genome.fa.s127.2.7.7.80.10.50.1000.6.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  6  of  26  ( 3103 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)
1116336--1116379	21	2.2	20	84	12	54	50	6	0	43	1.29
1116883--1116910	11	2.5	11	100	0	56	35	0	0	64	0.94
1116876--1116910	17	2.1	16	89	5	52	40	0	0	60	0.97
1116891--1116943	23	2.2	25	77	16	58	49	0	0	50	1.00
1118601--1118636	2	18.0	2	100	0	72	50	0	0	50	1.00
1118918--1119001	25	3.3	26	74	14	70	53	0	0	46	1.00
1118971--1119016	18	2.5	18	86	13	67	60	0	0	39	0.97
1119024--1119068	18	2.6	17	82	3	63	71	0	0	28	0.87
1119785--1119815	15	2.0	16	93	6	55	58	0	0	41	0.98
1120473--1120510	14	2.5	15	87	12	51	26	0	0	73	0.83
1120473--1120511	16	2.4	16	86	4	51	25	0	0	74	0.82
1120544--1120568	13	1.9	13	100	0	50	40	0	4	56	1.18
1121591--1121641	21	2.3	21	80	10	57	39	1	0	58	1.09
1122573--1122598	6	4.3	6	100	0	52	0	50	19	30	1.48
1122891--1122931	14	2.9	14	86	10	57	78	0	0	21	0.76
1124472--1124518	25	2.0	24	87	8	69	44	0	0	55	0.99
1124475--1124568	28	3.1	28	71	21	75	47	0	0	52	1.00
1125644--1125682	20	1.9	21	89	5	62	53	0	0	46	1.00
1125645--1125710	27	2.3	30	82	12	84	51	0	1	46	1.10
1125721--1125762	15	2.4	18	77	22	54	42	0	2	54	1.13
1125729--1125764	15	2.2	17	90	9	58	38	0	2	58	1.13
1126157--1126190	17	1.9	17	88	5	50	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126344--1126414	21	3.4	21	69	17	58	70	0	2	26	1.01
1126638--1126837	27	7.0	28	85	11	264	27	46	16	10	1.78
1126639--1126837	56	3.5	57	94	4	348	27	46	16	10	1.78
1127406--1127473	33	2.1	33	100	0	136	23	17	17	41	1.90
1128254--1128286	14	2.4	14	90	10	50	0	12	0	87	0.53
1128940--1129009	30	2.4	29	81	15	74	54	0	2	42	1.15
1129737--1129804	16	4.1	17	74	10	61	29	2	1	66	1.15
1138853--1138904	23	2.3	22	81	15	70	46	0	0	53	1.00
1138870--1138937	17	4.0	17	73	17	61	48	0	0	51	1.00
1138878--1138920	19	2.3	19	87	0	59	51	0	0	48	1.00
1143086--1143136	16	3.1	17	76	18	63	43	0	0	56	0.99
1143107--1143160	11	4.7	11	78	17	56	48	0	0	51	1.00
1143081--1143142	32	1.9	33	90	3	99	43	0	0	56	0.99
1143083--1143165	17	4.9	17	73	15	66	45	1	0	53	1.08
1143115--1143207	27	3.3	27	78	15	84	45	3	0	51	1.17
1143081--1143199	35	3.4	37	76	17	96	43	1	0	54	1.10
1147520--1147577	21	2.9	21	79	5	66	37	5	24	32	1.77
1147545--1147583	20	2.0	20	85	10	53	41	7	17	33	1.79
1151028--1151092	23	2.7	25	81	11	66	43	1	1	53	1.19
1151040--1151098	23	2.6	22	77	12	66	42	3	1	52	1.28
1153071--1153332	73	3.6	71	78	4	263	22	21	16	39	1.92
1158639--1158675	2	18.5	2	94	0	65	45	0	2	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163528--1163579	25	2.2	24	83	13	63	55	0	3	40	1.18
1163558--1163638	32	2.4	34	80	15	98	53	1	2	43	1.22
1165017--1165056	8	4.9	8	90	3	62	50	0	0	50	1.00
1165335--1165463	68	1.9	67	80	6	152	50	6	8	34	1.58
1169881--1169933	2	27.0	2	88	3	81	45	0	3	50	1.19
1172126--1172155	2	15.0	2	100	0	60	0	50	0	50	1.00
1172328--1172389	18	3.7	18	69	20	53	45	0	0	54	0.99
1175367--1175397	1	31.0	1	93	0	53	3	96	0	0	0.21
1176607--1176671	23	2.7	25	79	18	75	33	0	1	64	1.03
1176623--1176669	23	2.0	24	92	8	80	31	0	0	68	0.90
1176994--1177119	22	5.6	22	70	16	89	39	0	0	59	1.03
1176994--1177124	11	12.6	11	68	22	61	38	0	0	60	1.02
1176998--1177095	8	12.0	8	69	22	62	39	0	0	60	0.97
1176998--1177124	44	2.8	46	78	14	140	38	0	0	60	1.02
1176997--1177136	17	8.5	17	72	20	77	37	0	0	60	1.07
1176989--1177098	42	2.6	43	70	23	97	39	0	0	60	1.03
1177330--1177361	6	5.3	6	96	0	55	21	46	15	15	1.83
1177649--1177676	2	14.0	2	100	0	56	50	0	0	50	1.00
1177962--1178008	25	1.9	24	86	4	67	46	0	0	53	1.00
1178321--1178352	2	16.0	2	93	0	55	46	0	3	50	1.17
1179385--1179461	27	2.7	28	78	6	66	55	1	0	42	1.07
1181303--1181328	2	13.0	2	100	0	52	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)
1183018--1183059	2	21.0	2	95	0	75	47	0	2	50	1.14
1183169--1183205	18	2.0	19	94	5	67	37	0	0	62	0.96
1183212--1183252	21	2.0	21	95	0	73	46	0	4	48	1.23
1183314--1183387	25	3.1	23	74	18	62	39	0	1	59	1.06
1184210--1184260	26	1.9	27	84	4	68	56	0	0	43	0.99
1184794--1184834	3	13.7	3	84	0	55	31	41	0	26	1.56
1185888--1185919	15	2.1	15	94	0	55	0	21	12	65	1.25
1186429--1186469	21	1.9	21	85	5	55	14	9	4	70	1.30
1189493--1189522	2	15.0	2	100	0	60	50	0	0	50	1.00
1189522--1189549	2	14.0	2	100	0	56	50	0	50	0	1.00
1189594--1189624	2	15.5	2	100	0	62	51	0	0	48	1.00
1190665--1190724	21	3.2	18	79	20	70	40	0	0	60	0.97
1194463--1194500	20	1.9	20	89	10	60	47	0	2	50	1.15
1202629--1202682	15	3.5	15	72	5	54	37	1	7	53	1.40
1204972--1205019	24	2.0	24	91	0	78	37	0	14	47	1.44
1205211--1205244	2	18.0	2	88	11	54	50	0	0	50	1.00
1206452--1206498	17	2.8	17	80	3	60	34	0	4	61	1.15
1206753--1206777	2	12.5	2	100	0	50	48	0	0	52	1.00
1209279--1209317	13	3.1	13	88	3	53	33	2	2	61	1.23
1209828--1209886	26	2.2	28	85	11	79	62	1	23	11	1.38
1210023--1210066	15	2.9	15	79	0	52	54	2	4	38	1.33
1210156--1210218	32	2.0	32	93	0	108	39	11	20	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212205--1212275	19	3.5	21	75	12	60	56	0	0	43	0.99
1212202--1212235	17	1.9	18	88	5	52	50	0	0	50	1.00
1212216--1212279	20	3.1	21	80	10	80	60	0	0	39	0.97
1212659--1212689	4	7.8	4	100	0	62	25	0	22	51	1.48
1216788--1216828	2	20.5	2	84	0	55	46	0	0	53	1.00
1218934--1218964	6	5.2	6	92	0	53	61	0	19	19	1.35
1218959--1219319	195	1.9	195	90	2	582	42	18	14	23	1.88
1227594--1227633	19	2.1	19	100	0	80	25	10	20	45	1.81
1230915--1230978	30	2.1	30	82	5	74	40	1	6	51	1.36
1233001--1233073	17	4.4	16	75	13	60	43	0	1	54	1.08
1233018--1233111	8	11.5	8	71	24	63	38	0	0	61	0.96
1233019--1233115	18	5.9	17	72	15	80	37	0	0	62	0.95
1233019--1233120	30	3.2	30	83	12	107	37	0	0	62	0.95
1233028--1233120	23	3.9	24	77	19	63	36	0	0	63	0.95
1233062--1233120	8	7.6	8	78	19	63	35	0	0	64	0.94
1233035--1233146	26	4.5	25	72	23	60	35	0	1	61	1.13
1236228--1236272	17	2.6	17	80	13	56	55	0	0	44	0.99
1236240--1236304	19	3.2	19	76	10	67	61	0	0	38	0.96
1240536--1240564	11	2.7	11	94	5	51	0	13	0	86	0.58
1240532--1240564	15	2.2	15	89	10	50	0	15	0	84	0.61
1242499--1242526	2	14.0	2	100	0	56	0	50	0	50	1.00
1243189--1243214	2	13.0	2	100	0	52	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)
1243976--1244044	20	3.5	19	74	18	54	50	1	1	46	1.19
1244825--1244863	18	2.2	18	86	9	53	38	5	0	56	1.22
1244921--1244958	15	2.5	16	91	8	62	34	0	0	65	0.93
1245714--1245757	19	2.3	18	80	7	52	77	2	9	11	1.08
1248413--1248474	26	2.3	27	78	13	65	70	0	0	29	0.87
1248413--1248472	6	9.5	6	78	7	57	71	0	0	28	0.86
1249065--1249096	14	2.4	14	90	10	50	43	3	0	53	1.16
1251105--1251132	3	9.3	3	100	0	56	32	0	0	67	0.91
1251848--1251886	21	1.9	20	89	5	60	38	0	0	61	0.96
1256967--1256992	8	3.2	8	100	0	52	65	11	0	23	1.25

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