Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1955
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: 140969
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:2495 original size:21 final size:19
Alignment explanation
Indices: 2469--2534 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 19
2459 CTTCGTACCA
2469 AAAAAAAAACAAAAAAAACC
1 AAAAAAAAA-AAAAAAAACC
2489 AAGAAAAAAATAAAAAAAA-C
1 AA-AAAAAAA-AAAAAAAACC
2509 AAAAACAAAAAAAAACAAA-C
1 AAAAA-AAAAAAAAA-AAACC
2529 AAAAAA
1 AAAAAA
2535 CAATCAAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 9 0.21
20 18 0.43
21 15 0.36
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAACC
Found at i:2535 original size:21 final size:20
Alignment explanation
Indices: 2467--2548 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 20
2457 TCCTTCGTAC
2467 CAAAAAAAAAACAAAAAAAA
1 CAAAAAAAAAACAAAAAAAA
* *
2487 CCAAGAAAAAAATAAAAAAAA
1 -CAAAAAAAAAACAAAAAAAA
*
2508 CAAAAACAAAAA-AAAACAAA
1 CAAAAA-AAAAACAAAAAAAA
* *
2528 CAAAAAACAATCAAACAAAAA
1 CAAAAAAAAAACAAA-AAAAA
2549 AATGGTCCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.06
20 21 0.41
21 27 0.53
ACGTcount: A:0.83, C:0.13, G:0.01, T:0.02
Consensus pattern (20 bp):
CAAAAAAAAAACAAAAAAAA
Found at i:2542 original size:11 final size:10
Alignment explanation
Indices: 2469--2542 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
2459 CTTCGTACCA
*
2469 AAAAAAAAAC
1 AAAAAACAAC
2479 AAAAAA-AACC
1 AAAAAACAA-C
* *
2489 AAGAAAAAAAT
1 AA-AAAACAAC
2500 AAAAAA-AAC
1 AAAAAACAAC
*
2509 -AAAAACAAA
1 AAAAAACAAC
2518 AAAAAACAAAC
1 AAAAAAC-AAC
2529 AAAAAACAATC
1 AAAAAACAA-C
2540 AAA
1 AAA
2543 CAAAAAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
8 5 0.09
9 6 0.11
10 21 0.40
11 19 0.36
12 2 0.04
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.03
Consensus pattern (10 bp):
AAAAAACAAC
Found at i:2549 original size:36 final size:35
Alignment explanation
Indices: 2467--2550 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
2457 TCCTTCGTAC
* *
2467 CAAAAAAAAAACAAAAAAAACCAAGAAAAAAATAA
1 CAAAAAAAAAACAAAAAAAAACAAGAAAAAAACAA
*
2502 AAAAAACAAAAACAAAAAAAAACAA-ACAAAAAACAA
1 CAAAAA-AAAAACAAAAAAAAACAAGA-AAAAAACAA
2538 TCAAACAAAAAAA
1 -CAAA-AAAAAAA
2551 TGGTCCAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 6 0.15
36 25 0.61
37 8 0.20
38 2 0.05
ACGTcount: A:0.83, C:0.13, G:0.01, T:0.02
Consensus pattern (35 bp):
CAAAAAAAAAACAAAAAAAAACAAGAAAAAAACAA
Found at i:2550 original size:1 final size:1
Alignment explanation
Indices: 2468--2534 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
2458 CCTTCGTACC
* ** * * * * * *
2468 AAAAAAAAAACAAAAAAAACCAAGAAAAAAATAAAAAAAACAAAAACAAAAAAAAACAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2533 AA
1 AA
2535 CAATCAAACA
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:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:2550 original size:16 final size:15
Alignment explanation
Indices: 2501--2550 Score: 70
Period size: 14 Copynumber: 3.5 Consensus size: 15
2491 GAAAAAAATA
2501 AAAAAAACAA-AAAC
1 AAAAAAACAACAAAC
2515 AAAAAAA-AACAAAC
1 AAAAAAACAACAAAC
2529 -AAAAAACAATCAAAC
1 AAAAAAACAA-CAAAC
2544 AAAAAAA
1 AAAAAAA
2551 TGGTCCAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.25
14 13 0.41
15 5 0.16
16 6 0.19
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAAAACAACAAAC
Found at i:3888 original size:28 final size:28
Alignment explanation
Indices: 3803--4300 Score: 502
Period size: 28 Copynumber: 17.1 Consensus size: 28
3793 CATCTCTTAA
3803 AAAGCCCACAAGTCAGTGGCACCCTTTT-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* *
3831 AAAGCCCACACAAGTCGGTGACAACTCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CTTTTC
* *
3863 AAAGCCCACAAATCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
3891 AAAAGACTACAAGTTAGTGGCATCC-TTTC
1 -AAAGCCCACAAGTCAGTGGCA-CCTTTTC
*
3920 AAAGCCCACAAGTCAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGC--ACCTTTTC
*
3950 AAAGCCCACAAGTCGGTGGCACCCTTTT-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* * *
3978 AAAGCCCACACAAGTCGGTGGCAACTATTTTT
1 AAAG-CC-CACAAGTCAGTGGC-AC-CTTTTC
*
4010 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
4038 AAAGCCCACAAGTTAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
*
4066 AAAGCCCACAAGTTAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
4094 AAAGCCCACAAGTCAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
4122 AAAGCCCATACAAGTC-GTGGCAACTCTTTTT
1 AAAGCCC--ACAAGTCAGTGGC-AC-CTTTTC
* *
4153 AAAGCCCACAAGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* *
4181 AAAGCCCGCAAGTCAGTGGCGTACCCTTTC
1 AAAGCCCACAAGTCAGTGGC--ACCTTTTC
* * *
4211 AAAGCCCACACAAATCAGTGGCATCTTTCC
1 AAAG-CC-CACAAGTCAGTGGCACCTTTTC
* *
4241 AAAGCCCACAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* *
4269 AAAGCCCACTAGTTAGTGGCACCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACC-TTTTC
4298 AAA
1 AAA
4301 TCACCACTTT
Statistics
Matches: 399, Mismatches: 43, Indels: 55
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.01
28 177 0.44
29 59 0.15
30 112 0.28
31 29 0.07
32 20 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTC
Found at i:4038 original size:147 final size:146
Alignment explanation
Indices: 3803--4277 Score: 667
Period size: 147 Copynumber: 3.3 Consensus size: 146
3793 CATCTCTTAA
* *
3803 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGACAACTCTTTTCAAAGC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTTAAAGC
* * * * *
3868 CCACAAATCAGTGGCATCTTTTCAAAAGACTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
66 CCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
3933 CAGTGGCATACCCTTTC
130 CAGTGGCATACCCTTTC
* *
3950 AAAGCCCACAAGTCGGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACTATTTTTAAAGC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTTAAAGC
*
4015 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
*
4080 AGTGGC--ACCTTTTC
131 AGTGGCATACCCTTTC
*
4094 AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCATACAAGTC-GTGGCAACTCTTTTTAAAG
1 AAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACACAAGTCGGTGGCAACTCTTTTTAAAG
* * * *
4157 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTCAGTGGCGTACCCTTTCAAAGCCCACAC
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC--ATCCTTTCAAAG-CC-CAC
*
4222 AAATCAGTGGCAT---CTTTCC
126 AAGTCAGTGGCATACCCTTT-C
* *
4241 AAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAC
4278 TAGTTAGTGG
Statistics
Matches: 295, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
143 65 0.22
144 42 0.14
145 11 0.04
146 50 0.17
147 122 0.41
148 5 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (146 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTTAAAGC
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
AGTGGCATACCCTTTC
Found at i:4159 original size:203 final size:200
Alignment explanation
Indices: 3803--4300 Score: 574
Period size: 203 Copynumber: 2.4 Consensus size: 200
3793 CATCTCTTAA
* * * *
3803 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGACAACTCTTTTCAAAGC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGC
* * * * *
3868 CCACAAATCAGTGGCATCTTTTCAAAAGACTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
62 CCACAAGTTAGTGGCACCTTTTC-AAAGACCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
* * *
3933 CAGTGGCATACCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTTAAAGCCCACACAAGTCGGTG
126 CAGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTG
* *
3998 GC-AACTATTTTT
189 GCGAAC-ACTTTC
*
4010 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
*
4075 AAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCATACAAGTC-
66 AAGTTAGTGGCACCTTTTCAAAGACCACAAGTCAGTGGCATCC-TTTCAAAGCCC--ACAAGTCA
* * * *
4138 GTGGCA-ACTCTTTTTAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTCAGTGGCG
128 GTGGCATAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCG
* *
4202 TACCCTTTC
192 AACACTTTC
* * * *
4211 AAAGCCCACACAAATCAGTGGCA-TCTTTCCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCC
1 AAAG-CC-CACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
4275 CACTAGTTAGTGGCACCTTTTTCAAA
63 CACAAGTTAGTGGCACC-TTTTCAAA
4301 TCACCACTTT
Statistics
Matches: 254, Mismatches: 28, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
201 21 0.08
202 41 0.16
203 132 0.52
204 16 0.06
205 11 0.04
206 2 0.01
207 31 0.12
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (200 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
AAGTTAGTGGCACCTTTTCAAAGACCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
GCATACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCGAACA
CTTTC
Found at i:4424 original size:48 final size:48
Alignment explanation
Indices: 4365--4534 Score: 241
Period size: 48 Copynumber: 3.5 Consensus size: 48
4355 GGCACCATTA
* * * * *
4365 TTAGCTTAATGTCGCTAGCCTTGAATTAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
4413 TTAGCTCAATGTCACTGGCCTTAAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
4461 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
4509 TTAACTCGATGTCGTTGGCCTTGAAT
1 TTAGCTCAATGTCACTGGCCTTGAAT
4535 TGGCATATTG
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:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:4425 original size:23 final size:23
Alignment explanation
Indices: 4399--4473 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
4389 ATTAACACAT
4399 TGTCCACTTTTCCCTTAGCTCAA
1 TGTCCACTTTTCCCTTAGCTCAA
** * * *
4422 TGT-CAC-TGGCCTTAAATCAGCACAT
1 TGTCCACTTTTCCCT---T-AGCTCAA
4447 TGTCCACTTTTCCCTTAGCTCAA
1 TGTCCACTTTTCCCTTAGCTCAA
4470 TGTC
1 TGTC
4474 ACTGGCCTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 12 0.33
24 2 0.06
25 8 0.22
26 3 0.08
27 4 0.11
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (23 bp):
TGTCCACTTTTCCCTTAGCTCAA
Found at i:5201 original size:20 final size:20
Alignment explanation
Indices: 5176--5252 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
5166 TTTTTACCAG
*
5176 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
5196 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
5216 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
5236 ATGTATTGATACATTTT
1 ATGTATCGATACATTTT
5253 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5292 original size:51 final size:51
Alignment explanation
Indices: 5235--5351 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
5225 TACATTCTTC
* * * *
5235 AATGTATTGATACATTTTGTCTTTTTACCCAGATGTATCAATACATGTATG
1 AATGTATCGATACATTCTATCTTTTTACCCAGATATATCAATACATGTATG
* * * * *
5286 AATGTATCGATACATTCTATTTTTTTACCCAGATATATCGATACATTTTTC
1 AATGTATCGATACATTCTATCTTTTTACCCAGATATATCAATACATGTATG
*
5337 AATGTATCAATACAT
1 AATGTATCGATACAT
5352 GTATGAATGT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (51 bp):
AATGTATCGATACATTCTATCTTTTTACCCAGATATATCAATACATGTATG
Found at i:5342 original size:71 final size:68
Alignment explanation
Indices: 5166--5376 Score: 221
Period size: 71 Copynumber: 3.0 Consensus size: 68
5156 AAAAGTCACA
* *
5166 TTTTTACCAGATGTATCGATGCATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
1 TTTTTACCAGATATATCGAT-CATTTTTCAATGTATCAATACATGTATGAATGTATCGATACATT
5231 CTTC
65 CTTC
** * ** * *
5235 AATGTA-TTGATACATTTTG-TC-TTTTTACCCAGATGTATCAATACATGTATGAATGTATCGAT
1 TTTTTACCAGAT--ATATCGATCATTTTT---CA-ATGTATCAATACATGTATGAATGTATCGAT
*
5297 ACATTCTATT
60 ACATTCT-TC
5307 TTTTTACCCAGATATATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
1 TTTTTA-CCAGATATATCGAT-CATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
5372 TCTTC
64 TCTTC
5377 AATGTATCGA
Statistics
Matches: 112, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
67 5 0.04
68 4 0.04
69 4 0.04
70 6 0.05
71 73 0.65
72 10 0.09
73 1 0.01
74 4 0.04
75 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (68 bp):
TTTTTACCAGATATATCGATCATTTTTCAATGTATCAATACATGTATGAATGTATCGATACATTC
TTC
Found at i:5349 original size:20 final size:20
Alignment explanation
Indices: 5321--5439 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
5311 TACCCAGATA
5321 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
5341 TATCAATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
5361 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
5381 TATCGATACATTGTCTTTTTTCCCAGATG
1 TATCGATACA------TTTTT--CA-ATG
5410 TATCGATACA-TTTTCAATG
1 TATCGATACATTTTTCAATG
5429 TATCGATACAT
1 TATCGATACAT
5440 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
19 13 0.16
20 43 0.54
22 4 0.05
26 4 0.05
28 2 0.03
29 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:10221 original size:21 final size:20
Alignment explanation
Indices: 10197--10251 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 20
10187 ATTTTTTTAT
10197 ATTTTAAATTAAATAAAAATA
1 ATTTTAAATTAAAT-AAAATA
*
10218 ATTTT-TATT-AATAAAATA
1 ATTTTAAATTAAATAAAATA
10236 ATAATTTAAATTAAAT
1 AT--TTTAAATTAAAT
10252 GTGAGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.29
19 3 0.11
20 6 0.21
21 8 0.29
22 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAAATTAAATAAAATA
Found at i:11954 original size:16 final size:17
Alignment explanation
Indices: 11933--11965 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11923 TGAATTGATT
11933 TAAATACTTT-ATTAAA
1 TAAATACTTTCATTAAA
*
11949 TAAATATTTTCATTAAA
1 TAAATACTTTCATTAAA
11966 ATTAAATTTT
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATACTTTCATTAAA
Found at i:12752 original size:51 final size:51
Alignment explanation
Indices: 12697--12801 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
12687 AAAAGTATAC
*
12697 CTTAGTTTGACATATCTTTTGTCATGTGTTTGGTTGCATCAGATAGAAGTT
1 CTTAGTTTGACACATCTTTTGTCATGTGTTTGGTTGCATCAGATAGAAGTT
*
12748 CTTAGTTTGACACATTTTTTGTCATGTGTTTGGTTGCATCAGATAGAAGTT
1 CTTAGTTTGACACATCTTTTGTCATGTGTTTGGTTGCATCAGATAGAAGTT
12799 CTT
1 CTT
12802 GTGAAACTGC
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:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (51 bp):
CTTAGTTTGACACATCTTTTGTCATGTGTTTGGTTGCATCAGATAGAAGTT
Found at i:13561 original size:27 final size:26
Alignment explanation
Indices: 13507--13561 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
13497 ATATTACATC
*
13507 AATATTTTATTATAATTAATTATGAT
1 AATATTTTATTATAATTAATTATAAT
*
13533 AATA-TTTATTATATTTATAATTATAAT
1 AATATTTTATTATA-AT-TAATTATAAT
13560 AA
1 AA
13562 ACATGATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 5 0.20
27 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AATATTTTATTATAATTAATTATAAT
Found at i:14372 original size:25 final size:26
Alignment explanation
Indices: 14324--14372 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
14314 CTTAAAAGAG
* **
14324 AAAAGTTACAGCAGTAAACACTTCTA
1 AAAAGTTACAGAAACAAACACTTCTA
14350 AAAAGTTACAGAAACAAAC-CTTC
1 AAAAGTTACAGAAACAAACACTTC
14373 AATATACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.20
Consensus pattern (26 bp):
AAAAGTTACAGAAACAAACACTTCTA
Found at i:18044 original size:13 final size:13
Alignment explanation
Indices: 18026--18058 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18016 AATAAATTGA
18026 AGAGGGATACAAG
1 AGAGGGATACAAG
*
18039 AGAGGGATACATG
1 AGAGGGATACAAG
18052 AGAGGGA
1 AGAGGGA
18059 GCCTCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.42, T:0.09
Consensus pattern (13 bp):
AGAGGGATACAAG
Found at i:18141 original size:24 final size:24
Alignment explanation
Indices: 18105--18174 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
18095 AATAAAAATT
*
18105 AGCCATCAA-TTTTGACAAACAATA
1 AGCCA-CAATTTTTGACAAACAAAA
*
18129 AGCCACAATTTTTGATAAACAAAA
1 AGCCACAATTTTTGACAAACAAAA
*
18153 AGGATCCACCATTTTTGACAAA
1 A-G--CCACAATTTTTGACAAA
18175 TACAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 3 0.08
24 19 0.50
25 1 0.03
27 15 0.39
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (24 bp):
AGCCACAATTTTTGACAAACAAAA
Found at i:18167 original size:27 final size:28
Alignment explanation
Indices: 18131--18203 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
18121 AAACAATAAG
* * *
18131 CCACAATTTTTGATAAACAAAAAG-GAT
1 CCACCATTTTTGACAAACAAAAAGTAAT
* *
18158 CCACCATTTTTGACAAATACAAAGTAAT
1 CCACCATTTTTGACAAACAAAAAGTAAT
18186 -CACCATTTTTGACAAACA
1 CCACCATTTTTGACAAACA
18204 TAAATTGTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 37 0.95
28 2 0.05
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (28 bp):
CCACCATTTTTGACAAACAAAAAGTAAT
Found at i:22636 original size:13 final size:13
Alignment explanation
Indices: 22618--22643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22608 CAATTTTTTG
22618 TGTATCGATACAT
1 TGTATCGATACAT
22631 TGTATCGATACAT
1 TGTATCGATACAT
22644 ACTTGGTGTA
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:22658 original size:32 final size:33
Alignment explanation
Indices: 22598--22661 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
22588 TACAAGCCAA
** *
22598 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
22631 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
22662 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:23332 original size:38 final size:40
Alignment explanation
Indices: 23266--23345 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
23256 TTTTATTTCT
* **
23266 CCCTTAATCAAAATAATTTTAACAAATTTGTACATTCTCC
1 CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
* *
23306 CCCTTAAT-AAGATAATTGTAGC-AATTTACACATTCTCC
1 CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
23344 CC
1 CC
23346 TTTATCTCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 16 0.46
39 11 0.31
40 8 0.23
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (40 bp):
CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
Found at i:23391 original size:21 final size:21
Alignment explanation
Indices: 23350--23393 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23340 CTCCCCTTTA
* *
23350 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
23371 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
23392 TC
1 TC
23394 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:25212 original size:13 final size:13
Alignment explanation
Indices: 25194--25232 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
25184 ATAATCACCC
25194 TGTATCGATACAA
1 TGTATCGATACAA
25207 TGTATCGATACAA
1 TGTATCGATACAA
*
25220 TGTATTGATACAA
1 TGTATCGATACAA
25233 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:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27340 original size:15 final size:15
Alignment explanation
Indices: 27304--27341 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27294 TTCATCAATT
* *
27304 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
27319 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
27334 TCATTTTG
1 TCATTTTG
27342 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:29173 original size:21 final size:21
Alignment explanation
Indices: 29144--29188 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29134 AAGTATTTAT
*
29144 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
29164 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
29186 TTT
1 TTT
29189 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:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:31417 original size:13 final size:13
Alignment explanation
Indices: 31399--31424 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31389 CAATTTTTTG
31399 TGTATCGATACAT
1 TGTATCGATACAT
31412 TGTATCGATACAT
1 TGTATCGATACAT
31425 ACTTGGTGTA
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:31439 original size:32 final size:33
Alignment explanation
Indices: 31379--31442 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
31369 TACAAGCCAA
** *
31379 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
31412 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
31443 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:32653 original size:24 final size:25
Alignment explanation
Indices: 32621--32710 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 25
32611 TAGCCATTAA
* *
32621 TTTTAACAAACAACAAAT-CACAAT
1 TTTTGACAAACAAAAAATACACAAT
*
32645 TTTTGACAAACAAAAAATAACCACCAT
1 TTTTGACAAACAAAAAAT-A-CACAAT
* * * *
32672 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAACAAAAAAT-A-CACAAT
32699 TTTTGACAAACA
1 TTTTGACAAACA
32711 CAAAGGGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
24 16 0.29
27 40 0.71
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (25 bp):
TTTTGACAAACAAAAAATACACAAT
Found at i:32713 original size:27 final size:27
Alignment explanation
Indices: 32643--32715 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
32633 ACAAATCACA
* *
32643 ATTTTTGACAAACAAAAAATAACCACC
1 ATTTTTGACAAACACAAAGTAACCACC
*
32670 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACACAAAGTAACCACC
32697 ATTTTTGACAAACACAAAG
1 ATTTTTGACAAACACAAAG
32716 GGTGACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.25
Consensus pattern (27 bp):
ATTTTTGACAAACACAAAGTAACCACC
Found at i:34492 original size:15 final size:15
Alignment explanation
Indices: 34472--34503 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34462 AGACAAAGAT
34472 AATTAATTTAAATAA
1 AATTAATTTAAATAA
34487 AATTAATTTAAATAA
1 AATTAATTTAAATAA
34502 AA
1 AA
34504 GTAAAATCAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAATTTAAATAA
Found at i:36225 original size:165 final size:164
Alignment explanation
Indices: 35688--36205 Score: 617
Period size: 165 Copynumber: 3.2 Consensus size: 164
35678 GTACGGACTA
* * * * *
35688 AAATAAAATTTTTTAAAAATTTAGGGACTAAATGGAAAATTTTAGTTTTTAGAAGTAAAATCATC
1 AAATAAAA-TTTTCAAAAGTTTAGGGACTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCATT
* *
35753 ATTTTA-TCA-TTTT---TATTTCATTATTCTTATGGCCTTTCATAGGGGTATAAAAATTTTTAA
65 ATTTTAGTCATTTTTAAATATTTTATTATTCTTATGGCCTTTCGTAGGGGTATAAAAA-TTTTAA
* * * * *
35813 AACTTTTCGTATCTTTTC-AGTTTTCCGTCGGATACG
129 AACTTTTCGTATCTTCTCGA-TTTTTCATCGGGTATG
* *
35849 AAATAAAATTTTCAAAAG-TTAGGGAGTAAATAGTAAATTTTAGTTTTT-GAAGGTAAAATCATT
1 AAATAAAATTTTCAAAAGTTTAGGGACTAAATAGAAAATTTTAGTTTTTAG-AGGTAAAATCATT
* * * * *
35912 ATTTTAGCCATTTTTAAAGATTTTTATTATTTTTATGGCCTTCCGTAGGGGTATGAAAATTTTTA
65 ATTTTAGTCATTTTTAAATA-TTTTATTATTCTTATGGCCTTTCGTAGGGGTAT-AAAAATTTTA
* *
35977 AAA-TTTTCTGTATCTTCTCGGTTTTTCATTGGGTATG
128 AAACTTTTC-GTATCTTCTCGATTTTTCATCGGGTATG
** *
36014 AAATAAAATTTTCAAAAGTTTAGAAATTAAATAGAAAATTTTA-TTTTTAGAGGTAAAATCATTA
1 AAATAAAATTTTCAAAAGTTTAGGGACTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCATTA
*
36078 TTTTAGTCATTTTTAAATATTTATATTATTCCTATGGCCTTTCGTAGGGGTATAAAAATTTTAAA
66 TTTTAGTCATTTTTAAATATTT-TATTATTCTTATGGCCTTTCGTAGGGGTATAAAAATTTTAAA
* *
36143 GACTTTTGGTA-CCTCTCGATTTTTCATCGGGTATG
130 -ACTTTTCGTATCTTCTCGATTTTTCATCGGGTATG
* *
36178 AAATGAAATTTTTAAAAGTTTAGGGACT
1 AAATAAAATTTTCAAAAGTTTAGGGACT
36206 TAATTGAATT
Statistics
Matches: 302, Mismatches: 40, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
158 1 0.00
159 44 0.15
160 10 0.03
161 12 0.04
164 64 0.21
165 142 0.47
166 29 0.10
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (164 bp):
AAATAAAATTTTCAAAAGTTTAGGGACTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCATTA
TTTTAGTCATTTTTAAATATTTTATTATTCTTATGGCCTTTCGTAGGGGTATAAAAATTTTAAAA
CTTTTCGTATCTTCTCGATTTTTCATCGGGTATG
Found at i:36587 original size:156 final size:155
Alignment explanation
Indices: 36373--36663 Score: 420
Period size: 156 Copynumber: 1.9 Consensus size: 155
36363 GAGTCTTATA
* * *
36373 TTGTCACTAGGATGTTTTATGCCCAAGATGTGCATTTATGATAGGTTCATCCAATTTATGATCAT
1 TTGTCACTAGGATGTTTTATGCCAAAGATATGCATTTAGGATAGGTTCATCCAATTTATGATCAT
* * * * *
36438 TTTTATGTCCTTTAAGGTTATCGTGATACTTTCATGTCGAAGGTGTACCCTAGAGATATTTTCGT
66 TTTTAAGTCCTTTAAGGTTATCGAGATACTTTCATATCAAAGGTATACCCTAGAGATATTTTCGT
36503 AATTTCCCTAAAATAGAGTGCTAGG
131 AATTTCCCTAAAATAGAGTGCTAGG
* * * * *
36528 TTGTCACTGGGATGCTTTTATTCCAAAGGTATGCATTTAGGATAGGTTTATCCCATTTATGATCA
1 TTGTCACTAGGATG-TTTTATGCCAAAGATATGCATTTAGGATAGGTTCATCCAATTTATGATCA
* * * *
36593 TTTTTAAGTCTTTTAAGGTTATCGAGATACTTTCATATCAAAGGTATACCTTAGGGATATTTTGG
65 TTTTTAAGTCCTTTAAGGTTATCGAGATACTTTCATATCAAAGGTATACCCTAGAGATATTTTCG
36658 TAATTT
130 TAATTT
36664 TGTATTAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
155 13 0.11
156 105 0.89
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (155 bp):
TTGTCACTAGGATGTTTTATGCCAAAGATATGCATTTAGGATAGGTTCATCCAATTTATGATCAT
TTTTAAGTCCTTTAAGGTTATCGAGATACTTTCATATCAAAGGTATACCCTAGAGATATTTTCGT
AATTTCCCTAAAATAGAGTGCTAGG
Found at i:36724 original size:156 final size:156
Alignment explanation
Indices: 36405--36725 Score: 357
Period size: 156 Copynumber: 2.1 Consensus size: 156
36395 CCAAGATGTG
* * *
36405 CATTTATGATAGGTTCATCCAATTTATGATCATTTTTATGTCCTTTAAGGTTATCGTGATACTTT
1 CATTTAGGATAGGTTCATCCAATTTATGATCATTTTTAAGTCCTTTAAGGTTATCGAGATACTTT
* * * * * *
36470 CATGTCGAAGGTGTACCCTAGAGATATTTTCGTAATTTCCCTAAAATAGAGTGCTAGGTTGTCAC
66 CATATCAAAGGTATACCCTAGAGATATTTTCGTAATTTCACTAAAATAGAGTCCTACGTTGTCAC
* **
36535 TGGGATGCTTTTATTCCAAAGGTATG
131 TGGGATGATTTTATTCCAAAGGTACA
* * *
36561 CATTTAGGATAGGTTTATCCCATTTATGATCATTTTTAAGTCTTTTAAGGTTATCGAGATACTTT
1 CATTTAGGATAGGTTCATCCAATTTATGATCATTTTTAAGTCCTTTAAGGTTATCGAGATACTTT
* * * * *
36626 CATATCAAAGGTATACCTTAGGGATATTTTGGTAATTTTGTATTAAAATTA-AGTCCTACG-TGA
66 CATATCAAAGGTATACCCTAGAGATATTTTCGTAA-TTT-CACTAAAA-TAGAGTCCTACGTTG-
*
36689 TTACTGGGAT-ATTTATATGT-C-AAGGTACA
127 TCACTGGGATGATTT-TAT-TCCAAAGGTACA
36718 CA-TTAGGA
1 CATTTAGGA
36726 ATAGATTCGT
Statistics
Matches: 138, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
156 94 0.68
157 16 0.12
158 25 0.18
159 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (156 bp):
CATTTAGGATAGGTTCATCCAATTTATGATCATTTTTAAGTCCTTTAAGGTTATCGAGATACTTT
CATATCAAAGGTATACCCTAGAGATATTTTCGTAATTTCACTAAAATAGAGTCCTACGTTGTCAC
TGGGATGATTTTATTCCAAAGGTACA
Found at i:39920 original size:28 final size:29
Alignment explanation
Indices: 39881--39956 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
39871 TGAAGATAAC
*
39881 AACGGGGCTGGAGTATCCCCTCA-GAAAT
1 AACGGGGTTGGAGTATCCCCTCATGAAAT
*
39909 AACGGGGTTGGAGTAT-CCCTGATGAAAT
1 AACGGGGTTGGAGTATCCCCTCATGAAAT
* *
39937 AACAGGGTTAGAGTATCCCC
1 AACGGGGTTGGAGTATCCCC
39957 GATTGTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 5 0.12
28 34 0.81
29 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (29 bp):
AACGGGGTTGGAGTATCCCCTCATGAAAT
Found at i:40003 original size:51 final size:51
Alignment explanation
Indices: 39943--40056 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
39933 AAATAACAGG
*
39943 GTTAGAGTATCCCCGATTGTAAAAAATTGATGTTTTGGAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAATCGGA
* *
39994 GTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGG
1 GTTAGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAATCGGA
*
40045 GTTGGAGTATCC
1 GTTAGAGTATCC
40057 GCTTGGAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GTTAGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:40082 original size:79 final size:78
Alignment explanation
Indices: 39998--40454 Score: 344
Period size: 79 Copynumber: 5.8 Consensus size: 78
39988 ATCGGAGTTA
* *
39998 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCGCTTGG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC-CCTGA
40063 AAATAACGGGGTTG
65 AAATAACGGGGTTG
* *
40077 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCTCGC-G
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC-C-CTG
*
40141 AAAATAATGGGGTTG
64 AAAATAACGGGGTTG
* ** * * *
40156 GAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGGGTTAGAGTATCCCCTGAA
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTG-A
40221 AAATAACGGGGTTG
65 AAATAACGGGGTTG
* * * * * ** *
40235 GAGTATTCCC-AATG-AAATAACAGGGTTGAAGTATCCCCGATTGTGAAA-AAAAGT-GATGTTT
1 GAGTATCCCCGATTGTGAA-AA-A---TTGATGT-T------TT-AGAAATAAAA-TCGGGGTTG
* ** *
40296 TAG-A---AAT-AAAAT--CGGAGTTG
52 GAGTATCCCCTGAAAATAACGGGGTTG
* * * *
40316 GAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCTTGG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC-TGA
*
40381 AAATAACGGGGTTA
65 AAATAACGGGGTTG
* * * * * * *
40395 GAGTATCCCCGATGGTGGAAAATTCATATTTTGGAAATAAAACCGGGGTTTGAGTATCCC
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
40455 TGATTACGAA
Statistics
Matches: 295, Mismatches: 54, Indels: 58
0.72 0.13 0.14
Matches are distributed among these distances:
70 4 0.01
71 12 0.04
72 1 0.00
76 1 0.00
77 7 0.02
78 13 0.04
79 207 0.70
81 17 0.06
82 8 0.03
83 7 0.02
85 1 0.00
88 1 0.00
89 11 0.04
90 5 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (78 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTGAA
AATAACGGGGTTG
Found at i:40354 original size:51 final size:52
Alignment explanation
Indices: 40259--40376 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 52
40249 AAATAACAGG
*
40259 GTTGAAGTATCCCCGATTGTGAAAAAAAGTGATGTTTTAGAAATAAAATCGGA
1 GTTGAAGTATCCCCGATTGTG-AAAAAAGTGATGTTTTAGAAATAAAACCGGA
* * * *
40312 GTTGGAGTATCCCCGATTGTG-GAAAATTGATGTTTTAGAAATAAAACCGGG
1 GTTGAAGTATCCCCGATTGTGAAAAAAGTGATGTTTTAGAAATAAAACCGGA
40363 GTTGAAGTATCCCC
1 GTTGAAGTATCCCC
40377 TTGGAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 39 0.66
53 20 0.34
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGAAGTATCCCCGATTGTGAAAAAAGTGATGTTTTAGAAATAAAACCGGA
Found at i:40450 original size:51 final size:51
Alignment explanation
Indices: 40387--40506 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
40377 TTGGAAATAA
** * *
40387 CGGGGTTAGAGTATCCCCGATGGTGGAAAATTCATATTTTGGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATTCATATTTTAGAAATAAAAC
* * * * *
40438 CGGGGTTTGAGTATCCCTGATTACGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATTCATATTTTAGAAATAAAAC
*
40489 CGAGGTTAGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
40507 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATGACGAAAAATTCATATTTTAGAAATAAAAC
Found at i:40483 original size:130 final size:130
Alignment explanation
Indices: 40248--40532 Score: 340
Period size: 130 Copynumber: 2.2 Consensus size: 130
40238 TATTCCCAAT
* * * * *
40248 GAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAAAAGTGATGTTTTAGAAATAAAATCGGAG
1 GAAATAACGGGGTTG-AGTATCCCCGATGGTG-AAAAAAGTCATATTTTAGAAATAAAACCGGAG
** * *
40313 TTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTT-GAAGTATCCCC
64 TTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAG-AGTATCCCC
*
40377 TTG
128 TCG
* * * *
40380 GAAATAACGGGGTTAGAGTATCCCCGATGGTG-GAAAATTCATATTTTGGAAATAAAACCGGGGT
1 GAAATAACGGGGTT-GAGTATCCCCGATGGTGAAAAAAGTCATATTTTAGAAATAAAACCGGAGT
* *
40444 TTGAGTATCCCTGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
65 TGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
40509 G
130 G
* * *
40510 AAAATAACGAGATTGGAGTATCC
1 GAAATAACGGGGTT-GAGTATCC
40533 TCGGTTGTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 101 0.77
131 1 0.01
132 28 0.21
133 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (130 bp):
GAAATAACGGGGTTGAGTATCCCCGATGGTGAAAAAAGTCATATTTTAGAAATAAAACCGGAGTT
GGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCG
Found at i:40547 original size:130 final size:130
Alignment explanation
Indices: 40264--40566 Score: 338
Period size: 130 Copynumber: 2.3 Consensus size: 130
40254 ACAGGGTTGA
* * * * * *
40264 AGTATCCCCGATTGTGAAAAAAAGTGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 AGTATCCCCGA-TG-GTAAAAAATTCATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGAT
** * * * * * *
40329 TGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCTTGGAAATAACGGGGTT
64 TACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGAAGTATCCCCTCGAAAATAACGAGATT
40394 AG
129 AG
** * * *
40396 AGTATCCCCGATGGTGGAAAATTCATATTTTGGAAATAAAACCGGGGTTTGAGTATCCCTGATTA
1 AGTATCCCCGATGGTAAAAAATTCATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTA
*
40461 CGAAAAATTGATGTTTTAGAAATAAAACCGAGGTT-AGAGTATCCCCTCGAAAATAACGAGATTG
66 CGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGA-AGTATCCCCTCGAAAATAACGAGATTA
40525 G
130 G
* * * ** *
40526 AGTATCCTCGGTTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 AGTATCCCCGATGGTAAAAAATTCATATTTTGGAAATAAAA
40567 ACATGATTGA
Statistics
Matches: 142, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
129 1 0.01
130 128 0.90
131 2 0.01
132 11 0.08
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (130 bp):
AGTATCCCCGATGGTAAAAAATTCATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTA
CGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGAAGTATCCCCTCGAAAATAACGAGATTAG
Found at i:42946 original size:20 final size:20
Alignment explanation
Indices: 42921--42975 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
42911 AAAATACCTG
*
42921 AATGTATCGATACATTGCA-A
1 AATGTATCGATACAATG-AGA
*
42941 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
42961 AATGTATCGATACAA
1 AATGTATCGATACAA
42976 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:43670 original size:42 final size:42
Alignment explanation
Indices: 43623--43702 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
43613 AAAGGAAAAA
43623 AGGAAAACGAAA-TGCGTCCT-ACTCTTTGAGGACAAAAGAAAG
1 AGGAAAA-GAAAGTGCGTCCTGA-TCTTTGAGGACAAAAGAAAG
*
43665 AGGAAAATAAAGTGCGTCCTGATCTTTGAGGACAAAAG
1 AGGAAAAGAAAGTGCGTCCTGATCTTTGAGGACAAAAG
43703 GGAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
41 3 0.09
42 31 0.89
43 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (42 bp):
AGGAAAAGAAAGTGCGTCCTGATCTTTGAGGACAAAAGAAAG
Found at i:43770 original size:38 final size:38
Alignment explanation
Indices: 43636--43780 Score: 114
Period size: 45 Copynumber: 3.5 Consensus size: 38
43626 AAAACGAAAT
*
43636 GCGTCCTACTCTTTGAGGACAAA--AGAAAGAGGAAAATAAAG
1 GCGTCCTGCTCTTTGAGGACAAAGGAGAAA-AGG---A-AAAG
* * *
43677 TGCGTCCTGATCTTTGAGGACAAAAGGGAAAAAAAAGGAATGAATT
1 -GCGTCCTGCTCTTTGAGGAC-AAA-GG--AGAAAAGGAA--AA-G
*
43723 GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAG
43761 GCGTCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
43781 TAAAAAGTGC
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
38 19 0.22
39 2 0.02
41 9 0.11
42 18 0.21
43 6 0.07
44 4 0.05
45 20 0.24
47 3 0.04
48 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.21
Consensus pattern (38 bp):
GCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAG
Found at i:43857 original size:61 final size:61
Alignment explanation
Indices: 43749--44137 Score: 401
Period size: 61 Copynumber: 6.5 Consensus size: 61
43739 GGACAAAGGA
* * *
43749 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
43811 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTACTACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * * * *
43872 GCAAAGAGAAAGCATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTT
1 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
43933 -AAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
43994 G-AAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTT
1 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
44049 -AAAAGGAAAATGTGTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
44111 -AAAAG-----GCGTCCTGCTCTTTGAGGACTA
1 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTA
44138 AAGGGCGAAA
Statistics
Matches: 284, Mismatches: 33, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
55 50 0.18
56 21 0.07
60 4 0.01
61 174 0.61
62 35 0.12
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (61 bp):
GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:43984 original size:122 final size:115
Alignment explanation
Indices: 43757--44136 Score: 454
Period size: 122 Copynumber: 3.2 Consensus size: 115
43747 GAGAAAAGGA
* ** *
43757 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAA
* ** * *
43822 GCGTCCTGCTCTTTGAGGACTAGAAGGTACTACCAACTTGTGTGGGCTTTG
65 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
* * * *
43873 CAAAGAGAAAGCATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAG
1 --AA-AG---GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAG
* *
43938 GAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTG
60 GA-AAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
* * * *
43995 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAAT
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAA-
* * * *
44060 GTGTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTA
65 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTG
*
44112 AAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
44137 AAAGGGCGAA
Statistics
Matches: 226, Mismatches: 29, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
115 3 0.01
116 67 0.30
117 52 0.23
118 2 0.01
119 4 0.02
120 2 0.01
121 6 0.03
122 90 0.40
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (115 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAG
CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:44023 original size:55 final size:55
Alignment explanation
Indices: 43947--44136 Score: 254
Period size: 55 Copynumber: 3.3 Consensus size: 55
43937 GGAGAAAGCA
*
43947 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
44002 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAATGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
44063 TCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
44119 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
44137 AAAGGGCGAA
Statistics
Matches: 117, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
55 45 0.38
56 22 0.19
60 1 0.01
61 22 0.19
62 27 0.23
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:44287 original size:329 final size:323
Alignment explanation
Indices: 43821--44558 Score: 1018
Period size: 329 Copynumber: 2.3 Consensus size: 323
43811 GAAAAGAAAA
* * * *
43821 AGCGTCCTGCTCTTTGAGGACTAGAAGGTACTACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT--AAA-AGAAGGCG
*
43886 TCTTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAAGCATCC
63 TCTTGCTCTTTGAGGACTGGGAAGGTGCCACCAACTCGAGTCGTCTTTAAAAGGAGAAAGCATCC
* * *
43950 TGCTCTTTGAGGAC-TGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
128 TGCTCTTTGAGGACTTGG-AAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
** * *
44014 AGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAATGTGTCCTACTCTTTGAGGA
192 AGGACTAAAAAATGCCACCAACTTGTGTGGGATTT-----G-AAAGGCGTCCTACTCTTTGAGGA
44079 CTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGC
251 -T-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGC
44144 GAAAGGAGAG
314 GAAAGGAGAG
* * *
44154 AGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTT-AAAGAAGGCGTCT
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCGTCT
* * * * *
44218 TGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTACG-CTTTAAAAGGAGAAGGCGTCTTG
66 TGCTCTTTGAGGACTGGGAAGGTGCCACCAACTCGAGT-CGTCTTTAAAAGGAGAAAGCATCCTG
*
44281 CTCTTTGAGGACTTGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
130 CTCTTTGAGGACTTGGAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* * **
44346 ACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATGAAAGGTG
195 ACTAAAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTACTCTTTGAGGATGAAAAATG
* *
44411 CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
260 CCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAG
* *
44475 AGTGTCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G--AAGGCG
* *
44540 TCCTGTTCTTTGAGGACTG
63 TCTTGCTCTTTGAGGACTG
44559 AAAAGTGAAA
Statistics
Matches: 364, Mismatches: 34, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
321 114 0.31
322 4 0.01
323 21 0.06
324 1 0.00
325 23 0.06
329 145 0.40
330 10 0.03
333 46 0.13
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (323 bp):
AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCGTCT
TGCTCTTTGAGGACTGGGAAGGTGCCACCAACTCGAGTCGTCTTTAAAAGGAGAAAGCATCCTGC
TCTTTGAGGACTTGGAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
CTAAAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTACTCTTTGAGGATGAAAAATGC
CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAG
Found at i:44359 original size:55 final size:55
Alignment explanation
Indices: 44155--44457 Score: 376
Period size: 55 Copynumber: 5.4 Consensus size: 55
44145 AAAGGAGAGA
* *
44155 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AA-AAG
* ** **
44212 GCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTACGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* * *
44273 GCGTCTTGCTCTTTGAGGACTTG-GAAGTGCCACCAACTTATGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGAC-TGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
44328 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
44383 GCGTCCTGCTCTTTGAGGA-TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
44437 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
44458 AAAGGGTGAA
Statistics
Matches: 224, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
54 52 0.23
55 70 0.31
56 1 0.00
57 47 0.21
58 1 0.00
59 2 0.01
61 49 0.22
62 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:44514 original size:94 final size:95
Alignment explanation
Indices: 44385--44573 Score: 260
Period size: 100 Copynumber: 2.0 Consensus size: 95
44375 TTTGAAAGGC
44385 GTCCTGCTCTTTGAGGATGAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCGTCCTGCTC
1 GTCCTGCTCTTTGAGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
*
44448 TTTGAGGACT-AAAGGGTGAAAGGAGAGAGT
66 TTTGAGGACTGAAA-AGTGAAAGGAGAGAGT
*
44478 GTCCTGTTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGA-TGA-AAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTC
*
44542 CTGTTCTTTGAGGACTGAAAAGTGAAAGGAGA
60 CTGCTCTTTGAGGACTGAAAAGTGAAAGGAGA
44574 AAGTTTAGAT
Statistics
Matches: 84, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
93 17 0.20
94 28 0.33
99 1 0.01
100 35 0.42
101 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (95 bp):
GTCCTGCTCTTTGAGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
TTTGAGGACTGAAAAGTGAAAGGAGAGAGT
Found at i:45571 original size:18 final size:17
Alignment explanation
Indices: 45548--45600 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
45538 CTTCTCTCTC
45548 TTTTTTCTTTGTTTTGTT
1 TTTTTTCTTTGTTTT-TT
*
45566 TTTTTTTTTTG-TTTTT
1 TTTTTTCTTTGTTTTTT
* *
45582 TTGTTTCTTTATTTTTT
1 TTTTTTCTTTGTTTTTT
45599 TT
1 TT
45601 AAAAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 10 0.33
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTTTCTTTGTTTTTT
Found at i:45572 original size:21 final size:22
Alignment explanation
Indices: 45548--45598 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
45538 CTTCTCTCTC
*
45548 TTTTTTCT-TTGTTTTGTTT-T
1 TTTTTTTTGTTGTTTTGTTTCT
*
45568 TTTTTTTTGTTTTTTTGTTTCT
1 TTTTTTTTGTTGTTTTGTTTCT
45590 TTATTTTTT
1 TT-TTTTTT
45599 TTAAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 3 0.12
23 6 0.23
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.86
Consensus pattern (22 bp):
TTTTTTTTGTTGTTTTGTTTCT
Found at i:45577 original size:13 final size:14
Alignment explanation
Indices: 45549--45587 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
45539 TTCTCTCTCT
45549 TTTTTCTTTGTTTTG
1 TTTTT-TTTGTTTTG
45564 TTTTTTTT-TTTTG
1 TTTTTTTTGTTTTG
45577 -TTTTTTTGTTT
1 TTTTTTTTGTTT
45588 CTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 3 0.13
15 5 0.22
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:45586 original size:26 final size:26
Alignment explanation
Indices: 45550--45600 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
45540 TCTCTCTCTT
* *
45550 TTTTCTTTGTTTTGTTTTTTTTTTTTG
1 TTTTCTTTG-TTTCTTTATTTTTTTTG
45577 TTTT-TTTGTTTCTTTATTTTTTTT
1 TTTTCTTTGTTTCTTTATTTTTTTT
45601 AAAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 4 0.18
27 4 0.18
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.86
Consensus pattern (26 bp):
TTTTCTTTGTTTCTTTATTTTTTTTG
Found at i:58101 original size:51 final size:51
Alignment explanation
Indices: 58037--58148 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
58027 AACAAGGTTG
* *
58037 GAGTATCCTCGATTATGAAAAATTGATGTTTT-GAAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATAAAAAATTGATGTTTTAG-AAATAAAATCGGAGTTA
* * *
58088 GAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
58139 GAGTATCCCC
1 GAGTATCCCC
58149 TTGTAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
Found at i:58199 original size:107 final size:106
Alignment explanation
Indices: 58088--58281 Score: 293
Period size: 107 Copynumber: 1.8 Consensus size: 106
58078 ATCGGAGTTA
*
58088 GAGTATCCCCGATTGTAAAAAATTGATGTTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCTTG
1 GAGTATCCCCGATTGTAAAAAATTGATGTTTTGA-AAATAAAATCGGAGTTGGAGTAT-CCC-TG
*
58152 -TAAATAACGGGGTTGGAGTATCCGTGATGAAATAACAGGGTTG
63 AAAAATAACGGGGTTGGAGTATCCGTGATGAAATAACAGGGTTG
* *
58195 GAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGCAA
1 GAGTATCCCCGATTGTAAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTG-AA
*
58260 AAATAATGGGGTTGGAGTATCC
65 AAATAACGGGGTTGGAGTATCC
58282 CCGATTGTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
105 2 0.03
106 3 0.04
107 73 0.92
108 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (106 bp):
GAGTATCCCCGATTGTAAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGAAA
AATAACGGGGTTGGAGTATCCGTGATGAAATAACAGGGTTG
Found at i:58207 original size:28 final size:29
Alignment explanation
Indices: 58133--58207 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
58123 AATAAAATCG
*
58133 GGGTTGGAGTATCCCCT--TGTAAATAACG
1 GGGTTGGAGTAT-CCCTGATGTAAATAACA
*
58161 GGGTTGGAGTATCCGTGATG-AAATAACA
1 GGGTTGGAGTATCCCTGATGTAAATAACA
58189 GGGTTGGAGTATCCCTGAT
1 GGGTTGGAGTATCCCTGAT
58208 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 3 0.07
28 37 0.88
29 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
GGGTTGGAGTATCCCTGATGTAAATAACA
Found at i:58234 original size:158 final size:158
Alignment explanation
Indices: 57966--58254 Score: 456
Period size: 158 Copynumber: 1.8 Consensus size: 158
57956 TATTTTGGAG
57966 ATAACAATGGGGCTGGAGTATCCCCTCAAAAATAACGGCGTTGGAGTATCCCCGATGAAATAACA
1 ATAACAATGGGGCTGGAGTATCCCCTCAAAAATAACGGCGTTGGAGTATCCCCGATGAAATAACA
58031 AGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTAGAGTATCC
66 AGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTAGAGTATCC
58096 CCGATTGTAAAAAATTGATGTTTTAGAA
131 CCGATTGTAAAAAATTGATGTTTTAGAA
* *** * **
58124 ATAA-AATCGGGGTTGGAGTATCCCCTTGTAAATAACGGGGTTGGAGTATCCGTGATGAAATAAC
1 ATAACAAT-GGGGCTGGAGTATCCCCTCAAAAATAACGGCGTTGGAGTATCCCCGATGAAATAAC
* * *
58188 AGGGTTGGAGTATCC-CTGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTAT
65 AAGGTTGGAGTATCCTC-GATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTAGAGTAT
58252 CCC
129 CCC
58255 TGCAAAAATA
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
157 4 0.03
158 115 0.97
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (158 bp):
ATAACAATGGGGCTGGAGTATCCCCTCAAAAATAACGGCGTTGGAGTATCCCCGATGAAATAACA
AGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTAGAGTATCC
CCGATTGTAAAAAATTGATGTTTTAGAA
Found at i:58308 original size:186 final size:187
Alignment explanation
Indices: 58088--58441 Score: 568
Period size: 186 Copynumber: 1.9 Consensus size: 187
58078 ATCGGAGTTA
** * *
58088 GAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT-TG
1 GAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG
* * *
58152 TAAATAACGGGGTTGGAGTATCCGTGATGAAATAACAGGGTTGGAGTATCCCTGATTGTG-AAAA
66 -AAATAACGGGGTTGCAATATCCGTGATGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAA
58216 ATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGCAAAAATAATGGGGTTG
130 ATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGCAAAAATAATGGGGTTG
* * *
58274 GAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAG
1 GAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG
* *
58339 AAATAACGGGGTTGCAATATCCTTGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAA
66 AAATAACGGGGTTGCAATATCCGTGATGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAAA
*
58404 TTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
131 TTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
58442 CGATTATGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
186 110 0.72
187 43 0.28
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (187 bp):
GAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG
AAATAACGGGGTTGCAATATCCGTGATGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAAA
TTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGCAAAAATAATGGGGTTG
Found at i:58352 original size:28 final size:29
Alignment explanation
Indices: 58317--58390 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
58307 GAAATAAAGT
58317 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCCTCATGAAATAA
* * * *
58345 CGGGGTTGCAATAT-CCTTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCATGAAATAA
58373 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
58391 GATTGTGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.11
28 31 0.84
29 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTCATGAAATAA
Found at i:58360 original size:79 final size:78
Alignment explanation
Indices: 58159--58352 Score: 237
Period size: 79 Copynumber: 2.4 Consensus size: 78
58149 TTGTAAATAA
* * * * ** *
58159 CGGGGTTGGAGTATCCGTGATGAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCTCA-GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATAT
58224 TTTGAAAATAAAAT
65 TTTGAAAATAAAAT
* * * *
58238 CGGAGTTGGAGTATCCCTGCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCT-CAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATAT
*
58303 TTT-AGAAATAAAGT
65 TTTGA-AAATAAAAT
58317 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
1 CGGGGTTGGAGTAT-CCCTCAGAAATAACGGGGTTG
58353 CAATATCCTT
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 91 0.94
80 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATT
TTGAAAATAAAAT
Found at i:58360 original size:107 final size:108
Alignment explanation
Indices: 58249--58442 Score: 275
Period size: 107 Copynumber: 1.8 Consensus size: 108
58239 GGAGTTGGAG
* *
58249 TATCCCTGCA-AAAATAATGGGGTTGGAGTATCCCCGATTGTG-AGAAATCAATATTTTAGAAAT
1 TATCCCTG-ATAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAAT
* *
58312 AAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGCAA
65 AAAATCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGCAA
* * ** * *
58356 TATCCTTGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATA
1 TATCCCTGATAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATA
58421 AAATCGGAGTTGGAGTATCCCC
66 AAATCGGAGTTGGAGTATCCCC
58443 GATTATGGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
106 1 0.01
107 37 0.49
108 37 0.49
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (108 bp):
TATCCCTGATAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATA
AAATCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGCAA
Found at i:58487 original size:50 final size:51
Alignment explanation
Indices: 58375--58492 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 51
58365 TGAAATAACG
* * *
58375 GGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTATGAAAAAATTGATGTTTTAGAAATAAAACC
*
58426 GGAGTTGGAGTATCCCCGATTATG-GAAAATTGAT-TTTTAGAAATAAAACC
1 GG-GTTGGAGTATCCCCGATTATGAAAAAATTGATGTTTTAGAAATAAAACC
58476 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
58493 TTGGAAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 29 0.48
51 12 0.20
52 20 0.33
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAAATTGATGTTTTAGAAATAAAACC
Found at i:58508 original size:130 final size:131
Alignment explanation
Indices: 58366--58682 Score: 451
Period size: 130 Copynumber: 2.4 Consensus size: 131
58356 TATCCTTGAT
*
58366 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAATCGGAGT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAACCGGAGT
* * * *
58431 TGGAGTATCCCCGATTATGGAAAATTGAT-TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTT
66 TGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
58495 G
131 G
* * * * ** *
58496 GAAATAACGGGGTTAGAGTATCTCCGATGGTG-GAAAATCAATGTTTTGGAAATAAAACCGGGGT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAACCGGAGT
58560 TGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
66 TGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
58625 G
131 G
* *** * *
58626 AAAATAACGAAATTGGAGTATCCCCGGTTGT-AAAAAATTGGTGTTTTGGAAATAAAA
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAA
58683 ACATGATTGA
Statistics
Matches: 161, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
129 54 0.34
130 107 0.66
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (131 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATTGATGTTTTGGAAATAAAACCGGAGT
TGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTC
G
Found at i:58566 original size:51 final size:51
Alignment explanation
Indices: 58503--58622 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
58493 TTGGAAATAA
* ** * *
58503 CGGGGTTAGAGTATCTCCGATGGTGGAAAATCAATGTTTTGGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATCAATGTTTTAGAAATAAAAC
* * **
58554 CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATCAATGTTTTAGAAATAAAAC
*
58605 CGAGGTTAGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
58623 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATGACGAAAAATCAATGTTTTAGAAATAAAAC
Found at i:63111 original size:23 final size:23
Alignment explanation
Indices: 63085--63139 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
63075 TAGAAAATTC
63085 AAAATGCATGAAACATAGCAAAA
1 AAAATGCATGAAACATAGCAAAA
63108 AAAATGCATGAAACATAGCAAAA
1 AAAATGCATGAAACATAGCAAAA
63131 AAAATGCAT
1 AAAATGCAT
63140 AAGTAGAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.15
Consensus pattern (23 bp):
AAAATGCATGAAACATAGCAAAA
Found at i:64001 original size:21 final size:20
Alignment explanation
Indices: 63955--64007 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
63945 GACATGGTTC
63955 TGTATCAATACATTCACTTG
1 TGTATCAATACATTCACTTG
*
63975 TGTATCGATACATTCACTAAT-
1 TGTATCAATACATTCACT--TG
63996 TGTATCAATACA
1 TGTATCAATACA
64008 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.59
21 11 0.38
22 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
TGTATCAATACATTCACTTG
Found at i:65342 original size:154 final size:154
Alignment explanation
Indices: 65048--65401 Score: 406
Period size: 154 Copynumber: 2.3 Consensus size: 154
65038 AGTTGCCGAA
* * * * *
65048 ATACTTTTACGTCGAAAGTATACCTAAGAGGCATTTTGATAATTTTTTTAGAATCGAGTCTTAAG
1 ATACTTTTACGTCGAAGGTATACATAAGA-GCATTTTGGTAATTTCTTTAAAATCGAGTCTTAAG
* * * * **
65113 TAATCACCGGGTCGCTTTTATGGAAAAGGTGTATGTTTAGGATAAGTTCACCTTTTTAGGTTCAT
65 TAATCACCAGGTCACTTTTATGCAAAAGGTGTATGTTTAGGATAAGTTCACCCTCCTAGGTTCAT
*
65178 TTTCGTGTCCTTTAGGGTTA-CTAAG
130 TTTCATGTCCTTTAGGGTTATC-AAG
* * *
65203 ATTCTTTTACATCGAAGGTATACTTTAAGAGCATTTTGGTAATTTCTTTAAAATCGAGTCTT-AG
1 ATACTTTTACGTCGAAGGTATAC-ATAAGAGCATTTTGGTAATTTCTTTAAAATCGAGTCTTAAG
* ** * * * * *
65267 TAGTCATTAGGTCATTTTTATGCTAAAGGTGTGTTTTTAGGATATGTTCACCCTCCTAGGTTCAT
65 TAATCACCAGGTCACTTTTATGCAAAAGGTGTATGTTTAGGATAAGTTCACCCTCCTAGGTTCAT
* *
65332 TTTTATGTCCTTTAGGGTTATCAAT
130 TTTCATGTCCTTTAGGGTTATCAAG
* * *
65357 ATACTTTCACGTCGAAGGTATACCATAGGAGCATTTTTGTAATTT
1 ATACTTTTACGTCGAAGGTATA-CATAAGAGCATTTTGGTAATTT
65402 TTTCTTGAGC
Statistics
Matches: 166, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
154 110 0.66
155 51 0.31
156 5 0.03
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (154 bp):
ATACTTTTACGTCGAAGGTATACATAAGAGCATTTTGGTAATTTCTTTAAAATCGAGTCTTAAGT
AATCACCAGGTCACTTTTATGCAAAAGGTGTATGTTTAGGATAAGTTCACCCTCCTAGGTTCATT
TTCATGTCCTTTAGGGTTATCAAG
Found at i:65516 original size:155 final size:153
Alignment explanation
Indices: 65332--65654 Score: 364
Period size: 155 Copynumber: 2.1 Consensus size: 153
65322 CTAGGTTCAT
* * * * * ** *
65332 TTTTATGTCCTTTAGGGTTATCAATATACTTTCACGTCGAAGGTATAC-CAT-AGGAGCATTTTT
1 TTTTATGTCCTTTAAGGATACCAAGATACTTTCACATCGAAAATAT-CTCATAAGG-GCATTTTG
* * * * *
65395 GTAATTTTTTCTTGAGCCGAGTCCTAGGCAATCATC-GAGTTGCTTTTATGCCAAAGGTATGCTT
64 GTAATTGTTTCTGGAACCGAGACCTAGACAATCATCGGA-TTGCTTTTATGCCAAAGGTATGCTT
** * *
65459 TTAGGATACGTTTGTCCTTTTATATCA
128 TTACAATACGTTTATCC-TTTACATCA
*
65486 TTTTCATGTCCTTTAAGGATACCAAGATACTTTCACATCGAAAATATCTCCTAAGGGCATTTTGG
1 TTTT-ATGTCCTTTAAGGATACCAAGATACTTTCACATCGAAAATATCTCATAAGGGCATTTTGG
* * * *
65551 TAATTGTTTCTGGAACCGAGACTTAGATAATTATCGGATTGCTTTTATGCCGAAGGTATGCTTTT
65 TAATTGTTTCTGGAACCGAGACCTAGACAATCATCGGATTGCTTTTATGCCAAAGGTATGCTTTT
*
65616 ACAATAGGTTTATCCTTTACATCA
130 ACAATACGTTTATCCTTTACATCA
65640 TTTTAGTGTCCTTTA
1 TTTTA-TGTCCTTTA
65655 GGGTTGCTAG
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
153 1 0.01
154 26 0.18
155 109 0.77
156 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (153 bp):
TTTTATGTCCTTTAAGGATACCAAGATACTTTCACATCGAAAATATCTCATAAGGGCATTTTGGT
AATTGTTTCTGGAACCGAGACCTAGACAATCATCGGATTGCTTTTATGCCAAAGGTATGCTTTTA
CAATACGTTTATCCTTTACATCA
Found at i:67346 original size:47 final size:47
Alignment explanation
Indices: 67275--67464 Score: 193
Period size: 47 Copynumber: 4.0 Consensus size: 47
67265 TTCTTACCTT
* * * * * *
67275 GAGTTATTTTCAAGTTTAGAACTTTTGGAGTTATGAGTCTATACTTG
1 GAGTTTTTTTTAAGTTTGGGACTTTTGGAGTTAAGAGTCCATACTTG
67322 GAGTTTTTTTTAAGTTTGGGACTTTTGGAGTTAAGAGTCCATACTTG
1 GAGTTTTTTTTAAGTTTGGGACTTTTGGAGTTAAGAGTCCATACTTG
* * * * *
67369 GAGTTTTTTTTTAGTTTGGGACTTTTAGAGTTAGGAGTCCATCCCCTG
1 GAGTTTTTTTTAAGTTTGGGACTTTTGGAGTTAAGAGTCCAT-ACTTG
* * * ** *
67417 GAGTTTTATTTTTA-TTCTAGCACTTTTTAAGTTAAGAGTCTATACTTG
1 GAGTTTT-TTTTAAGTT-TGGGACTTTTGGAGTTAAGAGTCCATACTTG
67465 AAATATTGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
47 80 0.66
48 15 0.12
49 26 0.21
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (47 bp):
GAGTTTTTTTTAAGTTTGGGACTTTTGGAGTTAAGAGTCCATACTTG
Found at i:72287 original size:13 final size:13
Alignment explanation
Indices: 72247--72299 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
72237 CCGTTACAAG
72247 CAATGTATCGATA
1 CAATGTATCGATA
72260 CAA--T-TC-AT-
1 CAATGTATCGATA
72268 C-ATGTATCGATA
1 CAATGTATCGATA
72280 CAATGTATCGATA
1 CAATGTATCGATA
*
72293 CATTGTA
1 CAATGTA
72300 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:72287 original size:33 final size:33
Alignment explanation
Indices: 72247--72315 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
72237 CCGTTACAAG
*
72247 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
72280 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
72313 CAA
1 CAA
72316 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:72369 original size:20 final size:20
Alignment explanation
Indices: 72344--72418 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
72334 CTGCCAATCT
72344 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
72364 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
* * **
72384 CATGTATCAATA-AAATGAA
1 CATGTATCGATACAATTGTC
72403 CATGTATCGATACAAT
1 CATGTATCGATACAAT
72419 GTATCGATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:72422 original size:13 final size:13
Alignment explanation
Indices: 72404--72430 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72394 TAAAATGAAC
72404 ATGTATCGATACA
1 ATGTATCGATACA
72417 ATGTATCGATACA
1 ATGTATCGATACA
72430 A
1 A
72431 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:81070 original size:13 final size:13
Alignment explanation
Indices: 81052--81083 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
81042 CGTTACAAGT
81052 AATGTATCGATAC
1 AATGTATCGATAC
81065 AATGTATCGATAC
1 AATGTATCGATAC
*
81078 ATTGTA
1 AATGTA
81084 CCACGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:81172 original size:19 final size:19
Alignment explanation
Indices: 81128--81183 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
81118 CTGCCAATCT
* **
81128 CATGTATCAATACAATTGTC
1 CATGTATCGATACAA-TGAA
81148 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
81167 CATGTATCGATACAATG
1 CATGTATCGATACAATG
81184 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:81186 original size:13 final size:13
Alignment explanation
Indices: 81168--81194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81158 TACAATGAAC
81168 ATGTATCGATACA
1 ATGTATCGATACA
81181 ATGTATCGATACA
1 ATGTATCGATACA
81194 A
1 A
81195 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:89407 original size:20 final size:20
Alignment explanation
Indices: 89365--89418 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
89355 TTCAACTTTT
89365 TGTATCAATACAATAAGGCAA
1 TGTATCAATAC-ATAAGGCAA
89386 TGTATCAATACATAAGTG-AA
1 TGTATCAATACATAAG-GCAA
*
89406 TGTATCTATACAT
1 TGTATCAATACAT
89419 GCCTAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TGTATCAATACATAAGGCAA
Found at i:92292 original size:13 final size:13
Alignment explanation
Indices: 92274--92299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92264 TTTTTTTTTG
92274 TGTATCGATACAT
1 TGTATCGATACAT
92287 TGTATCGATACAT
1 TGTATCGATACAT
92300 ACTTTGTGTA
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:96920 original size:15 final size:15
Alignment explanation
Indices: 96884--96921 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
96874 TTCATCAATT
* *
96884 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
96899 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
96914 TCATTTTG
1 TCATTTTG
96922 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:101010 original size:13 final size:13
Alignment explanation
Indices: 100992--101017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100982 TTTTTTTTTG
100992 TGTATCGATACAT
1 TGTATCGATACAT
101005 TGTATCGATACAT
1 TGTATCGATACAT
101018 ACTTTGTGTA
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:101972 original size:96 final size:97
Alignment explanation
Indices: 101813--102085 Score: 347
Period size: 96 Copynumber: 2.8 Consensus size: 97
101803 ATTTTATTTG
* * * * ** *
101813 TCGGATATACTCCAATCCCATTCTTCTG-AGGGAATACTCTAACCCCCTTTTCAAAATTATCAAT
1 TCGGAGATACTCCAACCCCATTCTTCTGAAGAG-ATACTCCAACCCATTTTTCAAAATTGTCAAT
101877 ATTTAAATCTTATTTTGCCTAATTTATCA-TCA
65 ATTTAAATCTTATTTTGCCTAATTTATCATTCA
* *
101909 TTGGAGATACTCCAACCCCATTCTTCTGAAGAGATACTCCAACCCTTTTTTCAAAATTGTCAATA
1 TCGGAGATACTCCAACCCCATTCTTCTGAAGAGATACTCCAACCCATTTTTCAAAATTGTCAATA
* *
101974 TTCAAATCTTCTTTTGCCTAATTTATCATTCA
66 TTTAAATCTTATTTTGCCTAATTTATCATTCA
* * *
102006 TCGGGGATACTCCAACCCCATTCTTCT-AGGAGGATACTCCAACCCCATTTTT-AAAGTTGTCAA
1 TCGGAGATACTCCAACCCCATTCTTCTGAAGA-GATACTCCAA-CCCATTTTTCAAAATTGTCAA
* *
102069 TATTTAAACCTTTTTTT
64 TATTTAAATCTTATTTT
102086 TGCTCAAGTC
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
96 82 0.53
97 65 0.42
98 8 0.05
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (97 bp):
TCGGAGATACTCCAACCCCATTCTTCTGAAGAGATACTCCAACCCATTTTTCAAAATTGTCAATA
TTTAAATCTTATTTTGCCTAATTTATCATTCA
Found at i:102104 original size:97 final size:96
Alignment explanation
Indices: 101819--102128 Score: 349
Period size: 97 Copynumber: 3.2 Consensus size: 96
101809 TTTGTCGGAT
* * * * * *
101819 ATACTCCAATCCCATTCTTCTGAGG-GAATACTCTAACCCCCTTTTCAAAATTATCAATATTTAA
1 ATACTCCAACCCCATTCTTCT-AGGAGGATACTCCAACCCCATTTTTAAAATTGTCAATATTTAA
* *
101883 ATCTTATTTTGCCTAATTTATCATCATTGGAG
65 ATCTTATTTTGCCTAATTTATCATCATCGGGG
* * *
101915 ATACTCCAACCCCATTCTTCT-GAAGAGATACTCCAA-CCCTTTTTTCAAAATTGTCAATATTCA
1 ATACTCCAACCCCATTCTTCTAGGAG-GATACTCCAACCCCATTTTT-AAAATTGTCAATATTTA
*
101978 AATCTTCTTTTGCCTAATTTATCATTCATCGGGG
64 AATCTTATTTTGCCTAATTTATCA-TCATCGGGG
*
102012 ATACTCCAACCCCATTCTTCTAGGAGGATACTCCAACCCCATTTTTAAAGTTGTCAATATTTAAA
1 ATACTCCAACCCCATTCTTCTAGGAGGATACTCCAACCCCATTTTTAAAATTGTCAATATTTAAA
* * * * **
102077 CCTTTTTTTTG-CTCAAGTCATCATCATCAAGG
66 TC-TTATTTTGCCT-AATTTATCATCATCGGGG
* *
102109 ATACTCCGACCCCATGCTTC
1 ATACTCCAACCCCATTCTTC
102129 CGAAAGGATA
Statistics
Matches: 183, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
94 1 0.01
95 8 0.04
96 66 0.36
97 83 0.45
98 25 0.14
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (96 bp):
ATACTCCAACCCCATTCTTCTAGGAGGATACTCCAACCCCATTTTTAAAATTGTCAATATTTAAA
TCTTATTTTGCCTAATTTATCATCATCGGGG
Found at i:102938 original size:19 final size:19
Alignment explanation
Indices: 102914--102968 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
102904 TCGATATGCT
102914 TTGTATCGATACATGATC-A
1 TTGTATCGATACATGA-CAA
102933 TTGTATCGATACATGGACAA
1 TTGTATCGATACAT-GACAA
*
102953 TTGTATTGATACATGA
1 TTGTATCGATACATGA
102969 AGCTGGCAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:102957 original size:20 final size:20
Alignment explanation
Indices: 102914--102967 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
102904 TCGATATGCT
102914 TTGTATCGATACAT-GATCA
1 TTGTATCGATACATGGATCA
102933 TTGTATCGATACATGGA-CAA
1 TTGTATCGATACATGGATC-A
*
102953 TTGTATTGATACATG
1 TTGTATCGATACATG
102968 AAGCTGGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGATCA
Found at i:103021 original size:20 final size:19
Alignment explanation
Indices: 102996--103049 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
102986 CCACCACTAT
102996 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
103016 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
103036 TTGTATCGATACAT
1 TTGTATCGATACAT
103050 TGCTTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:104653 original size:9 final size:9
Alignment explanation
Indices: 104636--104669 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
104626 GTCAACCATC
104636 AATGATGAT
1 AATGATGAT
104645 GAA-GATGAT
1 -AATGATGAT
104654 AATGATGAT
1 AATGATGAT
104663 AATGATG
1 AATGATG
104670 GTGACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:111180 original size:24 final size:24
Alignment explanation
Indices: 111151--111215 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
111141 AAATAAATTA
111151 TTTATCTAGAGGGAGAAAATCTCT
1 TTTATCTAGAGGGAGAAAATCTCT
*
111175 TTTATCTAGGGGGAGAAAATCTCT
1 TTTATCTAGAGGGAGAAAATCTCT
*
111199 TTTATCAAGAGGGAGAA
1 TTTATCTAGAGGGAGAA
111216 TTTTTAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (24 bp):
TTTATCTAGAGGGAGAAAATCTCT
Found at i:111895 original size:13 final size:13
Alignment explanation
Indices: 111877--111929 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
111867 CGATACATGG
*
111877 TACATTTTATCGA
1 TACATTGTATCGA
111890 TACATTGTATCGA
1 TACATTGTATCGA
111903 TACA-TG-AT-G-
1 TACATTGTATCGA
111912 -A-ATTGTATCGA
1 TACATTGTATCGA
111923 TACATTG
1 TACATTG
111930 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:111903 original size:33 final size:33
Alignment explanation
Indices: 111861--111929 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
111851 CTACCACTGT
* *
111861 TTGTATCGATACATGGT-ACATTTTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
111894 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
111927 TTG
1 TTG
111930 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:113674 original size:17 final size:17
Alignment explanation
Indices: 113652--113697 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
113642 TTTTTAGTAT
*
113652 TATTTATTTAG-TATATA
1 TATTTATTTAGAT-TAAA
113669 TATTTAATTT-GATTAAA
1 TATTT-ATTTAGATTAAA
113686 TATTTATTTAGA
1 TATTTATTTAGA
113698 CAAGAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TATTTATTTAGATTAAA
Found at i:113933 original size:20 final size:20
Alignment explanation
Indices: 113877--113936 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
113867 TTTAAAATTA
113877 TTTATT-TAGTT-ATTTTAT
1 TTTATTATAGTTAATTTTAT
*
113895 TTATGATTA-AATTAA--TTAT
1 TT-T-ATTATAGTTAATTTTAT
113914 TTTATTATAGTTAATTTTAT
1 TTTATTATAGTTAATTTTAT
113934 TTT
1 TTT
113937 GATAATGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 7 0.21
20 13 0.39
21 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTATTATAGTTAATTTTAT
Found at i:114782 original size:35 final size:35
Alignment explanation
Indices: 114724--114830 Score: 128
Period size: 35 Copynumber: 3.1 Consensus size: 35
114714 GCTTGGGAAG
*
114724 TTTTTGAAATATCCTTAAAAGAGGCTTTGAAAGTT
1 TTTTTGAAATATCCTCAAAAGAGGCTTTGAAAGTT
*
114759 TTTTATGAAA-ATCCTCAAGAGAGGCTTT-AAAGGTT
1 TTTT-TGAAATATCCTCAAAAGAGGCTTTGAAA-GTT
** * *
114794 TAGTTGAAATATTCTCAAAAGAGGCTTTAAAAGTT
1 TTTTTGAAATATCCTCAAAAGAGGCTTTGAAAGTT
114829 TT
1 TT
114831 AACGTCTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
34 8 0.13
35 45 0.74
36 8 0.13
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (35 bp):
TTTTTGAAATATCCTCAAAAGAGGCTTTGAAAGTT
Found at i:115350 original size:31 final size:30
Alignment explanation
Indices: 115301--115358 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
115291 CAAAAGCGTG
*
115301 TGAATGGAATGTAAATAAGTGCAAATGTAA
1 TGAATGGAATGCAAATAAGTGCAAATGTAA
* *
115331 TGAATGAGAATGCATATAAGTGCGAATG
1 TGAATG-GAATGCAAATAAGTGCAAATG
115359 AGATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.43, C:0.05, G:0.26, T:0.26
Consensus pattern (30 bp):
TGAATGGAATGCAAATAAGTGCAAATGTAA
Found at i:115442 original size:32 final size:32
Alignment explanation
Indices: 115401--115489 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 32
115391 CATGAATACG
*
115401 AATAAACATGAATAGGAATGCATATGACTGCA-A
1 AATACACATGAATAGGAATGCATATGA--GCATA
*
115434 AA-ACACATGAAT-GAGAATGCACATGAGCATA
1 AATACACATGAATAG-GAATGCATATGAGCATA
* * *
115465 AATGCTCATGAATAAGAATGCATAT
1 AATACACATGAATAGGAATGCATAT
115490 AAGTGAGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
30 3 0.07
31 4 0.09
32 37 0.80
33 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (32 bp):
AATACACATGAATAGGAATGCATATGAGCATA
Found at i:115456 original size:16 final size:16
Alignment explanation
Indices: 115437--115500 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
115427 ACTGCAAAAA
115437 CACATGAATGAGAATG
1 CACATGAATGAGAATG
115453 CACATGAGCAT-A-AATG
1 CACATGA--ATGAGAATG
* *
115469 CTCATGAATAAGAATG
1 CACATGAATGAGAATG
*
115485 CATAT-AAGTGAGAATG
1 CACATGAA-TGAGAATG
115501 AAGATAGGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 31 0.79
17 1 0.03
18 2 0.05
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (16 bp):
CACATGAATGAGAATG
Found at i:124761 original size:109 final size:111
Alignment explanation
Indices: 124639--124853 Score: 285
Period size: 110 Copynumber: 2.0 Consensus size: 111
124629 AATTAGCCTA
* ** * * *
124639 ATCATAATTAAATAAAATAAG-CCTAAAAAAATTAGTT-AATGTGCACGTCGGTCCTATTTTATC
1 ATCATAATTAAATAAAATAAGACC-AAAAAAATTAATTGAATAAGCACGTCAGACATATTTTATC
* *
124702 TAGTATATATTTTTTA-TAAGACTTGGGCTTAAATTAAATAATTTATG
65 TAATATATATTTTTTATTAA-ACTTGGCCTTAAATTAAATAATTTATG
* * *
124749 ATCA-AATTAAATAAAATAAGACCAAATAAATTAATTGAATAAGTACGTTAGACATATTTTATCT
1 ATCATAATTAAATAAAATAAGACCAAAAAAATTAATTGAATAAGCACGTCAGACATATTTTATCT
124813 AATATATATTTTTTATTAAACTTGGCCTTAAATTAAATAAT
66 AATATATATTTTTTATTAAACTTGGCCTTAAATTAAATAAT
124854 GTATCACCTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
109 27 0.30
110 61 0.67
111 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (111 bp):
ATCATAATTAAATAAAATAAGACCAAAAAAATTAATTGAATAAGCACGTCAGACATATTTTATCT
AATATATATTTTTTATTAAACTTGGCCTTAAATTAAATAATTTATG
Found at i:124774 original size:20 final size:20
Alignment explanation
Indices: 124732--124779 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
124722 ACTTGGGCTT
** * *
124732 AAATTAAATAATTTATGATC
1 AAATTAAATAAAATAAGACC
124752 AAATTAAATAAAATAAGACC
1 AAATTAAATAAAATAAGACC
124772 AAA-TAAAT
1 AAATTAAAT
124780 TAATTGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATTAAATAAAATAAGACC
Found at i:125260 original size:27 final size:27
Alignment explanation
Indices: 125222--125281 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
125212 ATAATAAGCA
*
125222 TTTTTCAACTCACTTATCATGTTTGAC
1 TTTTGCAACTCACTTATCATGTTTGAC
125249 TTTTGCAACTCACTTATCATGTTTGAC
1 TTTTGCAACTCACTTATCATGTTTGAC
125276 TTTTGC
1 TTTTGC
125282 CTTACATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTTGCAACTCACTTATCATGTTTGAC
Found at i:126301 original size:51 final size:51
Alignment explanation
Indices: 126227--126327 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
126217 TTCCCCGATA
* * * *
126227 AAAAATTAATATTTTGGAGATAAAAACGAGGTTGGAGTAT-CTCCGATGATG
1 AAAAATCAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCT-CGATGATG
* *
126278 AAAAATCAATATTTTGAAAATAAAAATAAGGTTGGGGTATCCTCGATGAT
1 AAAAATCAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCTCGATGAT
126328 TCTGAACATC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (51 bp):
AAAAATCAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCTCGATGATG
Found at i:128331 original size:20 final size:20
Alignment explanation
Indices: 128285--128337 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
128275 CATTTTAGGC
*
128285 ATGTATCGATGCATTCACTT
1 ATGTATCGATACATTCACTT
*
128305 ATATATCGATACATT-ACTAT
1 ATGTATCGATACATTCACT-T
*
128325 TTGTATCGATACA
1 ATGTATCGATACA
128338 AATCGTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:128663 original size:17 final size:16
Alignment explanation
Indices: 128637--128671 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
128627 ATGAGATGTC
128637 TACAACTACCTCACAT
1 TACAACTACCTCACAT
*
128653 TACATACTACCTCATAT
1 TACA-ACTACCTCACAT
128670 TA
1 TA
128672 TGACATCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
TACAACTACCTCACAT
Found at i:130065 original size:7 final size:7
Alignment explanation
Indices: 130053--130081 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
130043 TTTTAATCAA
130053 TTCATTG
1 TTCATTG
130060 TTCATTG
1 TTCATTG
130067 TTCATTG
1 TTCATTG
130074 TTCATTG
1 TTCATTG
130081 T
1 T
130082 CTCACATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (7 bp):
TTCATTG
Found at i:131189 original size:2 final size:2
Alignment explanation
Indices: 131182--131209 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131172 CCCTCCCTCC
131182 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
131210 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:131214 original size:2 final size:2
Alignment explanation
Indices: 131209--131233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131199 TCTCTCTCTC
131209 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
131234 TTACTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:132982 original size:19 final size:21
Alignment explanation
Indices: 132952--132995 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
132942 ATAAATTTAA
*
132952 TTTAATTTAAAATTATAT-TT
1 TTTAATTTAAAATAATATATT
132972 TTTAA-TTAAAATAATATATT
1 TTTAATTTAAAATAATATATT
132992 TTTA
1 TTTA
132996 TATAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATTTAAAATAATATATT
Found at i:133018 original size:21 final size:21
Alignment explanation
Indices: 132994--133037 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
132984 AATATATTTT
*
132994 TATATAAAT-TTAATTATAAAA
1 TATATAAATATTAA-TAAAAAA
133015 TATATAAATATTAATAAAAAA
1 TATATAAATATTAATAAAAAA
133036 TA
1 TA
133038 AATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATATAAATATTAATAAAAAA
Found at i:133121 original size:18 final size:19
Alignment explanation
Indices: 133098--133133 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
133088 CATATCAAAA
133098 TTAAATTT-AAATTTAAAT
1 TTAAATTTAAAATTTAAAT
133116 TTAAATTTAAAATTTAAA
1 TTAAATTTAAAATTTAAA
133134 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATTTAAAATTTAAAT
Found at i:133135 original size:7 final size:6
Alignment explanation
Indices: 133098--133133 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
133088 CATATCAAAA
133098 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
133134 ATATTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:134583 original size:15 final size:15
Alignment explanation
Indices: 134549--134586 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
134539 AATAAGATAA
134549 ATAAAACAAAATATTT
1 ATAAAA-AAAATATTT
*
134565 -TAAAAAAATTATTT
1 ATAAAAAAAATATTT
134579 ATAAAAAA
1 ATAAAAAA
134587 TTTTATTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAAAAAATATTT
Found at i:135112 original size:14 final size:15
Alignment explanation
Indices: 135093--135121 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
135083 CATAGTTATG
135093 TCACTT-TTTTAAAA
1 TCACTTATTTTAAAA
135107 TCACTTATTTTAAAA
1 TCACTTATTTTAAAA
135122 ATGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TCACTTATTTTAAAA
Found at i:135808 original size:44 final size:48
Alignment explanation
Indices: 135760--135849 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 48
135750 TAATCAGTAA
135760 TAAATATTTTT-TAAATA-TAAT-AAGATTAATCAA-AA-TATTTTTAT
1 TAAATATTTTTCTAAATACT-ATCAAGATTAATCAATAATTATTTTTAT
* *
135804 TAAATATTTTTCTAATTACTATCAATATTAATCAATAATTATTTTT
1 TAAATATTTTTCTAAATACTATCAAGATTAATCAATAATTATTTTT
135850 TTCTTTAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 11 0.28
45 7 0.18
46 12 0.31
47 2 0.05
48 7 0.18
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (48 bp):
TAAATATTTTTCTAAATACTATCAAGATTAATCAATAATTATTTTTAT
Found at i:135946 original size:15 final size:16
Alignment explanation
Indices: 135920--135949 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
135910 TAATAAGATT
135920 ACTAAGTGATTTTATC
1 ACTAAGTGATTTTATC
135936 ACTAA-TGATTTTAT
1 ACTAAGTGATTTTAT
135950 ATTATCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (16 bp):
ACTAAGTGATTTTATC
Found at i:136598 original size:21 final size:23
Alignment explanation
Indices: 136552--136599 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
136542 TCATTTTAAT
136552 AATTTAAAATTATTATCATATAAA
1 AATTTAAAATTATTA-CATATAAA
*
136576 AATTTTAAATTATTA-ATA-AAA
1 AATTTAAAATTATTACATATAAA
136597 AAT
1 AAT
136600 AATTCAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
24 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTAAAATTATTACATATAAA
Found at i:136603 original size:24 final size:25
Alignment explanation
Indices: 136549--136603 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
136539 TTATCATTTT
*
136549 AATAATTTAAAATTATTATCATATA
1 AATAATTTAAAATTATTATCATAAA
*
136574 AA-AATTTTAAATTATTA--ATAAAA
1 AATAATTTAAAATTATTATCAT-AAA
136597 AATAATT
1 AATAATT
136604 CAATTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 18 0.69
25 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAATTTAAAATTATTATCATAAA
Found at i:137558 original size:24 final size:24
Alignment explanation
Indices: 137513--137558 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
137503 ATAGTGAATT
**
137513 GAAAATAATATAAATATTACATGA
1 GAAAATAATATAAATACAACATGA
137537 GAAAATAAT-TAAAATACAACAT
1 GAAAATAATAT-AAATACAACAT
137559 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (24 bp):
GAAAATAATATAAATACAACATGA
Done.