Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 10
Found at i:4831 original size:15 final size:16
Alignment explanation
Indices: 4813--4848 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4803 AAAAAAGAAA
4813 AAAAAACAAAA-AAAC
1 AAAAAACAAAACAAAC
*
4828 AAAAAACAAAACAAAG
1 AAAAAACAAAACAAAC
4844 AAAAA
1 AAAAA
4849 GGAGAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAACAAAC
Found at i:5923 original size:55 final size:54
Alignment explanation
Indices: 5828--6557 Score: 1025
Period size: 55 Copynumber: 13.4 Consensus size: 54
5818 CTCCTTCCGC
* *
5828 TTTTTAGTCTTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
5882 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
5937 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
5992 TTTTCCAGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
6047 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
6102 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
6157 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCCCACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
6212 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
6267 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
6322 CCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
6377 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG--
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
6430 ----CA-TCCTCAAAGGGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
6479 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
6534 CTTTTTACTCCTCAATGAGCAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
6558 TACACTTTAT
Statistics
Matches: 621, Mismatches: 34, Indels: 40
0.89 0.05 0.06
Matches are distributed among these distances:
47 41 0.07
48 4 0.01
54 19 0.03
55 547 0.88
56 10 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:5939 original size:29 final size:29
Alignment explanation
Indices: 5851--5939 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
5841 AAGAGCAGGA
5851 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
5880 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
5905 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
5935 CACCT
1 CACCT
5940 TTCAGTCCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:5965 original size:26 final size:26
Alignment explanation
Indices: 5880--5969 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
5870 AAGTTGGTGG
*
5880 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
5906 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
5935 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
5961 CACCTTTCA
1 CACCTTTCA
5970 AAGCCCACAC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:6133 original size:27 final size:27
Alignment explanation
Indices: 6048--6133 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
6038 TTGGTGGCAT
6048 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
6075 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
6103 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
6130 TTTC
1 TTTC
6134 AAAGCCCACC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:6225 original size:27 final size:27
Alignment explanation
Indices: 6194--6335 Score: 73
Period size: 28 Copynumber: 5.2 Consensus size: 27
6184 CTCTTAAAGC
6194 CCCCACAAGTTGGTGGCACCTTTCAGT
1 CCCCACAAGTTGGTGGCACCTTTCAGT
* **
6221 CCCCA-AAG-AGCAGGACACCTTTCAAAG-
1 CCCCACAAGTTGGTGG-CACCTTTC--AGT
*
6248 CCCACACAAGTTGGTGGCA-TTTTCCAGT
1 CCC-CACAAGTTGGTGGCACCTTT-CAGT
* * ** *
6276 CCTCA-AAG-AGCAGGACACCTCTTAAAG-
1 CCCCACAAGTTGGTGG-CACCT-TT-CAGT
6303 CCCACACAAGTTGGTGGCACCTTTCAGT
1 CCC-CACAAGTTGGTGGCACCTTTCAGT
6331 CCCCA
1 CCCCA
6336 AAGAGCAGGA
Statistics
Matches: 81, Mismatches: 19, Indels: 30
0.62 0.15 0.23
Matches are distributed among these distances:
25 6 0.07
26 16 0.20
27 19 0.23
28 20 0.25
29 14 0.17
30 6 0.07
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (27 bp):
CCCCACAAGTTGGTGGCACCTTTCAGT
Found at i:6460 original size:47 final size:47
Alignment explanation
Indices: 6385--6533 Score: 183
Period size: 47 Copynumber: 3.0 Consensus size: 47
6375 CATTTTCCAG
6385 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
6432 TCCTCAAAGGGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG-------CA
* *
6486 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
6534 CTTTTTACTC
Statistics
Matches: 88, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
47 41 0.47
48 4 0.05
54 4 0.05
55 39 0.44
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (47 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:7379 original size:19 final size:19
Alignment explanation
Indices: 7355--7422 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
7345 AATTCAACAA
*
7355 TTTGTATGGATACATAAGT
1 TTTGTATCGATACATAAGT
7374 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
7389 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
7406 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
7423 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:7394 original size:13 final size:13
Alignment explanation
Indices: 7376--7400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7366 ACATAAGTTT
7376 TGTATCGATACAA
1 TGTATCGATACAA
7389 TGTATCGATACA
1 TGTATCGATACA
7401 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:7399 original size:32 final size:32
Alignment explanation
Indices: 7357--7419 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
7347 TTCAACAATT
* *
7357 TGTATGGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
7389 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
7420 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:7466 original size:20 final size:20
Alignment explanation
Indices: 7441--7496 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
7431 TGCCAAGGAA
*
7441 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTATCT
**
7461 ATGTATCGATACATGGATCT
1 ATGTATCGATACATTTATCT
*
7481 TTGTATCGATACATTT
1 ATGTATCGATACATTT
7497 GGAAATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTATCT
Found at i:9420 original size:51 final size:52
Alignment explanation
Indices: 9344--9733 Score: 167
Period size: 52 Copynumber: 7.4 Consensus size: 52
9334 AATTCTTCGC
* *
9344 AATCGGGGATATTCCACCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
* * *
9395 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAAAAAATACAAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-----AAAAACACTAATTTTCT-AT
* ** **** * * *
9452 AATCGGGGATACTCCAA-TCCCG--TTAATCATCGGGGATACTCCATCCCTGT-TAT
1 AATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAAACACT-AAT---TTTCTAT
* * * * * *
9505 -TTCCGAGGGGATACTCCAACCCCTG-CTTTATTCTT--AAAATATTGA-TTTCTCAT
1 AAT-C--GGGGATACTCCAACTCC-GATTTTATT-TTCAAAAACACTAATTTTCT-AT
* * * * *
9558 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAA-TTTTCTAT
* * * * *
9610 AATCGGGGATACTACAACCCCGATTTTATTTT-TAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTT-CTAT
* * * * * *
9662 AATCGAGGATACTCCAGCTCTGATTTTATTTCCAAAAACACTAATTTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCT-AT
*
9715 AATCGAGGATACTCCAACT
1 AATCGGGGATACTCCAACT
9734 TCGTTATTTC
Statistics
Matches: 255, Mismatches: 53, Indels: 60
0.69 0.14 0.16
Matches are distributed among these distances:
49 1 0.00
50 6 0.02
51 67 0.26
52 68 0.27
53 42 0.16
54 4 0.02
55 22 0.09
56 7 0.03
57 37 0.15
58 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
Found at i:9636 original size:52 final size:52
Alignment explanation
Indices: 9513--9732 Score: 203
Period size: 52 Copynumber: 4.2 Consensus size: 52
9503 ATTTCCGAGG
* * * * * * * *
9513 GGATACTCCAACCCCTG-CTTTATTCTTAAAATATTGATTTCT-CATAATCGG
1 GGATACTCCAACCCC-GATTTTATTCCTAAAACACTAATTTTTCCACAATCGA
* *
9564 GGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATCGG
1 GGATACTCCAACCCCGATTTTATTCCTAAAACACTAATTTTTCCACAATCGA
* ** * **
9616 GGATACTACAACCCCGATTTTATTTTTAAAACACCAA-TTTTCCTTTAATCGA
1 GGATACTCCAACCCCGATTTTATTCCTAAAACACTAATTTTTCC-ACAATCGA
* * * * *
9668 GGATACTCCAGCTCTGATTTTATTTCCAAAAACACTAATTTTTTCACAATCGA
1 GGATACTCCAACCCCGATTTTA-TTCCTAAAACACTAATTTTTCCACAATCGA
9721 GGATACTCCAAC
1 GGATACTCCAAC
9733 TTCGTTATTT
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
50 1 0.01
51 39 0.28
52 64 0.47
53 28 0.20
54 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (52 bp):
GGATACTCCAACCCCGATTTTATTCCTAAAACACTAATTTTTCCACAATCGA
Found at i:9766 original size:28 final size:28
Alignment explanation
Indices: 9716--9792 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
9706 TTTTTTCACA
* ** **
9716 ATCGAGGATACTCCAACTTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
9744 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
9772 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
9793 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:9815 original size:264 final size:265
Alignment explanation
Indices: 9343--9843 Score: 715
Period size: 264 Copynumber: 1.9 Consensus size: 265
9333 CAATTCTTCG
* * * *
9343 CAATCGGGGATATTCCACCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATATACAACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
*
9408 CCAACTCCGATTTTATTTTCAAAAAAAAAATACAAATTTTTCACAATCGGGGATACTCCAATCCC
66 CCAACTCCGATTTTATTTTCAAAAAAAAAATA-AAATTTTTCACAATCGAGGATACTCCAATCCC
* * ** *
9473 GTTAATCATCGGGGATACTCCATCCCTGTTATTTCCGAGGGGATACTCCAACCCCTGCTTTATTC
130 GTTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
**
9538 TTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATT
195 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATT
9603 TTTCCA
260 TTTCCA
* *
9609 CAATCGGGGATACTACAACC-CCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGAGGATA
1 CAATCGGGGATA-TACAACCTCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATA
* * * * * *
9673 CTCCAGCTCTGATTTTA-TTTC-CAAAAACACT-AATTTTTTCACAATCGAGGATACTCCAA-CT
64 CTCCAACTCCGATTTTATTTTCAAAAAAAAAATAAAATTTTTCACAATCGAGGATACTCCAATC-
* *
9734 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA
128 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA
*
9799 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
9844 TTATTTTCGA
Statistics
Matches: 208, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
262 1 0.00
263 31 0.15
264 94 0.45
265 7 0.03
266 42 0.20
267 33 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (265 bp):
CAATCGGGGATATACAACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
CCAACTCCGATTTTATTTTCAAAAAAAAAATAAAATTTTTCACAATCGAGGATACTCCAATCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTT
TTCCA
Found at i:9925 original size:80 final size:79
Alignment explanation
Indices: 9746--9951 Score: 225
Period size: 80 Copynumber: 2.6 Consensus size: 79
9736 GTTATTTCAT
** *
9746 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
9811 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * ** *
9825 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-GCTTTATTCCCAAAAT-
9889 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * * *
9905 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
9952 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 45 0.43
80 60 0.57
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:14567 original size:26 final size:25
Alignment explanation
Indices: 14538--14616 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 25
14528 CATTCTTTTT
14538 AAAAAAAAAAAAAAAAAAAAACAACA
1 AAAAAAAAAAAAAAAAAAAAACAA-A
* *
14564 AAAAAAAAACAAAAAACAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAACAAA
* * * *
14589 GAAAAAAGAGAAAAAAAAAGAAGAAA
1 -AAAAAAAAAAAAAAAAAAAAACAAA
14615 AA
1 AA
14617 TCTACTTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 3 0.07
26 41 0.93
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAAAAACAAA
Found at i:14568 original size:18 final size:17
Alignment explanation
Indices: 14538--14607 Score: 79
Period size: 18 Copynumber: 4.1 Consensus size: 17
14528 CATTCTTTTT
14538 AAAAAAAA-AAAAAAAA
1 AAAAAAAACAAAAAAAA
*
14554 AAAAACAACAAAAAAAA
1 AAAAAAAACAAAAAAAA
*
14571 AACAAAAAACAAAACAAAG
1 AA-AAAAAACAAAA-AAAA
* *
14590 AAAAAAGAGAAAAAAAA
1 AAAAAAAACAAAAAAAA
14607 A
1 A
14608 GAAGAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 7 0.16
17 14 0.31
18 19 0.42
19 5 0.11
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAA
Found at i:14570 original size:23 final size:23
Alignment explanation
Indices: 14539--14616 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
14529 ATTCTTTTTA
*
14539 AAAAAAAAAAAAAAAAAAAACAAC
1 AAAAAAAAAACAAAAAAAAA-AAC
*
14563 AAAAAAAAAACAAAAAACAAAAC
1 AAAAAAAAAACAAAAAAAAAAAC
* * * *
14586 AAAGAAAAAAGAGAAAAAAAAAG
1 AAAAAAAAAACAAAAAAAAAAAC
*
14609 AAGAAAAA
1 AAAAAAAA
14617 TCTACTTAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 27 0.60
24 18 0.40
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAAAAAAC
Found at i:14616 original size:1 final size:1
Alignment explanation
Indices: 14538--14607 Score: 68
Period size: 1 Copynumber: 70.0 Consensus size: 1
14528 CATTCTTTTT
* * * * * * * *
14538 AAAAAAAAAAAAAAAAAAAAACAACAAAAAAAAAACAAAAAACAAAACAAAGAAAAAAGAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14603 AAAAA
1 AAAAA
14608 GAAGAAAAAT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:14616 original size:12 final size:11
Alignment explanation
Indices: 14540--14607 Score: 82
Period size: 12 Copynumber: 5.8 Consensus size: 11
14530 TTCTTTTTAA
*
14540 AAAAAAAAAAA
1 AAAAAAAAAAC
14551 AAAAAAAACAAC
1 AAAAAAAA-AAC
14563 AAAAAAAAAAC
1 AAAAAAAAAAC
14574 AAAAAACAAAAC
1 AAAAAA-AAAAC
*
14586 AAAGAAAAAAGAG
1 AAA-AAAAAA-AC
14599 AAAAAAAAA
1 AAAAAAAAA
14608 GAAGAAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
11 17 0.33
12 27 0.53
13 7 0.14
ACGTcount: A:0.88, C:0.07, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:15735 original size:55 final size:55
Alignment explanation
Indices: 15671--15973 Score: 360
Period size: 55 Copynumber: 5.4 Consensus size: 55
15661 TTTTGCCCTT
* *
15671 TAGTCCTCAAACG-GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 TAGTCCTCAAA-GAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* *
15726 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
15781 CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTT-
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
15836 TAGTCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA-CTTTC
* * ** *
15898 -AGTCTTCAAAGAGCAGGACGCCTTTTAAAGATCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* *
15952 TAGTCTTCAAAGAGGAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
15974 TCTCTCTTTT
Statistics
Matches: 218, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
54 5 0.02
55 159 0.73
56 4 0.02
57 1 0.00
60 1 0.00
61 48 0.22
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:15922 original size:116 final size:110
Alignment explanation
Indices: 15667--15973 Score: 388
Period size: 116 Copynumber: 2.7 Consensus size: 110
15657 CTCCTTTTGC
* *
15667 CCTTT-AGTCCTCAAACG-GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAG
1 CCTTTCAGTCCTCAAA-GAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAG
15729 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
64 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
* * *
15776 -TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGT
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
*
15840 CCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCA
65 CCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACATAAGTTGGTGGCA
* * ** *
15892 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGATCACACAAGTTGGTGGCACCTTCTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
* *
15957 TTCAAAGAGGAGGACGC
66 CTCAAAGAGCAGGACGC
15974 TCTCTCTTTT
Statistics
Matches: 170, Mismatches: 17, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
108 3 0.02
109 1 0.01
110 68 0.40
111 4 0.02
112 1 0.01
116 90 0.53
117 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (110 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
Found at i:16009 original size:94 final size:94
Alignment explanation
Indices: 15890--16064 Score: 257
Period size: 94 Copynumber: 1.9 Consensus size: 94
15880 AAGTTGGTGG
*
15890 CACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAG-ATCACACAAGTTGGTGGCACCTT-CT
1 CACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCT-ACACAAGTTGGTGGCA-CTTCCT
* *
15953 AGTCTTCAAAGAGGAGGACGCTCTCTCTTTT
64 AGTCCTCAAAGAGCAGGACGCTCTCTCTTTT
* *
15984 CACCTTTTAGTCCTT-AAAGAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTA
1 CACCTTTCAGT-CTTCAAAGAGCAGGACGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTA
16048 GTCCTCAAAGAGCAGGA
65 GTCCTCAAAGAGCAGGA
16065 TGCCTTTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
93 3 0.04
94 66 0.90
95 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (94 bp):
CACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTAG
TCCTCAAAGAGCAGGACGCTCTCTCTTTT
Found at i:16056 original size:149 final size:149
Alignment explanation
Indices: 15863--16158 Score: 468
Period size: 149 Copynumber: 2.0 Consensus size: 149
15853 GACGCCTTCT
* * * *
15863 CCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
* * *
15928 ATCACACAAGTTGGTGGCACCTTCTAGTCTTCAAAGAGGAGGACGCTCTCTCTTTTCACCTTTTA
66 ACCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCTTTTA
*
15993 GTCCTTAAAGAGCAGGATG
131 GTCCTCAAAGAGCAGGATG
* *
16012 CCTTTTAAAGCCTACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTCAAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTCAAA
* *
16076 GCCCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCTTTT
65 GACCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCTTTT
16141 AGTCCTCAAAGAGCAGGA
130 AGTCCTCAAAGAGCAGGA
16159 CTCACTTTAT
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
148 4 0.03
149 130 0.97
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (149 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
ACCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCTTTTA
GTCCTCAAAGAGCAGGATG
Found at i:16077 original size:55 final size:55
Alignment explanation
Indices: 15984--16119 Score: 211
Period size: 55 Copynumber: 2.5 Consensus size: 55
15974 TCTCTCTTTT
* * * *
15984 CACCTTTTAGTCCTTAAAGAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
*
16039 CA-CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTT-CTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
16094 CACCTTCTAGTCCTCAAAGAGCAGGA
1 CACCTTCTAGTCCTCAAAGAGCAGGA
16120 CGCTCTCTCT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
54 3 0.04
55 68 0.92
56 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (55 bp):
CACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:16138 original size:39 final size:39
Alignment explanation
Indices: 16094--16212 Score: 132
Period size: 39 Copynumber: 3.0 Consensus size: 39
16084 GAGTTGGTGG
*
16094 CACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTT
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTATTTT
* * * *
16133 CACCTTTTAGTCCTCAAAGAGCAGGACTCACTTTATTTT
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTATTTT
* *
16172 C-CTCTATCTTTTGTCCTCAAAGAGCAGGACGCTCTTTATTT
1 CAC-CT-TC--TAGTCCTCAAAGAGCAGGACGCTCTCTATTT
16213 CCTTCTTTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 37 0.55
40 1 0.01
42 28 0.42
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (39 bp):
CACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTATTTT
Found at i:16244 original size:46 final size:46
Alignment explanation
Indices: 16184--16398 Score: 280
Period size: 46 Copynumber: 4.7 Consensus size: 46
16174 TCTATCTTTT
16184 GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTA
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTA
* * *
16230 GTCCTCAAAAAGCAGGACAGAT-TTCGT-TTTCCTT-TTCT-CCTT-T-
1 GTCCTCAAAGAGCAGGAC-GCTCTT--TATTTCCTTCTTTTCCCTTCTA
* *
16273 GTCCTCAAAGAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTATA
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTA
*
16319 GTCCTCAAAGAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTA
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTA
* *
16365 GTCCTCAAAGAGTAGGACGCACTTTATTTTCCTT
1 GTCCTCAAAGAGCAGGACGCTCTTTA-TTTCCTT
16399 TTGTCCTCAG
Statistics
Matches: 148, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.01
42 8 0.05
43 22 0.15
44 5 0.03
45 5 0.03
46 90 0.61
47 16 0.11
48 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (46 bp):
GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTA
Found at i:16288 original size:89 final size:86
Alignment explanation
Indices: 16127--16398 Score: 305
Period size: 89 Copynumber: 3.0 Consensus size: 86
16117 GGACGCTCTC
* * *
16127 TCTTTTCACCTTTTAGTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTATCT--TTTGTCCTC
1 TCTTTTC-CCTTATAGTCCTCAAAGAGCAGGA--CAATTT-TTTTCCT-TTTCTCCTTTGTCCTC
16190 AAAGAGCAGGACGCTCTTTATTTCCT
61 AAAGAGCAGGACGCTCTTTATTTCCT
* *
16216 TCTTTTCCCTTCTAGTCCTCAAAAAGCAGGACAGATTTCGTTTTCCTTTTCTCCTTTGTCCTCAA
1 TCTTTTCCCTTATAGTCCTCAAAGAGCAGGACA-ATTT--TTTTCCTTTTCTCCTTTGTCCTCAA
*
16281 AGAGCAGGACACTCTTTATTTCCT
63 AGAGCAGGACGCTCTTTATTTCCT
* *
16305 TCTTTTCCCTTATAGTCCTCAAAGAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTAGTCCT
1 TCTTTTCCCTTATAGTCCTCAAAGAGCAGGACAAT-TTT-TTTCCTT-TTCT-CCTT-T-GTCCT
* *
16370 CAAAGAGTAGGACGCACTTTATTTTCCT
60 CAAAGAGCAGGACGCTCTTTA-TTTCCT
16398 T
1 T
16399 TTGTCCTCAG
Statistics
Matches: 159, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
86 2 0.01
87 8 0.05
88 37 0.23
89 77 0.48
90 4 0.03
91 1 0.01
92 23 0.14
93 7 0.04
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (86 bp):
TCTTTTCCCTTATAGTCCTCAAAGAGCAGGACAATTTTTTTCCTTTTCTCCTTTGTCCTCAAAGA
GCAGGACGCTCTTTATTTCCT
Found at i:16354 original size:135 final size:133
Alignment explanation
Indices: 16128--16382 Score: 372
Period size: 135 Copynumber: 1.9 Consensus size: 133
16118 GACGCTCTCT
* *
16128 CTTTTCACCTTTTAGTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTATCTTTTGTCCTCAAA
1 CTTTTCACCTTTTAGTCCTCAAAGAGCAGGACACACTTTATTTTCCTCTATCTTTAGTCCTCAAA
*
16193 GAGCAGGACGCTCTTTATTTCCTTCTTTTCCCTTCTAGTCCTCAAAAAGCAGGACAGATTTCGTT
66 GAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTAGTCCTCAAAAAGCAGGACAGATTTCGTT
16258 TTC
131 TTC
* * *
16261 CTTTTCTCC-TTT-GTCCTCAAAGAGCAGGACACTCTTTA-TTTCCTTCTTTTCCCTTATAGTCC
1 CTTTTCACCTTTTAGTCCTCAAAGAGCAGGACACACTTTATTTTCC-TC-TAT--CTT-TAGTCC
* *
16323 TCAAAGAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGTAGGAC
61 TCAAAGAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTAGTCCTCAAAAAGCAGGAC
16383 GCACTTTATT
Statistics
Matches: 109, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
130 5 0.05
131 26 0.24
132 5 0.05
133 8 0.07
134 3 0.03
135 62 0.57
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.39
Consensus pattern (133 bp):
CTTTTCACCTTTTAGTCCTCAAAGAGCAGGACACACTTTATTTTCCTCTATCTTTAGTCCTCAAA
GAGCAGGACACTCTTTATTTCCTTCTTTTCCCTTCTAGTCCTCAAAAAGCAGGACAGATTTCGTT
TTC
Found at i:17046 original size:21 final size:21
Alignment explanation
Indices: 17020--17075 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
17010 TTTTTATCCA
*
17020 AATGTATCGATACATTTGTAT
1 AATGTATCGATACATTTGTAG
17041 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
17062 AATGTATCGATACA
1 AATGTATCGATACA
17076 AGGTCCCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:17128 original size:22 final size:21
Alignment explanation
Indices: 17103--17146 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17093 AATTTTGATT
*
17103 TTCAATAATCTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
17125 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
17146 T
1 T
17147 AAGTGTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:17158 original size:19 final size:18
Alignment explanation
Indices: 17134--17196 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
17124 ATTCAGTAAA
17134 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
17153 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
17166 TGTATCGATAAATAAGTTT
1 TGTATCGATACATAAG-TT
17185 TGTATCGATACA
1 TGTATCGATACA
17197 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:17173 original size:32 final size:32
Alignment explanation
Indices: 17132--17204 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
17122 ACATTCAGTA
*
17132 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATAAATAAGTGTTGTATCGATAC
*
17164 AATGTATCGATAAATAAGTTTTGTATCGATAC
1 AATGTATCGATAAATAAGTGTTGTATCGATAC
17196 AATGTATCG
1 AATGTATCG
17205 CTACGAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATAAATAAGTGTTGTATCGATAC
Found at i:17267 original size:13 final size:13
Alignment explanation
Indices: 17249--17274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17239 ATTAAAGAAA
17249 TGTATCGATACAT
1 TGTATCGATACAT
17262 TGTATCGATACAT
1 TGTATCGATACAT
17275 CGATCTTTGT
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:19755 original size:53 final size:51
Alignment explanation
Indices: 19641--19763 Score: 158
Period size: 53 Copynumber: 2.4 Consensus size: 51
19631 CAATTCTCCG
* * *
19641 CAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTCTA
* * *
19692 TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCAATTTTATTTCC--AAAACACCAATTTTCT-A
19745 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
19764 CCCATTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 29 0.48
52 1 0.02
53 31 0.51
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTCTA
Found at i:19842 original size:79 final size:79
Alignment explanation
Indices: 19697--19921 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 79
19687 TTCTATAATC
* * * ** * *
19697 AGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACTCCA
1 AGGGATACTCCAACCCCGCTTTCATTTCC--AAAACATTAATTTCTCATAATCGGGGATACTCCA
*
19762 ACCCCATTATTTTCG-
64 ACCCCATTATTTCCGA
* * *
19777 AGAGGATACTCCAACCCCTGCTTT-A-TTCTTAAAATATTGATTTCTCATAATCGGGGATACTCC
1 AG-GGATACTCCAACCCC-GCTTTCATTTC-CAAAACATTAATTTCTCATAATCGGGGATACTCC
*
19840 AACCCCGTTATTTCCGA
63 AACCCCATTATTTCCGA
* * * *
19857 AGGGATACTCCAATCTCGGTTTCATTTCCAAAACATTAATTTCTCTTAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGCTTTCATTTCCAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
19922 TCCGATTTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 4 0.03
79 88 0.73
80 10 0.08
81 15 0.12
82 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
AGGGATACTCCAACCCCGCTTTCATTTCCAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
CCCATTATTTCCGA
Found at i:19918 original size:51 final size:51
Alignment explanation
Indices: 19858--20016 Score: 171
Period size: 51 Copynumber: 3.1 Consensus size: 51
19848 TATTTCCGAA
* * ** *
19858 GGGATACTCCAA-TCTCGGTTTCATTTCCAAAACATTAA-TTTCTCTTAATCG
1 GGGATACTCCAACTC-CGATTTTATTTCCAAAACACCAATTTTC-CATAATCG
* *
19909 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCG
* * * *
19960 GGGATACTCCAACTCCGATTTTATTTCCAAAGCACTGACTTTT-CACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CAATTTTCCATAATCG
20011 GGGATA
1 GGGATA
20017 TTCTAACCCC
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 82 0.89
52 10 0.11
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCG
Found at i:20153 original size:28 final size:26
Alignment explanation
Indices: 20085--20156 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
20075 AATTTTTCAT
20085 TGGGGATACTCCAACCCCGTTAATCA
1 TGGGGATACTCCAACCCCGTTAATCA
* *
20111 TCGGGATACTCCAACCCCGTTACCTCCGA
1 TGGGGATACTCCAACCCCGTTA-AT-C-A
20140 -GGGGATACTCCAACCCC
1 TGGGGATACTCCAACCCC
20157 AGCTTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 21 0.52
27 1 0.03
28 17 0.43
29 1 0.03
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (26 bp):
TGGGGATACTCCAACCCCGTTAATCA
Found at i:20219 original size:51 final size:51
Alignment explanation
Indices: 20140--20362 Score: 155
Period size: 51 Copynumber: 4.3 Consensus size: 51
20130 TTACCTCCGA
* * * * * ** * *
20140 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATA-TTGATTTCTCATAATT
1 GGGGATACTCAAACCTCGGTTTTATTTCTAAAACACTAAATTTC-CACAATC
* *
20191 GGGGATTCTTAAACCTCGGTTTTATTTCTAAAACACTAAATTTCCACAATC
1 GGGGATACTCAAACCTCGGTTTTATTTCTAAAACACTAAATTTCCACAATC
* * * ** *
20242 GGGGATACTCCAACCTCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATT
1 GGGGATACTCAAACCTCGGTTTTATTTCT-AAAACACTAAATTTCC-ACAATC
* * * * * *
20294 GGGGATACTCCAA-CTCCGATTTTATTTCTAAAAGCACCAATTTTTCATAATC
1 GGGGATACTCAAACCT-CGGTTTTATTTCTAAAA-CACTAAATTTCCACAATC
* *
20346 GAGGATACTCCAACCTC
1 GGGGATACTCAAACCTC
20363 ATTATTTCAT
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 73 0.52
52 53 0.38
53 14 0.10
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCAAACCTCGGTTTTATTTCTAAAACACTAAATTTCCACAATC
Found at i:20319 original size:52 final size:52
Alignment explanation
Indices: 20179--20362 Score: 187
Period size: 52 Copynumber: 3.5 Consensus size: 52
20169 AAAATATTGA
* * ** * * *
20179 TTTCTCATAATTGGGGATTCTTAAACCTCGGTTTTATTTCTAAAA-CACTAAA
1 TTTC-CATAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAAGCACCAAT
* *
20231 TTTCCACAATCGGGGATACTCCAACCTCGGTTTTATTT-TCAAAA-CACCAAT
1 TTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCT-AAAAGCACCAAT
* *
20282 TTTCCTTTAATTGGGGATACTCCAA-CTCCGATTTTATTTCTAAAAGCACCAAT
1 TTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTCTAAAAGCACCAAT
* *
20335 TTTTCATAATCGAGGATACTCCAACCTC
1 TTTCCATAATCGGGGATACTCCAACCTC
20363 ATTATTTCAT
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
50 1 0.01
51 45 0.41
52 51 0.46
53 14 0.13
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
TTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAAGCACCAAT
Found at i:25917 original size:61 final size:61
Alignment explanation
Indices: 25752--26271 Score: 486
Period size: 61 Copynumber: 8.3 Consensus size: 61
25742 AAACTTTTAT
* * * * * *
25752 CCTTTTAGTCCTCAAAGTGCATGATGCCTTTTCTTTTTAAAGTCCACACAAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
25813 CCTTTTCAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTT-AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
25875 CCTTTTAGTCTTCAAAGAGCAAGATGGCTTTTCCTTTCAAAGCTCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
25936 CCTTTTAGTCCTCAAAGAGCAAGACAT-CTTTTTTTTTCTTTTTTAAAAGCCCACATAAGCTGGT
1 CCTTTTAGTCCTCAAAGAGCAAG--ATGC----CTTTTC--CTTTCAAAGCCCACACAAGTTGGT
26000 GGCA
58 GGCA
* * * * *
26004 CCTTTTAGTCCTCAAAAAG-TAGCATGCCTTTTTCTTTCAAAGCTCACACAAGTTGTTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAG-ATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** * * * *
26065 TCTTTTAGTCTTCAAAGAGCAGGGCGTCTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATG-CCTTTTC-CTTTCAAAGCCCACACAAGTTGGTGGCA
** * * **
26128 CCTTTTAGTTTTCAAAGAGTAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
26189 TCTTTTAATCCTCAAAGAGCAGGATGCTTTCGTTTTTCCTTTTAAAGCCCACACAAGTTAGTGGC
1 CCTTTTAGTCCTCAAAGAGCAAGATGC---C--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
26254 A
61 A
*
26255 CCTTTTAGTCTTCAAAG
1 CCTTTTAGTCCTCAAAG
26272 GGCAGGACAC
Statistics
Matches: 375, Mismatches: 66, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
61 161 0.43
62 66 0.18
63 50 0.13
64 1 0.00
66 53 0.14
67 3 0.01
68 41 0.11
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:26072 original size:190 final size:183
Alignment explanation
Indices: 25752--26271 Score: 558
Period size: 190 Copynumber: 2.7 Consensus size: 183
25742 AAACTTTTAT
* * ** * *
25752 CCTTTTAGTCCTCAAAGTGCATGATGCCTTTTCTTTTTAAAGTCCACACAAGTTGGTGACACCTT
1 CCTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
25817 TTCAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
66 TT-AGTCCTCAAAAAG-AAGATGCCTTTTTCTTTTAAAGCCCACACAAGTT-GTGGCACCTTTTA
* * * *
25882 GTCTTCAAAGAGCAAGATGGC-TTTTC-CTTTCAAAGCTCACACAAGTTGGTGGCA
128 GTCTTCAAAGAGCAAGACGGCTTTTTCTCTTTAAAAGCCCACACAAGCTGGTGGCA
* * *
25936 CCTTTTAGTCCTCAAAGAGCAAGACATCTTTTTTTTTCTTTTTTAAAAGCCCACATAAGCTGGTG
1 CCTTTTAGTCCTCAAAGAGCAAGACA-C----CTTTTC-TTTTT-AAAGCCCACACAAGTTGGTG
* * * *
26001 GCACCTTTTAGTCCTCAAAAAGTAGCATGCCTTTTTCTTTCAAAGCTCACACAAGTTGTTGGCAT
59 GCACCTTTTAGTCCTCAAAAAGAAG-ATGCCTTTTTCTTTTAAAGCCCACACAAGTTG-TGGCAC
* * * *
26066 CTTTTAGTCTTCAAAGAGCAGGGCGTCTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCA
122 CTTTTAGTCTTCAAAGAGCAAGACGGCTTTTTCTCTTTAAAAGCCCACACAAGCTGGTGGCA
** * * * * *
26128 CCTTTTAGTTTTCAAAGAGTAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATCTT
1 CCTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
26193 TTAATCCTCAAAGAGCAGGATGCTTTCGTTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCT
66 TTAGTCCTCAAAAAG-AAGATGC---C-TTTTT-CTTTTAAAGCCCACACAAGTT-GTGGCACCT
26258 TTTAGTCTTCAAAG
124 TTTAGTCTTCAAAG
26272 GGCAGGACAC
Statistics
Matches: 278, Mismatches: 40, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
184 22 0.08
185 42 0.15
186 4 0.01
187 5 0.02
188 1 0.00
189 13 0.05
190 113 0.41
191 32 0.12
192 46 0.17
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (183 bp):
CCTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TTAGTCCTCAAAAAGAAGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGTGGCACCTTTTAGTC
TTCAAAGAGCAAGACGGCTTTTTCTCTTTAAAAGCCCACACAAGCTGGTGGCA
Found at i:26203 original size:253 final size:250
Alignment explanation
Indices: 25752--26270 Score: 645
Period size: 253 Copynumber: 2.1 Consensus size: 250
25742 AAACTTTTAT
** *
25752 CCTTTTAGTCCTCAAAGTGCATGATGCCTTTTCTTTTTAAAGTCCACACAAGTTGGTGACACCTT
1 CCTTTTAGTCCTCAAAAAGCATGATGCCTTTTCTTTTCAAAGTCCACACAAGTTGGTGACACCTT
*
25817 TTCAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
66 TTCAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTA
*** * *
25882 GTCTTCAAAGAGCAAGATGGCTTTTCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCC
131 GTCTTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAATCC
* * * *
25947 TCAAAGAGCAAGACAT-CTTT-TTTTTTCTTTTTTAAAAGCCCACATAAGCTGGTGGCA
196 TCAAAGAGC-AG-CATGCTTTCGTTTTTC-CTTTT-AAAGCCCACACAAGCTAGTGGCA
* * * *
26004 CCTTTTAGTCCTCAAAAAGTA-GCATGCCTTTT-TCTTTCAAAG-CTCACACAAGTTGTTGGCAT
1 CCTTTTAGTCCTCAAAAAGCATG-ATGCCTTTTCT-TTTCAAAGTC-CACACAAGTTGGTGACAC
* * * * * *
26066 CTTTT-AGTCTTCAAAGAGCAGGGCGTCTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACC
63 CTTTTCAGTCCTCAAAAAGCAAGACG-CCTTTTCCTTTT-AAAGCCCACACAAGCTGGTGGCACC
* * * *
26130 TTTTAGTTTTCAAAGAGTAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTT
126 TTTTAGTCTTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
* *
26195 AATCCTCAAAGAGCAGGATGCTTTCGTTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA
191 AATCCTCAAAGAGCAGCATGCTTTCGTTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCA
*
26255 CCTTTTAGTCTTCAAA
1 CCTTTTAGTCCTCAAA
26271 GGGCAGGACA
Statistics
Matches: 230, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
251 56 0.24
252 74 0.32
253 100 0.43
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (250 bp):
CCTTTTAGTCCTCAAAAAGCATGATGCCTTTTCTTTTCAAAGTCCACACAAGTTGGTGACACCTT
TTCAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTA
GTCTTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAATCC
TCAAAGAGCAGCATGCTTTCGTTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCA
Found at i:27114 original size:21 final size:20
Alignment explanation
Indices: 27090--27163 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
27080 TATGATTTGA
27090 ATCGATACAAATAGTAAATGT
1 ATCGATACAAA-AGTAAATGT
* *
27111 ATCGATACATAAGTGAATGT
1 ATCGATACAAAAGTAAATGT
****
27131 ATCGATACATGCCTAAAATGT
1 ATCGATACAAAAGT-AAATGT
27152 ATCGATACAAAA
1 ATCGATACAAAA
27164 CCACCCTGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 19 0.44
21 24 0.56
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
ATCGATACAAAAGTAAATGT
Found at i:27131 original size:20 final size:21
Alignment explanation
Indices: 27090--27140 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
27080 TATGATTTGA
*
27090 ATCGATACAAATAGTAAATGT
1 ATCGATACATATAGTAAATGT
*
27111 ATCGATACATA-AGTGAATGT
1 ATCGATACATATAGTAAATGT
27131 ATCGATACAT
1 ATCGATACAT
27141 GCCTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATCGATACATATAGTAAATGT
Found at i:29800 original size:79 final size:78
Alignment explanation
Indices: 29665--29870 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 78
29655 TCATTAATTT
* * * * * *
29665 TTTTATTTCCAAAATATGATTTTTTTTTACTACCA-GGACACTCCAACCCCGTTATTTTCGAGGA
1 TTTTATTTCCAAAATATGA---TTTTTCACCATCAGGGATACTCCAACCCCATTA-TTTCGAAGA
29729 -GATACTCCAACCCTAG-
62 GGATACTCCAACCC-AGA
*
29745 TTTTATTTCCAAAATATAGATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCTAAGAGGA
1 TTTTATTTCCAAAATAT-GATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCGAAGAGGA
** *
29810 TACTTGAACCCCGA
65 TACTCCAACCCAGA
* *
29824 TTTTATTTTCAAAATATTGATTTTTCACCATCGGGGGGATACTCCAA
1 TTTTATTTCCAAAATA-TGATTTTTCACCATC--AGGGATACTCCAA
29871 TCTCGATTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 18 0.17
79 57 0.53
80 18 0.17
81 14 0.13
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (78 bp):
TTTTATTTCCAAAATATGATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCGAAGAGGAT
ACTCCAACCCAGA
Found at i:29948 original size:79 final size:79
Alignment explanation
Indices: 29858--30475 Score: 463
Period size: 79 Copynumber: 7.8 Consensus size: 79
29848 TCACCATCGG
* * **
29858 GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCATCATCGGGGATACTCTAGT
1 GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAAC
*
29923 CTAGTTATTTCTGA
66 CTCGTTATTTCTGA
* * * * ** * ** *
29937 GGGGATACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCATTGAAAATACTCTAAT
1 GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAAC
30002 CTCGTTATTTCTGA
66 CTCGTTATTTCTGA
* * *
30016 GGGGATA-TACCAA-CTCCATTTT-TGTTTCCAAAATATCAATTTTTCACCTTCGACGATACTCT
1 GGGGATACT-CCAATCTCGATTTTAT-TTT-CAAAATATCAATTTTTCACCATCGAGGATACTCT
* *
30078 -ACCCCGTTATTT-TCAA
63 AACCTCGTTATTTCT-GA
* * * ** * *
30094 GGGGATACTCTAA-CCCTGATTTTATTTCCAAAATATCAATTTTTTGCCGTCGAGGATACTCCAA
1 GGGGATACTCCAATCTC-GATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAA
*
30158 CGCT-ATTATTT-TCG-
65 C-CTCGTTATTTCT-GA
* * * * * * *
30172 CGGGATACTCCGACCTCGATTTTATTCTCAAAATTTTAATTTTTCACCATCGGGGATACTCCT-A
1 GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACT-CTAA
*
30236 CCTTGTTATTTCTGA
65 CCTCGTTATTTCTGA
** * * * * * * * *
30251 GAAGATACTTCAATCACGATTTTATTTTCAAAATATTAATTTTTCATCATCGGGGATATTCAAAT
1 GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAAC
*
30316 CTTGTTATTT-TCGA
66 CTCGTTATTTCT-GA
* * * * * *
30330 GGGGATACTCCAAAC-CCATTTTTATTTTCAAAATATCAAATTTTCACCAAT-GGGGATATTTTA
1 GGGGATACTCCAATCTCGA-TTTTATTTTCAAAATATCAATTTTTCACC-ATCGAGGATACTCTA
*
30393 ACCTCGTTATTGCTGA
64 ACCTCGTTATTTCTGA
* * * * * ** * *
30409 AGGAATACTCTAATC-CCATTTTTATTTTCAAAATATCGATTTTTCATAATCGAGAATACTCCAA
1 GGGGATACTCCAATCTCGA-TTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAA
30473 CCT
65 CCT
30476 TGTTTTTATC
Statistics
Matches: 429, Mismatches: 90, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
77 4 0.01
78 122 0.28
79 298 0.69
80 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (79 bp):
GGGGATACTCCAATCTCGATTTTATTTTCAAAATATCAATTTTTCACCATCGAGGATACTCTAAC
CTCGTTATTTCTGA
Found at i:29969 original size:132 final size:132
Alignment explanation
Indices: 29745--29986 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 132
29735 CCAACCCTAG
29745 TTTTATTTCCAAAATATAGATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCTAAGAGGA
1 TTTTATTTCCAAAATATAGATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCTAAGAGGA
** * *
29810 TACTTGAACCCCGATTTTATTTTCAAAATATTGATTTTTCACCATCGGGGGGATACTCCAATCTC
66 TACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCATCGGGGGGATACTCCAATCTC
29875 GA
131 GA
* * * * ** * * *
29877 TTTTATTTTCAAAATATCA-ATTTTTCATCATCGGGGATACT-CTAGTCTAGTTATTTCTGAGGG
1 TTTTATTTCCAAAATAT-AGATTTTTCACCATCAGGGATACTCCAACCCCA-TTATTTCTAAGAG
29940 GATACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCAT
64 GATACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCAT
29987 TGAAAATACT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
131 4 0.04
132 90 0.95
133 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (132 bp):
TTTTATTTCCAAAATATAGATTTTTCACCATCAGGGATACTCCAACCCCATTATTTCTAAGAGGA
TACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCATCGGGGGGATACTCCAATCTC
GA
Found at i:30167 original size:157 final size:158
Alignment explanation
Indices: 29877--30472 Score: 358
Period size: 157 Copynumber: 3.8 Consensus size: 158
29867 CCAATCTCGA
* * ** * * *
29877 TTTTATTTTCAAAATATCAATTTTTCATCATCGGGGATACTCTAGTCTAGTTATTTCTGAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGACGATACTCTAGCCCAGTTATTTCTAAGGGGA
** * * * *
29942 TACTCCAACCCCAATTTTATTTCCAAAATATTGATTTTTCACCATTGAAAATACTCTAATCTCGT
66 TACTCCAACCCCAATTTTATTTCCAAAATATCAATTTTTCACCATCGAAAATACTCCAAGCTCAT
30007 TATTTCTGAGGGGATATACCAACTCCAT
131 TATTTCTGAGGGGATATACCAACTCCAT
* * *
30035 TTTTGTTTCCAAAATATCAATTTTTCACCTTCGACGATACTCTA-CCCCGTTATTT-TCAAGGGG
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGACGATACTCTAGCCCAGTTATTTCT-AAGGGG
* ** ** * **
30098 ATACTCTAACCCTGATTTTATTTCCAAAATATCAATTTTTTGCCGTCGAGGATACTCCAACGCT-
65 ATACTCCAACCCCAATTTTATTTCCAAAATATCAATTTTTCACCATCGAAAATACTCCAA-GCTC
* * *
30162 ATTATTT-TCG-CGGGATACT-CCGACCTCGA-
129 ATTATTTCT-GAGGGGATA-TACC-AACTCCAT
* * ** ** * **
30191 TTTTA-TTCTCAAAATTTTAATTTTTCACCATCGGGGATACTCCTA-CCTTGTTATTTCTGAGAA
1 TTTTATTTC-CAAAATATCAATTTTTCACCATCGACGATACT-CTAGCCCAGTTATTTCTAAGGG
* * * * * * * *** * * * *
30254 GATACTTCAATCACGATTTTATTTTCAAAATATTAATTTTTCATCATCGGGGATATTCAAATCTT
64 GATACTCCAACCCCAATTTTATTTCCAAAATATCAATTTTTCACCATCGAAAATACTCCAAGCTC
*
30319 GTTATTT-TCGAGGGGATACT-CCAAAC-CCAT
129 ATTATTTCT-GAGGGGATA-TACC-AACTCCAT
* * ** * * * *
30349 TTTTATTTTCAAAATATCAAATTTTCACCAAT-GGGGATATTTTAACCTC-GTTATTGCTGAA-G
1 TTTTATTTCCAAAATATCAATTTTTCACC-ATCGACGATACTCTAGCC-CAGTTATTTCT-AAGG
* * * * * * ** *
30411 GAATACTCTAATCCCATTTTTATTTTCAAAATATCGATTTTTCATAATCGAGAATACTCCAA
63 GGATACTCCAACCCCAATTTTATTTCCAAAATATCAATTTTTCACCATCGAAAATACTCCAA
30473 CCTTGTTTTT
Statistics
Matches: 340, Mismatches: 82, Indels: 32
0.75 0.18 0.07
Matches are distributed among these distances:
155 3 0.01
156 43 0.13
157 148 0.44
158 141 0.41
159 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (158 bp):
TTTTATTTCCAAAATATCAATTTTTCACCATCGACGATACTCTAGCCCAGTTATTTCTAAGGGGA
TACTCCAACCCCAATTTTATTTCCAAAATATCAATTTTTCACCATCGAAAATACTCCAAGCTCAT
TATTTCTGAGGGGATATACCAACTCCAT
Found at i:37594 original size:18 final size:18
Alignment explanation
Indices: 37567--37623 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
37557 CAAGATGTAT
* * *
37567 TATTAAAAAATGGCCGGG
1 TATTAGAAAATCGCTGGG
37585 TATTAGAAAATCGCTGGG
1 TATTAGAAAATCGCTGGG
37603 TATTAGAAAATCGCTGGG
1 TATTAGAAAATCGCTGGG
37621 TAT
1 TAT
37624 GAGGAGAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (18 bp):
TATTAGAAAATCGCTGGG
Found at i:38666 original size:28 final size:27
Alignment explanation
Indices: 38627--38708 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 27
38617 TAATGTTTTG
*
38627 GAGATAATAACGAGGTTGGAGTGTTCCCTC
1 GAGA-AATAACGAGGTTGGAGT-ATCCC-C
* *
38657 G-GAAGTAACGGGGTTGGAGTATCCCC
1 GAGAAATAACGAGGTTGGAGTATCCCC
38683 GATGAAATAACGAGGTTGGAGTATCC
1 GA-GAAATAACGAGGTTGGAGTATCC
38709 TTGATTGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 36 0.80
29 2 0.04
30 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (27 bp):
GAGAAATAACGAGGTTGGAGTATCCCC
Found at i:38856 original size:51 final size:51
Alignment explanation
Indices: 38696--38866 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
38686 GAAATAACGA
** * *
38696 GGTTGGAGTATCCTTGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
38748 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
38801 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
38852 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
38867 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 15 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:38912 original size:27 final size:28
Alignment explanation
Indices: 38851--38924 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
38841 AATAAAGTCG
* *
38851 GGGTTGGAGTATCCCCTCA-GAAATAACG
1 GGGTTGGAGTATCCCC-GATGAAATAACA
*
38879 GGGTTGGAGTATCCCCGATG-ATTAACA
1 GGGTTGGAGTATCCCCGATGAAATAACA
*
38906 GGGTTGGAGTGTCCCCGAT
1 GGGTTGGAGTATCCCCGAT
38925 TGTGAAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACA
Found at i:41404 original size:13 final size:13
Alignment explanation
Indices: 41386--41411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41376 ACAAAGATCC
41386 ATGTATCGATACA
1 ATGTATCGATACA
41399 ATGTATCGATACA
1 ATGTATCGATACA
41412 CAGAAAAATG
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:41407 original size:33 final size:33
Alignment explanation
Indices: 41365--41431 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
41355 AAAATTTCCA
***
41365 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
41398 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
41431 A
1 A
41432 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:41475 original size:19 final size:18
Alignment explanation
Indices: 41451--41518 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
41441 CAGTAGCTAA
41451 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
41470 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
41485 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
41502 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
41519 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:41491 original size:13 final size:13
Alignment explanation
Indices: 41473--41497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41463 ACAATACTTA
41473 TGTATCGATACAT
1 TGTATCGATACAT
41486 TGTATCGATACA
1 TGTATCGATACA
41498 AAACTTATGT
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41495 original size:32 final size:32
Alignment explanation
Indices: 41454--41516 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
41444 TAGCTAATTA
*
41454 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
41486 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
41517 AATCGTTGAA
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:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:46099 original size:33 final size:33
Alignment explanation
Indices: 45993--46111 Score: 107
Period size: 35 Copynumber: 3.5 Consensus size: 33
45983 TGAAGATGTT
* * *
45993 AAAACTTTTAAAGCCTCTTTTGAGAATATTTCA
1 AAAACTTTCAAAGCCTCTTTTAAGGATATTTCA
* * *
46026 ATAGAAC-CTCTACAGCCTCTCTTAAGGAT-TTTCATAA
1 A-A-AACTTTC-AAAGCCTCTTTTAAGGATATTTC---A
46063 AAAACTTTCAAAGCCTCTTTTAAGGATATTTCA
1 AAAACTTTCAAAGCCTCTTTTAAGGATATTTCA
*
46096 AAAACTTCCAAAGCCT
1 AAAACTTTCAAAGCCT
46112 TTCTAAAAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
33 17 0.25
34 6 0.09
35 36 0.53
36 7 0.10
37 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (33 bp):
AAAACTTTCAAAGCCTCTTTTAAGGATATTTCA
Found at i:46894 original size:23 final size:22
Alignment explanation
Indices: 46862--46938 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
46852 ATTTTATTTG
46862 AATAAAATAATTATTTACTCAT
1 AATAAAATAATTATTTACTCAT
* * *
46884 TATCAAAATAA-AATTAACT-AT
1 AAT-AAAATAATTATTTACTCAT
*
46905 AATAAAATAATTAATTTAATCAT
1 AATAAAATAATT-ATTTACTCAT
46928 AAATAAAATAA
1 -AATAAAATAA
46939 ATAAATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 13 0.30
23 9 0.21
24 10 0.23
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAAATAATTATTTACTCAT
Found at i:48860 original size:27 final size:27
Alignment explanation
Indices: 48788--48860 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
48778 CAATTTTGAA
**
48788 AATGGGGTTGGAGTATCTTTTTGGAAG
1 AATGGGGTTGGAGTATCTCATTGGAAG
48815 AATGGGGTTGGAGTATCTCATTGGAAG
1 AATGGGGTTGGAGTATCTCATTGGAAG
48842 AATGGGGTTGGAGTATCTC
1 AATGGGGTTGGAGTATCTC
48861 CAATGATGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (27 bp):
AATGGGGTTGGAGTATCTCATTGGAAG
Found at i:48938 original size:123 final size:124
Alignment explanation
Indices: 48691--48953 Score: 357
Period size: 123 Copynumber: 2.1 Consensus size: 124
48681 CAACTTTAAA
* * *
48691 AATAGGGTTGGAGTATCCCCTTAGTAGAATGGGTTTGGAGTATCCCCAATGAATGATAAATTAGG
1 AATAGGGTTGGAGTATCCCATTAGAAGAATGGGGTTGGAGTATCCCCAATGAATGATAAATTAGG
** * * * * *** *
48756 CAAAATAAGATTTGCATATTGACAATTTTGAAAATGGGGTTGGAGTATCTTTTTGGAAG
66 CAAAATAAGATTTAAATATTGAAAATTTTGAAAACGGAGTTAGAGTATCCCCTTAGAAG
* * * *
48815 AATGGGGTTGGAGTATCTCATTGGAAGAATGGGGTTGGAGTATCTCCAATG-ATGATAAATTAGG
1 AATAGGGTTGGAGTATCCCATTAGAAGAATGGGGTTGGAGTATCCCCAATGAATGATAAATTAGG
*
48879 CAAAATAAGATTTAAATATTGAAAATTTTGAAAACGGAGTTAGATTATCCCCTTAGAAG
66 CAAAATAAGATTTAAATATTGAAAATTTTGAAAACGGAGTTAGAGTATCCCCTTAGAAG
48938 AATAGGGTTGGAGTAT
1 AATAGGGTTGGAGTAT
48954 ATCTGGCAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
123 76 0.63
124 44 0.37
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (124 bp):
AATAGGGTTGGAGTATCCCATTAGAAGAATGGGGTTGGAGTATCCCCAATGAATGATAAATTAGG
CAAAATAAGATTTAAATATTGAAAATTTTGAAAACGGAGTTAGAGTATCCCCTTAGAAG
Found at i:52944 original size:13 final size:13
Alignment explanation
Indices: 52926--52951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52916 CAATTTTTTG
52926 TGTATCGATACAT
1 TGTATCGATACAT
52939 TGTATCGATACAT
1 TGTATCGATACAT
52952 ACTTGCTGTA
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:55517 original size:13 final size:13
Alignment explanation
Indices: 55499--55537 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
55489 ATAAGCACCC
*
55499 TGTATCGATACAT
1 TGTATCGATACAA
55512 TGTATCGATACAA
1 TGTATCGATACAA
55525 TGTATCGATACAA
1 TGTATCGATACAA
55538 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55548 original size:20 final size:20
Alignment explanation
Indices: 55523--55601 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
55513 GTATCGATAC
55523 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
55543 AATGTATCGATACATTGAATTA
1 AATGTATCGATACAAAGAA--A
*
55565 TCAGATGTATCGATACACAGAAA
1 --A-ATGTATCGATACAAAGAAA
*
55588 CATGTATCGATACA
1 AATGTATCGATACA
55602 TTTTGGACGT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 30 0.61
22 1 0.02
23 1 0.02
24 1 0.02
25 16 0.33
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:55634 original size:44 final size:44
Alignment explanation
Indices: 55576--55663 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
55566 CAGATGTATC
*
55576 GATACACAGAAACATGTATCGATACATTTTGGACGTTTTCAATT
1 GATACACAGAAACATGTATCGATACATTTTGGACATTTTCAATT
55620 GATACACAGAAACATGTATCGATACATTTTGGACATTTTCAATT
1 GATACACAGAAACATGTATCGATACATTTTGGACATTTTCAATT
55664 TTTGGCCCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (44 bp):
GATACACAGAAACATGTATCGATACATTTTGGACATTTTCAATT
Found at i:57680 original size:15 final size:15
Alignment explanation
Indices: 57660--57690 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57650 ATTTCGTTTG
*
57660 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
57675 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
57690 G
1 G
57691 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:59524 original size:21 final size:21
Alignment explanation
Indices: 59495--59539 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59485 AAGTTTTCAT
*
59495 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
59515 TTTTCTTTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
59537 TTT
1 TTT
59540 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:61782 original size:13 final size:13
Alignment explanation
Indices: 61764--61789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61754 CAATTTTTTG
61764 TGTATCGATACAT
1 TGTATCGATACAT
61777 TGTATCGATACAT
1 TGTATCGATACAT
61790 ACTTGCTGTA
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:63783 original size:17 final size:17
Alignment explanation
Indices: 63761--63794 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63751 ATTTGTTCCC
63761 TTAGGATACTTTACAAA
1 TTAGGATACTTTACAAA
63778 TTAGGATACTTTACAAA
1 TTAGGATACTTTACAAA
63795 CATGCATATT
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:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TTAGGATACTTTACAAA
Found at i:68978 original size:33 final size:32
Alignment explanation
Indices: 68935--68999 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
68925 CACTCCCAGA
* *
68935 TGTATCGATACATACTGCTTTGTATCGATATAT
1 TGTATCGATACATACT-CATTGTATCGACATAT
* *
68968 TGTATTGATACATGCTCATTGTATCGACATAT
1 TGTATCGATACATACTCATTGTATCGACATAT
69000 GGACAACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGACATAT
Found at i:77210 original size:22 final size:21
Alignment explanation
Indices: 77184--77248 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 21
77174 AAGATATAAA
77184 TTTGACAAAAGGGGAGAAATTC
1 TTTGA-AAAAGGGGAGAAATTC
**
77206 TTTGATTAAGGGG-GAGAATT-
1 TTTGAAAAAGGGGAGA-AATTC
*
77226 TTT-AAAAAGGAGAGAAATTC
1 TTTGAAAAAGGGGAGAAATTC
77246 TTT
1 TTT
77249 AATTAAGGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 10 0.29
20 10 0.29
21 10 0.29
22 5 0.14
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (21 bp):
TTTGAAAAAGGGGAGAAATTC
Found at i:77217 original size:21 final size:20
Alignment explanation
Indices: 77192--77258 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
77182 AATTTGACAA
77192 AAGGGGAGAAATTCTTTGATT
1 AAGGGGAGAAATTCTTT-ATT
**
77213 AAGGGG-GAGAATT-TTTAAA
1 AAGGGGAGA-AATTCTTTATT
*
77232 AAGGAGAGAAATTCTTTAATT
1 AAGGGGAGAAATTCTTT-ATT
77253 AAGGGG
1 AAGGGG
77259 GAGTTAAACG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 10 0.28
20 10 0.28
21 16 0.44
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (20 bp):
AAGGGGAGAAATTCTTTATT
Found at i:77863 original size:20 final size:20
Alignment explanation
Indices: 77817--77873 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
77807 TTGTATCGAT
*
77817 ACAA-TGTATCGATATATGC
1 ACAATTGTATCGATACATGC
* *
77836 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGC
77855 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
77874 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 16 0.50
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGC
Found at i:77941 original size:33 final size:34
Alignment explanation
Indices: 77893--77971 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
77883 GTAGCTACCC
*
77893 TATCAATAT-TTGTATCGATACATG-GGATAA-TG
1 TATCGATATATTGTATCGATACATGAGGA-AATTG
*
77925 TATCGATATATTGTATCGATACATGATGAAATTG
1 TATCGATATATTGTATCGATACATGAGGAAATTG
*
77959 TATCGATACATTG
1 TATCGATATATTG
77972 CTTGTAACGG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 8 0.20
33 17 0.41
34 16 0.39
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (34 bp):
TATCGATATATTGTATCGATACATGAGGAAATTG
Found at i:83891 original size:154 final size:152
Alignment explanation
Indices: 83159--84280 Score: 530
Period size: 154 Copynumber: 7.3 Consensus size: 152
83149 ATGGCTATCT
* **** ** * *
83159 ATACTTTCGACATGAAAGTATCCCAATAACCTTAAAAAACACAAAAATGATGTAAAAGAATAAAC
1 ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATGATGTAAAAGGATAAAC
* * *
83224 CTATCCTAAAAGCATACCTTTGGCATAAAAGCGACCTAG-TGATTACATAGGACTCAGTTTAAAA
66 CTATCCTAAAAGCATACCTTTGGCATAAAAGTGACC-AGTTGATTACCTAGGACTCGGTTTAAAA
* *
83288 AATTACCAAAATA-CCTTTGGGG
130 AATTACCAAAATACCCTTAGGAG
* * ** * * * * * * *
83310 TGTACTTTCAACGTGATTGTATCTTAGCAACCCTCAAGGACACGAAAATGATGTGAAAGAATGAA
1 -ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATGATGTAAAAGGATAAA
* * * * *
83375 -CTATCCTAAAAGTC-TACTTTTGACATAAAAGTGACCTGGTGATTACCTAGGACTTGGTTTAAG
65 CCTATCCTAAAAG-CATACCTTTGGCATAAAAGTGACCAGTTGATTACCTAGGACTCGGTTTAA-
* *
83438 GAAAACTTACAAAAATGCCCTT-GGAG
128 -AAAA-TTACCAAAATACCCTTAGGAG
** * * * * *
83464 ATACCTTT-GACACGAAAGTATATCGATAACCTCAAAAGACAC-AAAATGAACT-TGAAAAGGA-
1 ATA-CTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATG-A-TGT-AAAAGGAT
* * * * * * * *
83525 GAATCTATCCTAAACA-CA-CCCTTTTTGCATAAAAGTGACCCAATT-ACTATCTAGGATTCGGT
62 AAACCTATCCTAAA-AGCATACC-TTTGGCATAAAAGTGA-CCAGTTGATTACCTAGGACTCGGT
* * * **
83587 TCTAGGCAAAATTACTAAAATGCCTCAAAGGCAG
124 T-TA--AAAAATTACCAAAATACC-CTTAGG-AG
* * * * * *
83621 --ACCTTCGATGTGAATA-TATCCTGGCAACCCTAAAGGTA-ACTAAAATGATGT-AAAGGATAA
1 ATACTTTCGACGTGAA-AGTATCTTGGTAACCTTAAAGG-ACACGAAAATGATGTAAAAGGATAA
* ** * ** *
83681 ACCTATCGTAAAAGCATACCTTTGGCATAAAAGCAACCAGATGATTATATAAGACTCGGTTTTTA
64 ACCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACCAGTTGATTACCTAGGACTCGG--TTTA
83746 AAAAATTACCAAAATACCCTTAGGAG
127 AAAAATTACCAAAATACCCTTAGGAG
* * * *
83772 ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACATGAAAATGATATAAAAGGACAAAT
1 ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATGATGTAAAAGGATAAAC
* * * *
83837 GTATCCTAAAAGCATACCTTTGGCATAAAAGTGACTC-GTTGATTGCCTAGGACTCGATTCAAGA
66 CTATCCTAAAAGCATACCTTTGGCATAAAAGTGAC-CAGTTGATTACCTAGGACTCGGTT---TA
* * *
83901 AAAAATTACAAAAATGCTCC-TATGG-T
127 AAAAATTACCAAAATAC-CCTTA-GGAG
* ** * ** * ** ** * *
83927 ATACCTTCGACGTG-AA--A-C-CAGTAACCCTAAAGGACATAAAAAAGAACCTACGAGGGTGAA
1 ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATG-ATGTAAAAGGATAAA
* * * * * * *
83987 CATATCCTAAAAACACACCTTTAGCATAAAA-TGACCTA-ATGACTA-CTAGGACTCGATTTTAA
65 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACC-AGTTGATTACCTAGGACTCG-GTTTAA
* * *
84049 AGAAATTACCAAAATGCTCTTA-AAG
128 A-AAATTACCAAAATACCCTTAGGAG
* * * * * ** *
84074 TATACCTTCGAAGTAAAAGAATCTTGGTAACCCTAAAGGACACGAAAATGAACCTAAAAAGG-TG
1 -ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATG-ATGT-AAAAGGATA
* * * * * * * *
84138 AACTTATCCT-AAA-CATACACTTTTGCCATAAAAGTGACCCGGTGACTACTTAGGACTTGATTC
63 AACCTATCCTAAAAGCATAC-C-TTTGGCATAAAAGTGACCAGTTGATTACCTAGGACTCGGTT-
* * * *
84201 TAAAAAAATTATCAAAATGCCTCTTATG-T
125 T-AAAAAATTACCAAAATACC-CTTAGGAG
* * * *
84230 ATACTTTCAACATGAAAGTATCTTGGTAA-CTCTAAAAGACACAAAAATGAT
1 ATACTTTCGACGTGAAAGTATCTTGGTAACCT-TAAAGGACACGAAAATGAT
84281 AAGTAATAAT
Statistics
Matches: 732, Mismatches: 171, Indels: 132
0.71 0.17 0.13
Matches are distributed among these distances:
147 4 0.01
148 28 0.04
149 13 0.02
150 32 0.04
151 93 0.13
152 69 0.09
153 145 0.20
154 189 0.26
155 134 0.18
156 23 0.03
157 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (152 bp):
ATACTTTCGACGTGAAAGTATCTTGGTAACCTTAAAGGACACGAAAATGATGTAAAAGGATAAAC
CTATCCTAAAAGCATACCTTTGGCATAAAAGTGACCAGTTGATTACCTAGGACTCGGTTTAAAAA
ATTACCAAAATACCCTTAGGAG
Found at i:84140 original size:153 final size:155
Alignment explanation
Indices: 83947--84279 Score: 388
Period size: 155 Copynumber: 2.2 Consensus size: 155
83937 CGTGAAACCA
* * ** *
83947 GTAACCCTAAAGGACATAAAAAAGAACCTACGAGGGTGAACATATCCTAAAAACACACCTTTAG-
1 GTAACCCTAAAGGACACAAAAATGAACCTAAAAAGGTGAACATATCCTAAAAACACA-CTTTAGC
* * *
84011 CATAAAA-TGACCTAATGACTAC-TAGGACTCGATTTTAAAGAAATTACCAAAATG-CTCTTAAA
65 CATAAAAGTGACCCAATGACTACTTAGGACTCGATTCTAAAAAAATTACCAAAATGCCTCTT-AA
*
84073 GTATACCTTCGAA-GTAAAAGAATCTTG
129 GTATACCTTC-AACATAAAAGAATCTTG
* * * * *
84100 GTAACCCTAAAGGACACGAAAATGAACCTAAAAAGGTGAACTTATCCTAAACATACACTTTTGCC
1 GTAACCCTAAAGGACACAAAAATGAACCTAAAAAGGTGAACATATCCTAAAAACACACTTTAGCC
** * * *
84165 ATAAAAGTGACCCGGTGACTACTTAGGACTTGATTCTAAAAAAATTATCAAAATGCCTCTTATGT
66 ATAAAAGTGACCCAATGACTACTTAGGACTCGATTCTAAAAAAATTACCAAAATGCCTCTTAAGT
* * *
84230 ATACTTTCAACATGAAAGTATCTTG
131 ATACCTTCAACATAAAAGAATCTTG
* *
84255 GTAACTCTAAAAGACACAAAAATGA
1 GTAACCCTAAAGGACACAAAAATGA
84280 TAAGTAATAA
Statistics
Matches: 150, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
152 5 0.03
153 55 0.37
154 14 0.09
155 71 0.47
156 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (155 bp):
GTAACCCTAAAGGACACAAAAATGAACCTAAAAAGGTGAACATATCCTAAAAACACACTTTAGCC
ATAAAAGTGACCCAATGACTACTTAGGACTCGATTCTAAAAAAATTACCAAAATGCCTCTTAAGT
ATACCTTCAACATAAAAGAATCTTG
Found at i:85366 original size:20 final size:20
Alignment explanation
Indices: 85318--85368 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
85308 TTCTACAATT
85318 TGTATCGATACAATTAGTAAA
1 TGTATCGATACAA-TAGTAAA
* *
85339 TTTATCGATACACA-AGTGAA
1 TGTATCGATACA-ATAGTAAA
85359 TGTATCGATA
1 TGTATCGATA
85369 TAGTCTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 14 0.54
21 11 0.42
22 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATAGTAAA
Found at i:89103 original size:20 final size:19
Alignment explanation
Indices: 89078--89120 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
89068 AACTTTGATT
89078 TTTTTCTTAAGTGTTTTTTG
1 TTTTTCTTAA-TGTTTTTTG
* *
89098 TTTTTCTTTATTTTTTTTG
1 TTTTTCTTAATGTTTTTTG
89117 TTTT
1 TTTT
89121 AAAAACTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.07, C:0.05, G:0.09, T:0.79
Consensus pattern (19 bp):
TTTTTCTTAATGTTTTTTG
Found at i:89231 original size:12 final size:12
Alignment explanation
Indices: 89216--89240 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89206 ATCCTTTGAA
89216 TTTTTCTTTTTT
1 TTTTTCTTTTTT
89228 TTTTTCTTTTTT
1 TTTTTCTTTTTT
89240 T
1 T
89241 GCTTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:90901 original size:161 final size:162
Alignment explanation
Indices: 90620--91090 Score: 473
Period size: 161 Copynumber: 2.9 Consensus size: 162
90610 AAATTTTCAA
* * * ** * * *
90620 TTAAGTCCCTAAACTTTTGAAAA-TTTCATTTCATACCCGACGAAAAATTG-AGAGGTACCAAAA
1 TTAA-TCCCT-AACTTTTAAAAACTTT-ATTTCGTACCCGATGAAAAACCGAAAAGATACGAAAA
* * * * * *
90683 GTCTTAAAAATTTTTATACCCTTACGGAAGGCCATAGAAATAATATAAATATTTAAAAATGACTA
63 GTTTTAAAAAATTTTATACCCCTACAGAAAGCCATAGAAATAATAAAAAT-TTTAAAAATGACTA
*
90748 AAATAATGATTTTACCTCTAAAA-TAAATTTT-T-T
127 AAATAATGATTTTACTTCTAAAACTAAATTTTATAT
** * *
90781 TTAATTTCTAAACTTTTAAAAACTTTATTTCGTACCCGATGAAGAACCGAGAAGATACAGAAAA-
1 TTAATCCCT-AACTTTTAAAAACTTTATTTCGTACCCGATGAAAAACCGAAAAGATAC-GAAAAG
* * *
90845 TTTT-GAAAATTTTCATACCCCTACAGAAAGCCATAAAAATAATAAAAATCTTTAAAAATGGCTA
64 TTTTAAAAAATTTT-ATACCCCTACAGAAAGCCATAGAAATAATAAAAAT-TTTAAAAATGACTA
*
90909 AAATAATGATTTTAACTTCAAAAACTAAATTTTACTAT
127 AAATAATGATTTT-ACTTCTAAAACTAAATTTTA-TAT
* * * *
90947 TTAATCCCTAACTTTTGAAAATTTTATTTCGTATCCGATGAAAAACTGAAAAGATACGAAAAGTT
1 TTAATCCCTAACTTTTAAAAACTTTATTTCGTACCCGATGAAAAACCGAAAAGATACGAAAAGTT
* * *
91012 TTAAAAAATTTTATACCCCTATA-AAAGGCCATAGGAATAA-AGAAA---TAAAAATGA-TAAAA
66 TTAAAAAATTTTATACCCCTACAGAAA-GCCATAGAAATAATAAAAATTTTAAAAATGACTAAAA
*
91071 TGATGATTTTACTTCTAAAA
130 TAATGATTTTACTTCTAAAA
91091 ACAAAAATTT
Statistics
Matches: 258, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
158 9 0.03
159 14 0.05
160 48 0.19
161 71 0.28
162 12 0.05
163 8 0.03
164 12 0.05
165 68 0.26
166 16 0.06
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (162 bp):
TTAATCCCTAACTTTTAAAAACTTTATTTCGTACCCGATGAAAAACCGAAAAGATACGAAAAGTT
TTAAAAAATTTTATACCCCTACAGAAAGCCATAGAAATAATAAAAATTTTAAAAATGACTAAAAT
AATGATTTTACTTCTAAAACTAAATTTTATAT
Found at i:91030 original size:165 final size:161
Alignment explanation
Indices: 90620--91032 Score: 483
Period size: 161 Copynumber: 2.5 Consensus size: 161
90610 AAATTTTCAA
* * * * * * *
90620 TTAAGTCCCTAAACTTTTGAAAATTTCATTTCATACCCGACGAAAAATTG-AGAGGTACCAAAAG
1 TTAA-TCCCTAAACTTTTGAAAATTTTATTTCGTACCCGATGAAAAACTGAAAAGATACGAAAAG
* * * * * * *
90684 TCTTAAAAATTTTTATACCCTTACGGAAGGCCATAGAAATAATATAAATATTTAAAAATGACTAA
65 TTTTAAAAAATTTTATACCCCTACAGAAAGCCATAAAAATAATAAAAATATTTAAAAATGACTAA
*
90749 AATAATGATTTTACCTCTAAAATAAATTTTTT
130 AATAATGATTTTACCTCAAAAATAAATTTTTT
** * * * * *
90781 TTAATTTCTAAACTTTTAAAAACTTTATTTCGTACCCGATGAAGAACCGAGAAGATACAGAAAA-
1 TTAATCCCTAAACTTTTGAAAATTTTATTTCGTACCCGATGAAAAACTGAAAAGATAC-GAAAAG
* * *
90845 TTTT-GAAAATTTTCATACCCCTACAGAAAGCCATAAAAATAATAAAAATCTTTAAAAATGGCTA
65 TTTTAAAAAATTTT-ATACCCCTACAGAAAGCCATAAAAATAATAAAAATATTTAAAAATGACTA
*
90909 AAATAATGATTTTAACTTCAAAAACTAAATTTTACTAT
129 AAATAATGATTTT-ACCTCAAAAA-TAAATTTT--T-T
*
90947 TTAATCCCT-AACTTTTGAAAATTTTATTTCGTATCCGATGAAAAACTGAAAAGATACGAAAAGT
1 TTAATCCCTAAACTTTTGAAAATTTTATTTCGTACCCGATGAAAAACTGAAAAGATACGAAAAGT
91011 TTTAAAAAATTTTATACCCCTA
66 TTTAAAAAATTTTATACCCCTA
91033 TAAAAGGCCA
Statistics
Matches: 207, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
160 42 0.20
161 68 0.33
162 12 0.06
163 8 0.04
164 5 0.02
165 56 0.27
166 16 0.08
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (161 bp):
TTAATCCCTAAACTTTTGAAAATTTTATTTCGTACCCGATGAAAAACTGAAAAGATACGAAAAGT
TTTAAAAAATTTTATACCCCTACAGAAAGCCATAAAAATAATAAAAATATTTAAAAATGACTAAA
ATAATGATTTTACCTCAAAAATAAATTTTTT
Found at i:92167 original size:33 final size:33
Alignment explanation
Indices: 92127--92193 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
92117 CCGTTACAAG
92127 CAATGTATCGAAACAATT-CATCATGTATCGATA
1 CAATGTATCGAAA-AATTGCATCATGTATCGATA
* * * *
92160 CAATGTATTGATATATTGTATCATGTATCGATA
1 CAATGTATCGAAAAATTGCATCATGTATCGATA
92193 C
1 C
92194 TAACAGTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (33 bp):
CAATGTATCGAAAAATTGCATCATGTATCGATA
Found at i:92249 original size:20 final size:20
Alignment explanation
Indices: 92224--92278 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
92214 CTGCCAATCT
**
92224 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
92244 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
92263 AATGTATCGATACAAT
1 CATGTATCGATACAAT
92279 GTATCGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:92305 original size:33 final size:32
Alignment explanation
Indices: 92245--92309 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
92235 ACAATTGTCC
*
92245 ATGTATCGATACAATGAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAATGTATCGATACA
* *
92277 ATGTATCGATTCAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-AAAATGTATCGATACA
92310 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGAAAATGTATCGATACA
Found at i:92854 original size:20 final size:20
Alignment explanation
Indices: 92829--92907 Score: 115
Period size: 20 Copynumber: 3.9 Consensus size: 20
92819 CCCCTTAATC
*
92829 AAAAAATTTCTCCGCTTTTAA
1 AAAAAATTTCTCCCCTTTT-A
92850 AAAAAATTTCTCCCCTTTTA
1 AAAAAATTTCTCCCCTTTTA
*
92870 AAAAATATTTCT-CCCTTTTT
1 AAAAA-ATTTCTCCCCTTTTA
92890 AAAAAATTTCTCCCCTTT
1 AAAAAATTTCTCCCCTTT
92908 AATCAAGGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
19 6 0.11
20 24 0.44
21 24 0.44
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.42
Consensus pattern (20 bp):
AAAAAATTTCTCCCCTTTTA
Found at i:92855 original size:21 final size:21
Alignment explanation
Indices: 92829--92907 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
92819 CCCCTTAATC
*
92829 AAAAAATTTCTCCGCTTTTAA
1 AAAAAATTTCTCCCCTTTTAA
92850 AAAAAATTTCTCCCCTTTTAA
1 AAAAAATTTCTCCCCTTTTAA
* *
92871 AAAATATTTCT-CCCTTTT-T
1 AAAAAATTTCTCCCCTTTTAA
92890 AAAAAATTTCTCCCCTTT
1 AAAAAATTTCTCCCCTTT
92908 AATCAAGGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 10 0.19
20 13 0.25
21 30 0.57
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.42
Consensus pattern (21 bp):
AAAAAATTTCTCCCCTTTTAA
Found at i:92942 original size:22 final size:21
Alignment explanation
Indices: 92813--92942 Score: 108
Period size: 21 Copynumber: 6.1 Consensus size: 21
92803 AGTTTTCATT
*
92813 TTTCTCCCCCTTAATCAAAAAA
1 TTTCTCCCCTTTAATC-AAAAA
* *
92835 TTTCTCCGCTTTTAA-AAAAAA
1 TTTCTCC-CCTTTAATCAAAAA
92856 TTTCTCCCCTTTTAA--AAAATA
1 TTTCTCCCC-TTTAATCAAAA-A
* *
92877 TTTCT-CCCTTT-TTAAAAAA
1 TTTCTCCCCTTTAATCAAAAA
**
92896 TTTCTCCCCTTTAATCAAGGCA
1 TTTCTCCCCTTTAATCAA-AAA
92918 TTTCTCCTCCTTTAATCAAAAA
1 TTTCTCC-CCTTTAATCAAAAA
92940 TTT
1 TTT
92943 ATTTTTTTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
19 9 0.10
20 18 0.20
21 26 0.30
22 19 0.22
23 16 0.18
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTCTCCCCTTTAATCAAAAA
Found at i:94999 original size:18 final size:20
Alignment explanation
Indices: 94958--94999 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
94948 CTATAGACCC
94958 TAATTCATATCAAACAAGCA
1 TAATTCATATCAAACAAGCA
*
94978 TAATTCAT-TCACACAA-CA
1 TAATTCATATCAAACAAGCA
94996 TAAT
1 TAAT
95000 AAACATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATTCATATCAAACAAGCA
Found at i:95036 original size:29 final size:30
Alignment explanation
Indices: 94979--95042 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
94969 AAACAAGCAT
*
94979 AATTCATTCACACAACATAATAAACATCAA
1 AATTCATTCACACAACATAACAAACATCAA
*
95009 AATTCATTCA-ACAACAAAGCACAAATCATCAA
1 AATTCATTCACACAACATA--ACAAA-CATCAA
95041 AA
1 AA
95043 ATCACAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 10 0.34
31 4 0.14
32 8 0.28
ACGTcount: A:0.55, C:0.23, G:0.02, T:0.20
Consensus pattern (30 bp):
AATTCATTCACACAACATAACAAACATCAA
Found at i:100930 original size:20 final size:21
Alignment explanation
Indices: 100905--100958 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
100895 GTTACAAACA
*
100905 ATGTATCGATACAATTCT-TC
1 ATGTATCGATACAATTCTACC
*
100925 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATTCTACC
100945 ATGTATCGATACAA
1 ATGTATCGATACAA
100959 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTCTACC
Found at i:101049 original size:32 final size:33
Alignment explanation
Indices: 101008--101072 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
100998 ACAATTGTCC
* *
101008 ATATATCAATACAATG-AAAATGTATTGATACA
1 ATATATCAATACAAAGCAAAATGTATCGATACA
*
101040 ATATATCAATACAAAGCATAATGTATCGATACA
1 ATATATCAATACAAAGCAAAATGTATCGATACA
101073 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.29
Consensus pattern (33 bp):
ATATATCAATACAAAGCAAAATGTATCGATACA
Found at i:102324 original size:27 final size:26
Alignment explanation
Indices: 102267--102325 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
102257 AATTTTTGGT
**
102267 TGAAAATGGGGTTGGAGTGTCCCCTC
1 TGAAAATGGGGTTGGAGTGTCCCCGA
*
102293 GGAAAAGTGGGGTTGGAGTGTCCCCGA
1 TGAAAA-TGGGGTTGGAGTGTCCCCGA
102320 TGAAAA
1 TGAAAA
102326 AATTTTTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.37, T:0.22
Consensus pattern (26 bp):
TGAAAATGGGGTTGGAGTGTCCCCGA
Found at i:104540 original size:52 final size:52
Alignment explanation
Indices: 104462--104586 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
104452 CGAAATATGA
*
104462 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
*
104514 AAATTTGCCTGTATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
**
104566 AAATTTGCCCACATGTATCGA
1 AAATTTGCCTGCATGTATCGA
104587 TACAAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
Found at i:104600 original size:52 final size:52
Alignment explanation
Indices: 104462--104610 Score: 174
Period size: 52 Copynumber: 2.9 Consensus size: 52
104452 CGAAATATGA
** * **
104462 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCCACATGTATCGACACATAACATAGTGTATCGATACATCTGGGC
*** **
104514 AAATTTGCCTGTATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCCACATGTATCGACACATAACATAGTGTATCGATACATCTGGGC
* *
104566 AAATTTGCCCACATGTATCGATACA-AAGATTAGTGTATCGATACA
1 AAATTTGCCCACATGTATCGACACATAACA-TAGTGTATCGATACA
104611 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 86 0.99
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCCACATGTATCGACACATAACATAGTGTATCGATACATCTGGGC
Found at i:104617 original size:13 final size:13
Alignment explanation
Indices: 104599--104623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104589 CAAAGATTAG
104599 TGTATCGATACAA
1 TGTATCGATACAA
104612 TGTATCGATACA
1 TGTATCGATACA
104624 TTTGAGTAAT
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:104711 original size:32 final size:32
Alignment explanation
Indices: 104670--104738 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
104660 CTTCGTAGCT
104670 ATACATTGTATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
* * *
104702 ATACATTGTATTGATATAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
104734 ATACA
1 ATACA
104739 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCG
Found at i:104736 original size:19 final size:19
Alignment explanation
Indices: 104676--104736 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
104666 AGCTATACAT
* *
104676 TGTATCGATACAAAACTTA
1 TGTATCGATATAACACTTA
104695 TGTATCG--AT-ACA--T-
1 TGTATCGATATAACACTTA
*
104708 TGTATTGATATAACACTTA
1 TGTATCGATATAACACTTA
104727 TGTATCGATA
1 TGTATCGATA
104737 CAAATCGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
13 6 0.19
14 1 0.03
15 2 0.06
16 5 0.16
17 1 0.03
18 1 0.03
19 16 0.50
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATATAACACTTA
Found at i:105918 original size:15 final size:15
Alignment explanation
Indices: 105898--105929 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
105888 TTGATTTTAT
105898 TTTTATTTAAATTAA
1 TTTTATTTAAATTAA
105913 TTTTATTTAAATTAA
1 TTTTATTTAAATTAA
105928 TT
1 TT
105930 ATCTTTGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATTTAAATTAA
Found at i:112805 original size:51 final size:51
Alignment explanation
Indices: 112729--112833 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
112719 GCAGTTTCAC
*
112729 AAGAACTTCTATCTGATGCAACCAAACACATGACAAAAAATGTGTCAAACT
1 AAGAACTTCTATCTGATGCAACCAAACACATGACAAAAAATATGTCAAACT
*
112780 AAGAACTTCTATCTGATGCAACCAAACACATGACAAAAGATATGTCAAACT
1 AAGAACTTCTATCTGATGCAACCAAACACATGACAAAAAATATGTCAAACT
112831 AAG
1 AAG
112834 GTATACTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (51 bp):
AAGAACTTCTATCTGATGCAACCAAACACATGACAAAAAATATGTCAAACT
Found at i:113595 original size:16 final size:17
Alignment explanation
Indices: 113563--113595 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
113553 AAAATTTAAT
113563 TTTAATGAAAATATTTA
1 TTTAATGAAAATATTTA
*
113580 TTTAAT-AAAGTATTTA
1 TTTAATGAAAATATTTA
113596 AATCAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTAATGAAAATATTTA
Found at i:115335 original size:21 final size:22
Alignment explanation
Indices: 115282--115336 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
115272 TTATTCCCAC
*
115282 ATTTAATTT-GAATTATTATTT
1 ATTTAATTTAAAATTATTATTT
*
115303 -TATTAA-TAAAAATTATT-TTT
1 AT-TTAATTTAAAATTATTATTT
115323 ATTTAATTTAAAAT
1 ATTTAATTTAAAAT
115337 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAATTTAAAATTATTATTT
Found at i:116557 original size:28 final size:28
Alignment explanation
Indices: 116505--116558 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
116495 ATTAGGATGT
* *
116505 AAAATTTTGTACTTACAATTTGTTTTAC
1 AAAATTTCGTACTTACAATTAGTTTTAC
116533 AAAATTTCGTACTTATCAA-TAGTTTT
1 AAAATTTCGTACTTA-CAATTAGTTTT
116559 TCATTGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (28 bp):
AAAATTTCGTACTTACAATTAGTTTTAC
Found at i:120137 original size:20 final size:20
Alignment explanation
Indices: 120112--120231 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
120102 TTTTAACTAG
120112 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
120132 ATGTATTGATACATCTGGGAAAAAAGACA
1 ATGTATCGATACAT-T--G----AA-A-A
*
120161 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
120181 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
120201 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
120221 ATGTATCGATA
1 ATGTATCGATA
120232 TATCTGGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
20 56 0.71
21 1 0.01
22 2 0.03
23 1 0.01
26 1 0.01
27 2 0.03
28 2 0.03
29 14 0.18
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:120264 original size:71 final size:68
Alignment explanation
Indices: 120177--120386 Score: 219
Period size: 71 Copynumber: 3.0 Consensus size: 68
120167 CGATACATTG
120177 AAGAATGTATCGATACATTCATACATGTATTGATACATTGAAAAATGTATCGATATATCTGGGTA
1 AAGAATGTATCGATACATTCATACATGTATTGATACATTGAAAAATG-ATCGATATATCT-GGTA
120242 AAAAA
64 AAAAA
* *
120247 ATAGAATGTATCGATACATTCATACATGTATTGATACATCTGGGTAAAAA-GA-CAAAATGTATC
1 A-AGAATGTATCGATACATTCATACATGTATTGATACAT-T--G-AAAAATGATC--GATATATC
** * ***
120310 -AATACATTG
59 TGGTAAAAAA
* *
120319 AAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGCATCGATACATCTGGTAA
1 AAGAATGTATCGATACATTCATACATGTATTGATACATTGAAAAATG-ATCGATATATCTGGTAA
120384 AAA
65 AAA
120387 TGTGACTTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
67 5 0.04
68 7 0.06
69 4 0.04
70 3 0.03
71 73 0.65
72 6 0.05
73 1 0.01
74 8 0.07
75 5 0.04
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (68 bp):
AAGAATGTATCGATACATTCATACATGTATTGATACATTGAAAAATGATCGATATATCTGGTAAA
AAA
Found at i:120277 original size:51 final size:51
Alignment explanation
Indices: 120201--120336 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
120191 ACATTCATAC
* * * * *
120201 ATGTATTGATACATTGAAAAATGTATCGATATATCTGGGTAAAAAAATAGA
1 ATGTATCGATACATTCAAAAATGTATCGATACATCTGGGTAAAAAAACAAA
* * * *
120252 ATGTATCGATACATTCATACATGTATTGATACATCTGGGTAAAAAGACAAA
1 ATGTATCGATACATTCAAAAATGTATCGATACATCTGGGTAAAAAAACAAA
* * *
120303 ATGTATCAATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTCAAAAATGTATCGATACAT
120337 TCATACATGT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACATTCAAAAATGTATCGATACATCTGGGTAAAAAAACAAA
Found at i:120327 original size:20 final size:19
Alignment explanation
Indices: 120300--120376 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
120290 GTAAAAAGAC
*
120300 AAAATGTATCAATACATTG
1 AAAATGTATCGATACATTG
*
120319 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
120339 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
120359 AAAAATGCATCGATACAT
1 -AAAATGTATCGATACAT
120377 CTGGTAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:120371 original size:142 final size:139
Alignment explanation
Indices: 120112--120386 Score: 451
Period size: 142 Copynumber: 2.0 Consensus size: 139
120102 TTTTAACTAG
* *
120112 ATGTATCGATACATTGAAAAATGTATTGATACATCTGGGAAAAAAGACAATGTATCGATACATTG
1 ATGTATCGATACATTCAAAAATGTATTGATACATCTGGGAAAAAAGACAATGTATCAATACATTG
* * *
120177 AAGAATGTATCGATACATTCATACATGTATTGATACATTGAAAAATGTATCGATATATCTGGGTA
66 AAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGCATCGATACATCT-GGTA
120242 AAAAAATAGA
130 AAAAAATAGA
* * *
120252 ATGTATCGATACATTCATACATGTATTGATACATCTGGGTAAAAAGACAAAATGTATCAATACAT
1 ATGTATCGATACATTCAAAAATGTATTGATACATCTGGGAAAAAAGAC--AATGTATCAATACAT
120317 TGAAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGCATCGATACATCTGGT
64 TGAAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGCATCGATACATCTGGT
120382 AAAAA
129 AAAAA
120387 TGTGACTTTT
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
140 44 0.35
141 8 0.06
142 73 0.58
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (139 bp):
ATGTATCGATACATTCAAAAATGTATTGATACATCTGGGAAAAAAGACAATGTATCAATACATTG
AAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGCATCGATACATCTGGTAA
AAAAATAGA
Found at i:121094 original size:48 final size:48
Alignment explanation
Indices: 121019--121188 Score: 241
Period size: 48 Copynumber: 3.5 Consensus size: 48
121009 CAATATGCCA
* * * *
121019 ATTCAAGGCCAACGACATCGAGTTAAGGGAAAAATGGACAATGTGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
*
121067 ATTCAAGGCCAGTGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
* * * *
121115 ATTTAAGGCCAGTGACATTGAGCTAAGGGAAAAGTGGACAATGTGTTA
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
* *
121163 ATTCAAGGCTAGCGACATTAAGCTAA
1 ATTCAAGGCCAGCGACATTGAGCTAA
121189 TAATGGTGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.22
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
Found at i:121106 original size:23 final size:23
Alignment explanation
Indices: 121080--121154 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
121070 CAAGGCCAGT
121080 GACATTGAGCTAAGGGAAAAGTG
1 GACATTGAGCTAAGGGAAAAGTG
* * * **
121103 GACAATGTGCTGATTTAAGG-CCAGT-
1 GACATTGAGCT-A---AGGGAAAAGTG
121128 GACATTGAGCTAAGGGAAAAGTG
1 GACATTGAGCTAAGGGAAAAGTG
121151 GACA
1 GACA
121155 ATGTGTTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
21 3 0.08
22 3 0.08
23 13 0.36
24 2 0.06
25 9 0.25
26 3 0.08
27 3 0.08
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (23 bp):
GACATTGAGCTAAGGGAAAAGTG
Found at i:121307 original size:28 final size:28
Alignment explanation
Indices: 121253--121750 Score: 484
Period size: 28 Copynumber: 17.1 Consensus size: 28
121243 AAAGTGGTGA
* *
121253 TTTGAAAAGGGTGCCACTAACTAGTGGGC
1 TTTGAAAA-GGTGCCACTGACTTGTGGGC
121282 TTTGAAAAGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * *
121310 TTTGGAAAGATGCCACTGATTTGTGTGGGC
1 TTTGAAAAGGTGCCACTGA-CT-TGTGGGC
* *
121340 TTTGAAAGGGTACGCCACTGACTTGCGGGC
1 TTTGAAAAGGT--GCCACTGACTTGTGGGC
* *
121370 TTTGAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
*
121398 TTTAAAAAGAGTTGCCAC-GACTTGTATGGGC
1 TTTGAAAAG-G-TGCCACTGACTTG--TGGGC
*
121429 TTTGAAAAGGTGCCACTGACTTGTGGGA
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* *
121457 TTTGAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
*
121485 TTTG-AAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
121513 TTTGAAAGGGTGCCACTGATTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * *
121541 TTTAAAAATAGTTGCCACCGACTTGTGTGGGC
1 TTT-GAAA-AGGTGCCACTGAC-T-TGTGGGC
*
121573 TTT-AAAAGGGTGCCACCGACTTGTGGGC
1 TTTGAAAA-GGTGCCACTGACTTGTGGGC
*
121601 TTTGAAAGGGTATGCCACTGACTTGTGGGC
1 TTTGAAAAGG--TGCCACTGACTTGTGGGC
* * *
121631 TTTG-AAAGGATGCCACTAACTTGTAGTC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
121659 TTTTGAAAAGATGCCACTGATTTGTGGGC
1 -TTTGAAAAGGTGCCACTGACTTGTGGGC
* *
121688 TTTGAAAAGAGTTGTCACCGACTTGTGTGGGC
1 TTTGAAAAG-G-TGCCACTGAC-T-TGTGGGC
*
121720 TTT-AAAAGGGTGCCACTGATTTGTGGGC
1 TTTGAAAA-GGTGCCACTGACTTGTGGGC
121748 TTT
1 TTT
121751 TTGAGAGATG
Statistics
Matches: 395, Mismatches: 48, Indels: 53
0.80 0.10 0.11
Matches are distributed among these distances:
27 4 0.01
28 178 0.45
29 56 0.14
30 107 0.27
31 21 0.05
32 29 0.07
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTGAAAAGGTGCCACTGACTTGTGGGC
Found at i:121666 original size:203 final size:200
Alignment explanation
Indices: 121252--121750 Score: 578
Period size: 203 Copynumber: 2.4 Consensus size: 200
121242 AAAAGTGGTG
*
121252 ATTTGAAAAGGGTGCCACTAACTAGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGGAA
1 ATTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT-GAA
* * * * *
121317 A-GATGCCACTGATTTGTGTGGGCTTTGAAAGGGTACGCCACTGACTTGCGGGCTTTGAAAGGGT
64 AGGGTGCCACTGA-TT-TGTGGGCTTTAAAAGAGTACGCCACCGACTTGCGGGCTTTAAAAGGGT
*
121381 GCCACTAACTTGTGGGCTTTAAAAAGAGTTGCCACGACTTGTATGGGCTTTGAAAAGGTGCCACT
127 GCCACCAACTTGTGGGCTTTAAAAAGAGTTGCCACGACTTG-ATGGGCTTTGAAAAGGTGCCACT
* *
121446 GACTTGTGGG
191 AACTTGTGGC
*
121456 ATTTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAA
1 ATTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAA
* * *
121520 GGGTGCCACTGATTTGTGGGCTTTAAAAATAGT-TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
65 GGGTGCCACTGATTTGTGGGCTTT-AAAAGAGTACGCCACCGAC-T-TGCGGGCTTTAAAAGGGT
* * *
121584 GCCACCGACTTGTGGGCTTT-GAAAGGGTATGCCACTGACTTG-TGGGCTTTG-AAAGGATGCCA
127 GCCACCAACTTGTGGGCTTTAAAAAGAGT-TGCCAC-GACTTGATGGGCTTTGAAAAGG-TGCCA
*
121646 CTAACTTGTAGTC
189 CTAACTTGT-GGC
* * * * * * * *
121659 TTTTGAAAAGATGCCACTGATTTGTGGGCTTTGAAAAGAGTTGTCACCGACTTGTGTGGGCTTTA
1 ATTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAG-G-TGCCACTGAC-T-TGTGGGCTTTG
121724 AAAGGGTGCCACTGATTTGTGGGCTTT
62 AAAGGGTGCCACTGATTTGTGGGCTTT
121751 TTGAGAGATG
Statistics
Matches: 255, Mismatches: 27, Indels: 23
0.84 0.09 0.08
Matches are distributed among these distances:
201 23 0.09
202 45 0.18
203 126 0.49
204 15 0.06
205 8 0.03
206 1 0.00
207 37 0.15
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (200 bp):
ATTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
GGTGCCACTGATTTGTGGGCTTTAAAAGAGTACGCCACCGACTTGCGGGCTTTAAAAGGGTGCCA
CCAACTTGTGGGCTTTAAAAAGAGTTGCCACGACTTGATGGGCTTTGAAAAGGTGCCACTAACTT
GTGGC
Found at i:121710 original size:147 final size:145
Alignment explanation
Indices: 121276--121750 Score: 665
Period size: 147 Copynumber: 3.3 Consensus size: 145
121266 CCACTAACTA
*
121276 GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGGAAA--GATGCCACTGATTTGTGTGGG
1 GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT-GAAAGGGATGCCACTGA-CT-TGTGGG
* * * * *
121339 CTTTGAAAGGGTACGCCACTGACTTGCGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAA
63 CTTTGAAA-GG-ATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAA
121404 AAGAGTTGCCA-CGACTTGT
126 AAGAGTTGCCACCGACTTGT
* * *
121423 ATGGGCTTTGAAAAGGTGCCACTGACTTGTGGGATTTGAAAGGG-TGCCACTAACTTGTGGGCTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTT
*
121487 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAATAG
66 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAAGAG
121552 TTGCCACCGACTTGT
131 TTGCCACCGACTTGT
*
121567 GTGGGCTTT-AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGC
1 GTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGGG-ATGCCACTGACTTGTGGGC
* * * * *
121631 TTTGAAAGGATGCCACTAACTTGTAGTCTTTTGAAAAGATGCCACTGATTTGTGGGCTTTGAAAA
64 TTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAA
*
121696 GAGTTGTCACCGACTTGT
128 GAGTTGCCACCGACTTGT
*
121714 GTGGGCTTT-AAAAGGGTGCCACTGATTTGTGGGCTTT
1 GTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTT
121751 TTGAGAGATG
Statistics
Matches: 298, Mismatches: 23, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
143 62 0.21
144 46 0.15
145 14 0.05
146 48 0.16
147 127 0.43
148 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (145 bp):
GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAAGAG
TTGCCACCGACTTGT
Found at i:123024 original size:15 final size:12
Alignment explanation
Indices: 123005--123087 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 12
122995 ATCTGGACCA
123005 TTTTTTTGTTTGAT
1 TTTTTTTGTTT--T
123019 TGTTTTTTGTTTGT
1 T-TTTTTTGTTT-T
123033 TTTTTTTGTTTT
1 TTTTTTTGTTTT
*
123045 TGTTTTTT-TTTA
1 T-TTTTTTGTTTT
* *
123057 TTTTTTTCTTGGT
1 TTTTTTTGTT-TT
123070 TTTTTTTGTTTT
1 TTTTTTTGTTTT
123082 TTTTTT
1 TTTTTT
123088 GGTATGAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
11 6 0.10
12 15 0.25
13 25 0.42
14 3 0.05
15 10 0.17
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.84
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:123025 original size:1 final size:1
Alignment explanation
Indices: 123021--123087 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
123011 TGTTTGATTG
* * * * * * ** *
123021 TTTTTTGTTTGTTTTTTTTGTTTTTGTTTTTTTTTATTTTTTTCTTGGTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
123086 TT
1 TT
123088 GGTATGAAGG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:123032 original size:11 final size:10
Alignment explanation
Indices: 123006--123086 Score: 83
Period size: 10 Copynumber: 7.9 Consensus size: 10
122996 TCTGGACCAT
123006 TTTTTTGTTTG
1 TTTTTT-TTTG
*
123017 ATTGTTTTTTG
1 -TTTTTTTTTG
*
123028 TTTGTTTTT-
1 TTTTTTTTTG
*
123037 TTTGTTTTTG
1 TTTTTTTTTG
*
123047 TTTTTTTTTA
1 TTTTTTTTTG
123057 TTTTTTTCTTG
1 TTTTTTT-TTG
*
123068 GTTTTTTTTG
1 TTTTTTTTTG
123078 TTTTTTTTT
1 TTTTTTTTT
123087 TGGTATGAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
9 9 0.15
10 33 0.56
11 12 0.20
12 5 0.08
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:123042 original size:28 final size:26
Alignment explanation
Indices: 123005--123087 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 26
122995 ATCTGGACCA
123005 TTTTTTTGTTTGATTGTTTTTTGTTTGT
1 TTTTTTTGTTTG-TTGTTTTTTGTTT-T
*
123033 TTTTTTTGTTT-TTGTTTTTT-TTTA
1 TTTTTTTGTTTGTTGTTTTTTGTTTT
* *
123057 TTTTTTTCTTGGTT-TTTTTTGTTTT
1 TTTTTTTGTTTGTTGTTTTTTGTTTT
123082 TTTTTT
1 TTTTTT
123088 GGTATGAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
24 15 0.31
25 14 0.29
26 9 0.18
28 11 0.22
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.84
Consensus pattern (26 bp):
TTTTTTTGTTTGTTGTTTTTTGTTTT
Found at i:123044 original size:19 final size:19
Alignment explanation
Indices: 123022--123082 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
123012 GTTTGATTGT
123022 TTTTTGTTTGTTTTTTTTG
1 TTTTTGTTTGTTTTTTTTG
123041 TTTTTGTTT-TTTTTTATT-
1 TTTTTGTTTGTTTTTT-TTG
* *
123059 TTTTTCTTGGTTTTTTTTG
1 TTTTTGTTTGTTTTTTTTG
123078 TTTTT
1 TTTTT
123083 TTTTTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (19 bp):
TTTTTGTTTGTTTTTTTTG
Found at i:131622 original size:13 final size:13
Alignment explanation
Indices: 131604--131629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
131594 ACATAAGTCT
131604 TGTATCGATACAA
1 TGTATCGATACAA
131617 TGTATCGATACAA
1 TGTATCGATACAA
131630 AGTTGCCTTG
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):
TGTATCGATACAA
Done.