Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold198
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3915534
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 240068 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:1674 original size:38 final size:38
Alignment explanation
Indices: 1603--1744 Score: 95
Period size: 35 Copynumber: 3.9 Consensus size: 38
1593 AAATTCTTAA
**
1603 AAACACGAAAATTTTGAAAACACAGAAGTTTTTTTTTT
1 AAACACGAAAATTTTGAAAACACAGAAAATTTTTTTTT
**
1641 AAACACGGGAATTTCTGAAAACAC-GAAAA---TTTTTT
1 AAACACGAAAATTT-TGAAAACACAGAAAATTTTTTTTT
* ** **
1676 AAATACCG-AAATTTTGAAAACAC-GAGGA--TTTTTGA
1 AAACA-CGAAAATTTTGAAAACACAGAAAATTTTTTTTT
* *
1711 AAACACGAAGATTTTTGAAAACAC-GTAAATTTTT
1 AAACACGAA-AATTTTGAAAACACAGAAAATTTTT
1745 GAAAATACAG
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
34 14 0.17
35 24 0.29
36 17 0.21
38 18 0.22
39 9 0.11
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (38 bp):
AAACACGAAAATTTTGAAAACACAGAAAATTTTTTTTT
Found at i:1822 original size:18 final size:17
Alignment explanation
Indices: 1542--1833 Score: 157
Period size: 18 Copynumber: 16.3 Consensus size: 17
1532 TCAATTATTT
1542 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG--AAA
*
1561 TTCTT-AAGAACACGAGAA
1 TTTTTGAA-AACACGA-AA
* *
1579 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACG-AAA
* *
1596 TTCTTAAAAACACGAAA
1 TTTTTGAAAACACGAAA
* *
1613 ATTTTGAAAACACAGAAGTTT
1 TTTTTGAAAACAC-GAA---A
** *
1634 TTTTTTTAAACACGGGAA
1 TTTTTGAAAACAC-GAAA
*
1652 TTTCTGAAAACACGAAAA
1 TTTTTGAAAACACG-AAA
*
1670 TTTTTTAAATAC-CGAAA
1 TTTTTGAAA-ACACGAAA
*
1687 -TTTTGAAAACACGAGGA
1 TTTTTGAAAACACGA-AA
1704 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
1722 TTTTTGAAAACACGTAAA
1 TTTTTGAAAACACG-AAA
*
1740 TTTTTGAAAATACAGAAAA
1 TTTTTGAAAACAC-G-AAA
*
1759 TTTTTG-AAACATGAAAA
1 TTTTTGAAAACACG-AAA
* *
1776 TTTTTCTGAAAACTCG-AT
1 -TTTT-TGAAAACACGAAA
** *
1794 TTTTTTTAAACTCGAAA
1 TTTTTGAAAACACGAAA
1811 TTTTTGAAAA-ACGGCAAA
1 TTTTTGAAAACAC-G-AAA
1829 TTTTT
1 TTTTT
1834 TTTTAAAATG
Statistics
Matches: 210, Mismatches: 40, Indels: 47
0.71 0.13 0.16
Matches are distributed among these distances:
15 2 0.01
16 19 0.09
17 48 0.23
18 98 0.47
19 26 0.12
20 5 0.02
21 12 0.06
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:2287 original size:17 final size:18
Alignment explanation
Indices: 2265--2303 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2255 GTTGTGGGCC
2265 TTTTTCCCTTTTTC-CTT
1 TTTTTCCCTTTTTCTCTT
**
2282 TTTTTCTTTTTTTCTCTT
1 TTTTTCCCTTTTTCTCTT
2300 TTTT
1 TTTT
2304 GGCCTGCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCCCTTTTTCTCTT
Found at i:2478 original size:20 final size:20
Alignment explanation
Indices: 2446--2502 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
2436 GGCCTACTTC
*
2446 TATTTTTT-TCTGCTTTGAT
1 TATTTTTTGGCTGCTTTGAT
*
2465 TATTTTTTGGCTGCTCTTTGGT
1 TATTTTTTGGCTG--CTTTGAT
*
2487 TTTTTTTTGGGCTGCT
1 TATTTTTT-GGCTGCT
2503 CTTTGCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 2 0.06
22 13 0.42
23 5 0.16
ACGTcount: A:0.05, C:0.12, G:0.19, T:0.63
Consensus pattern (20 bp):
TATTTTTTGGCTGCTTTGAT
Found at i:2492 original size:22 final size:23
Alignment explanation
Indices: 2458--2507 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
2448 TTTTTTTCTG
2458 CTTTGATTATTTTTT-GGCTGCT
1 CTTTGATTATTTTTTGGGCTGCT
* *
2480 CTTTGGTTTTTTTTTGGGCTGCT
1 CTTTGATTATTTTTTGGGCTGCT
2503 CTTTG
1 CTTTG
2508 CTACTGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.04, C:0.14, G:0.22, T:0.60
Consensus pattern (23 bp):
CTTTGATTATTTTTTGGGCTGCT
Found at i:2603 original size:7 final size:7
Alignment explanation
Indices: 2591--2645 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
2581 TTTAAAAAAA
2591 TTTCTTT
1 TTTCTTT
2598 TTTCTTT
1 TTTCTTT
*
2605 TTTCCTT
1 TTTCTTT
*
2612 CTTCTTT
1 TTTCTTT
*
2619 TTTCTCT
1 TTTCTTT
*
2626 CTT-TTT
1 TTTCTTT
*
2632 CTTCTTT
1 TTTCTTT
2639 TTTCTTT
1 TTTCTTT
2646 CTTTTTTTCC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTCTTT
Found at i:2628 original size:11 final size:10
Alignment explanation
Indices: 2592--2652 Score: 72
Period size: 10 Copynumber: 5.9 Consensus size: 10
2582 TTAAAAAAAT
2592 TTCTTTTTTC
1 TTCTTTTTTC
2602 TT-TTTTCCTTC
1 TTCTTTT--TTC
2613 TTCTTTTTTC
1 TTCTTTTTTC
2623 -TCTCTTTTTC
1 TTCT-TTTTTC
2633 TTCTTTTTTC
1 TTCTTTTTTC
2643 TTTCTTTTTT
1 -TTCTTTTTT
2653 TCCTTCTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.16
10 17 0.38
11 17 0.38
12 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:3299 original size:30 final size:29
Alignment explanation
Indices: 3229--3338 Score: 107
Period size: 30 Copynumber: 3.7 Consensus size: 29
3219 TATAGGGCCA
* *
3229 AAATGTAATTTCTAGAAAA-TTTAGGGGTCG
1 AAATGTAATTT-T-GAAAAGTTTAAGGGTTG
* * *
3259 AAGTGAAATTTTGAGAAAGTTTAAGAGTTG
1 AAATGTAATTTTGA-AAAGTTTAAGGGTTG
*
3289 AAATGTAATTTTGAAAAG-TTCAGGGTTTG
1 AAATGTAATTTTGAAAAGTTTAAGGG-TTG
*
3318 AAATGTAATTTAGAAAAGTTT
1 AAATGTAATTTTGAAAAGTTT
3339 TGGGGCCAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
28 7 0.11
29 28 0.42
30 31 0.47
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTTGAAAAGTTTAAGGGTTG
Found at i:3318 original size:29 final size:28
Alignment explanation
Indices: 3229--3337 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 28
3219 TATAGGGCCA
* * *
3229 AAATGTAATTTCTAGAAAATTTAGGGGTCG
1 AAATGTAATTT-T-GAAAAGTTAAGGGTTG
* * *
3259 AAGTGAAATTTTGAGAAAGTTTAAGAGTTG
1 AAATGTAATTTTGA-AAAG-TTAAGGGTTG
*
3289 AAATGTAATTTTGAAAAGTTCAGGGTTTG
1 AAATGTAATTTTGAAAAGTTAAGGG-TTG
*
3318 AAATGTAATTTAGAAAAGTT
1 AAATGTAATTTTGAAAAGTT
3338 TTGGGGCCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
28 7 0.11
29 30 0.46
30 28 0.43
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (28 bp):
AAATGTAATTTTGAAAAGTTAAGGGTTG
Found at i:4163 original size:73 final size:73
Alignment explanation
Indices: 3677--5043 Score: 2334
Period size: 73 Copynumber: 18.5 Consensus size: 73
3667 GATCCAAAAT
* * ** *
3677 TCAACTCACTTCTC-AAATTATGAGTTGAGCTTTGAAAAATAGAAATTGAAGAATACCTC-GGCA
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTGAAAAACAGAAATTGAA-AATACCTCAGG--
**
3740 TATGACCTAAGGC
62 -ATGACCCGAGGC
* * * *
3753 TCAACTCACCTCTTGCAATATGAGTTGATTTTTGTGAAAACCAAAAATTGAAAAATACCTC-GAC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTT-TGAAAAACAGAAATTG-AAAATACCTCAG-G
*
3817 ATGACTCGAGGC
62 ATGACCCGAGGC
* *
3829 TCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAGCG-TG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG-GAT-
3893 CGACCCGAGGC
64 -GACCCGAGGC
*
3904 TCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCG-TG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG-GAT-
3968 CGACCCGAGGC
64 -GACCCGAGGC
*
3979 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAGCG-TG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG-GAT-
4043 CGACCCGAGGC
64 -GACCCGAGGC
4054 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4119 CCCGAGGC
66 CCCGAGGC
4127 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4192 CCCGAGGC
66 CCCGAGGC
4200 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4265 CCCGAGGC
66 CCCGAGGC
4273 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4338 CCCGAGGC
66 CCCGAGGC
4346 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4411 CCCGAGGC
66 CCCGAGGC
4419 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4484 CCCGAGGC
66 CCCGAGGC
4492 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4557 CCCGAGGC
66 CCCGAGGC
4565 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4630 CCCGAGGC
66 CCCGAGGC
4638 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4703 CCCGAGGC
66 CCCGAGGC
4711 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4776 CCCGAGGC
66 CCCGAGGC
4784 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4849 CCCGAGGC
66 CCCGAGGC
* *
4857 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAATACCTCAGCG-TG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG-GAT-
4921 CGACCCGAGGC
64 -GACCCGAGGC
4932 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
4997 CCCGAGGC
66 CCCGAGGC
5005 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
5044 ACAAAGGAAA
Statistics
Matches: 1248, Mismatches: 30, Indels: 29
0.95 0.02 0.02
Matches are distributed among these distances:
73 859 0.69
74 17 0.01
75 287 0.23
76 57 0.05
77 4 0.00
78 22 0.02
79 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGA
CCCGAGGC
Found at i:5379 original size:1 final size:1
Alignment explanation
Indices: 5375--5464 Score: 72
Period size: 1 Copynumber: 90.0 Consensus size: 1
5365 ATTTTTCTTC
** ** * * * * *
5375 TTTTTTTTTTACTTTTTTGCTTTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
5440 GTTTTTTTATTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
5465 AGGCATAATA
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:5400 original size:18 final size:17
Alignment explanation
Indices: 5376--5463 Score: 90
Period size: 18 Copynumber: 4.9 Consensus size: 17
5366 TTTTTCTTCT
5376 TTTTTTTTTACTTTTTTG
1 TTTTTTTTT-CTTTTTTG
5394 CTTTTTTTTGT-TTTTTTG
1 -TTTTTTTT-TCTTTTTTG
*
5412 TTTTTTTTTTGTTTTTTG
1 -TTTTTTTTTCTTTTTTG
*
5430 TTTTTTTGTTGTTTTTT-
1 TTTTTTT-TTCTTTTTTG
5447 TATTTTTTTTCTTTTTT
1 T-TTTTTTTTCTTTTTT
5464 TAGGCATAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
17 17 0.27
18 37 0.59
19 8 0.13
20 1 0.02
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTTG
Found at i:5428 original size:37 final size:36
Alignment explanation
Indices: 5366--5464 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 36
5356 TTCATCTTGA
*
5366 TTTTTCTTCTTTTTTTTTTACTTTTTTGCTTTTTT-TTG
1 TTTTT-TTATTTTTTTTTT--TTTTTTGCTTTTTTGTTG
* *
5404 TTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTGTTG
1 TTTTTTTATTTTTTTTTT-TTTTTTGCTTTTTTGTTG
*
5441 TTTTTTTATTTTTTTTCTTTTTTT
1 TTTTTTTATTTTTTTTTTTTTTTT
5465 AGGCATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.35
37 31 0.56
38 5 0.09
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (36 bp):
TTTTTTTATTTTTTTTTTTTTTTTGCTTTTTTGTTG
Found at i:5437 original size:26 final size:28
Alignment explanation
Indices: 5397--5464 Score: 104
Period size: 26 Copynumber: 2.5 Consensus size: 28
5387 TTTTTTGCTT
5397 TTTTTTGTTTTTTTGTT-TTTTTTT-TG
1 TTTTTTGTTTTTTTGTTGTTTTTTTATG
*
5423 TTTTTTGTTTTTTTGTTGTTTTTTTATT
1 TTTTTTGTTTTTTTGTTGTTTTTTTATG
*
5451 TTTTTTCTTTTTTT
1 TTTTTTGTTTTTTT
5465 AGGCATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 17 0.45
27 7 0.18
28 14 0.37
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (28 bp):
TTTTTTGTTTTTTTGTTGTTTTTTTATG
Found at i:18184 original size:18 final size:17
Alignment explanation
Indices: 18117--18353 Score: 111
Period size: 18 Copynumber: 13.2 Consensus size: 17
18107 CAATTATTTT
*
18117 TTTTGAAAACACGAAAAA
1 TTTTAAAAACACG-AAAA
* *
18135 TTCTTAAGAACACGAGAA
1 TT-TTAAAAACACGAAAA
* *
18153 TTTTAGAGACACGAAAA
1 TTTTAAAAACACGAAAA
18170 TTCTTAAAAACACGAAAA
1 TT-TTAAAAACACGAAAA
* **
18188 TTTTGAAAACACAGAAGTTT
1 TTTTAAAAACAC-GAA--AA
* **
18208 TGTTTTAAAACACGGGAA
1 T-TTTAAAAACACGAAAA
*
18226 TTTCTGAAAACACGAAAA
1 TTT-TAAAAACACGAAAA
*
18244 TTTTTTAAATAC-CG-AAA
1 --TTTTAAAAACACGAAAA
* * *
18261 TTTTGAAAACACGAGGAT
1 TTTTAAAAACACGA-AAA
* *
18279 TTTTGAAAACACGAAGAT
1 TTTTAAAAACACGAA-AA
*
18297 TTTTAAAAACACGGAAAT
1 TTTTAAAAACAC-GAAAA
*
18315 TTTTGAAAATACA-AAAAA
1 TTTT-AAAA-ACACGAAAA
** *
18333 TTTTTGAAACATGAAAA
1 TTTTAAAAACACGAAAA
18350 TTTT
1 TTTT
18354 TCTGAAAACT
Statistics
Matches: 169, Mismatches: 33, Indels: 35
0.71 0.14 0.15
Matches are distributed among these distances:
15 8 0.05
16 5 0.03
17 37 0.22
18 80 0.47
19 21 0.12
20 8 0.05
21 10 0.06
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.29
Consensus pattern (17 bp):
TTTTAAAAACACGAAAA
Found at i:18555 original size:20 final size:20
Alignment explanation
Indices: 18518--18554 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
18508 CGTGATCCTA
18518 TTAAAACACGAGAATTTTCT
1 TTAAAACACGAGAATTTTCT
*
18538 TTAAAA-ACGAGGATTTT
1 TTAAAACACGAGAATTTT
18555 TGAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTCT
Found at i:18860 original size:16 final size:15
Alignment explanation
Indices: 18846--18874 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18836 GCCTTTTTCC
18846 CTTTTTCT-TTTTTT
1 CTTTTTCTCTTTTTT
18860 CTTTTTCTCTTTTTT
1 CTTTTTCTCTTTTTT
18875 GGCCTGCTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTCTCTTTTTT
Found at i:19063 original size:22 final size:23
Alignment explanation
Indices: 19029--19078 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
19019 TTTTTTTCTG
*
19029 CTTTGATTATTTTT-TGGCTGCT
1 CTTTGATTATTTTTGGGGCTGCT
* * *
19051 CTTTGGTTTTTTTTGGGGCTTCT
1 CTTTGATTATTTTTGGGGCTGCT
19074 CTTTG
1 CTTTG
19079 CTACTGTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.04, C:0.14, G:0.22, T:0.60
Consensus pattern (23 bp):
CTTTGATTATTTTTGGGGCTGCT
Found at i:19190 original size:11 final size:11
Alignment explanation
Indices: 19163--19235 Score: 71
Period size: 12 Copynumber: 6.5 Consensus size: 11
19153 TTAAAAAAAA
19163 TTCTTTT-TTC
1 TTCTTTTCTTC
*
19173 TTTTTTTCTTC
1 TTCTTTTCTTC
19184 TTCTTTT-TTC
1 TTCTTTTCTTC
19194 TCTCTTTTTCTTC
1 T-TC-TTTTCTTC
19207 TT-TTTTCTTTC
1 TTCTTTTC-TTC
*
19218 TTTTTTTCCTTC
1 TTCTTTT-CTTC
19230 TTCTTT
1 TTCTTT
19236 GGGTCTCCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
10 15 0.28
11 16 0.30
12 17 0.32
13 5 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:19194 original size:10 final size:10
Alignment explanation
Indices: 19163--19223 Score: 79
Period size: 10 Copynumber: 5.9 Consensus size: 10
19153 TTAAAAAAAA
19163 TTCTTTTTTC
1 TTCTTTTTTC
*
19173 TTTTTTTCTTC
1 TTCTTTT-TTC
19184 TTCTTTTTTC
1 TTCTTTTTTC
19194 -TCTCTTTTTC
1 TTCT-TTTTTC
19204 TTCTTTTTTC
1 TTCTTTTTTC
19214 TTTCTTTTTT
1 -TTCTTTTTT
19224 TCCTTCTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
9 3 0.07
10 21 0.47
11 21 0.47
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:19201 original size:23 final size:22
Alignment explanation
Indices: 19163--19235 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 22
19153 TTAAAAAAAA
19163 TTCTTTTTTCT-TTTTTTCTTC
1 TTCTTTTTTCTCTTTTTTCTTC
19184 TTCTTTTTTCTCTCTTTTTCTTC
1 TTCTTTTTTCTCT-TTTTTCTTC
*
19207 TTTTTTCTTTCT-TTTTTTCCTTC
1 TTCTTT-TTTCTCTTTTTT-CTTC
19230 TTCTTT
1 TTCTTT
19236 GGGTCTCCCC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.24
22 6 0.13
23 24 0.52
24 5 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTTTTTCTCTTTTTTCTTC
Found at i:19204 original size:20 final size:20
Alignment explanation
Indices: 19163--19235 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
19153 TTAAAAAAAA
*
19163 TTCTTTTTTCTTTTTTTCTTC
1 TTCTTTTTTCTTTCTTT-TTC
*
19184 TTCTTTTTTCTCTCTTTTTC
1 TTCTTTTTTCTTTCTTTTTC
19204 TTCTTTTTTCTTTCTTTTT-
1 TTCTTTTTTCTTTCTTTTTC
* *
19223 TTCCTTCTTCTTT
1 TTCTTTTTTCTTT
19236 GGGTCTCCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.23
20 21 0.45
21 15 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTTCTTTCTTTTTC
Found at i:19819 original size:29 final size:29
Alignment explanation
Indices: 19786--19841 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19776 ATTTGGGGTA
19786 AAAATATAATTT-TAGGAAAATATAGGGCC
1 AAAATATAATTTCTA-GAAAATATAGGGCC
* *
19815 AAAATGTAATTTCTAGAAAATTTAGGG
1 AAAATATAATTTCTAGAAAATATAGGG
19842 GTCGAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.30
Consensus pattern (29 bp):
AAAATATAATTTCTAGAAAATATAGGGCC
Found at i:19871 original size:59 final size:58
Alignment explanation
Indices: 19808--19944 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 58
19798 TAGGAAAATA
* * *
19808 TAGGGCCAAAATGTAATTTCTAGAAAA-TTTAGGGGTCGAAGTGAAATTTTGAGAAAG-TT
1 TAGGGCCAAAATGTAATTT-T-GAAAAGTTTAAGGGTCGAAATGAAATTTAGA-AAAGTTT
*** * *
19867 TAGGGGTTGAAATGTAATTTTGAAAAGTTTAAGGGTTGAAATGTAATTTAGAAAAGTTT
1 TA-GGGCCAAAATGTAATTTTGAAAAGTTTAAGGGTCGAAATGAAATTTAGAAAAGTTT
*
19926 TGGGGCCAAAATGTAATTT
1 TAGGGCCAAAATGTAATTT
19945 ATATTTTTTG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
58 23 0.37
59 26 0.41
60 14 0.22
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
TAGGGCCAAAATGTAATTTTGAAAAGTTTAAGGGTCGAAATGAAATTTAGAAAAGTTT
Found at i:19903 original size:29 final size:29
Alignment explanation
Indices: 19816--19944 Score: 143
Period size: 29 Copynumber: 4.4 Consensus size: 29
19806 TATAGGGCCA
*
19816 AAATGTAATTTCTAGAAAA-TTTAGGGGTCG
1 AAATGTAATTT-T-GAAAAGTTTAGGGGTTG
* *
19846 AAGTGAAATTTTGAGAAAGTTTAGGGGTTG
1 AAATGTAATTTTGA-AAAGTTTAGGGGTTG
*
19876 AAATGTAATTTTGAAAAGTTTAAGGGTTG
1 AAATGTAATTTTGAAAAGTTTAGGGGTTG
* * ***
19905 AAATGTAATTTAGAAAAGTTTTGGGGCCA
1 AAATGTAATTTTGAAAAGTTTAGGGGTTG
19934 AAATGTAATTT
1 AAATGTAATTT
19945 ATATTTTTTG
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 52 0.61
30 31 0.36
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTTGAAAAGTTTAGGGGTTG
Found at i:19924 original size:58 final size:60
Alignment explanation
Indices: 19810--19944 Score: 159
Period size: 58 Copynumber: 2.3 Consensus size: 60
19800 GGAAAATATA
* * *
19810 GGGCCAAAATGTAATTTCTAGAAAATTTAGGGGTCGAAGTGAAATTTTGAGAAAGTTTAG
1 GGGCCAAAATGTAATTTCTAGAAAATTTAAGGGTCGAAATGAAATTTAGAGAAAGTTTAG
*** * * *
19870 GGGTTGAAATGTAATTT-T-GAAAAGTTTAAGGGTTGAAATGTAATTTAGA-AAAGTTTTG
1 GGGCCAAAATGTAATTTCTAGAAAA-TTTAAGGGTCGAAATGAAATTTAGAGAAAGTTTAG
19928 GGGCCAAAATGTAATTT
1 GGGCCAAAATGTAATTT
19945 ATATTTTTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
58 27 0.44
59 21 0.34
60 14 0.23
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.33
Consensus pattern (60 bp):
GGGCCAAAATGTAATTTCTAGAAAATTTAAGGGTCGAAATGAAATTTAGAGAAAGTTTAG
Found at i:24444 original size:89 final size:89
Alignment explanation
Indices: 24293--24729 Score: 554
Period size: 89 Copynumber: 4.9 Consensus size: 89
24283 TGGATTAAAG
* * * * *
24293 AAGATAGCAGATCTTGTCTTTCTGAACCGGCAGCAAAGCAGATCGAAGACACCAGCGTCGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
*
24358 CTGAGTTTGCAGCAGAGCAGACTA
66 CTGAGTTTGCAGTAGAGCAGACTA
* * * *
24382 AAGATACCAGATCTTGTCCTCCTGTACTGGCAGCGAAACAGATCGAAGACACCAGCATCGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
* * *
24447 CTGAGTTTGCAGTGGAACAGACTG
66 CTGAGTTTGCAGTAGAGCAGACTA
* * * * *
24471 AAGATAGCAGATCTTATCTTCTTGTACTGGTAGCGAAGTAGATCGAAGACACCAGCCTCGCCTCT
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
* * *
24536 CTAAGTTTAG-ATTAGAGCAGACTG
66 CTGAGTTT-GCAGTAGAGCAGACTA
* * ** *
24560 AATATAGCAGATCTTGTCTTCTTGTGTTGGCAGCGAAGCAGATCGAAGACACCAGCTTCGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
* *
24625 CTGAGTTTGCAATGGAGCAGACTA
66 CTGAGTTTGCAGTAGAGCAGACTA
* * * * *
24649 AAAATAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTGCCT-C
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
24713 CTGAGTTTGCAGTAGAG
66 CTGAGTTTGCAGTAGAG
24730 TAGGTTAAAG
Statistics
Matches: 298, Mismatches: 48, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
88 17 0.06
89 280 0.94
90 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (89 bp):
AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCC
CTGAGTTTGCAGTAGAGCAGACTA
Found at i:24474 original size:44 final size:44
Alignment explanation
Indices: 24337--24474 Score: 122
Period size: 44 Copynumber: 3.1 Consensus size: 44
24327 AAAGCAGATC
* * *
24337 GAAGACACCAGCGTCGCCTCCCTGAGTTTGCAGCAGAGCAGACT
1 GAAGACACCAGCATCGCCTCCCTGAGTTTGCAGCGGAACAGACT
* * * * *
24381 AAAGATACCAG-ATCTTGTCCT-CCTGTA-CTGGCAGCGAAACAGA-T
1 GAAGACACCAGCATC--G-CCTCCCTG-AGTTTGCAGCGGAACAGACT
*
24425 CGAAGACACCAGCATCGCCTCCCTGAGTTTGCAGTGGAACAGACT
1 -GAAGACACCAGCATCGCCTCCCTGAGTTTGCAGCGGAACAGACT
24470 GAAGA
1 GAAGA
24475 TAGCAGATCT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
43 6 0.08
44 32 0.45
45 26 0.37
46 7 0.10
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (44 bp):
GAAGACACCAGCATCGCCTCCCTGAGTTTGCAGCGGAACAGACT
Found at i:24877 original size:132 final size:132
Alignment explanation
Indices: 24721--25012 Score: 476
Period size: 132 Copynumber: 2.2 Consensus size: 132
24711 TCCTGAGTTT
* *
24721 GCAGTAGAGTAGGTTAAAGATTGTAGATCCTGTCACCCTAAGCAGTAGTAAAGCAGATCGAAGAC
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCACCCTAAGCAGTAGTAAAGCAGATCAAAGAC
24786 GGCGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAGCCACTAATCCTATCTCCCCGAG
66 GGCGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAGCCACTAATCCTATCTCCCCGAG
24851 CA
131 CA
* **
24853 GCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCACCCTAAGCAGTAGTAAAGCAGATCAAAGAC
** * * * *
24918 GGCGAATCTTATCTTTTCAAGGTAGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAG
66 GGCGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAGCCACTAATCCTATCTCCCCGAG
24983 CA
131 CA
*
24985 GCAGTGGAGTAGGTTGAAGATTGTAGAT
1 GCAGTGGAGTAGGTTAAAGATTGTAGAT
25013 TTTATCTTCC
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
132 148 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCACCCTAAGCAGTAGTAAAGCAGATCAAAGAC
GGCGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAGCCACTAATCCTATCTCCCCGAG
CA
Found at i:26941 original size:3 final size:3
Alignment explanation
Indices: 26933--27029 Score: 81
Period size: 3 Copynumber: 30.3 Consensus size: 3
26923 CCCGTTCTTG
* * *
26933 TTA TTA TTA TTA TTA GTA -AA CTAA TTA GTT- TTA TTA TTA TTA TTGCA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TT--A
26980 TTTA TTA TTA TTA CTTA CCTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 -TTA TTA TTA TTA -TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27029 T
1 T
27030 ATTTTCACTT
Statistics
Matches: 82, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
2 3 0.04
3 64 0.78
4 8 0.10
5 5 0.06
6 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:32234 original size:20 final size:20
Alignment explanation
Indices: 32211--32253 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32201 CTAAGATCGT
*
32211 AAATTGGGACCAACAACCAA
1 AAATTGAGACCAACAACCAA
* *
32231 AAATTGAGACCAAGACCCAA
1 AAATTGAGACCAACAACCAA
32251 AAA
1 AAA
32254 GCTGGTCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.09
Consensus pattern (20 bp):
AAATTGAGACCAACAACCAA
Found at i:34240 original size:119 final size:120
Alignment explanation
Indices: 34099--34339 Score: 475
Period size: 119 Copynumber: 2.0 Consensus size: 120
34089 AATACAAATT
34099 ATTTTATAAAAACAACTAAATTTAATTATTATATTATAAATTATATTAAAAGAAAAATTTTACAA
1 ATTTTATAAAAACAACTAAATTTAATTATTATATTATAAATTATATTAAAAGAAAAATTTTACAA
34164 ACAAAATATTATTTCTTGCATAAATAAAATTTAAACTATAAATTTCAAAATAAAA
66 ACAAAATATTATTTCTTGCATAAATAAAATTTAAACTATAAATTTCAAAATAAAA
34219 ATTTTAT-AAAACAACTAAATTTAATTATTATATTATAAATTATATTAAAAGAAAAATTTTACAA
1 ATTTTATAAAAACAACTAAATTTAATTATTATATTATAAATTATATTAAAAGAAAAATTTTACAA
34283 ACAAAATATTATTTCTTGCATAAATAAAATTTAAACTATAAATTTCAAAATAAAA
66 ACAAAATATTATTTCTTGCATAAATAAAATTTAAACTATAAATTTCAAAATAAAA
34338 AT
1 AT
34340 CCTTACTTCT
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 114 0.94
120 7 0.06
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (120 bp):
ATTTTATAAAAACAACTAAATTTAATTATTATATTATAAATTATATTAAAAGAAAAATTTTACAA
ACAAAATATTATTTCTTGCATAAATAAAATTTAAACTATAAATTTCAAAATAAAA
Found at i:38515 original size:11 final size:11
Alignment explanation
Indices: 38499--38524 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38489 ATTATCCTAA
38499 TTTTAAATTAT
1 TTTTAAATTAT
38510 TTTTAAATTAT
1 TTTTAAATTAT
38521 TTTT
1 TTTT
38525 CAATCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAAATTAT
Found at i:40745 original size:22 final size:22
Alignment explanation
Indices: 40720--40766 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
40710 ATGAGACAAA
40720 GAAAAAACTT-AAGTACTAAATT
1 GAAAAAA-TTCAAGTACTAAATT
40742 GAAAAAATTCAAGTACTAAATT
1 GAAAAAATTCAAGTACTAAATT
40764 GAA
1 GAA
40767 TATTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (22 bp):
GAAAAAATTCAAGTACTAAATT
Found at i:41851 original size:33 final size:32
Alignment explanation
Indices: 41787--41861 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
41777 GTTTTAAACA
*
41787 TAAATAATTAATATATTTTTTAATATTTATAT
1 TAAATAATTAATATATTTTTTAATATATATAT
* *
41819 TAAATTATTATATTTATTTTTTATATCATATATAT
1 TAAATAATTA-ATATATTTTTTA-AT-ATATATAT
*
41854 TACATAAT
1 TAAATAAT
41862 ATATATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 9 0.26
33 11 0.31
34 2 0.06
35 13 0.37
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (32 bp):
TAAATAATTAATATATTTTTTAATATATATAT
Found at i:47034 original size:36 final size:36
Alignment explanation
Indices: 46976--47048 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
46966 AACACGTATA
46976 AAATAGTTGAAATATATAATAAGACCAAGATTTAAAT
1 AAATAGTTG-AATATATAATAAGACCAAGATTTAAAT
47013 NAAATAGTTG-ATATATAATAAGACCAAGATTTAAAT
1 -AAATAGTTGAATATATAATAAGACCAAGATTTAAAT
47049 TATGATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
38 9 0.26
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.30
Consensus pattern (36 bp):
AAATAGTTGAATATATAATAAGACCAAGATTTAAAT
Found at i:50391 original size:23 final size:23
Alignment explanation
Indices: 50348--50391 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50338 CCTAAATTAT
* *
50348 ACATATTTTACAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
50371 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
50392 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:50495 original size:21 final size:21
Alignment explanation
Indices: 50456--50502 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50446 ATCCCTAAGT
* *
50456 CTTAACCACTAACATCTAACC
1 CTTAACCACTAACACCTAAAC
* *
50477 CTTAACCCCTAACCCCTAAAC
1 CTTAACCACTAACACCTAAAC
50498 CTTAA
1 CTTAA
50503 ATCTCGACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.23
Consensus pattern (21 bp):
CTTAACCACTAACACCTAAAC
Found at i:51471 original size:114 final size:114
Alignment explanation
Indices: 51159--51548 Score: 615
Period size: 114 Copynumber: 3.4 Consensus size: 114
51149 GTTTTTCCAG
* *
51159 AAAACGCCACTAGGGCCACCGAAGGCCACTAAACGACG-CTGTTGTATTTTATTTTTCGCGGCGT
1 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGAC-GTTGTATTTTATTTTTTGCGGCGT
* * * *
51223 TTATCCTGAAAACG-CACTAAAAACACAGACAATTAGCGGCGCCAGACCA
65 TTTTCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCA
* * *
51272 AAAATGCCACTAACGCCACCGTA-GCCACTAAACGACGACGTTGTATTTTATTTTTTGCGGCGTT
1 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGACGTTGTATTTTATTTTTTGCGGCGTT
* *
51336 ATTCCTAAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCA
66 TTTCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCA
*
51385 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGACGTTGTATTTTATTTTTTGCAGCGTT
1 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGACGTTGTATTTTATTTTTTGCGGCGTT
* *
51450 TTTTCTGAAAACGCCGCTAAAAATACAGACCATTAGCGGCGCTAGACCA
66 TTTCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCA
*
51499 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
1 AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGACGTTGTATTTT
51549 GCTAAAAACA
Statistics
Matches: 254, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
112 48 0.19
113 72 0.28
114 134 0.53
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (114 bp):
AAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGACGTTGTATTTTATTTTTTGCGGCGTT
TTTCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCA
Found at i:51606 original size:84 final size:84
Alignment explanation
Indices: 51465--51632 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
51455 TGAAAACGCC
*
51465 GCTAAAAATACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
51530 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
* *
51549 GCTAAAAACACAGACCATTAGCGGCGTTAGACCAAAAACGCCACTAAGGGCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
51614 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
51633 ATTTTTTGCG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.17
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:51806 original size:84 final size:84
Alignment explanation
Indices: 51665--51830 Score: 289
Period size: 84 Copynumber: 2.0 Consensus size: 84
51655 AAAACGCCGT
* *
51665 TAAAAACACAGACCATTAGTGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAA
1 TAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTAAA
51730 CGAA-GCCGTTGTATTTTGC
66 C-AATGCCGTTGTATTTTGC
*
51749 TAAAAACATAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTAAA
1 TAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTAAA
51814 CAATGCCGTTGTATTTT
66 CAATGCCGTTGTATTTT
51831 ATTTTTTGCG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
83 2 0.03
84 76 0.97
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (84 bp):
TAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTAAA
CAATGCCGTTGTATTTTGC
Found at i:51974 original size:197 final size:198
Alignment explanation
Indices: 51351--52027 Score: 1113
Period size: 198 Copynumber: 3.4 Consensus size: 198
51341 TAAAAACGCC
51351 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* * * *
51416 AACGACGACGTTGTATTTTATTTTTTGCAGCGTTTTTTCTGAAAACGCCGCTAAAAATACAGACC
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTATGAAAACGCCGCTAAAAACACAGACC
*
51481 ATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTAT
131 ATTAGCGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTAT
51546 TTT
196 TTT
* *
51549 GCTAAAAACACAGACCATTAGCGGCGTTAGACCAAAAACGCCACTAAGGGCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
51614 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTATGAAAACGCCGTTAAAAACACAGACC
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTATGAAAACGCCGCTAAAAACACAGACC
* *
51679 ATTAGTGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAACGAAGCCGTTGTAT
131 ATTAGCGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTAT
51744 TTT
196 TTT
*
51747 GCTAAAAACATAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* * * * * *
51812 AACAATGCCGTTGTATTTTATTTTTTGCGGCGTTTTTT-TAAAAATGCTGCTAAAAACACATACC
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTATGAAAACGCCGCTAAAAACACAGACC
* * * * *
51876 ATTAGCGGCGCTCGACCAAATATGCCCCTAAGGCTACTGAAGGCCACTAAACGACGCCGTTGTAT
131 ATTAGCGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTAT
51941 TTT
196 TTT
* * * *
51944 GCTAAAAACACAGACCATTAGCGACGCTAGACTAAAAATGCCACTAAGGCCACCGGAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
52009 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
52028 GCTAAAAACA
Statistics
Matches: 445, Mismatches: 34, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
197 159 0.36
198 286 0.64
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (198 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTATGAAAACGCCGCTAAAAACACAGACC
ATTAGCGGCGCTAGACCAAAAATGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTAT
TTT
Found at i:52004 original size:84 final size:84
Alignment explanation
Indices: 51859--52363 Score: 794
Period size: 84 Copynumber: 6.0 Consensus size: 84
51849 TTAAAAATGC
* * * * * * **
51859 TGCTAAAAACACATACCATTAGCGGCGCTCGACCAAATATGCCCCTAAGGCTACTGAAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
51924 AAACGACGCCGTTGTATTT
66 AAACGACGCCGTTGTATTT
* * * **
51943 TGCTAAAAACACAGACCATTAGCGACGCTAGACTAAAAATGCCACTAAGGCCACCGGAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
52008 AAACGACGCCGTTGTATTT
66 AAACGACGCCGTTGTATTT
* *
52027 TGCTAAAAACACAGACCATTAGCCGCGCTAGACAAAAAACGCCACTAAGGCCACCAAAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
52092 AAACGACGCCGTTGTATTT
66 AAACGACGCCGTTGTATTT
*
52111 TGCTAAAAACACAGACCATTAGCGGTGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
52176 AAACGACGCCGTTGTATTT
66 AAACGACGCCGTTGTATTT
* * *
52195 TGCTAAAAACATAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
*
52260 AAACGACGCCATTGTATTT
66 AAACGACGCCGTTGTATTT
* *
52279 TGCTAAAAACGCAGACCATTAGCGGCGCTAGACCAAAAACGCCAGTAAGGCCACCAAAGGCCACT
1 TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
* *
52344 AAACGATGCCGTTGTGTTT
66 AAACGACGCCGTTGTATTT
52363 T
1 T
52364 ATTTTTTGCG
Statistics
Matches: 390, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 390 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.18
Consensus pattern (84 bp):
TGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCAAAGGCCACT
AAACGACGCCGTTGTATTT
Found at i:56627 original size:25 final size:25
Alignment explanation
Indices: 56593--56646 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
56583 CTTGCTTGAC
56593 TACAACTTGATCTGTAATACGTTGG
1 TACAACTTGATCTGTAATACGTTGG
56618 TACAACTTGATCTGTAATACGTTGG
1 TACAACTTGATCTGTAATACGTTGG
56643 TACA
1 TACA
56647 TTCCTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
TACAACTTGATCTGTAATACGTTGG
Found at i:61118 original size:11 final size:11
Alignment explanation
Indices: 61102--61135 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
61092 AAACCCTAGT
61102 TTTTTCTTTTC
1 TTTTTCTTTTC
61113 TTTTTCTTTTC
1 TTTTTCTTTTC
*
61124 TTCTTTCCTTTC
1 TT-TTTCTTTTC
61136 CCCTATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:65052 original size:44 final size:44
Alignment explanation
Indices: 64962--65070 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
64952 GATTGTAAGC
* * * * *
64962 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGGATCAAAATGACAAAT
* *
65006 CTTATCTCCCTAAGCATTAGTGGAGCA-GATCAAAGATGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGGATCAAA-ATGACAAAT
* *
65050 CTTATCTACCCCAAGTAGTAG
1 CTTATCT-CCCTAAGCAGTAG
65071 GGAAGTAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.09
44 38 0.72
45 10 0.19
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGGATCAAAATGACAAAT
Found at i:65397 original size:44 final size:44
Alignment explanation
Indices: 65093--65398 Score: 427
Period size: 44 Copynumber: 7.0 Consensus size: 44
65083 AAGCCACTAT
* * *
65093 TCCTATCTCCCTGGACGGCAGTGGAATAGGTTGAAGATTGCAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAG
*
65137 TCCTATCTCCCT-AACCAGCAGTGGAATAGGTTGAAGATTGCAAG
1 TCCTATCTCCCTGAA-CAGCAGTGGAATAGGTTGAAGATTGTAAG
*
65181 TCCTATCTCCCT-AACCAGCAGTGGAATAGGTTGAAGATTGCAAG
1 TCCTATCTCCCTGAA-CAGCAGTGGAATAGGTTGAAGATTGTAAG
* *
65225 TCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAG
* * * *
65269 TCCTAGCTCCCTAAACAGTAGTGGAATAGGTGGAAGATTGTAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAG
* * *
65313 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTATG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAG
* * *
65357 TCCTATCTCTCTGAACAGCAGTGTAATAGATTGAAGATTGTA
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTA
65399 GATCTTGTCT
Statistics
Matches: 243, Mismatches: 17, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 1 0.00
44 241 0.99
45 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAG
Found at i:66554 original size:3 final size:3
Alignment explanation
Indices: 66546--66603 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
66536 TCTAATCACT
* *
66546 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA CTA TTTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
66591 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
66604 ATTTGATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66585 original size:24 final size:24
Alignment explanation
Indices: 66546--66613 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
66536 TCTAATCACT
66546 TTATTATTAT-TATTATTATTATTA
1 TTATTATTATAT-TTATTATTATTA
*
66570 TTATT-TTACTATTTATTATTGTTA
1 TTATTATTA-TATTTATTATTATTA
66594 TTATTATTATATTTGATTAT
1 TTATTATTATATTT-ATTAT
66614 ATTTACCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 3 0.08
24 27 0.69
25 9 0.23
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (24 bp):
TTATTATTATATTTATTATTATTA
Found at i:68549 original size:13 final size:14
Alignment explanation
Indices: 68531--68563 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
68521 TAAAATTAAT
*
68531 ATTAACTAA-CTTA
1 ATTAACTAAGCCTA
68544 ATTAACTAAGCCTA
1 ATTAACTAAGCCTA
68558 ATTAAC
1 ATTAAC
68564 ACTAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (14 bp):
ATTAACTAAGCCTA
Found at i:76797 original size:218 final size:219
Alignment explanation
Indices: 76402--76844 Score: 608
Period size: 218 Copynumber: 2.0 Consensus size: 219
76392 TTTAAATGAT
*
76402 TTTTAAATAAAAACTAATCTAAAAAATCAAATATGAGTGGACCAGGTTGGGCCCGGATTTACCTT
1 TTTTAAATAAAAACTAATCTAAAAAATCAAATATGAGTGGACCAGGTTGGGCCCGAATTTACCTT
* * * ***
76467 TCTTAAATAGGATCGAACGTAAACAAAAAATTAAACCCATTTCTAGGATCGGGTAGAACTCAAAC
66 TCTTAAATAGGACCAAACGTAAACAAAAAATTAAACCCATTTCTAGAATCAAATAGAACTCAAAC
* *
76532 TTAAAAAGTTAATCTAAATACCTTGCATGAATCAAACTCGGCCCATAATCACCTCTAGTTACCTT
131 TTAAAAAATTAATCTAAATACCTTGCATGAATCAAACTCGGCCCATAATCACCTCTACTTACCTT
* *
76597 TATTATACATGCTAAGCTACTTTC
196 CATTATACATGCTAAGCTACCTTC
* *
76621 TTTTAAATAAAAA-TGAATCTAAAAAATTAAATATG-GATGGACCGGGTTGGG-CCGAATTTACC
1 TTTTAAATAAAAACT-AATCTAAAAAATCAAATATGAG-TGGACCAGGTTGGGCCCGAATTTACC
* * * * * *
76683 TTTCTTAAATTGGACCAAACGTAAACGAAAAATTAAATCCATTTTTCA-AATCAAATCGGACTCA
64 TTTCTTAAATAGGACCAAACGTAAACAAAAAATTAAACCCATTTCT-AGAATCAAATAGAACTCA
* * * *
76747 AACTTAAAAAATTAATCTAAATACCTTGCATGGATCAAGCGT-GTCCCATAATCAGCTCTACTTA
128 AACTTAAAAAATTAATCTAAATACCTTGCATGAATCAAAC-TCGGCCCATAATCACCTCTACTTA
76811 CCTTCATTATACATGCTAAGCTACCTTC
192 CCTTCATTATACATGCTAAGCTACCTTC
76839 TTTTAA
1 TTTTAA
76845 TCGTAGCATG
Statistics
Matches: 197, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
218 150 0.76
219 47 0.24
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (219 bp):
TTTTAAATAAAAACTAATCTAAAAAATCAAATATGAGTGGACCAGGTTGGGCCCGAATTTACCTT
TCTTAAATAGGACCAAACGTAAACAAAAAATTAAACCCATTTCTAGAATCAAATAGAACTCAAAC
TTAAAAAATTAATCTAAATACCTTGCATGAATCAAACTCGGCCCATAATCACCTCTACTTACCTT
CATTATACATGCTAAGCTACCTTC
Found at i:92006 original size:35 final size:35
Alignment explanation
Indices: 91929--91995 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
91919 CAAGAAAACA
*
91929 CATTTACTACATATAGTGATACGTACGATATAACG
1 CATTTACTACATATAGTGATACATACGATATAACG
*
91964 CATTTACTATATATAGTGATACATACGATATA
1 CATTTACTACATATAGTGATACATACGATATA
91996 TTTCTCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (35 bp):
CATTTACTACATATAGTGATACATACGATATAACG
Found at i:98349 original size:2 final size:2
Alignment explanation
Indices: 98342--98375 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
98332 AATAAAGTGT
98342 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
98376 GTATATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:100972 original size:9 final size:9
Alignment explanation
Indices: 100958--100983 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
100948 ATAGTGATTA
100958 ACTTTTACT
1 ACTTTTACT
100967 ACTTTTACT
1 ACTTTTACT
100976 ACTTTTAC
1 ACTTTTAC
100984 AATTTAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (9 bp):
ACTTTTACT
Found at i:103098 original size:8 final size:8
Alignment explanation
Indices: 103085--103109 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
103075 TATTAAAAAT
103085 TATTTTAA
1 TATTTTAA
103093 TATTTTAA
1 TATTTTAA
103101 TATTTTAA
1 TATTTTAA
103109 T
1 T
103110 TTAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:105445 original size:23 final size:22
Alignment explanation
Indices: 105402--105459 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
105392 AAAAGGTATC
* *
105402 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
105423 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
105446 TACATATCATATCT
1 TACAAATCATATCT
105460 AAGATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:105462 original size:19 final size:20
Alignment explanation
Indices: 105415--105472 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 20
105405 AAATTAAATC
*
105415 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
105438 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
105457 TCTAAGATTACATATC
1 TCTAAGATTACATATC
105473 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
22 7 0.21
23 11 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:105886 original size:45 final size:44
Alignment explanation
Indices: 105778--105894 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 44
105768 ATCACTCTAA
* * * *
105778 TCTACTCCACTACAACTT-AGGGAGATAGGATTTGTTTATTTAG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTTTATTGAG
* * * * *
105821 TCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTTCTTGAG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGA-TTTCTTTATTGAG
105866 TCTACTCCACTGCAACTTCAGGGAGATAA
1 TCTACTCCACTGCAACTTCAGGGAGATAA
105895 AACTAGATGC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 14 0.24
44 10 0.17
45 35 0.59
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTTTATTGAG
Found at i:105966 original size:44 final size:44
Alignment explanation
Indices: 105915--106242 Score: 241
Period size: 44 Copynumber: 7.5 Consensus size: 44
105905 AATATGCTTT
*
105915 CTGCAACTTCAGAGAGATAAGATATTTGGTTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATTTGGTTTTAATCTGCTCCA
* *
105959 CTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATAT-TTGGTTTTAATCTGCTCCA
* * * *
106003 CTGCAACTTCAGGGAGATAAG--ATTCGCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAGGGAGATAAGATATTTG--GT-TTTAATCTGCTC-CA
* * * *
106048 CTGCAACTTCA-GGAGGATAA-A-ACTTGATTACTTAGTTTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGATATTTGGTT--TTAATCTGCTCCA
* * * ** * **
106092 CTAG-AACTTCAGGGAGATAA-A-A-CTAGATGCAATATGCT-TT
1 CT-GCAACTTCAGGGAGATAAGATATTTGGTTTTAATCTGCTCCA
* * * * *
106132 CTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATTTGGTTTTAATCTGCTCCA
* *
106176 CTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATAT-TTGGTTTTAATCTGCTCCA
106220 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGGGAGATAAGAT
106243 TCGCCATTTT
Statistics
Matches: 223, Mismatches: 42, Indels: 38
0.74 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 17 0.08
41 7 0.03
42 3 0.01
43 15 0.07
44 146 0.65
45 34 0.15
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATATTTGGTTTTAATCTGCTCCA
Found at i:106102 original size:217 final size:217
Alignment explanation
Indices: 105775--106258 Score: 733
Period size: 217 Copynumber: 2.2 Consensus size: 217
105765 TCCATCACTC
* * * * ** *
105775 TAATCTACTCCACTACAACTT-AGGGAGATAGGATTTGTTTATTT-AGTCTGCCCCACTGCAATT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-CCATTTCAGTCTGCCCCACTGCAACT
* * ** *
105838 TCAGGGGGATAAGACTTTCTTTCTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAAACTAGAT
65 TCAGGAGGATAAAACTTGATTACTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAAACTAGAT
* * *
105903 GCAATATGCTTTCTGCAACTTCAGAGAGATAAGATATTTGGTTTTAATCTGCTCCACTGCAACTT
130 GCAATATGCTTTCTGCAACTTCAGAGAGATAAGATATATGATTTTAATCCGCTCCACTGCAACTT
105968 CAGGGAGATAGGATTATTGGCTT
195 CAGGGAGATAGGATTATTGGCTT
*
105991 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-TTCAGTCTGCCCCACTGCAACT
* *
106056 TCAGGAGGATAAAACTTGATTACTT-AGTTTGCTCCACTAG-AACTTCAGGGAGATAAAACTAGA
65 TCAGGAGGATAAAACTTGATTACTTGAGTCTACTCCACT-GCAACTTCAGGGAGATAAAACTAGA
*
106119 TGCAATATGCTTTCTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACT
129 TGCAATATGCTTTCTGCAACTTCAGAGAGATAAGATATATGATTTTAATCCGCTCCACTGCAACT
106184 TCAGGGAGATAGGATTATTGGCTT
194 TCAGGGAGATAGGATTATTGGCTT
106208 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTCAGTCT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA-TTTCAGTCT
106259 TTTAAATTGC
Statistics
Matches: 244, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
216 21 0.09
217 184 0.75
218 39 0.16
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (217 bp):
TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTCAGTCTGCCCCACTGCAACTT
CAGGAGGATAAAACTTGATTACTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAAACTAGATG
CAATATGCTTTCTGCAACTTCAGAGAGATAAGATATATGATTTTAATCCGCTCCACTGCAACTTC
AGGGAGATAGGATTATTGGCTT
Found at i:106398 original size:100 final size:100
Alignment explanation
Indices: 106258--106444 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
106248 ATTTTCAGTC
* *
106258 TTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTAAATTACAATGTTGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCG
* *
106323 CCAGGGAAGTAAGATTTACCGTTGCGGCTTCAATT
66 CCAGAGAAGTAAGATTCACCGTTGCGGCTTCAATT
* * *
106358 TTTTTAATTACAATGTTGGAGG-AACAAGATTCGTCATCGTAGCTTCAATCTGTTCCATTACACC
1 TTTTAAATTACAATGTTGG-GGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACC
106422 GCCAGAGAAGTAAGATTCACCGT
65 GCCAGAGAAGTAAGATTCACCGT
106445 CGTGGTTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 77 0.97
101 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (100 bp):
TTTTAAATTACAATGTTGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCG
CCAGAGAAGTAAGATTCACCGTTGCGGCTTCAATT
Found at i:106455 original size:50 final size:50
Alignment explanation
Indices: 106283--106457 Score: 136
Period size: 50 Copynumber: 3.5 Consensus size: 50
106273 TTGGGGAAAC
* * *
106283 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGT
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCATTACACCGCCAGAGAAGT
* * ** * * ** ** *** *
106333 AAGATTTACCGTTGCGGCTTCAATTTTTTTAATTACAATGTTGGAGGAA-C
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCATTACACCGCCAGA-GAAGT
** *
106383 AAGATTCGTCATCGTAGCTTCAATCTGTTCCATTACACCGCCAGAGAAGT
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCATTACACCGCCAGAGAAGT
* *
106433 AAGATTCACCGTCGTGGTTTCAATC
1 AAGATTCACCGTCGTAGCTTCAATC
106458 CGCTCCACTG
Statistics
Matches: 84, Mismatches: 39, Indels: 4
0.66 0.31 0.03
Matches are distributed among these distances:
49 3 0.04
50 78 0.93
51 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
AAGATTCACCGTCGTAGCTTCAATCTGTTCCATTACACCGCCAGAGAAGT
Found at i:106757 original size:44 final size:44
Alignment explanation
Indices: 106707--106828 Score: 169
Period size: 44 Copynumber: 2.8 Consensus size: 44
106697 ATCTGCTATT
*
106707 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTT-ACAATC
* *
106751 TTCAACCTATTCCACTGCTGAC-CAAGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGTTG-CTCAGGGAGATAGGACTTACAATC
106795 TTCAACCTATTCCACTGTTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGTTGCT-CAGGGAGATAGG
106829 GCTGGGGTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 66 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTTACAATC
Found at i:106890 original size:88 final size:88
Alignment explanation
Indices: 106828--107579 Score: 1128
Period size: 88 Copynumber: 8.5 Consensus size: 88
106818 AGGGAGATAG
* * * *
106828 GGCTGGGGTCATCGATCTACTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
106893 TCCGCTGCAACCCAGAGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
106916 GGCTGGTGTCTTCAATCTACTTCACTGTCGGTGCAGGAAGGCAAGATCTGGTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
106981 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
107004 GGCTGGTGTCTTCGATTTGCTTCGCTGTTGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
107069 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
107092 GGTTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATATGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
107157 TCCGCTACAACCCAGGGAGGGAA
66 TCCGCTACAACCCAGGGAGGCAA
* *
107180 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTG-TAATTTTTAACCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
* **
107244 CTCCACTACAACCTGGGGAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* *
107268 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAAATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
107333 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * **
107356 GGTTGGTGTCTTCGATCTGCTTCACTGTCGGTATAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
107421 TCCGGTGCAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* *
107444 GGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
107509 TCCGCTATAACCCAGGGAGGCAAA
66 TCCGCTACAACCCAGGGAGGC-AA
* * * *
107533 GGTTGGTGTCTTCGATCTGCTTCGCTGTCTGTGTAAGAAGGCAAGAT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAT
107580 ATGTTATCTT
Statistics
Matches: 602, Mismatches: 59, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 556 0.92
89 45 0.07
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:106916 original size:44 final size:43
Alignment explanation
Indices: 106866--107172 Score: 116
Period size: 44 Copynumber: 7.0 Consensus size: 43
106856 CGGTGTAGGA
*
106866 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGAG
1 AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCAACCCAG-G
* * * * * * * * ****
106910 AGGCAAG-GCTGGTGTCTTCAATCTACTTCACTGTCGGTGCAGG
1 AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTG-CAACCCAGG
*
106953 AAGGCAAGATCTGGTATTTTTAACCTGCTCCGCTACAACCCAGGG
1 -AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCAACCCA-GG
* * * ** ** * *****
106998 AGGCAAG-GCTGGTGTCTTCGATTTGCTTCGCTGTTGGTACAGG
1 AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTG-CAACCCAGG
* *
107041 AAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTACAACCCAGGG
1 -AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCAACCCA-GG
* * * ** ** * ****
107086 AGGCAAGGT-TGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGG
1 AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTG-CAACCCAGG
* * *
107129 AAGGCAAGATATGCTATTTTTAACCTGCTCCGCTACAACCCAGG
1 -AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCAACCCAGG
107173 GAGGGAAGGC
Statistics
Matches: 169, Mismatches: 83, Indels: 22
0.62 0.30 0.08
Matches are distributed among these distances:
43 54 0.32
44 63 0.37
45 52 0.31
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (43 bp):
AGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCAACCCAGG
Found at i:107442 original size:44 final size:44
Alignment explanation
Indices: 107301--107444 Score: 105
Period size: 44 Copynumber: 3.3 Consensus size: 44
107291 GCTATCGGTG
* *
107301 CAGGAAGGCAAAATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGGTGCAACC
* * * * * ** * * **
107345 CAGGGAGGCAAGGT-TGGTGTCTTCGATCTGCTTCACTGTCGGTA--
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGC-TC-CGGT-GCAACC
*
107389 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGGTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGGTGCAACC
*
107433 CAGGGAGGCAAG
1 CAGGAAGGCAAG
107445 GCTAGTGTCT
Statistics
Matches: 67, Mismatches: 27, Indels: 12
0.63 0.25 0.11
Matches are distributed among these distances:
42 2 0.03
43 14 0.21
44 36 0.54
45 13 0.19
46 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGGTGCAACC
Found at i:109623 original size:25 final size:26
Alignment explanation
Indices: 109572--109632 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
109562 AAGAAAATCC
* **
109572 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
109598 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
109623 AAAATGAATG
1 AAAA-GAATG
109633 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:113333 original size:13 final size:14
Alignment explanation
Indices: 113314--113351 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
113304 CAATTGCATA
113314 GAAATAATATAAAC
1 GAAATAATATAAAC
113328 -AAATAA-ATAAAC
1 GAAATAATATAAAC
113340 GAAATTAATATA
1 GAAA-TAATATA
113352 CAAAAAANNN
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:117612 original size:20 final size:20
Alignment explanation
Indices: 117584--117635 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
117574 AAATGTTTAA
*
117584 AAATATTTTAAAAATATTAT
1 AAATTTTTTAAAAATATTAT
** *
117604 AAATTTTTTTATTAATGTTAT
1 AAA-TTTTTTAAAAATATTAT
*
117625 AACTTTTTTAA
1 AAATTTTTTAA
117636 GTAGATAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AAATTTTTTAAAAATATTAT
Found at i:117613 original size:21 final size:21
Alignment explanation
Indices: 117589--117633 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
117579 TTTAAAAATA
117589 TTTTAAAAATATTATAAATTT
1 TTTTAAAAATATTATAAATTT
** * *
117610 TTTTATTAATGTTATAACTTT
1 TTTTAAAAATATTATAAATTT
117631 TTT
1 TTT
117634 AAGTAGATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAAAAATATTATAAATTT
Found at i:118853 original size:24 final size:24
Alignment explanation
Indices: 118794--118853 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 24
118784 TTACATACTC
*
118794 TTTAATTTCTCT-ATATACTTAAA
1 TTTAATTTCTTTAATATACTTAAA
118817 -TTAGATGTT-TTTAATA-ACTTATAA
1 TTTA-AT-TTCTTTAATATACTTA-AA
118841 TTTAATTTCTTTA
1 TTTAATTTCTTTA
118854 TCATAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
22 3 0.10
23 11 0.37
24 13 0.43
25 3 0.10
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.55
Consensus pattern (24 bp):
TTTAATTTCTTTAATATACTTAAA
Found at i:127823 original size:90 final size:89
Alignment explanation
Indices: 127603--127829 Score: 275
Period size: 91 Copynumber: 2.6 Consensus size: 89
127593 TTTAATGGTG
* * * **
127603 CAAAAAG-CCCTCAAACTCTTTAAAAAAAAACAATTAAG--CCT-TTTTTTTTTGTACTCGTTTG
1 CAAAAAGACCCTCAAACTTTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTCAATTG
*
127664 GGTACTTGAACTTTCAAAATGTAT
66 GGTACTTGAACTTTCAAAATGCAT
* *** *
127688 -AAAAAAAGCCCTCAAACTTTTTTTCTTAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTTAA
1 CAAAAAGA-CCCTCAAAC--TTTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTCAA
127752 TTGGGTACTTGAACTTTCAAAATGCAT
63 TTGGGTACTTGAACTTTCAAAATGCAT
*
127779 CAAAAAGACCCTCAAACTTTTTAAAAAAAAAGCCATTAAGCCCCTACTTTT
1 CAAAAAGACCCTCAAACTTTTTAAAAAAAAA-CAATTAAGCCCCTACTTTT
127830 ATTAAAAATT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
84 5 0.04
86 9 0.08
88 18 0.15
89 11 0.09
90 21 0.18
91 47 0.40
92 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (89 bp):
CAAAAAGACCCTCAAACTTTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTCAATTG
GGTACTTGAACTTTCAAAATGCAT
Found at i:132070 original size:23 final size:23
Alignment explanation
Indices: 132044--132097 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
132034 TTAACCCCAC
132044 ATGGTGTGATGGGATGGTCGGAG
1 ATGGTGTGATGGGATGGTCGGAG
132067 ATGGTGTGATGGGATGGTCGGAG
1 ATGGTGTGATGGGATGGTCGGAG
132090 ATGGTGTG
1 ATGGTGTG
132098 TAGAAGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.04, G:0.52, T:0.28
Consensus pattern (23 bp):
ATGGTGTGATGGGATGGTCGGAG
Found at i:132431 original size:13 final size:13
Alignment explanation
Indices: 132415--132440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132405 ACATTACGCA
132415 AACAAATGGTTTT
1 AACAAATGGTTTT
132428 AACAAATGGTTTT
1 AACAAATGGTTTT
132441 TGAAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:135857 original size:85 final size:84
Alignment explanation
Indices: 135701--135868 Score: 264
Period size: 85 Copynumber: 2.0 Consensus size: 84
135691 GTACTGATAG
* *
135701 AAGATGGTAAGGTTGTGACTTATGCATCCCATCAGCTTAAGTCATACAAAGGGAATTATCTGACG
1 AAGATGGTAAGGTTGTGACTTATGCATCCCATCAGCTTAAGTCACACAAAGGGAACTATCTGACG
135766 CATGATCTCGAGTTGGCTT
66 CATGATCTCGAGTTGGCTT
* * * * *
135785 AAGATGGTAAGGTTGTGACTTATGTATCCCCGTCAGCTTACGTCACACGAGGGGAACTATCTGAC
1 AAGATGGTAAGGTTGTGACTTATGCAT-CCCATCAGCTTAAGTCACACAAAGGGAACTATCTGAC
135850 GCATGATCTCGAGTTGGCT
65 GCATGATCTCGAGTTGGCT
135869 ACGGTGGTGT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 26 0.34
85 50 0.66
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (84 bp):
AAGATGGTAAGGTTGTGACTTATGCATCCCATCAGCTTAAGTCACACAAAGGGAACTATCTGACG
CATGATCTCGAGTTGGCTT
Found at i:139524 original size:13 final size:13
Alignment explanation
Indices: 139506--139531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139496 GCATTACGTA
139506 AACAAATGGTTTT
1 AACAAATGGTTTT
139519 AACAAATGGTTTT
1 AACAAATGGTTTT
139532 TAGAACACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:143917 original size:113 final size:114
Alignment explanation
Indices: 143717--143951 Score: 454
Period size: 113 Copynumber: 2.1 Consensus size: 114
143707 TTATCTTTAT
143717 TATATTTTGGATATCAAATAAAGAATCTTTTTGCTTGGTTTATACATATATAAGAGTTTGTTTAA
1 TATATTTTGGA-ATCAAATAAAGAATCTTTTTGCTTGGTTTATACATATATAAGAGTTTGTTTAA
143782 GATAGAAAATTTAATTAATATATTATATATTATAGTATTTATGTAATAAA
65 GATAGAAAATTTAATTAATATATTATATATTATAGTATTTATGTAATAAA
143832 TATATTTTGG-ATCAAATAAAGAATCTTTTTGCTTGGTTTATACATATATAAGAGTTTGTTTAAG
1 TATATTTTGGAATCAAATAAAGAATCTTTTTGCTTGGTTTATACATATATAAGAGTTTGTTTAAG
143896 ATAGAAAATTTAATTAATATATTATATATTATAGTATTTATGTAATAAA
66 ATAGAAAATTTAATTAATATATTATATATTATAGTATTTATGTAATAAA
143945 TATATTT
1 TATATTT
143952 ATAAAAATAA
Statistics
Matches: 120, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
113 110 0.92
115 10 0.08
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (114 bp):
TATATTTTGGAATCAAATAAAGAATCTTTTTGCTTGGTTTATACATATATAAGAGTTTGTTTAAG
ATAGAAAATTTAATTAATATATTATATATTATAGTATTTATGTAATAAA
Found at i:145356 original size:10 final size:9
Alignment explanation
Indices: 145341--145394 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 9
145331 TTTATAATAC
145341 TTTTTATTAA
1 TTTTTA-TAA
*
145351 TTTTTAAAA
1 TTTTTATAA
*
145360 TTTTAATAA
1 TTTTTATAA
145369 TTATTTATAA
1 TT-TTTATAA
145379 TTTATTATAA
1 TTT-TTATAA
145389 TTTTTA
1 TTTTTA
145395 AACAACTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 15 0.39
10 23 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:145367 original size:28 final size:29
Alignment explanation
Indices: 145335--145392 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
145325 TAACCTTTTA
*
145335 TAATACTT-TTTATTAATTT-TTAAAATTT
1 TAATAATTATTTA-TAATTTATTAAAATTT
*
145363 TAATAATTATTTATAATTTATTATAATTT
1 TAATAATTATTTATAATTTATTAAAATTT
145392 T
1 T
145393 TAAACAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
TAATAATTATTTATAATTTATTAAAATTT
Found at i:145369 original size:18 final size:18
Alignment explanation
Indices: 145342--145396 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
145332 TTATAATACT
*
145342 TTTTATTAATTTTTAAAA
1 TTTTAATAATTTTTAAAA
*
145360 TTTTAATAATTATTTATAA
1 TTTTAATAATT-TTTAAAA
*
145379 TTTATTATAATTTTTAAA
1 TTT-TAATAATTTTTAAA
145397 CAACTTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTTTAAAA
Found at i:146467 original size:63 final size:63
Alignment explanation
Indices: 146390--146558 Score: 198
Period size: 63 Copynumber: 2.7 Consensus size: 63
146380 TGGTAGACCA
* * * * * *
146390 TGTAACTCATTGTTTTGCAGA-TAGAGTCACACAGGCTAGAGGCACAAGTGTGTGTCTAGGCCG
1 TGTAACTCACTGTTTTGCA-ATTAGAGTCACACAGGCCAGAGACACAAGAGTGTGTCCAAGCCG
* * * *
146453 TGTAACTCACTG-TTTGTAAATTAGGGTCACACGGGCCAGAGACACAAGAGTGTGTCCAAGTCG
1 TGTAACTCACTGTTTTG-CAATTAGAGTCACACAGGCCAGAGACACAAGAGTGTGTCCAAGCCG
* *
146516 TGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAGAC
1 TGTAACTCACTGTTTTGCAATTAGAGTCACACAGGCCAGAGAC
146559 TTGGGTGTGT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
62 5 0.06
63 80 0.90
64 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (63 bp):
TGTAACTCACTGTTTTGCAATTAGAGTCACACAGGCCAGAGACACAAGAGTGTGTCCAAGCCG
Found at i:146583 original size:63 final size:63
Alignment explanation
Indices: 146411--146583 Score: 195
Period size: 63 Copynumber: 2.7 Consensus size: 63
146401 GTTTTGCAGA
* * *
146411 TAGAGTCACACAGGCTAGAGGCACAAGTGTGTGTCTAGGCCGTGTAACTCACTGTTTGTAAAT
1 TAGAGTCACACAGGCCAGAGACACAAGTGTGTGTCCAGGCCGTGTAACTCACTGTTTGTAAAT
* * * * * * *
146474 TAGGGTCACACGGGCCAGAGACACAAGAGTGTGTCCAAGTCGTGTAACTCACTATTT-TGGAAT
1 TAGAGTCACACAGGCCAGAGACACAAGTGTGTGTCCAGGCCGTGTAACTCACTGTTTGT-AAAT
**** *
146537 TAGAGTCACACAGGCCAGAGACTTGGGTGTGTGTCCAGGCCTTGTAA
1 TAGAGTCACACAGGCCAGAGACACAAGTGTGTGTCCAGGCCGTGTAA
146584 GGGAATTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
62 1 0.01
63 88 0.99
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (63 bp):
TAGAGTCACACAGGCCAGAGACACAAGTGTGTGTCCAGGCCGTGTAACTCACTGTTTGTAAAT
Found at i:158498 original size:30 final size:30
Alignment explanation
Indices: 158464--158525 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
158454 CTTAATAAGT
158464 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* * *
158494 AAATGTCTTTAAAATAATAGCAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
158524 AA
1 AA
158526 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:165209 original size:21 final size:21
Alignment explanation
Indices: 165185--165230 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
165175 ACGAAGCCAA
*
165185 AGGA-TCAAAGAACGACGCCGG
1 AGGATTCAAAG-ACGACACCGG
*
165206 AGGATTGAAAGACGACACCGG
1 AGGATTCAAAGACGACACCGG
165227 AGGA
1 AGGA
165231 CCATTAACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.39, C:0.20, G:0.35, T:0.07
Consensus pattern (21 bp):
AGGATTCAAAGACGACACCGG
Found at i:167082 original size:3 final size:3
Alignment explanation
Indices: 167076--167111 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
167066 TTTTTTTGCC
*
167076 AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
167112 TAAACAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:168546 original size:34 final size:35
Alignment explanation
Indices: 168508--168574 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
168498 CAGTAAAATA
* * *
168508 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCATAAAATGATTTACTGGAAAATATTTTAC
*
168542 TTTTCTATAAAATGATTTACTGGAAAATATTTT
1 TTTTCCATAAAATGATTTACTGGAAAATATTTT
168575 CTGATGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCATAAAATGATTTACTGGAAAATATTTTAC
Found at i:169715 original size:35 final size:37
Alignment explanation
Indices: 169664--169734 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 37
169654 ATTGTCAATC
169664 ATTTCAATATCCAACAAACTTAAAACATAAT-AATAA
1 ATTTCAATATCCAACAAACTTAAAACATAATCAATAA
**
169700 ATTT-AATATCCAACAAGGTTAAAACATAATCAATA
1 ATTTCAATATCCAACAAACTTAAAACATAATCAATA
169735 TCTAACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 24 0.75
36 8 0.25
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (37 bp):
ATTTCAATATCCAACAAACTTAAAACATAATCAATAA
Found at i:169734 original size:27 final size:28
Alignment explanation
Indices: 169704--169771 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
169694 TAATAAATTT
*
169704 AATATCCAACAAGGTT-AAAACATA-ATC
1 AATATCCAACAA-ATTCAAAACATATATC
* *
169731 AATATCTAACAAATTCAAGACATATATC
1 AATATCCAACAAATTCAAAACATATATC
*
169759 AAAATCCAACAAA
1 AATATCCAACAAA
169772 CTAAAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 18 0.53
28 14 0.41
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.22
Consensus pattern (28 bp):
AATATCCAACAAATTCAAAACATATATC
Found at i:172153 original size:28 final size:28
Alignment explanation
Indices: 172113--172169 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
172103 TCTTTAGCAT
*
172113 CAAATACTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
172141 CAAATACTAACAGATCAGTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
172169 C
1 C
172170 CAGAGAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAGATCAGTAAGTGCTAA
Found at i:173603 original size:19 final size:18
Alignment explanation
Indices: 173579--173628 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
173569 TTTCCTTCCT
173579 AAAAAAATTGGATCGGTGG
1 AAAAAAA-TGGATCGGTGG
173598 AAAAAAATGGATCGGTGG
1 AAAAAAATGGATCGGTGG
*
173616 CAAAAAATGGATC
1 AAAAAAATGGATC
173629 TGACCCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.46, C:0.08, G:0.28, T:0.18
Consensus pattern (18 bp):
AAAAAAATGGATCGGTGG
Found at i:183202 original size:19 final size:20
Alignment explanation
Indices: 183159--183202 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
183149 TCTCACTTTT
*
183159 CTCTTTATTTCTTTAGAAAA
1 CTCTTTATTTCTCTAGAAAA
* *
183179 ATCTTTATTT-TCTATAAAA
1 CTCTTTATTTCTCTAGAAAA
183198 CTCTT
1 CTCTT
183203 CCTTTCCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (20 bp):
CTCTTTATTTCTCTAGAAAA
Found at i:186758 original size:50 final size:49
Alignment explanation
Indices: 186634--186819 Score: 187
Period size: 50 Copynumber: 3.8 Consensus size: 49
186624 GAATATAACA
* * * * *
186634 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
* * *
186683 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * * ** *
186733 TGCCCATACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
*
186782 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
186820 CATCTTTACC
Statistics
Matches: 112, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.04
49 36 0.32
50 72 0.64
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:189296 original size:17 final size:19
Alignment explanation
Indices: 189270--189317 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
189260 AGACTAAGCT
*
189270 TTAATATATTTTATTT-AC
1 TTAATTTATTTTATTTCAC
*
189288 -TAATTTATTTTATTTCGC
1 TTAATTTATTTTATTTCAC
189306 TTAATTTATTTT
1 TTAATTTATTTT
189318 GCAATCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 14 0.54
18 1 0.04
19 11 0.42
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (19 bp):
TTAATTTATTTTATTTCAC
Found at i:189895 original size:11 final size:12
Alignment explanation
Indices: 189864--189896 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
189854 AAGATAAAGA
189864 TATAAAATAATG
1 TATAAAATAATG
189876 TATAAAATAATG
1 TATAAAATAATG
189888 TA-AAAATAA
1 TATAAAATAA
189897 AAGAATCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (12 bp):
TATAAAATAATG
Found at i:190835 original size:19 final size:18
Alignment explanation
Indices: 190783--190821 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
190773 AATCAAAATT
*
190783 TAAAAATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
190801 TAAAGATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
190819 TAA
1 TAA
190822 TTATAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAGATCAAATTTAAAC
Found at i:196880 original size:22 final size:22
Alignment explanation
Indices: 196816--196882 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
196806 TTTAATTGCT
* *
196816 AATTAGGGCTTAGGGTTTATTA
1 AATTAGGGTTTAGGGTTTTTTA
**
196838 AATTAGGGTTGT-GGGAATTTTA
1 AATTAGGGTT-TAGGGTTTTTTA
*
196860 AATTAGGGTTTAAGGTTTTTTA
1 AATTAGGGTTTAGGGTTTTTTA
196882 A
1 A
196883 TTTGTAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.43
Consensus pattern (22 bp):
AATTAGGGTTTAGGGTTTTTTA
Found at i:200239 original size:35 final size:35
Alignment explanation
Indices: 200195--200265 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
200185 TATGTGTTGT
*
200195 TCATTTTTGGTTTAAAATTACCCGAATTACTCGAA
1 TCATTTTTGGTTTAAAATTACCCGAATTACCCGAA
200230 TCATTTTTGGTTTAAAATTACCCGAATTACCCGAA
1 TCATTTTTGGTTTAAAATTACCCGAATTACCCGAA
200265 T
1 T
200266 ACCCGAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (35 bp):
TCATTTTTGGTTTAAAATTACCCGAATTACCCGAA
Found at i:200270 original size:17 final size:18
Alignment explanation
Indices: 200248--200295 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
200238 GGTTTAAAAT
200248 TACCCGAATTACCCGA-A
1 TACCCGAATTACCCGACA
*
200265 TACCCGAATTACCCGACT
1 TACCCGAATTACCCGACA
*
200283 TACCTGAATTACC
1 TACCCGAATTACC
200296 TGAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.23
Consensus pattern (18 bp):
TACCCGAATTACCCGACA
Found at i:200299 original size:9 final size:9
Alignment explanation
Indices: 200245--200295 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
200235 TTTGGTTTAA
200245 AATTACCCG
1 AATTACCCG
200254 AATTACCCG
1 AATTACCCG
200263 AA-TACCCG
1 AATTACCCG
200271 AATTACCCG
1 AATTACCCG
* *
200280 ACTTACCTG
1 AATTACCCG
200289 AATTACC
1 AATTACC
200296 TGAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 8 0.21
9 30 0.79
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:201296 original size:3 final size:3
Alignment explanation
Indices: 201288--201335 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
201278 NNNAAAGAGA
201288 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
201336 TCACAGCACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:201833 original size:16 final size:16
Alignment explanation
Indices: 201810--201849 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
201800 GCCTAAGAAA
201810 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGGTTT
*
201826 ATATTGGGCTGGGTTT
1 AAATTGGGCTGGGTTT
201842 AAATTGGG
1 AAATTGGG
201850 AGGGAGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.38, T:0.38
Consensus pattern (16 bp):
AAATTGGGCTGGGTTT
Found at i:206370 original size:10 final size:10
Alignment explanation
Indices: 206328--206370 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
206318 TTGAATAGAG
206328 TATGTATATA
1 TATGTATATA
*
206338 TATATATATA
1 TATGTATATA
* *
206348 TATGTAAAAA
1 TATGTATATA
*
206358 TATGTATGTA
1 TATGTATATA
206368 TAT
1 TAT
206371 AAAATATAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
TATGTATATA
Found at i:206455 original size:9 final size:9
Alignment explanation
Indices: 206441--206472 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
206431 AAAAGTTATG
206441 AAAATAAAA
1 AAAATAAAA
206450 AAAAT-AAA
1 AAAATAAAA
206458 AAAATAAAA
1 AAAATAAAA
206467 AAAATA
1 AAAATA
206473 TGTACATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:206546 original size:3 final size:3
Alignment explanation
Indices: 206538--206572 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
206528 TATGTATAGA
*
206538 AAT AAT AAT AAT AAT AAT AAT AAAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
206573 CTATTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:207456 original size:21 final size:21
Alignment explanation
Indices: 207442--207481 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
207432 GTGCTGGGTG
*
207442 ACGTGTGCGACGTGCGGGGCA
1 ACGTGCGCGACGTGCGGGGCA
207463 ACGTGCGCGACGTGCGGGG
1 ACGTGCGCGACGTGCGGGG
207482 GACTACTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.50, T:0.12
Consensus pattern (21 bp):
ACGTGCGCGACGTGCGGGGCA
Found at i:208011 original size:44 final size:42
Alignment explanation
Indices: 207963--208207 Score: 194
Period size: 44 Copynumber: 5.7 Consensus size: 42
207953 TTTAATCCAT
* * * *
207963 TCCACTGCAACCTTAGGGAGATAGGATTTAGGTCTTCAGTCTGC
1 TCCACTGCAACCTTAGGGAGATAAGATTT-GAT-TTTAATCTGC
* * *
208007 TCCACTGCAA-CTTCAGGGAGATAAGACTTGA-TGTGATCTGC
1 TCCACTGCAACCTT-AGGGAGATAAGATTTGATTTTAATCTGC
* * *
208048 T-CTCTGCAACCTTAGGGAGATAAGATCTGATTTTAATCAGC
1 TCCACTGCAACCTTAGGGAGATAAGATTTGATTTTAATCTGC
* * ** *
208089 TCCACTGCAACCTCAGGGAGGTAAGACTATTGGCTTTAATCTGT
1 TCCACTGCAACCTTAGGGAGATAAGA-T-TTGATTTTAATCTGC
*
208133 TCCACTGCAA-CTTCAGGGAGATAAGATTCGCCATCTTTAATCTGC
1 TCCACTGCAACCTT-AGGGAGATAAGATTTG--AT-TTTAATCTGC
* * *
208178 CCCACTACAA-CTTCAGGGGGATAAGATTTG
1 TCCACTGCAACCTT-AGGGAGATAAGATTTG
208208 CTTTCTCAGT
Statistics
Matches: 160, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
40 22 0.14
41 18 0.11
42 23 0.14
43 8 0.05
44 54 0.34
45 35 0.22
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (42 bp):
TCCACTGCAACCTTAGGGAGATAAGATTTGATTTTAATCTGC
Found at i:208669 original size:88 final size:88
Alignment explanation
Indices: 208512--209124 Score: 960
Period size: 88 Copynumber: 7.0 Consensus size: 88
208502 TAAAACTGGT
* * * ** * *
208512 GTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATATTCAACCTACTCCACTG
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
208577 CTGCTCAGGGAGACAAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAG
* * *
208600 GTCTTCGATCTACTTCGCTGCCAATCCAGGAAGACAAGATCTGCTATTTTCAACCTCCTCCGCTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
208665 CTGCTTAGGGAGACAAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAG
208688 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
208753 CTGCTCAGGGAGACGAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAG
* *
208776 GTTTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
208841 CTAC-CTAGGGAGACAAGGCTGAG
66 CTGCTC-AGGGAGACAAGGCTGAG
* * * *
208864 GTCTTTGATCTACTTCACTGCCAATACAAGAAGACAATATCTGCTATTTTCAACCTACTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
208929 CTGCTCAGGGAGACAGGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAG
* *
208952 GTCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGCTACTTTCAACCTACTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
209017 CTAC-CTAGGGAGACAAGGCTGAG
66 CTGCTC-AGGGAGACAAGGCTGAG
* *
209040 GTCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTATTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
*
209105 CTACTCAGGGAGACAAGGCT
66 CTGCTCAGGGAGACAAGGCT
209125 AAAGTTTCAC
Statistics
Matches: 483, Mismatches: 38, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
87 2 0.00
88 479 0.99
89 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (88 bp):
GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
CTGCTCAGGGAGACAAGGCTGAG
Found at i:210373 original size:15 final size:14
Alignment explanation
Indices: 210353--210391 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
210343 CACCCTAGCC
*
210353 TTTCCATTTTTACTT
1 TTTCCATTTTT-CAT
210368 TTTCCATTTTTCAT
1 TTTCCATTTTTCAT
210382 TTT-CATTTTT
1 TTTCCATTTTT
210392 TCGTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 11 0.48
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCCATTTTTCAT
Found at i:210382 original size:22 final size:23
Alignment explanation
Indices: 210357--210402 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
210347 CTAGCCTTTC
*
210357 CATTTTTACTTTTTC-CATTTTT
1 CATTTTCACTTTTTCGCATTTTT
*
210379 CATTTTCATTTTTTCGTCATTTTT
1 CATTTTCACTTTTTCG-CATTTTT
210403 TACGACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.67
Consensus pattern (23 bp):
CATTTTCACTTTTTCGCATTTTT
Found at i:213133 original size:19 final size:20
Alignment explanation
Indices: 213109--213155 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
213099 TAATGGATTT
*
213109 TAATGCATATG-ATGCAATG
1 TAATGCATATGCATGAAATG
*
213128 TAATGCAAATGCATGAAATG
1 TAATGCATATGCATGAAATG
213148 -AATGCATA
1 TAATGCATA
213156 AAGAGACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCATATGCATGAAATG
Found at i:214902 original size:26 final size:27
Alignment explanation
Indices: 214873--214926 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
214863 ATACATATAT
* *
214873 TATAGGAAACATATGTATA-TATAAAA
1 TATAGAAAACATATATATATTATAAAA
**
214899 TATAGAAAATGTATATATATTATAAAA
1 TATAGAAAACATATATATATTATAAAA
214926 T
1 T
214927 GTATATGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (27 bp):
TATAGAAAACATATATATATTATAAAA
Found at i:215120 original size:22 final size:20
Alignment explanation
Indices: 215070--215122 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
215060 ACGTGTGTAT
215070 TAATATAGA-AATAATAATAC
1 TAATATA-ATAATAATAATAC
*
215090 TAACAATAATAATAAATAATAAC
1 TAA-TATAATAAT-AATAAT-AC
215113 TAATATAATA
1 TAATATAATA
215123 CTATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 12 0.44
23 5 0.19
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (20 bp):
TAATATAATAATAATAATAC
Found at i:215780 original size:26 final size:26
Alignment explanation
Indices: 215744--215794 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
215734 AAGGATATGC
*
215744 AATCTTAGATATGATATGCAATCTTT
1 AATCTTAGATATCATATGCAATCTTT
215770 AATCTTAGATATCATATGCAATCTT
1 AATCTTAGATATCATATGCAATCTT
215795 AGAAGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (26 bp):
AATCTTAGATATCATATGCAATCTTT
Found at i:215789 original size:45 final size:42
Alignment explanation
Indices: 215738--215820 Score: 114
Period size: 45 Copynumber: 1.9 Consensus size: 42
215728 ATCTTCAAGG
215738 ATATGCAATCTTAGATATGATATGCAATCTT-TAATCTTAGATATC
1 ATATGCAATCTTAGA-A-GATATG--ATCTTGTAATCTTAGATATC
*
215783 ATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATATGCAATCTTAGAAGATATGATCTTGTAATCTTAGA
215821 GATTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
41 4 0.11
42 10 0.28
43 6 0.17
44 1 0.03
45 15 0.42
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (42 bp):
ATATGCAATCTTAGAAGATATGATCTTGTAATCTTAGATATC
Found at i:221177 original size:11 final size:10
Alignment explanation
Indices: 221161--221188 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
221151 AGGATGGTGC
221161 AAAAAAAAGA
1 AAAAAAAAGA
221171 AAAAAAAAGA
1 AAAAAAAAGA
221181 AAAAAAAA
1 AAAAAAAA
221189 CTCTTCCAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:222910 original size:88 final size:88
Alignment explanation
Indices: 222786--223485 Score: 872
Period size: 88 Copynumber: 8.0 Consensus size: 88
222776 GAAATCACAA
* * * * * *
222786 AGCCTTGCCTTCCTGGTTTGCAGTGAAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTACTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
* * *
222851 CGGCGAAGCATATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * *
222874 AGCCTTTCCTCCCTGGGTTGTAGTGGAGCAGCTTGAAGATAGCAGATCTTGCCTTCCTGCA-TCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACT-G
* *
222938 AGAGTGAAGCAGATCGAAGATACT
65 ACAGTGAAGCAGATCGAAGATACC
* * * *
222962 AGCCTTGCCTCCCTCGGTTGTAGTGGAGCAAGTTGAAGACAGCAGATCTTGCCTTCCTGCA-TCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACT-G
*
223026 ACAGCGAAGCAGATCGAAGATACC
65 ACAGTGAAGCAGATCGAAGATACC
* *
223050 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCC--TACATC
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-T-
* *
223113 AACAGTGAAGCAGATCAAAGATACC
64 GACAGTGAAGCAGATCGAAGATACC
**
223138 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
* *
223203 TAGTGAAGCAGATCAAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * * *
223226 AGCCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTATACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
223291 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* *
223314 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTAT-CCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
* *
223378 TAGTGAAGCAGATCAAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * * * * * * * * * * *
223401 AGCCTTGCCTCCCTGAGTTGTCGTGAAGTAGATCGAAGAAAGTAAATCTTGTCTTCATGTATTGG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
*
223466 C-GTGAAGTAGATCGAAGATA
66 CAGTGAAGCAGATCGAAGATA
223486 GCAGATCTTG
Statistics
Matches: 542, Mismatches: 64, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 91 0.17
88 447 0.82
90 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGA
CAGTGAAGCAGATCGAAGATACC
Found at i:223427 original size:43 final size:43
Alignment explanation
Indices: 222855--223439 Score: 303
Period size: 44 Copynumber: 13.3 Consensus size: 43
222845 TACTGACGGC
* * * *
222855 GAAGCATATCGAAGATACCAGCCTTTCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTCGTAGT
* * * * * * *
222898 GGAGCAGCTTGAAGATAGCAGATCTTGCCTTCCTGCA-TCGAGAGT
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTG-AGTCG-TAGT
* *
222943 GAAGCAGATCGAAGATACTAGCCTTGCCTCCCTCG-GTTGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCT-GAGTCGTAGT
* * * * * * * *
222986 GGAGCA-AGTTGAAGACAGCAGATCTTGCCTTCCTGCA-TCGACAGC
1 GAAGCAGA-TCGAAGATACCAG-CCTTGCCTCCCTG-AGTCG-TAGT
*
223031 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCT-AGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGA-GTCGTAGT
* * * ** * * * **
223074 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCT-ACATCAACAGT
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGA-GTC-GTAGT
* * *
223119 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTCGTAGT
* * * * * * * *
223162 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CCAATAGT
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTG-AGTC-GTAGT
*
223207 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCT-AGGTCGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGA-GTCGTAGT
* * * * * * * *
223250 GGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCT-A-TACCGACAGT
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGAGT--CG-TAGT
* *
223295 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTCGTAGT
* * * * * *
223338 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCT-A-TCCGATAGT
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGAGT-CG-TAGT
* * *
223382 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGAGTTGTCGT
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTCGTAGT
*
223425 GAAGTAGATCGAAGA
1 GAAGCAGATCGAAGA
223440 AAGTAAATCT
Statistics
Matches: 388, Mismatches: 122, Indels: 64
0.68 0.21 0.11
Matches are distributed among these distances:
42 5 0.01
43 138 0.36
44 147 0.38
45 96 0.25
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (43 bp):
GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTCGTAGT
Found at i:223472 original size:44 final size:44
Alignment explanation
Indices: 223422--223810 Score: 482
Period size: 44 Copynumber: 8.8 Consensus size: 44
223412 CCTGAGTTGT
* *
223422 CGTGAAGTAGATCGAAGAAAGTAAATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
223466 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * *
223510 TGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
223555 CGTGAAGTAGATC-AATAATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAA-AGCAGATCTTGTCTTCATGTATTGG
*
223599 CGTGAAGTAGATC-AATAATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAA-AGCAGATCTTGTCTTCATGTATTGG
* *
223643 CGTGAAGTAGATC-AATGATAGCAGATTTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAA-GAAAGCAGATCTTGTCTTCATGTATTGG
* * * * *
223687 CGTGAAGTAGATCAAAGATAGCAGATATTGTCTCCCA--TACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCT-TCATGTATTGG
* * *
223730 TGGCGAAGTAGATCGAAGAAAGCAGATCTTTTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
223775 CGTGAAGTAGATCAAAGAAGAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCGAAGAA-AGCAGATCTTGTCTTC
223811 CCATACTGGT
Statistics
Matches: 301, Mismatches: 35, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
43 11 0.04
44 228 0.76
45 62 0.21
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:224492 original size:30 final size:30
Alignment explanation
Indices: 224439--224495 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
224429 CTGCAGAAGA
* * **
224439 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
224469 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
224496 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:227612 original size:43 final size:43
Alignment explanation
Indices: 227541--227631 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
227531 CTTTGAGTTC
* * * * *
227541 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGAGTAAGAAAATGAATTATATATTTT
* *
227583 ATTACCAAGATTTAGTTGAGTAAGAAAATGAATTGTATATTTT
1 ATTACCAAGATTTACTTGAGTAAGAAAATGAATTATATATTTT
227626 ATTACC
1 ATTACC
227632 TTGCATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGAGTAAGAAAATGAATTATATATTTT
Done.