genome.fa.s125.2.7.7.80.10.50.1000.1.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  1  of  18  ( 2131 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)
11095--11503	42	9.7	42	74	9	271	20	27	18	33	1.96
11205--11560	126	2.8	126	82	2	421	20	28	17	33	1.96
11081--11560	84	5.7	84	76	6	391	20	28	17	33	1.95
13185--13215	16	2.0	15	93	6	53	19	0	3	77	0.90
14569--14643	5	15.0	5	81	0	78	48	9	20	22	1.78
14563--14649	10	8.8	10	88	1	113	50	8	19	21	1.73
14697--14731	15	2.4	15	90	4	54	54	5	20	20	1.64
15335--15826	42	11.6	41	75	8	330	41	18	27	12	1.86
15333--15825	84	5.8	83	76	7	393	41	18	26	12	1.86
15293--15826	126	4.2	127	81	4	515	41	19	26	12	1.86
20383--20447	26	2.5	25	80	9	67	50	0	3	46	1.17
21337--21406	23	3.0	23	67	19	56	62	11	4	21	1.45
22394--22429	17	2.1	17	94	0	63	33	19	13	33	1.91
27288--27324	2	18.5	2	94	0	56	5	43	0	51	1.24
27866--27906	18	2.2	19	86	4	57	34	0	0	65	0.93
28066--28131	17	3.8	18	80	7	66	36	7	1	54	1.38
29688--29844	78	2.0	78	100	0	314	28	12	16	42	1.85
34945--34988	23	1.9	23	86	9	63	50	0	0	50	1.00
35670--35719	25	2.0	26	84	4	66	52	6	0	42	1.26
35888--35917	14	2.1	14	93	0	51	33	33	3	30	1.74
35993--36213	121	1.8	121	95	0	397	27	14	16	40	1.88
37396--37424	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43404--43452	25	2.0	25	87	0	71	57	0	6	36	1.24
43423--43489	34	2.0	34	85	5	91	53	0	2	43	1.16
53331--53412	23	3.8	21	70	19	53	52	2	2	42	1.27
53394--53433	21	1.9	21	84	0	53	57	0	2	40	1.12
56544--56578	2	17.5	2	100	0	70	48	0	0	51	1.00
58794--58833	21	1.9	21	90	10	64	40	0	0	60	0.97
59064--59099	14	2.5	15	90	4	56	36	0	0	63	0.94
64081--64112	2	16.0	2	100	0	64	0	50	0	50	1.00
65181--65220	3	13.3	3	100	0	80	32	0	0	67	0.91
66909--66962	20	2.8	19	83	8	74	44	3	9	42	1.54
67108--67159	2	26.0	2	100	0	104	50	0	0	50	1.00
67457--67513	22	2.5	23	75	11	64	52	0	0	47	1.00
68720--68777	22	2.7	22	71	10	57	51	0	0	48	1.00
69021--69056	15	2.4	15	90	0	54	25	63	11	0	1.27
69021--69046	12	2.2	12	100	0	52	23	69	7	0	1.14
69344--69396	3	17.7	3	100	0	106	32	0	0	67	0.91
69812--69848	17	2.2	17	90	0	56	43	5	2	48	1.40
70026--70063	15	2.4	16	91	4	60	50	0	0	50	1.00
71729--71788	18	3.3	18	67	4	50	53	10	5	31	1.56
72529--72574	20	2.3	21	85	7	60	43	4	0	52	1.21
73074--73117	2	21.5	2	95	4	79	47	0	2	50	1.13
73070--73123	8	6.7	9	91	8	66	44	0	5	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74770--74795	2	13.0	2	100	0	52	50	0	0	50	1.00
75704--75743	21	1.9	21	84	0	53	55	10	5	30	1.54
77145--77184	13	2.9	13	85	10	53	60	2	0	37	1.11
81324--81367	16	2.8	16	86	10	56	38	0	0	61	0.96
81354--81403	19	2.7	19	76	14	59	42	0	0	58	0.98
81344--81413	25	2.9	24	67	24	58	44	0	0	55	0.99
81426--81455	11	2.6	11	94	5	51	40	0	0	60	0.97
86434--86465	2	16.0	2	100	0	64	50	0	0	50	1.00
87335--87402	17	4.1	16	75	11	57	35	1	1	61	1.14
87739--87783	19	2.3	19	85	11	56	37	0	0	62	0.96
87764--87808	22	2.1	23	84	12	60	40	6	0	53	1.27
88002--88059	18	3.1	19	78	9	57	58	3	0	37	1.15
89107--89153	17	3.0	16	79	14	62	53	0	0	46	1.00
89213--89269	26	2.2	26	87	9	82	59	1	1	36	1.18
89294--89399	11	9.6	11	69	18	51	48	2	0	49	1.16
91901--91946	9	4.9	9	86	7	65	71	0	26	2	0.97
91898--91946	19	2.6	19	90	6	73	71	0	26	2	0.97
92077--92118	21	2.0	21	86	13	59	73	0	21	4	1.01
92255--92290	19	1.9	18	88	5	54	69	0	22	8	1.15
102492--102544	11	4.3	13	79	15	51	33	0	0	66	0.92
102526--102610	32	2.5	33	81	12	93	42	1	1	55	1.15
102498--102631	7	16.6	8	68	17	64	36	0	0	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102598--102654	17	3.2	17	83	16	71	26	0	1	71	0.95
103904--103934	2	16.0	2	93	6	55	51	0	0	48	1.00
103934--103959	2	13.0	2	100	0	52	50	0	50	0	1.00
104719--104821	48	2.1	52	80	14	119	49	0	0	48	1.14
104759--104799	14	2.9	14	88	3	55	56	0	0	43	0.99
105685--105750	26	2.5	27	80	9	82	42	0	0	57	0.98
105829--105865	5	7.4	5	93	0	65	78	0	0	21	0.75
110666--110696	16	1.9	16	93	0	53	70	0	0	29	0.87
110667--110718	17	3.2	17	81	8	54	57	0	0	42	0.98
112125--112446	164	2.0	165	94	0	574	31	27	11	30	1.91
116308--116366	21	2.7	21	81	5	73	38	6	1	52	1.38
117342--117398	21	2.7	21	80	2	60	35	0	1	63	1.05
123074--123119	3	15.3	3	100	0	92	67	0	0	32	0.91
123345--123394	2	25.0	2	91	0	82	48	2	0	50	1.12
124090--124142	22	2.6	21	82	8	65	39	0	1	58	1.09
124104--124167	22	2.9	22	78	17	71	35	1	3	59	1.23
125949--125983	11	3.2	11	87	0	52	34	0	0	65	0.93
129151--129217	29	2.3	29	87	5	91	38	0	0	61	0.96
129730--129764	18	1.9	18	88	0	52	51	2	2	42	1.31
130721--130764	2	22.0	2	100	0	88	50	0	0	50	1.00
131044--131081	11	3.7	10	83	16	51	68	0	2	28	1.03
132048--132087	21	2.0	20	85	5	53	27	0	15	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132946--132985	2	20.0	2	89	0	62	47	2	0	50	1.14
133638--133683	21	2.3	21	88	7	69	47	0	0	52	1.00
135652--135711	25	2.4	25	97	0	111	41	23	13	21	1.88
137400--137431	10	3.1	11	91	8	50	56	0	0	43	0.99
137966--138061	17	5.7	17	64	22	51	53	0	0	46	1.00
138007--138059	27	2.0	27	85	3	72	56	0	0	43	0.99
138015--138056	15	3.1	15	80	19	56	54	0	0	45	0.99
138026--138075	15	3.4	15	81	13	50	56	0	0	44	0.99
140501--140537	4	9.2	4	87	0	56	21	2	27	48	1.63
141582--141611	2	15.0	2	100	0	60	50	0	0	50	1.00
141785--141860	29	2.6	29	89	4	109	38	21	14	26	1.91
141875--141911	2	18.5	2	100	0	74	48	0	0	51	1.00
142175--142239	22	3.0	23	82	13	75	41	1	1	55	1.18
142193--142253	22	2.6	25	67	15	58	47	0	1	50	1.10
142227--142285	30	2.0	30	86	3	84	45	1	1	50	1.21
143739--143772	17	1.9	18	88	5	52	52	0	0	47	1.00
143745--143803	28	2.2	26	84	6	73	55	0	0	44	0.99
144021--144052	2	16.0	2	93	0	55	46	0	3	50	1.17
146883--146929	19	2.4	20	80	16	62	57	0	0	42	0.98
146911--146973	27	2.4	25	77	17	65	61	0	0	38	0.96
146883--146955	37	1.9	39	83	8	98	61	0	0	38	0.96
148364--148413	16	3.1	16	72	18	50	44	0	2	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149058--149141	27	3.1	26	82	14	91	57	2	1	39	1.20
149085--149141	28	2.1	28	87	12	84	56	3	0	40	1.17
152256--152313	30	1.9	30	100	0	116	46	5	20	27	1.72
154231--154270	22	1.9	20	85	10	53	27	10	12	50	1.72
156596--156634	2	19.5	2	100	0	78	0	48	0	51	1.00
167145--167188	18	2.4	18	88	0	61	59	29	9	2	1.41
176640--176755	1	116.0	1	79	0	106	87	6	6	0	0.65
176640--176755	31	3.8	30	87	7	155	87	6	6	0	0.65
178954--178979	2	13.0	2	100	0	52	50	0	0	50	1.00
183170--183219	19	2.6	19	84	9	66	40	0	0	60	0.97

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