genome.fa.s263.2.7.7.80.10.50.1000.9.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: Scaffold263
Parameters: 2 7 7 80 10 50 1000
Length:  1338270

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1134 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)
1128840--1128902	23	2.8	23	85	2	74	49	17	3	30	1.62
1128861--1128911	23	2.2	23	82	0	57	50	15	3	29	1.62
1129521--1129590	25	2.6	27	77	11	72	58	0	0	41	0.98
1132903--1132961	21	2.7	22	75	17	61	64	0	0	35	0.94
1132912--1132961	11	4.6	11	77	7	50	64	0	0	36	0.94
1132905--1132963	20	2.8	21	80	17	68	62	0	0	37	0.95
1133646--1133940	148	2.0	146	91	1	482	35	6	12	45	1.66
1134293--1134341	21	2.3	21	80	16	57	34	2	0	63	1.06
1134293--1134343	20	2.5	20	80	6	57	35	1	0	62	1.06
1134989--1135062	23	3.2	23	67	14	62	36	33	8	21	1.83
1134960--1135063	46	2.2	47	91	3	165	39	30	9	20	1.84
1135317--1135358	22	1.9	22	90	9	68	38	0	0	61	0.96
1136059--1136089	2	15.5	2	100	0	62	48	0	0	51	1.00
1136646--1136741	8	12.2	8	69	16	51	62	0	0	37	0.95
1136613--1136741	27	4.9	27	73	19	96	62	0	0	37	0.95
1136675--1136741	21	3.1	22	78	8	75	67	0	0	32	0.91
1136644--1136746	29	3.6	30	80	12	94	62	0	0	36	1.02
1137801--1137844	21	2.0	24	86	13	67	43	0	0	56	0.99
1137796--1137850	23	2.3	26	76	20	66	50	0	0	49	1.00
1137816--1137882	35	1.9	35	84	6	91	52	0	0	47	1.00
1138183--1138221	20	2.0	20	84	0	51	66	5	0	28	1.12
1138279--1138311	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138594--1138659	20	3.6	19	71	15	50	36	3	0	60	1.12
1139622--1139664	21	2.0	21	82	8	52	51	0	0	48	1.00
1144483--1144539	22	2.6	21	74	17	62	50	0	0	49	1.00
1144797--1144867	28	2.7	25	80	18	81	53	0	0	46	1.00
1144833--1144879	25	1.9	24	86	4	67	55	0	0	44	0.99
1145120--1145174	14	3.7	15	73	11	51	41	0	1	56	1.10
1145125--1145244	22	5.7	21	69	19	70	42	0	0	56	1.05
1145236--1145281	19	2.4	19	82	7	58	56	0	0	43	0.99
1145238--1145279	21	2.1	21	91	8	70	52	0	0	47	1.00
1151859--1151911	23	2.4	22	78	12	63	16	5	20	56	1.60
1152243--1152277	4	8.8	4	93	0	61	48	22	2	25	1.64
1152216--1152277	16	4.0	16	77	4	65	43	24	6	25	1.78
1155805--1155832	2	14.0	2	100	0	56	50	0	0	50	1.00
1155927--1155968	2	21.0	2	95	0	75	52	0	0	47	1.00
1159418--1159543	63	2.0	63	98	0	243	54	1	5	38	1.33
1159420--1159526	13	8.4	13	70	14	71	55	0	3	40	1.24
1160661--1160704	21	2.1	21	83	8	54	54	0	0	45	0.99
1160670--1160713	21	2.2	20	83	4	52	45	2	2	50	1.27
1161403--1161450	21	2.4	19	79	6	51	41	0	4	54	1.20
1161434--1161474	19	2.2	19	86	0	55	39	0	0	60	0.96
1161809--1161841	2	16.5	2	93	0	57	51	3	0	45	1.16
1162486--1162513	14	2.0	14	100	0	56	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164051--1164139	41	2.2	41	80	9	103	44	0	2	52	1.13
1164343--1164402	23	2.7	22	70	22	54	58	0	0	41	0.98
1164576--1164602	3	9.0	3	100	0	54	66	0	0	33	0.92
1170440--1170465	2	13.0	2	100	0	52	50	0	0	50	1.00
1171950--1172019	22	3.1	25	67	25	64	40	0	2	57	1.14
1176740--1176768	2	14.5	2	100	0	58	51	48	0	0	1.00
1180140--1180257	59	2.0	59	91	0	191	44	8	22	24	1.80
1181526--1181556	2	15.5	2	100	0	62	0	0	48	51	1.00
1183906--1183935	15	1.9	16	93	6	53	33	20	0	46	1.51
1185547--1185601	22	2.5	21	77	8	56	32	1	1	63	1.15
1185590--1185644	19	2.7	21	78	16	62	29	1	1	67	1.11
1192370--1192414	18	2.6	18	74	19	51	44	0	2	53	1.13
1192370--1192432	32	1.9	34	83	6	85	46	3	3	47	1.34
1192368--1192446	32	2.5	32	74	10	81	45	2	2	49	1.29
1193464--1193504	3	13.7	3	100	0	82	68	0	0	31	0.90
1194452--1194480	3	9.7	3	100	0	58	34	0	0	65	0.93
1194725--1194791	36	1.9	34	85	11	91	28	4	1	65	1.21
1194734--1194791	12	4.9	12	79	10	57	29	3	0	67	1.07
1194747--1194799	11	4.7	11	80	2	52	28	5	0	66	1.15
1196067--1196101	3	11.7	3	93	0	61	28	0	2	68	1.04
1207694--1207727	17	1.9	17	88	5	50	52	0	0	47	1.00
1207711--1207755	20	2.2	20	84	8	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208211--1208262	14	3.4	14	73	19	50	55	1	0	42	1.10
1208194--1208262	32	2.2	32	86	0	93	59	1	0	39	1.06
1208221--1208258	18	2.1	18	90	0	58	52	2	0	44	1.14
1208626--1208663	17	2.2	18	85	4	51	42	0	0	57	0.98
1208626--1208668	18	2.5	17	84	3	50	41	0	0	58	0.98
1221954--1222031	25	3.0	25	75	17	70	50	0	0	50	1.00
1222020--1222054	17	2.0	18	88	5	54	28	0	0	71	0.86
1222076--1222120	23	1.9	24	86	4	65	40	0	2	57	1.11
1222317--1222382	6	10.8	6	76	15	55	53	0	0	46	1.00
1226758--1226809	19	2.7	19	93	3	86	51	0	1	46	1.12
1226766--1226822	19	3.2	16	85	12	60	50	0	0	49	1.00
1230510--1230544	17	2.1	17	94	0	61	20	14	11	54	1.70
1234026--1234105	26	3.1	27	74	15	78	47	0	1	51	1.08
1234326--1234403	22	3.7	22	80	16	76	64	0	0	35	0.94
1237363--1237403	15	2.7	16	81	11	59	46	0	0	53	1.00
1237312--1237395	24	3.5	25	68	9	68	51	3	0	45	1.18
1237478--1237515	3	12.7	3	100	0	76	68	0	0	31	0.90
1238087--1238122	17	2.1	17	94	0	63	50	0	0	50	1.00
1238520--1238581	21	2.9	21	77	15	65	45	6	4	43	1.51
1238818--1238850	15	2.3	15	94	5	59	54	0	0	45	0.99
1239122--1239155	17	1.9	18	88	5	52	41	0	0	58	0.98
1239100--1239187	28	3.2	28	79	16	80	38	1	2	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241167--1241447	141	2.0	141	98	0	544	31	19	16	32	1.94
1245045--1245111	18	3.3	21	79	12	68	55	0	1	43	1.09
1245181--1245232	25	2.1	25	89	7	79	46	3	0	50	1.20
1245181--1245257	25	3.0	25	75	20	68	48	3	0	48	1.20
1246000--1246040	17	2.4	18	80	12	50	43	2	0	53	1.13
1246469--1246519	18	2.8	18	72	16	52	47	0	0	52	1.00
1246485--1246545	20	3.0	20	78	19	65	52	0	0	47	1.00
1246959--1247041	25	3.5	22	78	15	60	42	1	2	54	1.21
1246980--1247041	25	2.6	25	82	12	76	38	1	3	56	1.25
1247202--1247231	2	15.0	2	92	0	51	46	0	3	50	1.18
1248891--1248937	15	3.1	15	73	8	51	31	2	0	65	1.04
1251810--1251862	25	2.1	26	86	10	74	50	0	0	49	1.00
1251982--1252025	20	2.1	21	87	4	63	47	0	2	50	1.13
1252008--1252039	16	2.0	16	93	0	55	34	3	0	62	1.11
1255004--1255057	27	2.0	27	89	7	83	29	20	12	37	1.90
1260986--1261040	15	3.4	16	82	12	69	47	0	0	52	1.00
1261016--1261057	17	2.6	16	85	10	59	47	0	2	50	1.14
1261203--1261252	25	2.0	26	84	4	66	50	2	0	48	1.12
1262009--1262415	202	2.0	203	88	3	604	36	13	16	33	1.88
1263360--1263391	6	5.3	6	100	0	64	65	0	34	0	0.93
1266347--1266437	34	2.7	34	91	0	137	29	0	28	41	1.56
1270925--1271007	34	2.4	34	97	0	157	20	0	37	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278315--1278408	40	2.3	42	80	14	99	58	2	1	38	1.17
1278334--1278404	32	2.1	34	84	7	101	56	1	0	42	1.08
1278334--1278403	20	3.5	20	70	16	56	55	1	0	42	1.08
1278539--1278567	14	2.1	14	93	6	51	62	0	0	37	0.96
1279524--1279591	29	2.4	28	83	11	86	33	2	2	60	1.27
1279538--1279604	29	2.3	30	89	5	109	37	4	4	53	1.41
1279876--1279910	17	2.0	18	88	5	54	37	0	5	57	1.23
1281208--1281291	22	3.9	22	79	14	86	65	2	3	28	1.22
1281781--1281843	33	1.9	33	90	0	99	14	20	38	26	1.91
1281781--1281855	33	2.3	33	85	0	96	13	22	37	26	1.91

Tables:   1   2   3   4   5   6   7   8   9   10