genome.fa.s432.2.7.7.80.10.50.1000.7.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: Scaffold432
Parameters: 2 7 7 80 10 50 1000
Length:  1706767

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 896 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)
1082667--1082696	13	2.3	13	94	0	51	43	13	13	30	1.82
1082576--1082714	20	6.8	20	69	19	92	41	17	15	24	1.89
1085591--1085651	13	5.2	13	72	22	53	39	11	14	34	1.82
1085573--1085671	33	3.0	33	88	2	146	40	11	15	33	1.82
1085605--1085673	20	3.8	20	75	25	80	39	8	14	37	1.77
1086753--1086834	28	3.0	27	78	10	85	12	19	8	59	1.58
1103311--1103393	16	4.8	18	78	12	77	39	10	10	38	1.75
1106108--1106190	18	4.7	18	83	5	89	37	14	10	37	1.81
1112527--1112589	30	2.2	29	81	13	78	46	19	3	31	1.65
1113646--1113678	15	2.1	17	88	11	52	48	0	6	45	1.27
1119179--1119237	9	6.9	9	71	11	52	44	0	42	13	1.44
1119198--1119232	12	2.9	12	84	16	54	40	0	48	11	1.39
1119201--1119246	12	3.9	12	81	13	51	43	0	43	13	1.43
1119156--1119265	42	2.6	42	89	0	157	42	0	43	12	1.49
1119963--1119989	13	2.1	13	100	0	54	22	22	14	40	1.90
1128094--1128137	18	2.4	18	81	7	54	9	47	0	43	1.35
1128128--1128188	9	7.1	9	74	10	56	13	42	0	44	1.43
1128099--1128218	42	2.9	42	85	0	159	12	43	0	44	1.42
1136129--1136247	42	2.8	42	92	0	184	8	45	2	43	1.47
1136162--1136237	12	6.9	11	75	15	52	9	48	2	39	1.49
1136153--1136238	24	3.8	24	72	17	85	10	45	2	41	1.51
1136144--1136214	18	3.6	18	69	20	52	9	42	2	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139080--1139112	17	1.9	17	100	0	66	81	6	6	6	0.97
1142252--1142327	12	6.9	11	75	15	52	39	2	48	9	1.49
1142251--1142336	24	3.8	24	72	17	85	41	2	45	10	1.51
1142242--1142360	42	2.8	42	92	0	193	42	2	46	8	1.47
1147338--1147375	20	1.9	20	94	0	67	34	31	23	10	1.89
1155969--1156044	12	6.9	11	75	15	52	39	2	48	9	1.49
1155968--1156053	24	3.8	24	72	17	85	41	2	45	10	1.51
1155959--1156077	42	2.8	42	92	0	193	42	2	46	8	1.47
1165398--1165478	42	1.9	42	87	5	119	12	44	0	43	1.42
1165437--1165493	15	3.6	15	71	13	51	14	45	0	40	1.44
1165427--1165508	33	2.5	33	87	0	110	12	42	0	45	1.41
1176545--1176663	42	2.8	42	90	0	184	8	47	2	42	1.47
1176569--1176647	21	3.5	24	68	19	71	11	46	2	39	1.53
1176569--1176654	24	3.8	24	72	17	76	10	46	2	40	1.51
1182046--1182112	28	2.4	28	80	9	82	11	17	10	59	1.60
1196104--1196154	20	2.5	21	80	6	59	37	11	17	33	1.86
1197690--1197728	15	2.6	15	79	0	51	82	2	12	2	0.89
1198476--1198551	12	6.9	11	75	15	52	39	2	48	9	1.49
1198475--1198560	24	3.8	24	72	17	85	41	2	45	10	1.51
1198466--1198584	42	2.8	42	92	0	184	43	2	45	8	1.47
1392515--1392552	12	3.0	13	92	7	69	36	15	15	31	1.90
1394631--1394661	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396464--1396508	21	2.1	21	84	8	56	22	20	4	53	1.63
1398723--1398748	13	2.0	13	100	0	52	30	15	15	38	1.88
1404228--1404344	51	2.3	51	90	0	180	30	19	9	40	1.83
1404262--1404385	20	5.7	20	69	19	77	32	17	10	39	1.84
1418283--1418358	18	4.2	17	80	11	80	80	15	3	0	0.86
1418285--1418328	11	4.4	11	75	21	51	79	13	6	0	0.92
1418279--1418361	38	2.2	38	81	14	102	79	16	3	0	0.87
1418296--1418368	11	6.2	11	73	17	58	80	15	2	1	0.89
1419589--1419863	29	9.3	30	74	14	177	31	30	16	21	1.95
1419589--1420081	88	5.6	87	83	6	529	30	30	16	22	1.96
1419586--1420110	116	4.5	113	77	10	443	30	30	16	22	1.96
1419621--1420098	28	16.5	28	76	9	350	30	30	16	21	1.96
1420212--1420415	48	4.3	48	83	1	234	19	25	17	37	1.94
1421159--1421211	18	2.8	20	86	13	76	35	11	16	35	1.85
1421159--1421211	20	2.8	19	86	13	74	35	11	16	35	1.85
1421250--1421287	20	1.9	20	94	0	67	31	15	10	42	1.81
1425310--1426094	161	4.8	162	88	3	1057	40	15	11	32	1.82
1425310--1426092	324	2.4	323	86	4	1096	40	15	11	32	1.82
1427583--1427623	17	2.4	18	80	19	52	48	0	17	34	1.47
1427300--1427862	164	3.4	160	81	8	600	50	9	11	28	1.69
1430737--1430882	62	2.4	62	98	0	283	29	19	21	30	1.97
1434035--1434074	11	3.6	11	79	0	53	35	20	25	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439270--1439343	19	3.8	19	89	1	112	31	17	14	36	1.90
1439388--1439417	13	2.3	13	94	0	51	36	16	10	36	1.82
1439372--1439438	33	2.0	32	86	11	91	34	13	16	35	1.88
1440996--1441029	3	11.3	3	87	0	50	35	0	35	29	1.58
1452191--1452300	42	2.6	42	92	0	184	9	48	2	40	1.49
1456380--1456440	9	7.1	9	74	10	65	13	44	0	42	1.43
1456385--1456461	12	6.9	12	77	19	71	12	46	0	40	1.42
1456373--1456470	42	2.3	42	94	0	169	12	42	0	44	1.41
1459115--1459161	20	2.3	21	85	10	62	40	21	0	38	1.53
1461556--1461608	20	2.7	20	91	5	81	33	13	20	32	1.91
1464518--1464543	12	2.2	12	100	0	52	42	7	23	26	1.81
1475522--1475745	31	7.0	31	73	13	114	21	20	27	29	1.98
1475592--1475746	31	4.8	32	83	7	172	20	21	29	29	1.98
1475752--1476031	55	5.1	55	93	0	452	33	17	20	28	1.95
1476036--1476069	13	2.6	13	90	0	50	32	14	14	38	1.87
1476818--1477064	122	2.0	122	93	0	422	34	19	14	32	1.91
1482641--1482714	9	8.6	9	70	8	64	14	41	0	43	1.46
1482659--1482735	12	6.9	12	72	24	62	14	45	0	40	1.45
1482626--1482735	42	2.6	42	94	0	193	13	44	0	40	1.50
1483574--1483753	89	2.0	89	98	0	351	41	20	14	23	1.89
1492111--1492455	140	2.5	140	88	1	505	43	12	9	34	1.74
1494079--1494466	168	2.3	165	86	6	548	50	9	10	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499979--1500130	68	2.2	68	92	0	259	40	21	13	24	1.89
1505729--1505840	58	1.9	58	92	0	188	27	20	20	31	1.98
1506313--1506473	86	1.9	86	94	0	286	23	20	16	39	1.91
1508133--1508183	24	2.1	24	85	0	66	50	0	37	11	1.39
1508139--1508219	42	1.9	42	82	9	103	45	1	41	11	1.47
1510364--1510480	58	2.0	58	94	0	207	29	20	22	27	1.98
1510367--1510465	29	3.4	29	71	10	103	31	22	22	24	1.98
1516125--1516244	42	2.8	42	91	1	186	42	2	46	8	1.47
1516200--1516250	18	2.8	18	81	3	57	43	1	47	7	1.43
1534901--1535036	45	3.1	44	65	28	110	18	11	27	42	1.84
1534866--1535035	85	2.0	85	95	0	304	20	12	28	38	1.88
1536351--1536426	12	6.9	11	78	15	70	40	0	46	13	1.43
1536371--1536431	9	7.1	9	76	10	65	44	0	42	13	1.43
1536374--1536444	18	3.6	18	72	20	61	45	0	42	12	1.42
1536341--1536459	42	2.8	42	90	0	184	43	0	44	10	1.45
1542855--1543841	333	3.0	333	99	0	1965	31	15	20	31	1.94
1545607--1545682	12	6.9	11	75	15	52	39	2	48	9	1.49
1545606--1545691	24	3.8	24	72	17	85	41	2	45	10	1.51
1545597--1545715	42	2.8	42	90	0	184	42	2	47	8	1.47
1554573--1555767	157	7.6	156	75	9	901	29	18	13	37	1.90
1554582--1555594	156	6.4	155	77	8	843	30	18	13	37	1.90
1554591--1555493	313	2.9	313	87	4	1217	30	18	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558784--1558820	18	2.1	18	94	0	65	37	0	37	24	1.56
1559123--1559232	58	1.9	58	90	0	175	29	20	21	28	1.98
1559861--1560072	40	5.2	41	93	1	347	37	19	9	32	1.85
1560143--1560221	28	2.8	27	84	5	86	13	18	3	63	1.45
1567545--1567657	30	3.8	30	93	0	190	14	43	0	41	1.51
1567570--1567657	9	8.8	9	75	20	77	15	42	0	42	1.47
1567570--1567657	21	4.4	18	78	16	77	15	42	0	42	1.47
1580680--1580798	42	2.8	42	90	0	184	8	45	2	43	1.47
1580713--1580788	12	6.9	11	75	15	52	9	48	2	39	1.49
1580704--1580789	24	3.8	24	72	17	85	10	45	2	41	1.51

Tables:   1   2   3   4   5   6   7   8