genome.fa.s85.2.7.7.80.10.50.1000.5.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: Scaffold85
Parameters: 2 7 7 80 10 50 1000
Length:  1350895

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 625 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)
1077189--1077249	9	7.1	9	78	10	74	44	0	42	13	1.43
1077176--1077278	42	2.5	42	91	0	170	41	0	45	11	1.47
1089121--1089196	12	6.9	11	75	15	52	39	2	48	9	1.49
1089120--1089205	24	3.8	24	72	17	85	41	2	45	10	1.51
1089111--1089229	42	2.8	42	92	0	193	42	2	46	8	1.47
1094799--1094843	17	2.6	18	82	3	56	6	11	2	80	0.99
1101697--1101728	9	3.6	9	91	0	55	43	0	43	12	1.42
1101684--1101786	42	2.5	42	88	0	152	42	0	43	12	1.49
1101718--1101766	24	2.0	25	84	4	64	48	0	38	12	1.41
1108863--1109477	159	3.9	157	76	7	450	36	12	20	30	1.90
1113017--1113967	159	6.0	157	74	8	599	37	12	19	31	1.88
1113017--1113884	316	2.7	317	76	7	806	36	12	18	32	1.88
1117486--1117812	163	2.0	163	98	0	636	37	12	20	29	1.90
1122906--1122961	23	2.4	23	96	0	103	21	23	32	23	1.98
1130169--1130225	9	6.7	9	72	11	57	12	45	0	42	1.41
1130170--1130246	24	3.5	24	72	20	85	12	46	0	40	1.42
1130169--1130255	42	2.1	42	91	0	138	11	44	0	43	1.40
1130170--1130204	12	2.9	12	84	16	54	11	48	0	40	1.39
1131419--1131510	24	4.2	23	72	18	79	43	2	44	9	1.49
1131411--1131528	42	2.9	42	88	2	186	43	2	45	8	1.48
1132121--1132153	11	2.8	12	90	4	50	45	0	51	3	1.16
1144160--1144261	30	3.4	29	89	1	141	14	14	9	60	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144708--1145082	157	2.4	151	80	7	380	36	12	18	32	1.88
1145595--1145631	19	1.9	19	94	0	65	54	0	16	29	1.43
1145435--1145790	177	2.0	177	100	0	712	41	12	16	29	1.85
1146320--1146356	15	2.6	14	87	8	56	83	0	13	2	0.74
1147110--1147169	9	7.0	9	75	11	63	41	0	43	15	1.46
1147107--1147198	42	2.2	42	78	3	105	42	3	43	10	1.56
1150592--1150662	33	2.2	33	86	0	97	14	40	0	45	1.44
1150620--1150701	42	2.0	42	85	4	112	13	39	0	47	1.43
1153225--1153796	283	2.0	283	99	0	1135	29	21	15	33	1.94
1162088--1162236	70	2.1	70	89	0	235	41	12	11	34	1.78
1163142--1163463	116	2.8	116	82	3	400	31	13	28	26	1.94
1163142--1163486	58	5.9	58	77	7	315	32	13	28	26	1.94
1163381--1163691	137	2.3	137	81	7	330	31	15	28	24	1.96
1172254--1172328	33	2.2	35	83	7	91	44	0	42	13	1.43
1179784--1179930	52	2.8	52	96	0	267	31	17	19	31	1.95
1179949--1180016	19	3.9	18	76	23	83	36	16	11	35	1.85
1179971--1179995	13	1.9	13	100	0	50	32	16	16	36	1.90
1179952--1180014	32	2.0	32	96	0	117	34	17	12	34	1.88
1181107--1182414	159	8.4	158	71	10	649	38	13	17	30	1.88
1184764--1184869	42	2.5	42	87	3	142	45	0	41	12	1.48
1184765--1184839	12	6.8	11	73	23	61	46	0	40	13	1.43
1184764--1184855	24	4.2	23	75	20	90	46	0	40	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189512--1189547	18	2.1	17	90	10	56	5	11	5	77	1.10
1190400--1190473	36	2.1	36	100	0	148	37	16	18	27	1.92
1191916--1191957	21	2.0	21	86	9	59	69	4	19	7	1.31
1192692--1192831	42	3.3	42	77	5	149	50	0	37	12	1.40
1196499--1196524	13	2.0	13	100	0	52	38	15	15	30	1.88
1202620--1202686	20	3.3	20	95	0	116	26	11	16	44	1.82
1205134--1205171	13	2.7	15	80	16	53	34	15	13	36	1.87
1205145--1205202	13	4.9	13	68	23	56	31	10	13	44	1.78
1205144--1205221	33	2.4	32	89	6	122	29	12	14	43	1.82
1205191--1205245	19	2.8	20	88	2	76	32	14	14	38	1.87
1205186--1205246	20	3.1	19	81	6	77	34	13	14	37	1.85
1208141--1208380	96	2.5	96	88	1	345	28	13	29	27	1.94
1210052--1210107	10	5.3	11	87	8	55	1	19	0	78	0.84
1210071--1210110	10	3.9	10	93	3	62	0	15	0	85	0.61
1210056--1210108	16	3.2	16	78	5	52	1	18	0	79	0.83
1211604--1211914	28	10.9	28	82	4	315	23	15	28	31	1.95
1211623--1211914	57	5.2	56	84	4	322	23	16	28	31	1.96
1211604--1211910	85	3.6	86	81	6	338	23	15	28	31	1.95
1213537--1213643	12	10.0	11	71	21	68	40	0	46	13	1.43
1213560--1213630	18	3.6	18	71	20	61	43	0	43	12	1.42
1213536--1213645	42	2.6	42	97	0	202	40	0	46	12	1.42
1213560--1213639	18	4.1	18	72	17	52	42	0	43	13	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218597--1218817	29	7.7	29	83	6	254	24	18	28	29	1.98
1218597--1218824	86	2.6	86	82	5	246	25	17	28	28	1.98
1218597--1218817	114	1.9	113	82	8	277	24	18	28	29	1.98
1220112--1220152	8	5.0	8	82	5	55	7	0	7	85	0.75
1220112--1220152	17	2.5	17	96	4	75	7	0	7	85	0.75
1230368--1230419	10	5.0	10	79	9	59	80	17	0	1	0.80
1230382--1230419	11	3.4	11	89	7	58	86	10	0	2	0.66
1230368--1230419	21	2.5	20	81	9	59	80	17	0	1	0.80
1231635--1232109	28	16.8	28	80	7	469	27	29	19	24	1.98
1231626--1232083	56	8.1	56	86	3	530	26	29	18	25	1.98
1233066--1233286	97	2.3	97	87	0	325	28	13	30	28	1.94
1234980--1235037	22	2.7	21	82	12	64	3	22	1	72	1.09
1234990--1235052	11	6.0	10	82	10	72	1	19	1	77	0.93
1234979--1235052	21	3.3	21	83	9	76	2	18	1	77	0.97
1235604--1235942	166	2.0	166	83	5	418	50	10	11	28	1.71
1236284--1236583	159	1.9	159	80	6	358	38	11	18	32	1.86
1240982--1241031	19	2.5	20	83	3	66	34	22	16	28	1.95
1241114--1241138	13	1.9	13	100	0	50	32	20	16	32	1.94
1249713--1249737	13	1.9	13	100	0	50	32	16	16	36	1.90
1249837--1249861	13	1.9	13	100	0	50	32	20	16	32	1.94
1249818--1249882	34	2.0	34	90	6	107	38	18	15	27	1.91
1256379--1256420	22	1.9	22	90	0	66	9	26	7	57	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266988--1267120	12	11.7	12	70	22	60	40	0	44	15	1.46
1266999--1267096	31	3.1	32	88	10	141	39	0	44	15	1.46
1266988--1267123	73	1.9	71	90	3	218	41	0	44	14	1.45
1272689--1272723	18	1.9	18	100	0	70	34	22	17	25	1.96
1276007--1276031	13	1.9	13	100	0	50	36	16	16	32	1.90
1276072--1276138	33	2.0	33	88	0	98	40	13	11	34	1.81
1276094--1276118	13	1.9	13	100	0	50	32	16	16	36	1.90
1276545--1276603	28	2.1	28	87	6	84	33	16	16	32	1.92
1277212--1277237	13	2.0	13	100	0	52	38	15	15	30	1.88
1277194--1277258	32	2.0	32	87	6	94	40	18	13	27	1.89
1281358--1281383	13	2.0	13	100	0	52	30	15	15	38	1.88
1281338--1281401	32	2.0	33	87	3	94	28	14	17	40	1.88
1282080--1282123	21	2.1	21	83	8	54	25	31	4	38	1.76
1283930--1283968	13	3.0	13	100	0	78	38	15	15	30	1.88
1287880--1287924	21	2.1	21	84	8	56	22	20	4	53	1.63
1290145--1290170	13	2.0	13	100	0	52	30	15	15	38	1.88
1290125--1290188	32	2.0	33	87	3	94	28	14	17	40	1.88
1295646--1295698	21	2.5	22	84	6	81	28	20	11	39	1.87
1295773--1295810	13	2.9	13	96	0	67	31	13	21	34	1.91
1296284--1296345	31	2.0	31	87	9	90	29	14	24	32	1.94
1301541--1301599	23	2.6	22	84	10	75	33	25	0	40	1.56
1301528--1301590	23	2.7	23	85	7	83	34	26	0	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307587--1307628	15	2.8	16	82	10	61	30	16	2	50	1.58
1308056--1308086	3	10.3	3	92	0	53	29	32	0	38	1.57
1308054--1308092	9	4.3	9	90	0	51	25	30	0	43	1.55
1310192--1310217	13	2.0	13	100	0	52	30	15	15	38	1.88
1310171--1310235	32	2.0	33	93	6	114	27	12	15	44	1.82
1310171--1310235	19	3.6	19	73	26	70	27	12	15	44	1.82
1310865--1310894	13	2.3	13	94	0	51	36	10	16	36	1.82
1310984--1311008	13	1.9	13	100	0	50	32	20	16	32	1.94
1312160--1312252	18	5.7	18	76	23	116	35	16	19	29	1.93
1312176--1312263	13	6.0	13	75	23	77	37	15	17	29	1.91

Tables:   1   2   3   4   5   6