genome.fa.s179.2.7.7.80.10.50.1000.12.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: Scaffold179
Parameters: 2 7 7 80 10 50 1000
Length:  2991183

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

This is table  12  of  18  ( 2159 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)
1532056--1532174	33	3.7	32	80	10	109	70	7	5	16	1.29
1532050--1532277	9	27.5	8	68	20	98	68	9	3	17	1.32
1532051--1532209	16	9.6	17	71	17	86	68	8	5	16	1.35
1532088--1532163	31	2.4	31	85	12	93	68	7	5	18	1.34
1532057--1532275	7	28.7	7	67	23	65	68	9	4	17	1.32
1533348--1533377	15	1.9	16	93	6	53	63	6	23	6	1.43
1536313--1536486	92	1.9	91	89	1	267	31	21	6	40	1.80
1538353--1538430	19	4.4	19	74	21	80	37	11	8	42	1.73
1538351--1538413	32	2.0	32	96	0	117	39	12	7	39	1.73
1551547--1551597	20	2.5	20	81	6	59	33	13	13	39	1.84
1551629--1551682	20	2.8	20	91	2	83	37	18	12	31	1.89
1559177--1559250	7	10.0	7	75	18	53	82	10	2	4	0.90
1559175--1559275	30	3.4	29	79	14	91	80	11	3	3	0.99
1559175--1559260	30	2.9	31	79	14	92	81	11	3	3	0.94
1559212--1559275	14	4.5	14	71	9	58	79	14	4	1	0.96
1560490--1561297	28	27.7	29	83	8	669	30	29	18	22	1.97
1560577--1560898	64	5.3	63	80	7	292	32	29	17	20	1.96
1560496--1561297	112	6.9	114	81	8	780	30	29	18	21	1.97
1569399--1569464	35	1.9	35	93	3	116	31	22	12	33	1.91
1570044--1570094	19	2.6	20	87	3	77	41	17	15	25	1.89
1575140--1575240	51	2.0	51	94	0	175	29	16	16	36	1.92
1579460--1579557	39	2.4	38	78	9	97	34	21	4	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579537--1579576	20	2.0	21	85	9	57	32	20	2	45	1.64
1581384--1581461	20	3.7	20	74	15	75	39	15	15	29	1.88
1585273--1585324	21	2.5	20	78	9	59	23	9	3	63	1.41
1587533--1587596	32	2.0	32	84	9	85	29	12	15	42	1.84
1587553--1587578	13	2.0	13	100	0	52	30	15	15	38	1.88
1589313--1589870	79	7.1	79	77	3	500	27	24	12	34	1.92
1589503--1589561	28	2.0	30	87	9	86	27	25	15	32	1.95
1589313--1589841	236	2.2	236	82	3	643	27	24	12	34	1.92
1589332--1589939	315	1.9	315	78	4	654	27	25	13	33	1.94
1598950--1598994	20	2.2	21	84	11	58	57	17	4	20	1.56
1606918--1606968	23	2.2	23	96	0	93	31	11	29	27	1.92
1608739--1608854	51	2.3	51	95	0	205	39	18	15	26	1.90
1608840--1608867	13	2.2	13	100	0	56	39	17	14	28	1.89
1608843--1608912	13	5.1	13	69	19	52	27	18	17	37	1.93
1612086--1612147	32	1.9	33	87	9	92	43	9	12	33	1.76
1616289--1616314	13	2.0	13	100	0	52	30	15	15	38	1.88
1616299--1616352	19	2.8	19	82	2	63	33	20	11	35	1.88
1620854--1620895	22	1.9	22	90	0	66	21	33	4	40	1.74
1622404--1622438	18	1.9	18	88	0	52	51	8	11	28	1.67
1622723--1622852	59	2.2	59	98	0	251	32	16	23	28	1.96
1629314--1629368	19	2.9	19	94	0	92	27	14	16	41	1.87
1633647--1633696	19	2.6	19	83	0	55	32	10	18	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633748--1633773	13	2.0	13	100	0	52	30	15	15	38	1.88
1633728--1633794	34	2.0	33	88	2	98	25	16	14	43	1.86
1636148--1636270	52	2.4	53	83	5	153	30	26	12	31	1.92
1636149--1636592	211	2.1	211	89	1	676	28	27	13	30	1.94
1636205--1636611	107	3.8	107	68	15	250	28	27	14	30	1.95
1636495--1636729	79	3.0	76	76	9	220	25	27	14	32	1.95
1644390--1644440	27	1.9	27	92	4	86	25	17	35	21	1.95
1646746--1646800	20	2.8	20	85	0	83	40	14	12	32	1.84
1647565--1647629	32	2.0	32	88	5	96	27	18	24	29	1.98
1647616--1647941	28	11.6	28	84	3	397	20	15	32	30	1.94
1647907--1647984	39	2.0	39	94	0	138	24	14	32	29	1.94
1652828--1652999	52	3.3	51	82	4	211	32	11	26	30	1.91
1653088--1653140	27	2.0	27	88	0	79	24	18	30	26	1.98
1653122--1653239	51	2.4	49	82	13	145	33	11	24	30	1.91
1655042--1655070	10	3.0	10	95	5	51	0	0	20	79	0.74
1655604--1655662	13	5.0	13	70	29	60	42	15	15	27	1.86
1655616--1655682	20	3.7	20	74	25	85	46	14	14	23	1.83
1655583--1655682	33	3.0	33	95	1	173	45	14	16	25	1.84
1655702--1655787	19	4.8	19	79	16	103	34	15	12	37	1.85
1655724--1655748	13	1.9	13	100	0	50	32	16	16	36	1.90
1655705--1655767	32	2.0	32	96	0	117	33	15	14	36	1.88
1656604--1658196	55	27.9	55	82	11	1520	24	20	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656604--1658194	116	13.9	114	84	9	1615	24	20	28	26	1.99
1659206--1659261	12	4.5	12	82	6	67	0	5	8	85	0.73
1659191--1659260	20	3.2	21	78	11	70	0	10	7	82	0.83
1681126--1681347	51	4.3	51	80	6	207	32	11	25	30	1.91
1681126--1681347	103	2.1	104	82	7	265	32	11	25	30	1.91
1681329--1681408	27	2.9	27	87	7	108	23	20	32	23	1.98
1681408--1681505	51	1.9	51	84	12	130	36	9	22	31	1.86
1683782--1683807	13	2.0	13	100	0	52	38	15	15	30	1.88
1683794--1683860	20	3.7	20	70	25	76	47	14	13	23	1.80
1683761--1683860	33	3.0	33	94	1	164	46	14	15	25	1.82
1683902--1683958	13	3.9	13	76	24	60	33	15	14	36	1.88
1683883--1683977	32	3.0	32	95	0	163	33	15	13	36	1.87
1683878--1683980	19	6.2	17	71	28	87	35	14	12	36	1.84
1688459--1688483	13	1.9	13	100	0	50	36	16	16	32	1.90
1688547--1688571	13	1.9	13	100	0	50	32	16	16	36	1.90
1688580--1688707	52	2.5	52	93	3	215	34	17	17	30	1.93
1695388--1695431	7	6.1	7	84	5	61	86	13	0	0	0.57
1695390--1695433	15	3.0	15	83	6	63	88	11	0	0	0.51
1695388--1695433	22	2.0	23	87	4	67	86	13	0	0	0.56
1695671--1695710	17	2.4	17	91	8	64	85	7	7	0	0.76
1696656--1696800	31	4.7	31	85	6	179	26	28	17	27	1.98
1696656--1696819	62	2.6	62	83	6	208	25	28	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696653--1696872	93	2.3	93	80	7	248	23	30	15	30	1.95
1696795--1697238	33	13.4	34	84	9	487	19	34	12	33	1.90
1696802--1697238	34	13.1	33	83	9	466	19	34	12	33	1.89
1696781--1697233	232	2.0	228	88	4	669	20	33	13	32	1.91
1697240--1697412	33	5.2	33	88	6	262	28	35	16	19	1.93
1697412--1697935	49	10.7	49	85	5	688	25	25	17	30	1.97
1697412--1697994	97	5.9	98	87	7	761	25	25	17	31	1.97
1697549--1697983	49	8.6	53	83	6	367	25	25	16	32	1.96
1698855--1698879	13	1.9	13	100	0	50	36	16	16	32	1.90
1698943--1698967	13	1.9	13	100	0	50	32	16	16	36	1.90
1698976--1699103	52	2.5	52	94	3	224	33	17	17	30	1.94
1709034--1710612	786	2.0	787	96	0	2885	35	17	19	27	1.94
1711226--1711406	52	3.5	52	95	0	317	28	17	17	36	1.93
1711494--1711588	19	5.7	17	71	28	80	38	17	11	31	1.86
1711511--1711567	13	3.9	13	76	24	60	35	17	14	33	1.90
1711486--1711586	32	3.2	32	94	0	175	38	17	10	32	1.85
1712384--1713245	49	18.2	49	76	10	773	32	18	25	23	1.97
1712394--1713245	43	18.1	43	72	16	547	31	18	25	23	1.97
1712394--1713246	92	9.1	93	88	5	1062	31	18	25	23	1.97
1712394--1713246	270	3.0	273	85	6	1021	31	18	25	23	1.97
1713259--1713403	32	4.4	34	76	14	151	18	15	34	31	1.93
1713401--1713614	33	6.6	32	81	11	188	37	12	31	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713512--1713605	27	3.3	27	83	8	107	37	12	30	19	1.89
1713519--1713631	60	1.9	60	92	3	192	30	13	34	21	1.91
1713624--1713887	94	2.8	93	81	10	311	29	16	30	23	1.96
1713619--1713887	62	4.3	63	91	2	407	28	15	30	24	1.96
1713444--1713887	32	14.0	32	78	11	353	32	14	31	21	1.94
1715081--1715143	13	4.7	13	80	7	72	0	0	14	85	0.59
1715096--1715141	5	9.8	5	84	11	62	0	0	13	86	0.56
1715081--1715141	9	6.8	9	81	7	70	0	0	14	85	0.60
1715081--1715142	28	2.2	28	88	8	92	0	0	14	85	0.60
1715084--1715161	33	2.4	33	83	10	106	1	1	16	80	0.84

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