Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold441
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: 135540
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2933 original size:11 final size:11
Alignment explanation
Indices: 2917--2962 Score: 65
Period size: 11 Copynumber: 3.9 Consensus size: 11
2907 CCTTTACACC
2917 CAAAAAAAAAA
1 CAAAAAAAAAA
2928 CAAAAAAAAAA
1 CAAAAAAAAAA
2939 CCAAAACAAAAAAA
1 -C-AAA-AAAAAAA
2953 CAAAAAAAAA
1 CAAAAAAAAA
2963 GAAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 17 0.53
12 4 0.12
13 4 0.12
14 7 0.22
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:2934 original size:10 final size:10
Alignment explanation
Indices: 2919--2979 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
2909 TTTACACCCA
2919 AAAAAAAAAC
1 AAAAAAAAAC
2929 AAAAAAAAAACC
1 -AAAAAAAAA-C
2941 AAAACAAAAAAAC
1 --AA-AAAAAAAC
*
2954 AAAAAAAAAG
1 AAAAAAAAAC
* *
2964 AAAAAATAGC
1 AAAAAAAAAC
2974 AAAAAA
1 AAAAAA
2980 TAGAAGGGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 20 0.47
11 11 0.26
12 1 0.02
13 4 0.09
14 7 0.16
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:2935 original size:12 final size:12
Alignment explanation
Indices: 2918--2962 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
2908 CTTTACACCC
2918 AAAAAAAAAACA
1 AAAAAAAAAACA
*
2930 AAAAAAAAACCA
1 AAAAAAAAAACA
2942 AAACAAAAAAACA
1 AAA-AAAAAAACA
2955 AAAAAAAA
1 AAAAAAAA
2963 GAAAAAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:2979 original size:1 final size:1
Alignment explanation
Indices: 2918--2969 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
2908 CTTTACACCC
* ** * * *
2918 AAAAAAAAAACAAAAAAAAAACCAAAACAAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2970 TAGCAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:4238 original size:29 final size:29
Alignment explanation
Indices: 4196--5137 Score: 1396
Period size: 29 Copynumber: 32.9 Consensus size: 29
4186 AATGTTCATC
4196 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
4225 CCTTTCAAAGCCCACAAACCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4254 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4283 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4311 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4340 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4369 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4397 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4425 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4454 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4483 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4512 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4540 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4569 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4597 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4626 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
4655 CTTTTTAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4684 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4712 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4741 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4770 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4799 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4827 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4855 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4883 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4911 CCTTTCGAGGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
4939 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4968 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4995 CCTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
5024 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
5051 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
5079 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
5109 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
5138 ACCCTTTTCA
Statistics
Matches: 844, Mismatches: 57, Indels: 23
0.91 0.06 0.02
Matches are distributed among these distances:
27 1 0.00
28 400 0.47
29 407 0.48
30 36 0.04
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:4344 original size:86 final size:86
Alignment explanation
Indices: 4196--5137 Score: 1411
Period size: 86 Copynumber: 11.0 Consensus size: 86
4186 AATGTTCATC
**
4196 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAACCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
4261 AAGCCCACAAGTCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
*
4283 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
4348 AGCCCACAAATCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* * *
4369 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
4433 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* *
4454 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
*
4519 AAGCCCACAAGTTAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* *
4540 CCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
4604 AAGCCCACAAGTCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* * *
4626 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
*
4691 AAGCCCACAAGTTAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
4712 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
*
4777 AAGCCCACAAATCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* * *
4799 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
4863 AGCCCACAAGTTAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * * * * *
4883 CCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAGGCCCACAAGTCAGTGGCAC-CATTGCGA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
4947 AGCCCACAATTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
*
4968 -CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTC-TTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
5031 AGCCCACAAGTCAGTGGCA-T
66 AGCCCACAAGTCAGTGGCACT
* * ** *
5051 CCTTTCAAAGCCCACGAGTTAGTGGCATTCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTT-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTTC
*
5115 AAAGCCCATGCAAGTCAATGGCA
64 AAAGCCCA--CAAGTCAGTGGCA
5138 ACCCTTTTCA
Statistics
Matches: 785, Mismatches: 55, Indels: 29
0.90 0.06 0.03
Matches are distributed among these distances:
83 1 0.00
84 183 0.23
85 107 0.14
86 372 0.47
87 110 0.14
88 12 0.02
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (86 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
AGCCCACAAGTCAGTGGCACT
Found at i:5691 original size:20 final size:20
Alignment explanation
Indices: 5663--5737 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
5653 TCATACCCTG
5663 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
5683 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
5703 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
5723 ATGTATCGATACATT
1 ATGTATCGATACATT
5738 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5730 original size:40 final size:39
Alignment explanation
Indices: 5663--5740 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5653 TCATACCCTG
* *
5663 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
5703 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
5741 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:6675 original size:23 final size:23
Alignment explanation
Indices: 6648--6699 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
6638 AGCCTTTGAC
6648 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
6671 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
6693 CATGCAT
1 CATGCAT
6700 ATTTAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:12850 original size:36 final size:35
Alignment explanation
Indices: 12770--12850 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
12760 TCAAAATGAC
* *
12770 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
12805 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
12840 AACAACAAAAA
1 AA-AACAAAAA
12851 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:13121 original size:14 final size:14
Alignment explanation
Indices: 13102--13129 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13092 CCTAATCCTA
13102 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
13116 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
13130 TTTTCACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACC
Found at i:14224 original size:27 final size:27
Alignment explanation
Indices: 14181--14754 Score: 833
Period size: 27 Copynumber: 20.9 Consensus size: 27
14171 GTGGCATTTT
** *
14181 CTTTTAAAGTCCACAACTCTATGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
14209 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14236 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
14264 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
14291 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
14319 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14346 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14373 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
14400 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
14428 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
14455 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14482 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
14509 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
14537 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14564 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
14592 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14619 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
14647 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
14675 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14702 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
14730 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
14755 ACCCATTCCA
Statistics
Matches: 498, Mismatches: 41, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
27 292 0.59
28 206 0.41
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:14249 original size:55 final size:54
Alignment explanation
Indices: 14181--14754 Score: 833
Period size: 55 Copynumber: 10.5 Consensus size: 54
14171 GTGGCATTTT
** * *
14181 CTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
14236 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
14291 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
14346 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
14400 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
14455 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * ** *
14509 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
14564 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
14619 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
14675 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
14730 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
14755 ACCCATTCCA
Statistics
Matches: 478, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
54 137 0.29
55 296 0.62
56 45 0.09
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:14281 original size:82 final size:81
Alignment explanation
Indices: 14181--14754 Score: 842
Period size: 82 Copynumber: 7.0 Consensus size: 81
14171 GTGGCATTTT
* * *
14181 CTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
14246 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * *
14264 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
14329 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
14346 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
** *
14411 ACAACTCTATGGCATTC
66 ACAACTCCGTGGCA-CC
* * *
14428 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
14493 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* ** *
14509 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
14574 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
*
14592 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
14657 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* * *
14675 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATT
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
14740 CACAAATCGGTGGCA
65 CACAACTCCGTGGCA
14755 ACCCATTCCA
Statistics
Matches: 448, Mismatches: 37, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
81 67 0.15
82 224 0.50
83 157 0.35
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:14782 original size:32 final size:32
Alignment explanation
Indices: 14740--15182 Score: 726
Period size: 32 Copynumber: 13.8 Consensus size: 32
14730 CTTTTAAATT
* *
14740 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
14772 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
14804 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14836 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14868 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14900 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14932 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14964 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
14996 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
15028 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
15060 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
15092 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
15124 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
15156 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
15183 TCACCATTTT
Statistics
Matches: 390, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 384 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:16444 original size:17 final size:17
Alignment explanation
Indices: 16424--16459 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16414 AAGGAAGATG
* *
16424 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
16441 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
16458 AA
1 AA
16460 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:19940 original size:13 final size:13
Alignment explanation
Indices: 19922--19956 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
19912 TTGCCATGTT
19922 TCGATACAGTGTA
1 TCGATACAGTGTA
*
19935 TCGATACATTGTA
1 TCGATACAGTGTA
19948 TCGATACAG
1 TCGATACAG
19957 AGAATTCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (13 bp):
TCGATACAGTGTA
Found at i:24857 original size:20 final size:20
Alignment explanation
Indices: 24805--24886 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
24795 AAAAAAAAAA
24805 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
24824 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
24845 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
24865 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
24886 A
1 A
24887 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:24866 original size:41 final size:40
Alignment explanation
Indices: 24805--24886 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
24795 AAAAAAAAAA
* *
24805 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
24845 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
24886 A
1 A
24887 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:24946 original size:19 final size:19
Alignment explanation
Indices: 24922--24989 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
24912 AATTCAACGA
24922 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
24941 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
24956 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
24973 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
24990 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:24960 original size:32 final size:32
Alignment explanation
Indices: 24924--24986 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
24914 TTCAACGATT
*
24924 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
24956 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
24987 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:24961 original size:13 final size:13
Alignment explanation
Indices: 24943--24967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24933 ACATAAGTTT
24943 TGTATCGATACAA
1 TGTATCGATACAA
24956 TGTATCGATACA
1 TGTATCGATACA
24968 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25047 original size:13 final size:13
Alignment explanation
Indices: 25029--25054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25019 CATTTTTCTG
25029 TGTATCGATACAT
1 TGTATCGATACAT
25042 TGTATCGATACAT
1 TGTATCGATACAT
25055 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25051 original size:33 final size:33
Alignment explanation
Indices: 25009--25075 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
24999 GCCATGGAAA
***
25009 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
25042 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
25075 T
1 T
25076 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:27472 original size:51 final size:53
Alignment explanation
Indices: 27403--27744 Score: 196
Period size: 52 Copynumber: 6.5 Consensus size: 53
27393 AGTTTATCAA
* * * * *
27403 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
27454 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
27508 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
27566 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
27615 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
27668 TTCCTT--TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
27720 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
27745 CTCGTTATTT
Statistics
Matches: 224, Mismatches: 38, Indels: 57
0.70 0.12 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 35 0.16
52 79 0.35
53 32 0.14
54 33 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:27587 original size:28 final size:27
Alignment explanation
Indices: 27520--27588 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
27510 CTTCACAATC
**
27520 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
27547 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
27575 GGGGATACTCCAAC
1 GGGGATACTCCAAC
27589 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:27728 original size:104 final size:103
Alignment explanation
Indices: 27408--27743 Score: 288
Period size: 104 Copynumber: 3.2 Consensus size: 103
27398 ATCAATTCTC
* * * *
27408 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
27472 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** * *
27513 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * *
27575 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
27619 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
* *
27684 TACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
27724 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
27744 CCTCGTTATT
Statistics
Matches: 176, Mismatches: 39, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
103 6 0.03
104 43 0.24
105 35 0.20
106 19 0.11
107 38 0.22
108 7 0.04
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:27764 original size:28 final size:28
Alignment explanation
Indices: 27728--27804 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
27718 ATTTTTCACA
* * *
27728 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
27756 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
27784 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
27805 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:27773 original size:212 final size:212
Alignment explanation
Indices: 27406--27811 Score: 629
Period size: 212 Copynumber: 1.9 Consensus size: 212
27396 TTATCAATTC
* *
27406 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
27471 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
27536 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
27601 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
27618 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
27682 GATACTCCAACTCTGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
27745 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
27810 AT
193 AT
27812 TCCCAAAATA
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 111 0.63
213 34 0.19
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:41457 original size:55 final size:55
Alignment explanation
Indices: 41373--42270 Score: 1411
Period size: 55 Copynumber: 16.3 Consensus size: 55
41363 TCCGCTTTTT
*
41373 AGTCCTCGAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
41428 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
41483 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
41538 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
41593 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
41648 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
41703 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
41758 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
41813 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
41868 AGTCCTCAAAGAGCAGGACAGCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
41923 AGTCCCCAAAGAGCAGGACACCT-TTCCAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
41978 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
42033 AGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
42088 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
42143 ATTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
42198 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
42253 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
42271 TACAATTTAT
Statistics
Matches: 790, Mismatches: 38, Indels: 30
0.92 0.04 0.03
Matches are distributed among these distances:
54 20 0.03
55 752 0.95
56 18 0.02
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:41545 original size:29 final size:29
Alignment explanation
Indices: 41513--41600 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
41503 CCTCTTAAAG
41513 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
41542 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
41568 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
41597 CCCA
1 CCCA
41601 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:41710 original size:29 final size:29
Alignment explanation
Indices: 41678--41765 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
41668 CCTCTTAAAG
41678 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
41707 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
41733 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
41762 CCCA
1 CCCA
41766 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:42150 original size:29 final size:29
Alignment explanation
Indices: 42118--42198 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 29
42108 CCTCTTAAAG
**
42118 CCCACACAAGTTGGTGGCACCTTTCATTC
1 CCCACACAAGTTGGTGGCACCTTTCAAAC
** * *
42147 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAAAC
42173 CCCACACAAGTTGGTGGCACCTTTCA
1 CCCACACAAGTTGGTGGCACCTTTCA
42199 GTCCTCAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
26 14 0.37
27 5 0.13
28 5 0.13
29 14 0.37
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAAAC
Found at i:42168 original size:26 final size:26
Alignment explanation
Indices: 42135--42225 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 26
42125 AAGTTGGTGG
*
42135 CACCTTTCATTCCCCAAAGAGCAGGA
1 CACCTTTCAATCCCCAAAGAGCAGGA
* * **
42161 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC-AATCCC-CA-AAG-AGCAGGA
* *
42190 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAATCCCCAAAGAGCAGGA
42216 CACCTTTCAA
1 CACCTTTCAA
42226 AGCCCACACG
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.42
27 6 0.12
28 5 0.10
29 11 0.23
30 3 0.06
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (26 bp):
CACCTTTCAATCCCCAAAGAGCAGGA
Found at i:42927 original size:20 final size:20
Alignment explanation
Indices: 42876--42957 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 20
42866 AAAAAAAAAA
42876 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
*
42895 ATTTGTA-AAATGTATCGATAC
1 A-TT-CACAAATGTATCGATAC
42916 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
42936 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
42957 A
1 A
42958 GGGTCCCAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.04
20 22 0.39
21 32 0.57
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:42937 original size:41 final size:40
Alignment explanation
Indices: 42876--42957 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 40
42866 AAAAAAAAAA
*
42876 ATTCCAAATGTATCGATACATTTGTA-AAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
42916 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
42957 A
1 A
42958 GGGTCCCAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:43017 original size:19 final size:19
Alignment explanation
Indices: 42993--43060 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
42983 AATTCAACGA
42993 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
43012 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
43027 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
43044 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
43061 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:43031 original size:32 final size:32
Alignment explanation
Indices: 42995--43057 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
42985 TTCAACGATT
*
42995 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
43027 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
43058 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:43032 original size:13 final size:13
Alignment explanation
Indices: 43014--43038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43004 ACATAAGTTT
43014 TGTATCGATACAA
1 TGTATCGATACAA
43027 TGTATCGATACA
1 TGTATCGATACA
43039 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43140 original size:33 final size:33
Alignment explanation
Indices: 43080--43146 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
43070 GCCATGGAAA
***
43080 TGTATCGATACATTTTTCTGTGCATCGATACAT
1 TGTATCGATACATGGATCTGTGCATCGATACAT
* *
43113 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGCATCGATACAT
43146 T
1 T
43147 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGCATCGATACAT
Found at i:48665 original size:51 final size:53
Alignment explanation
Indices: 48604--48726 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 53
48594 AATTCTCCAC
* * * *
48604 AATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TT-TTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTC-AT
*
48655 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTCTTCAT
48709 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
48727 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
51 29 0.47
53 9 0.15
54 21 0.34
55 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (53 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCAT
Found at i:48780 original size:28 final size:27
Alignment explanation
Indices: 48713--48781 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
48703 CTTCATAATC
**
48713 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
48740 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
48768 GGGGATACTCCAAC
1 GGGGATACTCCAAC
48782 TCCGATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:49005 original size:1 final size:1
Alignment explanation
Indices: 48999--49039 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
48989 AAAGTGTTTG
***
48999 AAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49040 TTTAAATGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:49018 original size:17 final size:17
Alignment explanation
Indices: 48996--49029 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48986 GATAAAGTGT
48996 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
49013 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
49030 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
TTGAAAAAAAAAAAAAA
Found at i:49068 original size:21 final size:21
Alignment explanation
Indices: 49044--49100 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
49034 AAAAAATTTA
49044 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
49065 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
49086 AATGTATCGATACAT
1 AATGTATCGATACAT
49101 CCTCCAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:49179 original size:19 final size:19
Alignment explanation
Indices: 49155--49223 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
49145 AAATTCAACA
49155 TTTTGTATCGATACATAAG
1 TTTTGTATCGATACATAAG
49174 TTTTGTATCGATAC--AA-
1 TTTTGTATCGATACATAAG
49190 ---TGTATCGATACATAAG
1 TTTTGTATCGATACATAAG
*
49206 TATTGTATCGATACATAA
1 TTTTGTATCGATACATAA
49224 TTAGCTACTG
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.25
15 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (19 bp):
TTTTGTATCGATACATAAG
Found at i:49194 original size:32 final size:32
Alignment explanation
Indices: 49158--49220 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
49148 TTCAACATTT
*
49158 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
49190 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
49221 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:49195 original size:13 final size:13
Alignment explanation
Indices: 49177--49201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49167 ACATAAGTTT
49177 TGTATCGATACAA
1 TGTATCGATACAA
49190 TGTATCGATACA
1 TGTATCGATACA
49202 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49281 original size:13 final size:13
Alignment explanation
Indices: 49263--49288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49253 CATTTTTCTG
49263 TGTATCGATACAT
1 TGTATCGATACAT
49276 TGTATCGATACAT
1 TGTATCGATACAT
49289 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49285 original size:33 final size:33
Alignment explanation
Indices: 49243--49309 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49233 GCCAAGGAAA
***
49243 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
49276 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
49309 T
1 T
49310 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:51836 original size:52 final size:51
Alignment explanation
Indices: 51763--51932 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
51753 TTATTTTCGA
*
51763 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
51815 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
51867 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
51919 GAGGATACTCCAAC
1 GGGGATACTCCAAC
51933 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:51952 original size:28 final size:28
Alignment explanation
Indices: 51916--51992 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
51906 ATTTTTCACA
* * *
51916 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
51944 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
51972 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
51993 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:53175 original size:52 final size:52
Alignment explanation
Indices: 53100--53229 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 52
53090 ACACACTAAT
* * * *
53100 TTTTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA
1 TTTTCCATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA
* *
53151 TTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAA
1 TTTTCC-ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA
* *
53204 TTTTTCATAATCGAGGATACTCCAAC
1 TTTTCCATAATCGGGGATACTCCAAC
53230 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
51 6 0.09
52 45 0.67
53 16 0.24
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (52 bp):
TTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA
Found at i:53249 original size:28 final size:28
Alignment explanation
Indices: 53213--53289 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
53203 ATTTTTCATA
* * *
53213 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
53241 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
53269 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
53290 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:53357 original size:107 final size:107
Alignment explanation
Indices: 53164--53368 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
53154 TCCTTTAATC
* * *
53164 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCATAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
* *
53229 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGAGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
53272 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTTCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
*
53336 CCCCGTTATTT-TCGAAAGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--AGGATACTCCAACCCCG
53369 ATTTTTTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
105 3 0.04
107 57 0.70
108 21 0.26
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
CCCCGTTATTTATCGAGGATACTCCAACCCCGTTACTTCCGA
Found at i:55834 original size:32 final size:33
Alignment explanation
Indices: 55771--55838 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
55761 CGGTACAAGC
55771 CAATGTATCGATACATTTGGTCATGTATCGATA
1 CAATGTATCGATACATTTGGTCATGTATCGATA
*
55804 CAATGTATCGATATATCTT-GT-ATGTATCGATA
1 CAATGTATCGATACAT-TTGGTCATGTATCGATA
55836 CAA
1 CAA
55839 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATTTGGTCATGTATCGATA
Found at i:55981 original size:15 final size:15
Alignment explanation
Indices: 55936--55989 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
55926 CGATATTGTG
55936 CATTATGTATCGATA
1 CATTATGTATCGATA
55951 CATCTGAAGGTGTATCGATA
1 CAT-T--A--TGTATCGATA
55971 CATTATGTATCGATA
1 CATTATGTATCGATA
55986 CATT
1 CATT
55990 TGAGGGCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 17 0.50
16 1 0.03
17 1 0.03
18 1 0.03
19 1 0.03
20 13 0.38
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (15 bp):
CATTATGTATCGATA
Found at i:56359 original size:13 final size:13
Alignment explanation
Indices: 56341--56379 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
56331 TCACGATTCA
56341 TGTATCGATACAT
1 TGTATCGATACAT
*
56354 TGTATCGATACAG
1 TGTATCGATACAT
56367 TGTATCGATACAT
1 TGTATCGATACAT
56380 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:58036 original size:21 final size:21
Alignment explanation
Indices: 58010--58051 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58000 AATCAACCGT
*
58010 TCAAGATGATGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
*
58031 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
58052 AGAAATGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:60128 original size:13 final size:13
Alignment explanation
Indices: 60110--60134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60100 TTTTCCAGAT
60110 TGTATCGATACAA
1 TGTATCGATACAA
60123 TGTATCGATACA
1 TGTATCGATACA
60135 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61970 original size:53 final size:53
Alignment explanation
Indices: 61887--62023 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
61877 AGATTGCATA
*
61887 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
61941 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
* *
61994 GTATCGATACACAAAATATGTATCCATACA
1 GTATCGATACACACAATATGTATCGATACA
62024 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:62188 original size:13 final size:13
Alignment explanation
Indices: 62170--62194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62160 TCACTATTCA
62170 TGTATCGATACAG
1 TGTATCGATACAG
62183 TGTATCGATACA
1 TGTATCGATACA
62195 TCATAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:62308 original size:20 final size:20
Alignment explanation
Indices: 62266--62309 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
62256 TTCAAATGCA
* *
62266 TGTATCGATACATTATAATT
1 TGTATCGATACATTAGAACT
* *
62286 TGTATCGATACATTGGAGCT
1 TGTATCGATACATTAGAACT
62306 TGTA
1 TGTA
62310 AGTGCGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTAGAACT
Found at i:66306 original size:16 final size:16
Alignment explanation
Indices: 66285--66316 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
66275 TGTTGCTAAC
66285 TAATTACAATTAGCGG
1 TAATTACAATTAGCGG
66301 TAATTACAATTAGCGG
1 TAATTACAATTAGCGG
66317 CACACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
TAATTACAATTAGCGG
Found at i:66683 original size:15 final size:17
Alignment explanation
Indices: 66665--66706 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
66655 AAATTTTATT
66665 TTATGAAATTA-GT-GA
1 TTATGAAATTAGGTAGA
66680 TTATGAAATTAGGTAGA
1 TTATGAAATTAGGTAGA
*
66697 TTGTGAAATT
1 TTATGAAATT
66707 GGGCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 2 0.08
17 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (17 bp):
TTATGAAATTAGGTAGA
Found at i:67291 original size:12 final size:10
Alignment explanation
Indices: 67274--67365 Score: 63
Period size: 10 Copynumber: 9.5 Consensus size: 10
67264 AAAGTATTTA
67274 AAGAAGCAAGAG
1 AAGAAG-AA-AG
67286 AAGAAGAAAG
1 AAGAAGAAAG
*
67296 AAGAAGAAAC
1 AAGAAGAAAG
*
67306 AGGAA-AAA-
1 AAGAAGAAAG
*
67314 AA-AA-AGAG
1 AAGAAGAAAG
67322 AAGAAGACAA-
1 AAGAAGA-AAG
*
67332 AAGAAGATATG
1 AAGAAGA-AAG
67343 AAGAAG-AAG
1 AAGAAGAAAG
67352 -AGAAGAAAG
1 AAGAAGAAAG
67361 AAGAA
1 AAGAA
67366 AATATAAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.06
8 8 0.12
9 10 0.15
10 28 0.43
11 9 0.14
12 6 0.09
ACGTcount: A:0.67, C:0.03, G:0.27, T:0.02
Consensus pattern (10 bp):
AAGAAGAAAG
Found at i:67292 original size:3 final size:3
Alignment explanation
Indices: 67274--67365 Score: 50
Period size: 3 Copynumber: 29.7 Consensus size: 3
67264 AAAGTATTTA
* *
67274 AAG AAG CAAG -AG AAG AAG AAAG AAG AAG AA- ACAGG AA- AAA AAA AAG
1 AAG AAG -AAG AAG AAG AAG -AAG AAG AAG AAG A-A-G AAG AAG AAG AAG
*
67320 -AG AAG AAG ACAA AAG AAG ATATG AAG AAG AAG -AG AAG AAAG AAG AA
1 AAG AAG AAG A-AG AAG AAG A-A-G AAG AAG AAG AAG AAG -AAG AAG AA
67366 AATATAAGCA
Statistics
Matches: 73, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
2 9 0.12
3 47 0.64
4 14 0.19
5 3 0.04
ACGTcount: A:0.67, C:0.03, G:0.27, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:68285 original size:13 final size:13
Alignment explanation
Indices: 68266--68304 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
68256 ACTATTTATG
68266 ATGTATCGATACA
1 ATGTATCGATACA
*
68279 CTGTATCGATACA
1 ATGTATCGATACA
68292 ATGTATCGATACA
1 ATGTATCGATACA
68305 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:68515 original size:53 final size:53
Alignment explanation
Indices: 68451--68587 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
68441 CTACTACCAA
*
68451 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* *
68504 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
68557 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
68588 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:68623 original size:21 final size:20
Alignment explanation
Indices: 68575--68629 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
68565 TACATATTTG
**
68575 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
68595 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
*
68616 TGTGTATCAATACT
1 TGTGTATCGATACT
68630 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:68694 original size:21 final size:21
Alignment explanation
Indices: 68668--68708 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68658 GTCAACCTTG
68668 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
68689 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
68709 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:73945 original size:11 final size:11
Alignment explanation
Indices: 73929--73972 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
73919 AGGTTCAACT
73929 AAAAAAAAGAA
1 AAAAAAAAGAA
73940 AAAAAAAAGAGA
1 AAAAAAAAGA-A
*
73952 AAAAAAAAGAG
1 AAAAAAAAGAA
*
73963 AAAGAAAAGA
1 AAAAAAAAGA
73973 GAGAAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:73946 original size:12 final size:12
Alignment explanation
Indices: 73929--74000 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 12
73919 AGGTTCAACT
73929 AAAAAAAAGAAA
1 AAAAAAAAGAAA
73941 AAAAAAAGAGAAA
1 AAAAAAA-AGAAA
*
73954 AAAAAAGAGAAA
1 AAAAAAAAGAAA
* *
73966 GAAAAGAGAGAAGA
1 -AAAAAAAAGAA-A
* *
73980 AATAGAAAGAAA
1 AAAAAAAAGAAA
73992 GAAAAAAAA
1 -AAAAAAAA
74001 CAAGGCTAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
12 13 0.26
13 36 0.72
14 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:73973 original size:11 final size:11
Alignment explanation
Indices: 73933--73991 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
73923 TCAACTAAAA
* *
73933 AAAAGAAAAAA
1 AAAAGAGAAAG
*
73944 AAAAGAGAAAAA
1 AAAAGAG-AAAG
73956 AAAAGAGAAAG
1 AAAAGAGAAAG
73967 AAAAGAGAGAAG
1 AAAAGAGA-AAG
*
73979 -AAATAGAAAG
1 AAAAGAGAAAG
73989 AAA
1 AAA
73992 GAAAAAAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.07
11 25 0.60
12 14 0.33
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:80970 original size:20 final size:20
Alignment explanation
Indices: 80945--81089 Score: 110
Period size: 20 Copynumber: 6.7 Consensus size: 20
80935 TTTTAACTAG
80945 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
80965 ATGTATCGATACATCCGGGTAAAA
1 ATGTATCGATACAT---TG-AAAA
*
80989 TGATAGAATGTATCGATACATTGAAGA
1 --AT-G--T--ATCGATACATTGAAAA
*
81016 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
81036 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
81056 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
*
81076 ATGCATCGATACAT
1 ATGTATCGATACAT
81090 CTGGGTACTT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
20 73 0.73
22 1 0.01
23 1 0.01
24 5 0.05
25 2 0.02
26 2 0.02
27 4 0.04
28 1 0.01
29 1 0.01
31 10 0.10
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:81048 original size:40 final size:40
Alignment explanation
Indices: 80993--81089 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
80983 GTAAAATGAT
*
80993 AGAATGTATCGATACATTGA-AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTCATA-AATGTATCGATACATTGA
* *
81033 AGAATGTATCAATACATTCATACATGTATCGATACATTGA
1 AGAATGTATCGATACATTCATAAATGTATCGATACATTGA
*
81073 AGAATGCATCGATACAT
1 AGAATGTATCGATACAT
81090 CTGGGTACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 50 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (40 bp):
AGAATGTATCGATACATTCATAAATGTATCGATACATTGA
Found at i:84413 original size:32 final size:32
Alignment explanation
Indices: 84351--84416 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
84341 AAAAGCACAA
**
84351 AAAATGAAAAGAAAAACAAAAAGTGCAAAAAC
1 AAAATGAAAAGAAAAACAAAAAGTAAAAAAAC
84383 AAAAT-AAAAGAGAACAACAAAAA-TAAAAAAAC
1 AAAATGAAAAGA-AA-AACAAAAAGTAAAAAAAC
84415 AA
1 AA
84417 GGACATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 16 0.53
33 8 0.27
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.06
Consensus pattern (32 bp):
AAAATGAAAAGAAAAACAAAAAGTAAAAAAAC
Found at i:85896 original size:28 final size:28
Alignment explanation
Indices: 85736--86774 Score: 873
Period size: 27 Copynumber: 37.6 Consensus size: 28
85726 CAGTGGCATT
* * *
85736 CCTTTTAAAGTCCACAAGTTCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
85764 CCTTTT-AAGTCCACAACTCTGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
85791 CCTTTT-AAGTCCACAAGTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
85818 CCTTTT-AAGTCCACAACTCCATGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
85845 CCTTTT-AAGTCCACAAGTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
85872 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
85900 CCTTTTAAAGTCCACAACTCCATGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
85928 CCTTTT-AAGTCCACAACTTCATAGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
85955 CCTTTT-AAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
85982 CCTTTT-AAGTCCACAAGTTCGCGACAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
86009 CCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86037 CCTTTTAAAGTCCACAACTCTGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * **
86064 CCTTTTTAAGTCCACAAATTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86092 CCTTTT-AAGTCCACAACTCCGTGGAAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* ** *
86119 CCTTTT-AAGTCCACAATTCTATGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
86146 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86173 CTTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
**
86201 CCTTTT-AAGTCCACAACTTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86228 CCTTTT-AAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
**
86255 CCTTTTAAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86283 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
86311 CCTTTT-AAGTCCACAACT-CGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
86337 CTTTTTAAA-TCCATAACTCCGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
86363 TCTTTTAAAGTCCACAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86391 CCTTTT-AAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
86418 CC-TTTCATGACCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
86445 TCTTTT-AAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
** ** * **
86472 CCTTCCAAAACCCACAAGTTAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
86499 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * *
86528 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
86556 CCTTTCATAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
86584 CCTTTCATAGCCCACAAGTCAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * **
86611 TCTTTTCAAAAGCCCACAAGTTAGTGGCATC
1 CCTTTT--AAAGTCCACAACTCCGTGGCA-C
** * * * *
86642 TTTTTTCTCAAAGCCCATAAGTCAGTGGCAC
1 -CCTTT-T-AAAGTCCACAACTCCGTGGCAC
* **
86673 CCTTTCAAAGTCCACAACTTAGTGGCATC
1 CCTTTTAAAGTCCACAACTCCGTGGCA-C
* * *
86702 CATTTT-AAGTCCACAACTCCATAGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * **
86729 CCTTTCAAAGCCCACAAGTCAATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
86757 CCTTCTCTAAAGCCCACA
1 CCTT-T-TAAAGTCCACA
86775 CAAGTCGGTG
Statistics
Matches: 870, Mismatches: 117, Indels: 46
0.84 0.11 0.04
Matches are distributed among these distances:
26 31 0.04
27 413 0.47
28 359 0.41
29 29 0.03
30 13 0.01
31 1 0.00
32 23 0.03
33 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:85985 original size:164 final size:164
Alignment explanation
Indices: 85728--86588 Score: 957
Period size: 164 Copynumber: 5.2 Consensus size: 164
85718 CCATGATTCA
* * *
85728 GTGGCATTCCTTTTAAAGTCCACAAGTTCGTGGCATCCTTTTAAGTCCACAAC-TCTGTGGTACC
1 GTGGCA-TCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC-GTGGCACC
* *
85792 CTTTTAAGTCCACAAGTCTGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC-TTTT-AAGT
63 CTTTTAAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAAGT
* * *
85855 CCACAAGTCTGTGGCACCCTTTTAAAGTCCACAACTCC
127 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
* * *
85893 GTGGCATCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTTCATAGCACCCT
1 GTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCT
* * * * *
85958 TTTAAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAAGTTCGCGACACCCTTTTAAAGTCCA
65 TTTAAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCA
* *
86023 CAACTCTGTGACACCCTTTTAAAGTCCACAACTCT
130 CAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
* ** * * *
86058 GTGGCA-CCTTTTTAAGTCCACAAATTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGAACCCT
1 GTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCT
* **
86122 TTTAAGTCCACAATTCTATGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCA
65 TTTAAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCA
*
86187 CAACTCCGTGGCACCCTTTT-AAGTCCACAACTTT
130 CAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
* * * *
86221 GTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTTGTGGCACCCT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTTCGTGGCACCCT
* * *
86286 TTTAAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACT-CGTGGCACCTTTTTAAA-TCC
65 TTT-AAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCC
* *
86349 ATAACTCCGTGGCA-TCTTTTAAAGTCCACAACTCT
129 ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
* * * * **
86384 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTCATGACCACAACTCCGTGGCATTCTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCTT
* * * ** ** * ** *
86449 TTAAGCCCACAAGTCAGTGGCACCCTTCCAAAACCCACAAGTTAGTGGCA-CTTTTTCAAAGCCC
66 TTAAGTCCACAAGTCCGTGGCATCCTT-TTAAGTCCACAACTCCGTGGCACCTTTTT-AAAGTCC
* * * * * * *
86513 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
129 ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
* * * * * *
86549 GTGGCACCCTTTCATAGCCCACAAGTCAGTGGCACCCTTT
1 GTGGCATCCTTTTA-AGTCCACAACTCCGTGGCATCCTTT
86589 CATAGCCCAC
Statistics
Matches: 599, Mismatches: 83, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
161 21 0.04
162 41 0.07
163 124 0.21
164 273 0.46
165 119 0.20
166 21 0.04
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (164 bp):
GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCTT
TTAAGTCCACAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCAC
AACTCCGTGGCACCCTTTTAAAGTCCACAACTCT
Found at i:86551 original size:84 final size:83
Alignment explanation
Indices: 85742--86774 Score: 454
Period size: 82 Copynumber: 12.5 Consensus size: 83
85732 CATTCCTTTT
* * * * * * * * *
85742 AAAGTCCACAAGTTC-GTGGCATCCTTT-TAAGTCCACAACTCTGTGGTACCCTTTTAAGTCCAC
1 AAAGCCCACAAG-TCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCAC
* * *
85805 AAGTCTGTGGCATCCTT-T
65 AAGTCAGTGGCACCCTTCC
* * * * * * * * * *
85823 TAAGTCCACAACTCCA-TGGCATCCTTT-TAAGTCCACAAGTCTGTGGCACCCTTTTAAAGTCCA
1 AAAGCCCACAAGT-CAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCC-TTTAAAGCCCA
* * * **
85886 CAACTCCGTGGCATCCTTTT
64 CAAGTCAGTGGCACCCTTCC
* * * * * * * * *
85906 AAAGTCCACAACTCCA-TGGCATCCTTT-TAAGTCCACAACTTCA-TAGCACCCTTTTAAGTCCA
1 AAAGCCCACAAGT-CAGTGGCACCCTTTCAAAGCCCACAAC-TCAGTGGCATCCTTTAAAGCCCA
* * *
85968 CAAGTCCGTGGCATCCTT-T
64 CAAGTCAGTGGCACCCTTCC
* * * * * * * * * *
85987 TAAGTCCACAAGTTC-GCGACACCCTTTTAAAGTCCACAACTCTGTGACACCCTTTTAAAGTCCA
1 AAAGCCCACAAG-TCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCC-TTTAAAGCCCA
* * **
86051 CAACTCTGTGGCA-CCTTTT
64 CAAGTCAGTGGCACCCTTCC
* * * ** * * * * * * *
86070 TAAGTCCACAAATTTGTGGCACCCTTT-TAAGTCCACAACTCCGTGGAACCCTTTTAAGTCCACA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCACA
* * *
86134 ATTCTA-TGGCATCCTT-T
66 AGTC-AGTGGCACCCTTCC
* * * * * * * * * * *
86151 TAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCACA
* ** *
86216 ACTTTGTGGCACCCTT-T
66 AGTCAGTGGCACCCTTCC
* * * * * * ** * *
86233 TAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCC-TTTAAAGCCCAC
* *
86298 AACTTC-GTGGCACCCTT-T
65 AA-GTCAGTGGCACCCTTCC
* * * * * * * * * *
86316 TAAGTCCACAACTC-GTGGCACCTTTTTAAA-TCCATAACTCCGTGGCATCTTTTAAAGTCCACA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCACA
* * * *
86379 ACTCTGTGGCATCCTT-T
66 AGTCAGTGGCACCCTTCC
* * * * * * * * * *
86396 TAAGTCCACAACTCCGTGGCATCCTTTC-ATGACCACAACTCCGTGGCATTCTTTTAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCACA
86460 AGTCAGTGGCACCCTTCC
66 AGTCAGTGGCACCCTTCC
* * ** *
86478 AAAACCCACAAGTTAGTGGCACTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTT-AAAGCCCAC
*
86543 AAGTCAGTGGCACCCTTTC
65 AAGTCAGTGGCACCCTTCC
* * * *
86562 ATAGCCCACAAGTCAGTGGCACCCTTTCATAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTT--AAAGCCCA
* **
86627 CAAGTTAGTGGCATCTTTTTTCTC
64 CAAGTCAGTGGCA-C--CCTTC-C
* * * * *
86651 AAAGCCCATAAGTCAGTGGCACCCTTTCAAAGTCCACAACTTAGTGGCATCCATTTTAAGTCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCC-TTTAAAGCCCAC
* * *
86716 AACTCCA-TAGCACCCTTTC
65 AAGT-CAGTGGCACCCTTCC
*
86735 AAAGCCCACAAGTCAATGGCACCCTTCTCTAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCACCCTT-TC-AAAGCCCACA
86775 CAAGTCGGTG
Statistics
Matches: 798, Mismatches: 121, Indels: 61
0.81 0.12 0.06
Matches are distributed among these distances:
79 2 0.00
80 41 0.05
81 175 0.22
82 229 0.29
83 148 0.19
84 102 0.13
85 24 0.03
86 10 0.01
87 1 0.00
88 16 0.02
89 47 0.06
90 3 0.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (83 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCCTTTAAAGCCCACA
AGTCAGTGGCACCCTTCC
Found at i:86787 original size:32 final size:32
Alignment explanation
Indices: 86725--86843 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
86715 CAACTCCATA
*
86725 GCACCCTT-TC-AAAG-CC-CACAAGTCAATG
1 GCACCCTTCTCTAAAGCCCACACAAGTCGATG
*
86753 GCACCCTTCTCTAAAGCCCACACAAGTCGGTG
1 GCACCCTTCTCTAAAGCCCACACAAGTCGATG
* * *
86785 GCAACCC-TCTCCAAAGTCCACACAAGTCGCTG
1 GC-ACCCTTCTCTAAAGCCCACACAAGTCGATG
* *
86817 GCAACCTCCT-TCAAAGCCCACACAAGT
1 GCACCCTTCTCT-AAAGCCCACACAAGT
86844 TTGTGGCATT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
28 8 0.11
29 2 0.03
30 4 0.05
31 5 0.07
32 52 0.69
33 4 0.05
ACGTcount: A:0.29, C:0.39, G:0.15, T:0.17
Consensus pattern (32 bp):
GCACCCTTCTCTAAAGCCCACACAAGTCGATG
Found at i:87986 original size:9 final size:9
Alignment explanation
Indices: 87972--88037 Score: 53
Period size: 9 Copynumber: 6.7 Consensus size: 9
87962 AGAAAGGTTT
87972 AAAAAAAGA
1 AAAAAAAGA
87981 AAAAAAGAGA
1 AAAAAA-AGA
87991 AAAAAAAGA
1 AAAAAAAGA
88000 GAAAGAAAAGA
1 -AAA-AAAAGA
88011 GAGAAGAAATAG-
1 -A-AA-AAA-AGA
*
88023 AAACAAAGA
1 AAAAAAAGA
88032 AAAAAA
1 AAAAAA
88038 TAAGGCTAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
8 2 0.04
9 16 0.33
10 14 0.29
11 9 0.18
12 6 0.12
13 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:87994 original size:11 final size:11
Alignment explanation
Indices: 87972--88012 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
87962 AGAAAGGTTT
87972 AAAAAA-AG-A
1 AAAAAAGAGAA
87981 AAAAAAGAGAA
1 AAAAAAGAGAA
87992 AAAAAAGAGAA
1 AAAAAAGAGAA
*
88003 AGAAAAGAGA
1 AAAAAAGAGA
88013 GAAGAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 21 0.72
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:91314 original size:14 final size:14
Alignment explanation
Indices: 91271--91314 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
91261 CGTATTAAAG
*
91271 AATTCTTAAAATAA
1 AATTCTTAAAAGAA
* *
91285 AATTATCAAAAG-A
1 AATTCTTAAAAGAA
91298 AATTCTTAAAAGAA
1 AATTCTTAAAAGAA
91312 AAT
1 AAT
91315 AAAATTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (14 bp):
AATTCTTAAAAGAA
Found at i:92196 original size:2 final size:2
Alignment explanation
Indices: 92189--92226 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
92179 TTTAAAACCA
92189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92227 GTCAATCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92797 original size:14 final size:14
Alignment explanation
Indices: 92778--92806 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92768 TACTATTCCC
92778 AACTATATTATTTT
1 AACTATATTATTTT
92792 AACTATATTATTTT
1 AACTATATTATTTT
92806 A
1 A
92807 GTATTCTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AACTATATTATTTT
Found at i:93344 original size:20 final size:21
Alignment explanation
Indices: 93319--93363 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
93309 TCACTTGTCA
*
93319 TTTTAAATTATTATT-T-TATT
1 TTTTAAAATATT-TTATATATT
93339 TTTTAAAATATTTTATATATT
1 TTTTAAAATATTTTATATATT
93360 TTTT
1 TTTT
93364 TATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTAAAATATTTTATATATT
Found at i:93481 original size:17 final size:19
Alignment explanation
Indices: 93451--93493 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
93441 GTATATATTT
*
93451 ATATAATATATATAAGTAA
1 ATATAATATATATAAATAA
93470 ATATAAT-T-TATAAATAA
1 ATATAATATATATAAATAA
93487 ATTATAA
1 A-TATAA
93494 GATTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATAATATATATAAATAA
Found at i:94482 original size:15 final size:15
Alignment explanation
Indices: 94447--94501 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 15
94437 ACAGTAAAAA
94447 AATATTTTTAAATTT
1 AATATTTTTAAATTT
** *
94462 TTTATTATTAAATTT
1 AATATTTTTAAATTT
*
94477 AATA-TTTTAATTTT
1 AATATTTTTAAATTT
94491 AA-ATTTTTAAA
1 AATATTTTTAAA
94502 ATATTAATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
13 1 0.03
14 16 0.52
15 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTTTAAATTT
Found at i:94496 original size:13 final size:14
Alignment explanation
Indices: 94447--94497 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
94437 ACAGTAAAAA
94447 AATATTTTTAAATTT
1 AATA-TTTTAAATTT
**
94462 TTTATTATTAAATTT
1 AATATT-TTAAATTT
*
94477 AATATTTTAATTTT
1 AATATTTTAAATTT
94491 AA-ATTTT
1 AATATTTT
94498 TAAAATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.17
14 11 0.37
15 14 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATATTTTAAATTT
Found at i:95282 original size:24 final size:25
Alignment explanation
Indices: 95235--95298 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
95225 ATAAAAATTA
*
95235 AATATTATTTTTATATTTATATTTT
1 AATATTATTTTTATATATATATTTT
*
95260 AATA-TATTTTTATATA-ATAATTTA
1 AATATTATTTTTATATATAT-ATTTT
*
95284 AAAATTAATTTTTAT
1 AATATT-ATTTTTAT
95299 TATTAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 18 0.55
25 5 0.15
26 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AATATTATTTTTATATATATATTTT
Found at i:95314 original size:32 final size:34
Alignment explanation
Indices: 95264--95328 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
95254 TATTTTAATA
* *
95264 TATTTTTATATAATAA-TTTAA-AAATTAATTTT
1 TATTATTAAATAATAATTTTAATAAATTAATTTT
95296 TATTATTAAATAATAATTTTAATTAAATTAATT
1 TATTATTAAATAATAATTTTAA-TAAATTAATT
95329 AAAAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 5 0.18
35 9 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TATTATTAAATAATAATTTTAATAAATTAATTTT
Found at i:100258 original size:21 final size:20
Alignment explanation
Indices: 100232--100303 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
100222 CCACTCATCA
100232 TTTTTTTTACTTTTTATTATT
1 TTTTTTTTA-TTTTTATTATT
*
100253 TTTTTTTGTATTTTT-TGTCTCT
1 TTTTTTT-TATTTTTAT-TAT-T
* *
100275 CTTTTTGTA-TTTTATTATT
1 TTTTTTTTATTTTTATTATT
100294 ATTTTTTTTA
1 -TTTTTTTTA
100304 AAAAAATGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
19 1 0.03
20 14 0.35
21 17 0.43
22 8 0.20
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTATT
Found at i:102570 original size:2 final size:2
Alignment explanation
Indices: 102563--102600 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
102553 AAGAGCTAGA
*
102563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102601 CTCAATTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:105209 original size:21 final size:21
Alignment explanation
Indices: 105163--105210 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
105153 ATTAGTATTT
* *
105163 TTTTATCATTTATTATTTTTA
1 TTTTATCATGTATTATTTATA
*
105184 ATTTATCA-GTATTATTTAATA
1 TTTTATCATGTATTATTT-ATA
105205 TTTTAT
1 TTTTAT
105211 TTAAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATCATGTATTATTTATA
Found at i:110960 original size:11 final size:12
Alignment explanation
Indices: 110913--110967 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
110903 TTATTTAAAA
*
110913 ATTTATTTTATT
1 ATTTATATTATT
*
110925 ATTTATAATATT
1 ATTTATATTATT
*
110937 ATTAAAATATTATT
1 ATT--TATATTATT
110951 ATTTAT-TTATT
1 ATTTATATTATT
110962 -TTTATA
1 ATTTATA
110968 ATTAAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 15 0.43
14 10 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:112122 original size:217 final size:217
Alignment explanation
Indices: 111500--112366 Score: 1189
Period size: 218 Copynumber: 4.1 Consensus size: 217
111490 TATATTAGAC
* * * *
111500 ACTAGATGATCCTAGTAAAT-AGATTTT-TTTT-T-AATTTGGATTTTATTTTTTATAAGGTATA
1 ACTAGATAATCCTAATAAATAAG-TTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTATA
* * *
111561 TATATTTTAAAAATAAAATTATTAATATATGATAAGTAAATGTAAGGAAGCGTCTTCATAAAATT
65 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAGGAAACGTCTTCATAAAATT
* * * *
111626 ATTTAAGAAAAAGATTTAAATTATTCAAACAAAATCTAAAAAATAATCTTACACATATATTTTTT
130 ATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACATATATTTTTT
* * *
111691 ATAAGATTTAAGTTACATCAAAC
195 ATAAGATTTAAGTTATATCATAT
* *
111714 ACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTGTTTATAAGGTAGA
1 ACTAGATAATCCTAATAAATA-AGTTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTATA
111779 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTCAA-GAAACGTCTTCATAAAAT
65 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGT-AAGGAAACGTCTTCATAAAAT
*
111843 TATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACATATATTTTT
129 TATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACATATATTTTT
111908 TATAAGATTTAAGTTATATCATAT
194 TATAAGATTTAAGTTATATCATAT
* *
111932 ACTAGATAATCCTAATAAATAATGTTTTCTTTTCTCAATTTGGGTTTAATTTTTTATAAGGCATA
1 ACTAGATAATCCTAATAAATAA-GTTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTATA
* *
111997 TATATTTCAAAAAT-AAATTATTAATATATGATAAATGAATGTAAGGAAATGTCTTCATAAAATT
65 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAGGAAACGTCTTCATAAAATT
* *
112061 ATATGAGAAAAAGATTCAAGTTATTCAAACAAAATTTAAAAAATAATCTTAAACATATATTTTTT
130 ATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACATATATTTTTT
112126 ATAAGATTTAAGTTATATCATAT
195 ATAAGATTTAAGTTATATCATAT
* * * *
112149 ACTAGATAATTCTAGTAAGTAAGGTTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTACA
1 ACTAGATAATCCTAATAAATAA-GTTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTATA
* *
112214 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAA--T-A--TAA-------A-AAAAGT
65 TATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAGGAAACGTCTTCATAAAATT
* * * *
112266 CT-TGAGAAAAATATTTAAGTTATTCAAATAAAATCTAAAAAATAATCTTAAATATATATATATT
130 ATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTT-AA-ACATATAT-TT
* *
112330 TTTATAAAATTTAAGTTATATCAGAT
192 TTTATAAGATTTAAGTTATATCATAT
* *
112356 ATTAGAGAATC
1 ACTAGATAATC
112367 ATTTTAGAGA
Statistics
Matches: 594, Mismatches: 47, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
204 43 0.07
205 8 0.01
206 8 0.01
207 34 0.06
213 2 0.00
214 18 0.03
215 5 0.01
216 9 0.02
217 204 0.34
218 261 0.44
219 2 0.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (217 bp):
ACTAGATAATCCTAATAAATAAGTTTTCTTTTCTCAATTTGGGTTTGATTTTTTATAAGGTATAT
ATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAGGAAACGTCTTCATAAAATTA
TATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACATATATTTTTTA
TAAGATTTAAGTTATATCATAT
Found at i:114256 original size:17 final size:18
Alignment explanation
Indices: 114221--114260 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
114211 AAGATACTTT
* *
114221 ATTAATATTTTTGATAAA
1 ATTAAAATTTTTGAGAAA
114239 ATTAAAATTTTT-AGAAA
1 ATTAAAATTTTTGAGAAA
114256 ATTAA
1 ATTAA
114261 GGTAATGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTGAGAAA
Found at i:115481 original size:21 final size:21
Alignment explanation
Indices: 115457--115497 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
115447 TCTATCTAAT
*
115457 AAGTTCATCC-TTACATCCAAC
1 AAGTGCATCCATTA-ATCCAAC
115478 AAGTGCATCCATTAATCCAA
1 AAGTGCATCCATTAATCCAA
115498 ATAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (21 bp):
AAGTGCATCCATTAATCCAAC
Found at i:117063 original size:13 final size:13
Alignment explanation
Indices: 117045--117070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117035 ACATTTGGTC
117045 ATGTATCGATACA
1 ATGTATCGATACA
117058 ATGTATCGATACA
1 ATGTATCGATACA
117071 TCTTGTATGT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:117065 original size:33 final size:32
Alignment explanation
Indices: 117023--117090 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
117013 CGTTACAAGC
*
117023 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCAATA
117056 CAATGTATCGATACATCTTGTATGTATCAATA
1 CAATGTATCGATACATCTTGTATGTATCAATA
117088 CAA
1 CAA
117091 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCAATA
Found at i:117937 original size:16 final size:16
Alignment explanation
Indices: 117901--117938 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
117891 TGTTGCTAAC
*
117901 TAATTACAATTAGTGG
1 TAATTACAATTAGTCG
117917 TAATTACAATTAG-CG
1 TAATTACAATTAGTCG
117932 TCAATTA
1 T-AATTA
117939 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (16 bp):
TAATTACAATTAGTCG
Found at i:118277 original size:2 final size:2
Alignment explanation
Indices: 118272--118314 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
118262 TTTTTCTACA
118272 TC TC TC TC 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 TC TC TC TC
118314 T
1 T
118315 ATGGCTTGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:124469 original size:34 final size:35
Alignment explanation
Indices: 124431--124497 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
124421 CTTTACAACA
124431 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
124465 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
124498 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:125401 original size:11 final size:11
Alignment explanation
Indices: 125385--125455 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
125375 AGGTTCAACT
125385 AAAAAAAAGAA
1 AAAAAAAAGAA
*
125396 AAAAAAGAGAA
1 AAAAAAAAGAA
*
125407 AAAAAAAAGAG
1 AAAAAAAAGAA
* *
125418 AAAGAAAAGAG
1 AAAAAAAAGAA
* * *
125429 AGAAGAAA-TA
1 AAAAAAAAGAA
*
125439 AAAACAAAGAA
1 AAAAAAAAGAA
125450 AAAAAA
1 AAAAAA
125456 TAAGGCTAGC
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
10 6 0.13
11 40 0.87
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.01
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:125410 original size:13 final size:13
Alignment explanation
Indices: 125394--125455 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
125384 TAAAAAAAAG
125394 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
125407 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
*
125420 AGAAAAGAGAGAAGAA
1 A-AAAA-AAAG-AGAA
125436 ATAAAAACAA-AGAA
1 A-AAAAA-AAGAGAA
125450 AAAAAA
1 AAAAAA
125456 TAAGGCTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 19 0.45
14 9 0.21
15 4 0.10
16 10 0.24
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:125419 original size:24 final size:23
Alignment explanation
Indices: 125385--125452 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 23
125375 AGGTTCAACT
125385 AAAAAAAAGAAAAAAAAGAGAAA
1 AAAAAAAAGAAAAAAAAGAGAAA
125408 AAAAAAAGAGAAAGAAAAGAGAGAAGA
1 AAAAAAA-AGAAA-AAAA-AGAGAA-A
* *
125435 AATAAAAACAAAGAAAAA
1 AAAAAAAAGAAA-AAAAA
125453 AAATAAGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.18
24 5 0.13
25 5 0.13
26 15 0.38
27 7 0.18
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAAGAGAAA
Found at i:132048 original size:13 final size:13
Alignment explanation
Indices: 132030--132057 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
132020 TCTGGAAATT
132030 CAATGTATCGATA
1 CAATGTATCGATA
132043 CAATGTATCGATA
1 CAATGTATCGATA
132056 CA
1 CA
132058 GGGGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:132221 original size:20 final size:20
Alignment explanation
Indices: 132178--132223 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
132168 AAATCTTTTG
132178 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
132199 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
132219 CAAAA
1 CAAAA
132224 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:134652 original size:20 final size:20
Alignment explanation
Indices: 134607--134658 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
134597 GTAGCCAAAC
* **
134607 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
134627 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
134646 TTGTATCGATACA
1 TTGTATCGATACA
134659 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:135448 original size:13 final size:13
Alignment explanation
Indices: 135430--135455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
135420 TACACACAAG
135430 ATGTATCGATACA
1 ATGTATCGATACA
135443 ATGTATCGATACA
1 ATGTATCGATACA
135456 TCCCAAAATG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.