.9	28	85	8	112	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166646--1166702	12	4.3	12	74	20	51	49	0	0	50	1.00
1168525--1168587	27	2.3	27	83	8	74	42	0	1	55	1.09
1170609--1170669	21	2.9	21	66	11	52	62	6	1	29	1.30
1170831--1170884	22	2.5	21	76	8	54	61	3	1	33	1.25
1171161--1171217	3	19.0	3	92	0	87	63	1	0	35	1.05
1171542--1171652	55	2.0	54	88	8	163	56	0	3	38	1.23
1171544--1171628	14	6.1	14	71	8	66	60	1	3	35	1.22
1171990--1172046	20	2.9	19	80	16	64	66	0	7	26	1.17
1173104--1173146	19	2.3	19	87	0	59	46	0	2	51	1.13
1173159--1173190	15	2.1	16	94	5	57	62	0	0	37	0.95
1175857--1175922	26	2.8	23	80	11	64	56	0	0	43	0.99
1176334--1176372	2	19.5	2	100	0	78	51	0	0	48	1.00
1182766--1182790	12	2.1	12	100	0	50	52	0	8	40	1.31
1183944--1183974	12	2.6	12	100	0	62	38	0	0	61	0.96
1183958--1184003	24	1.9	24	82	8	58	34	2	2	60	1.21
1184492--1184518	2	13.5	2	100	0	54	48	0	0	51	1.00
1185705--1185743	2	19.5	2	100	0	78	48	0	0	51	1.00
1186350--1186390	20	2.0	21	90	9	68	46	0	0	53	1.00
1186645--1186676	3	10.7	3	100	0	64	34	0	0	65	0.93
1186860--1186884	2	12.5	2	100	0	50	52	0	0	48	1.00
1187855--1187896	22	1.9	22	85	9	59	57	0	0	42	0.99
1188065--1188158	46	2.0	46	100	0	188	47	10	12	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189516--1189611	14	6.9	13	71	11	66	50	0	0	50	1.00
1189563--1189618	29	2.0	29	85	3	78	44	0	0	55	0.99
1189583--1189644	21	2.9	22	80	9	74	45	0	0	54	0.99
1190914--1190975	8	7.2	9	73	21	53	56	0	0	43	0.99
1190918--1190976	19	3.1	19	80	14	68	59	0	0	40	0.97
1191161--1191213	27	2.0	27	88	3	81	41	9	1	47	1.47
1198960--1198997	18	2.2	18	86	9	53	60	2	0	36	1.11
1200755--1200793	18	2.1	19	86	13	55	51	0	0	48	1.00
1201361--1201407	24	1.9	25	83	12	62	61	4	2	31	1.27
1205354--1205422	25	2.8	24	78	8	77	50	8	7	33	1.61
1208182--1208236	16	3.4	17	75	25	64	41	0	1	56	1.10
1208184--1208246	32	1.9	33	90	3	101	44	0	1	53	1.10
1211112--1211141	12	2.6	12	94	5	53	40	0	0	60	0.97
1211117--1211166	15	3.1	16	77	11	57	46	0	0	54	1.00
1211117--1211180	33	1.9	34	84	12	89	43	1	0	54	1.09
1211117--1211188	33	2.2	32	81	13	78	43	2	0	54	1.15
1216514--1216559	19	2.5	19	76	16	51	54	2	0	43	1.12
1216756--1216792	19	1.9	19	94	0	65	32	5	0	62	1.18
1222775--1223172	79	5.1	78	81	10	438	26	22	13	36	1.92
1223072--1223298	106	2.1	107	86	3	316	26	23	15	33	1.95
1223150--1223221	28	2.6	28	80	2	83	26	26	18	29	1.98
1223178--1223351	79	2.2	79	83	4	206	28	22	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230867--1230898	2	16.0	2	100	0	64	50	0	0	50	1.00
1232529--1232566	17	2.2	17	90	4	58	57	0	2	39	1.12
1237960--1238007	19	2.5	20	83	6	55	41	0	4	54	1.20
1240501--1240528	14	2.0	14	100	0	56	57	0	0	42	0.99
1241055--1241105	20	2.5	20	75	12	59	50	0	0	49	1.00
1241030--1241080	26	2.0	24	81	7	57	47	0	1	50	1.12
1241067--1241091	9	2.8	9	100	0	50	40	0	0	60	0.97
1241960--1241987	2	14.0	2	100	0	56	50	0	0	50	1.00
1242768--1242800	1	33.0	1	93	0	57	0	96	0	3	0.20
1243575--1243645	28	2.6	27	82	13	74	61	1	2	33	1.19
1243611--1243658	26	1.9	26	83	8	64	64	2	0	33	1.05
1244288--1244322	18	1.9	19	88	11	56	40	11	0	48	1.39
1244567--1244607	21	2.0	21	86	13	59	39	0	0	60	0.96
1245435--1245886	236	1.9	236	80	9	537	46	4	6	42	1.50
1246437--1246469	16	2.0	17	88	5	50	57	12	15	15	1.65
1247456--1247511	27	2.1	27	89	0	85	26	23	21	28	1.99
1247440--1247513	14	5.3	14	73	4	51	29	20	22	27	1.98
1247713--1247745	6	5.5	6	86	13	50	84	0	0	15	0.61
1247713--1247737	11	2.3	11	100	0	50	84	0	0	16	0.63
1248917--1248968	15	3.5	15	86	5	70	32	21	15	30	1.94
1248917--1248962	15	3.1	15	93	3	76	34	19	15	30	1.93
1249174--1249378	42	4.9	42	87	0	293	37	13	6	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249169--1249378	84	2.5	84	95	0	366	36	13	7	42	1.73
1252235--1252272	2	19.0	2	100	0	76	50	0	0	50	1.00
1252573--1252602	3	9.7	3	92	7	51	36	0	0	63	0.95
1256599--1256624	6	4.3	6	100	0	52	50	30	0	19	1.48
1259550--1259596	10	4.8	10	81	5	60	0	14	2	82	0.75
1259550--1259596	20	2.4	19	89	3	67	0	14	2	82	0.75
1260292--1260338	14	3.1	15	75	9	51	46	0	0	53	1.00
1260291--1260347	30	1.9	30	85	7	80	50	0	0	49	1.00
1260316--1260359	17	2.4	20	71	21	51	52	0	0	47	1.00
1260312--1260361	21	2.4	20	76	6	55	52	0	0	48	1.00
1261427--1261481	15	3.5	15	80	7	56	69	0	1	29	0.99
1262957--1263021	10	6.6	10	72	13	55	50	0	0	49	1.00
1262956--1263031	21	3.8	20	84	6	91	48	0	0	51	1.00
1263153--1263193	21	2.0	21	86	9	59	31	2	24	41	1.68
1263281--1263345	33	1.9	34	84	3	87	44	0	0	55	0.99
1263252--1263355	42	2.5	41	78	13	106	50	0	0	49	1.00
1265737--1265787	26	2.0	26	84	7	68	66	3	0	29	1.09
1266849--1266916	23	3.0	23	70	16	61	36	1	1	60	1.15
1267740--1267923	93	2.0	95	85	4	257	44	5	7	42	1.56
1268381--1268405	4	6.2	4	100	0	50	76	0	0	24	0.80
1271483--1271544	4	15.5	4	96	0	97	20	0	29	50	1.49
1277013--1277039	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277648--1277700	2	27.0	2	83	11	65	50	3	0	45	1.19
1277718--1277759	19	2.3	18	84	12	50	33	4	9	52	1.55
1277938--1277966	12	2.5	12	94	5	51	17	34	0	48	1.47
1280031--1280214	63	2.7	66	78	14	203	36	14	11	36	1.83
1280029--1280214	74	2.7	70	79	12	206	36	14	11	37	1.83
1280357--1280385	3	9.7	3	100	0	58	68	31	0	0	0.89
1283444--1283474	16	1.9	16	93	0	53	19	25	22	32	1.97
1283600--1283662	16	3.9	16	73	20	51	49	1	0	49	1.10
1283630--1283668	20	2.0	20	85	10	53	51	0	0	48	1.00
1288791--1288831	2	20.5	2	100	0	82	51	0	48	0	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