genome.fa.s166.2.7.7.80.10.50.1000.7.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: Scaffold166
Parameters: 2 7 7 80 10 50 1000
Length:  2719372

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2078 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)
1094516--1094569	17	3.2	17	72	15	58	42	0	3	53	1.18
1094590--1094640	26	1.9	26	84	11	68	49	0	3	47	1.20
1094621--1094658	20	1.9	20	88	0	58	39	2	5	52	1.38
1097785--1097864	27	2.9	27	75	15	67	48	2	2	46	1.29
1102739--1102763	13	1.9	13	100	0	50	56	8	4	32	1.47
1102796--1102848	26	2.0	26	92	0	88	30	28	0	41	1.56
1111878--1111931	24	2.2	24	83	3	63	37	3	5	53	1.42
1116367--1116391	13	1.9	13	100	0	50	24	16	4	56	1.57
1116843--1116896	19	2.8	20	85	2	74	31	16	12	38	1.87
1117128--1117184	29	2.0	29	96	0	105	31	19	15	33	1.93
1125682--1125712	14	2.2	14	94	0	53	29	6	3	61	1.37
1125744--1125768	13	1.9	13	100	0	50	36	16	16	32	1.90
1125723--1125787	33	2.0	33	81	3	78	33	13	13	38	1.85
1125757--1125808	19	2.7	19	78	3	59	32	15	11	40	1.83
1133029--1133146	51	2.3	52	88	4	168	27	28	8	35	1.86
1133079--1133416	79	4.3	78	76	5	297	29	27	9	32	1.89
1133079--1133409	158	2.1	158	84	2	432	29	28	9	32	1.89
1141822--1141903	28	3.0	28	80	10	89	59	8	19	12	1.58
1141958--1141989	9	3.7	9	91	8	57	0	12	0	87	0.54
1142618--1142726	29	3.8	29	70	9	96	30	21	22	26	1.98
1142626--1142763	58	2.4	58	95	0	240	26	23	21	28	1.99
1160716--1160795	24	3.2	24	72	10	79	10	43	2	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160694--1160795	51	2.0	51	86	0	141	9	43	1	45	1.48
1160740--1160776	9	4.1	9	92	0	56	5	43	5	45	1.49
1170816--1170891	12	6.9	11	75	15	52	39	2	48	9	1.49
1170815--1170900	24	3.8	24	72	17	85	41	2	45	10	1.51
1170836--1170913	9	9.0	9	69	8	54	43	2	43	10	1.52
1170839--1170913	18	3.8	18	71	19	60	44	2	42	10	1.53
1170806--1170924	42	2.8	42	90	0	184	43	2	45	8	1.47
1176972--1177098	64	2.0	64	93	3	220	38	15	28	17	1.90
1178664--1178739	12	6.9	11	75	15	52	39	2	48	9	1.49
1178663--1178748	24	3.8	24	72	17	85	41	2	45	10	1.51
1178654--1178772	42	2.8	42	92	0	193	42	2	46	8	1.47
1185867--1185942	12	6.9	11	75	15	52	39	3	47	9	1.54
1185866--1185951	24	3.8	24	73	17	94	41	3	44	10	1.56
1185857--1185975	42	2.8	42	92	0	184	42	3	45	8	1.51
1190731--1191021	148	2.0	146	89	2	449	20	19	12	46	1.82
1191918--1191993	12	6.9	11	75	15	61	38	1	46	14	1.53
1191917--1191993	24	3.5	24	76	20	94	38	1	45	14	1.53
1191939--1191998	9	7.0	9	74	11	63	41	1	43	13	1.54
1191917--1192016	42	2.4	42	91	1	157	40	1	45	14	1.51
1194892--1194932	18	2.3	18	86	0	55	48	2	31	17	1.60
1194903--1194937	18	1.9	18	88	0	52	48	0	34	17	1.47
1198002--1198038	11	3.5	11	88	7	58	62	0	8	29	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197974--1198040	21	3.3	19	83	10	71	59	0	10	29	1.31
1201245--1201293	24	2.1	22	85	7	62	12	42	0	44	1.41
1201208--1201347	42	3.3	42	79	5	149	10	41	2	46	1.49
1215138--1215256	42	2.8	42	92	0	193	8	46	2	42	1.47
1215171--1215246	12	6.9	11	75	15	52	9	48	2	39	1.49
1215162--1215247	24	3.8	24	72	17	85	10	45	2	41	1.51
1215153--1215223	18	3.6	18	69	20	52	9	43	2	43	1.52
1218428--1218482	12	4.9	11	75	18	51	40	0	45	14	1.45
1218417--1218500	33	2.5	33	84	3	116	47	0	39	13	1.42
1218460--1218508	24	2.0	25	84	4	64	46	0	38	14	1.44
1220617--1220692	12	6.9	11	77	15	61	42	0	44	13	1.43
1220637--1220697	9	6.1	9	74	20	50	45	0	40	13	1.43
1220616--1220725	42	2.6	42	92	0	175	43	0	43	11	1.47
1220661--1220706	12	3.9	12	81	13	51	45	0	41	13	1.43
1227821--1227939	42	2.8	42	89	0	184	8	45	2	43	1.47
1227845--1227930	24	3.8	24	72	17	85	10	44	2	43	1.51
1228873--1229357	243	2.0	242	98	0	943	44	16	18	20	1.87
1232799--1232852	15	3.4	15	73	14	54	9	50	1	38	1.45
1232815--1232876	18	3.6	18	72	12	58	11	43	1	43	1.50
1232800--1232870	33	2.2	33	92	0	115	11	46	1	40	1.48
1232828--1232899	12	6.5	11	75	16	53	11	47	1	40	1.48
1232830--1232909	42	1.9	42	92	0	133	8	46	1	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236174--1236208	12	2.9	12	84	16	54	11	48	0	40	1.39
1239862--1239933	12	6.5	11	75	16	53	40	1	47	11	1.48
1239852--1239931	42	1.9	42	92	0	133	43	1	46	8	1.42
1239891--1239961	33	2.2	33	92	0	115	40	1	46	11	1.48
1239852--1239940	42	2.1	42	87	0	124	44	1	43	10	1.45
1250876--1250993	12	10.9	11	70	19	54	40	3	47	8	1.51
1250875--1251026	42	3.6	42	94	0	268	41	3	46	8	1.51
1250941--1251032	18	4.8	18	71	17	60	43	4	45	6	1.49
1257011--1257269	42	6.2	43	74	10	162	38	18	25	16	1.91
1257082--1257269	43	4.5	42	78	2	180	37	19	27	15	1.92
1257057--1257223	85	2.0	83	83	2	208	36	19	28	16	1.93
1257078--1257241	83	1.9	86	82	6	210	37	18	28	16	1.92
1257586--1257785	84	2.4	85	89	0	278	37	16	28	18	1.92
1257594--1257713	43	2.9	41	70	14	109	39	15	26	18	1.91
1257913--1258073	42	3.8	42	78	9	141	42	15	22	19	1.89
1257953--1258093	42	3.4	42	76	7	110	43	17	23	15	1.86
1258091--1258189	43	2.3	43	82	5	110	38	13	30	18	1.88
1258522--1258975	78	5.8	78	83	2	484	28	16	27	27	1.97
1259579--1259745	88	1.9	88	88	0	253	43	13	19	23	1.86
1259553--1259761	88	2.4	88	83	0	247	45	13	19	21	1.84
1259592--1259784	88	2.2	89	83	2	237	46	13	18	21	1.84
1263038--1263073	8	4.5	8	85	0	54	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263041--1263065	13	1.9	13	100	0	50	80	0	0	20	0.72
1263484--1263538	20	2.8	20	88	0	83	32	10	14	41	1.81
1273341--1273682	150	2.2	152	83	5	406	38	21	16	24	1.93
1273406--1273791	154	2.6	149	80	7	418	38	19	16	25	1.92
1275516--1275563	12	3.8	12	80	5	51	6	12	2	79	1.01
1275879--1276412	169	3.2	167	84	2	667	47	9	11	31	1.72
1277884--1278044	81	2.0	80	97	1	304	34	24	11	29	1.91
1278382--1278435	26	2.0	27	85	7	74	33	22	22	22	1.97
1279160--1279424	34	7.7	34	78	12	220	33	28	16	22	1.95
1279399--1279495	29	3.5	29	79	13	96	32	30	17	18	1.94
1279877--1279930	18	2.8	21	78	16	62	38	16	14	29	1.89
1281090--1281143	28	1.9	28	82	14	67	12	16	7	62	1.51
1289429--1289453	12	2.1	12	100	0	50	36	8	24	32	1.84
1295820--1295938	42	2.8	42	89	0	184	8	45	2	43	1.47
1295844--1295929	24	3.8	24	72	17	85	10	44	2	43	1.51
1303747--1303796	18	2.7	19	79	11	52	6	44	4	46	1.47
1303753--1303871	42	2.8	42	90	0	184	8	45	2	43	1.47
1303786--1303861	12	6.9	11	75	15	52	9	48	2	39	1.49
1303777--1303862	24	3.8	24	72	17	85	10	45	2	41	1.51
1303768--1303838	18	3.6	18	69	20	52	9	43	2	43	1.52
1314738--1314806	19	3.6	18	81	14	75	34	15	13	36	1.87
1314876--1314900	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315942--1315983	21	2.0	21	81	9	50	28	26	16	28	1.97
1322434--1322552	42	2.8	42	92	0	193	8	46	2	42	1.47
1322467--1322542	12	6.9	11	75	15	52	9	48	2	39	1.49
1322458--1322543	24	3.8	24	72	17	85	10	45	2	41	1.51
1322449--1322519	18	3.6	18	69	20	52	9	43	2	43	1.52
1324500--1324566	12	5.9	11	77	18	66	40	0	46	13	1.43
1324490--1324572	33	2.5	33	90	0	130	45	0	42	12	1.41
1324511--1324582	12	6.2	12	73	18	55	43	0	43	13	1.44
1327668--1327712	18	2.5	18	92	0	72	22	8	28	40	1.84
1332912--1332987	12	6.9	11	75	15	52	39	2	48	9	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18