Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 13 of 38
Found at i:2077258 original size:19 final size:18
Alignment explanation
Indices: 2077233--2077297 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
2077223 ATTTCAATGA
2077233 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2077251 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
*
2077267 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
2077283 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2077298 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
13 9 0.25
15 2 0.06
17 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2077271 original size:32 final size:32
Alignment explanation
Indices: 2077235--2077305 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2077225 TTCAATGATT
2077235 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* * *
2077267 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
2077299 TGTATCG
1 TGTATCG
2077306 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:2077413 original size:52 final size:52
Alignment explanation
Indices: 2077349--2077498 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 52
2077339 CATTACTCAA
* * * *
2077349 ATGTATCGATACACTGAT-CTTTGTATCGATACATGTAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-ATGATATGTATCGATACATGCAGGCAAATTTGACCAG
* * * *
2077401 ATGTATCAATACACTATGAAATGTATCGATACATACAAGCAAATTTGACCAG
1 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTTGACCAG
2077453 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTT
2077499 TCATATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTTGACCAG
Found at i:2091355 original size:5 final size:5
Alignment explanation
Indices: 2091353--2091434 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
2091343 AAGAAAAAGA
2091353 AAAAC -AAAC AAAAC AAAAC AAAA- AAAA- AGAAA- AAAAC -AAAC -AAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC A-AAAC AAAAC AAAAC AAAAC
*
2091398 -AAAC AAGAAAC AAAAAA AAAAC AAAAC AACAAC AAAA
1 AAAAC -A-AAAC -AAAAC AAAAC AAAAC AA-AAC AAAA
2091435 AGGGTCCGGA
Statistics
Matches: 68, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
4 24 0.35
5 30 0.44
6 8 0.12
7 6 0.09
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:2091363 original size:4 final size:4
Alignment explanation
Indices: 2091354--2091422 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
2091344 AGAAAAAGAA
* *
2091354 AAAC AAAC AAAAC AAAAC AAA- AAA- AAAG AAAA AAAC AAAC AAAC AAAC
1 AAAC AAAC -AAAC -AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
* *
2091402 -AAG AAAC AAA- AAAA AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAA
2091423 ACAACAACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
3 11 0.20
4 36 0.64
5 9 0.16
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:2091381 original size:36 final size:37
Alignment explanation
Indices: 2091341--2091433 Score: 115
Period size: 37 Copynumber: 2.5 Consensus size: 37
2091331 AGTCCTCCGC
2091341 AAAAGAAAAAGAA-AAACAAACAAA-ACA-AAACAAAAA
1 AAAAGAAAAA-AACAAACAAACAAACA-AGAAACAAAAA
2091377 AAAAGAAAAAAACAAACAAACAAACAAGAAACAAAAA
1 AAAAGAAAAAAACAAACAAACAAACAAGAAACAAAAA
2091414 AAAA-ACAAAACAAC-AACAAA
1 AAAAGA-AAAA-AACAAACAAA
2091434 AAGGGTCCGG
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
35 2 0.04
36 23 0.44
37 24 0.46
38 3 0.06
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (37 bp):
AAAAGAAAAAAACAAACAAACAAACAAGAAACAAAAA
Found at i:2091382 original size:30 final size:30
Alignment explanation
Indices: 2091340--2091435 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 30
2091330 GAGTCCTCCG
2091340 CAAAAGAAAAAGAAAAACAAACAAAACAAAA
1 CAAAA-AAAAAGAAAAACAAACAAAACAAAA
2091371 CAAAAAAAAAGAAAAAAACAAAC-AAAC-AAA
1 CAAAAAAAAAG--AAAAACAAACAAAACAAAA
* *
2091401 CAAGAAACAA-AAAAA-AAACAAAACAACAA
1 CAAAAAAAAAGAAAAACAAACAAAACAA-AA
2091430 CAAAAA
1 CAAAAA
2091436 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
26 4 0.07
27 9 0.16
28 1 0.02
29 7 0.12
30 17 0.30
31 9 0.16
32 10 0.18
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (30 bp):
CAAAAAAAAAGAAAAACAAACAAAACAAAA
Found at i:2091410 original size:7 final size:6
Alignment explanation
Indices: 2091341--2091435 Score: 63
Period size: 6 Copynumber: 15.7 Consensus size: 6
2091331 AGTCCTCCGC
* * * *
2091341 AAAAGA AAAAGA AAAACA AACAAAA CAAAACA AAAA-A AAAGAAA AAAACA
1 AAAACA AAAACA AAAACA AA-AACA -AAAACA AAAACA AAA-ACA AAAACA
* *
2091391 AACAA-A CAAACA AGAAACA AAAA-A AAAAC- AAAACA ACAACA AAAA
1 AA-AACA AAAACA A-AAACA AAAACA AAAACA AAAACA AAAACA AAAA
2091436 GGGTCCGGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
5 16 0.22
6 36 0.50
7 18 0.25
8 2 0.03
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:2091419 original size:11 final size:11
Alignment explanation
Indices: 2091341--2091435 Score: 66
Period size: 11 Copynumber: 7.9 Consensus size: 11
2091331 AGTCCTCCGC
*
2091341 AAAAGAAAAAGA
1 AAAACAAAAA-A
2091353 AAAACAAACAAAA
1 AAAAC-AA-AAAA
2091366 CAAAACAAAAAA
1 -AAAACAAAAAA
2091378 AAAGA-AAAAAA
1 AAA-ACAAAAAA
*
2091389 CAAACAAACAAACA
1 AAAAC-AA-AAA-A
2091403 AGAAACAAAAAA
1 A-AAACAAAAAA
*
2091415 AAAACAAAACA
1 AAAACAAAAAA
*
2091426 ACAACAAAAA
1 AAAACAAAAA
2091436 GGGTCCGGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
10 1 0.01
11 28 0.41
12 13 0.19
13 11 0.16
14 11 0.16
15 4 0.06
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:2091424 original size:23 final size:22
Alignment explanation
Indices: 2091341--2091435 Score: 63
Period size: 23 Copynumber: 4.2 Consensus size: 22
2091331 AGTCCTCCGC
*
2091341 AAAAGAAAAAGAAAAAC-AAAC-
1 AAAACAAAAA-AAAAACAAAACA
*
2091362 AAAACAAAACAAAAAA-AAAGAAA
1 AAAACAAAA-AAAAAACAAA-ACA
*
2091385 AAAACAAACAAACAAACAAGAAACA
1 AAAACAAA-AAAAAAAC-A-AAACA
*
2091410 AAAA-AAAAACAAAACAACAACA
1 AAAACAAAAAAAAAACAA-AACA
2091432 AAAA
1 AAAA
2091436 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
21 16 0.27
22 11 0.19
23 19 0.32
24 4 0.07
25 7 0.12
26 2 0.03
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAAAAAACAAAACA
Found at i:2091428 original size:26 final size:25
Alignment explanation
Indices: 2091340--2091435 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 25
2091330 GAGTCCTCCG
* *
2091340 CAAAAGAAAAAGAAAAACAAACAAAA
1 CAAAACAAAAAGAAAAA-AAAAAAAA
*
2091366 CAAAACAAAAAAAAAGAAAAAAACAAA
1 CAAAACAAAAAGAAA-AAAAAAA-AAA
2091393 C-AAACAAACAAGAAACAAAAAAAAAA
1 CAAAACAAA-AAGAAA-AAAAAAAAAA
* *
2091419 CAAAACAACAACAAAAA
1 CAAAACAAAAAGAAAAA
2091436 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.03
26 33 0.56
27 24 0.41
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (25 bp):
CAAAACAAAAAGAAAAAAAAAAAAA
Found at i:2092940 original size:28 final size:27
Alignment explanation
Indices: 2092858--2092946 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 27
2092848 CATTCCTCAC
* *
2092858 CCTTCAAAAGCCCACAAGTCAGTGGCAC
1 CCTTCAAAAGCCCACAATTC-GTGGCAA
*
2092886 CCTTTTTC-AAAGCCCACAAATTAGTGGCAA
1 CC---TTCAAAAGCCCAC-AATTCGTGGCAA
2092916 CCTTCAAAAGCCCACAACTTCGTGGC-A
1 CCTTCAAAAGCCCACAA-TTCGTGGCAA
2092943 CCTT
1 CCTT
2092947 TTCTTTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 10 0.20
28 18 0.35
30 17 0.33
31 6 0.12
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (27 bp):
CCTTCAAAAGCCCACAATTCGTGGCAA
Found at i:2093060 original size:35 final size:33
Alignment explanation
Indices: 2093013--2093119 Score: 105
Period size: 34 Copynumber: 3.3 Consensus size: 33
2093003 GTCAGCATAT
* *
2093013 TGGCACC-TTTTCTTTTGTAAGCCCACAATTCCG
1 TGGCACCTTTTTCTTTT-TAAGCCCACAAGTCAG
*
2093046 TGGCACTCTTTTTCTTTTTAAGTCCACAAGTCAG
1 TGGCAC-CTTTTTCTTTTTAAGCCCACAAGTCAG
* **
2093080 TGGCACCCTTTTC---AAAAGCCCACAAGTCAG
1 TGGCACCTTTTTCTTTTTAAGCCCACAAGTCAG
2093110 TGGCAACCTT
1 TGGC-ACCTT
2093120 CAAAAGCACA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
30 18 0.29
31 4 0.06
33 12 0.19
34 20 0.32
35 9 0.14
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (33 bp):
TGGCACCTTTTTCTTTTTAAGCCCACAAGTCAG
Found at i:2093131 original size:28 final size:29
Alignment explanation
Indices: 2093069--2093160 Score: 116
Period size: 28 Copynumber: 3.2 Consensus size: 29
2093059 CTTTTTAAGT
*
2093069 CCACAAGTCAGTGGCACCCTTTTCAAAAGC
1 CCACAAGTCAGTGGCAACC-TTTCAAAAGC
2093099 CCACAAGTCAGTGGCAACC-TTCAAAAGC
1 CCACAAGTCAGTGGCAACCTTTCAAAAGC
* **
2093127 ACACAAGTTGGT-GCAACCCTTTCAAAAGC
1 CCACAAGTCAGTGGCAA-CCTTTCAAAAGC
2093156 CCACA
1 CCACA
2093161 CATGTTGGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 4 0.07
28 20 0.36
29 13 0.24
30 18 0.33
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (29 bp):
CCACAAGTCAGTGGCAACCTTTCAAAAGC
Found at i:2093168 original size:31 final size:30
Alignment explanation
Indices: 2093084--2093170 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 30
2093074 AGTCAGTGGC
**
2093084 ACCCTTTTCAAAAGCCCACA-AGTCAGTGGCA
1 ACCC-TTTCAAAAGCCCACACAGTTGGT-GCA
*
2093115 A-CC-TTCAAAAGCACACA-AGTTGGTGCA
1 ACCCTTTCAAAAGCCCACACAGTTGGTGCA
2093142 ACCCTTTCAAAAGCCCACACATGTTGGTG
1 ACCCTTTCAAAAGCCCACACA-GTTGGTG
2093171 GCGTCTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.08
28 20 0.42
29 13 0.27
30 3 0.06
31 8 0.17
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (30 bp):
ACCCTTTCAAAAGCCCACACAGTTGGTGCA
Found at i:2093315 original size:49 final size:49
Alignment explanation
Indices: 2093177--2093514 Score: 387
Period size: 49 Copynumber: 6.9 Consensus size: 49
2093167 GGTGGCGTCT
* *
2093177 TCTTCTAAGTCCAATATCGCTGGCCTTGAATTC-GCATATTGGCACCTTTA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAA-TCAGCATATTGGCACCTTTA
*
2093227 TCTTTAAGACCAATG-C-CTGGCCTTGAATTAGCATATTGGCACCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
*
2093274 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
2093322 CCTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * * *
2093371 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * * * *
2093420 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGTATATTGGCATCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * ** *
2093469 ACATTCCTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA
1 TC-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
2093515 ATCTTTTTCA
Statistics
Matches: 252, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
46 1 0.00
47 43 0.17
48 46 0.18
49 125 0.50
50 6 0.02
52 31 0.12
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
Found at i:2093384 original size:97 final size:97
Alignment explanation
Indices: 2093177--2093514 Score: 389
Period size: 97 Copynumber: 3.5 Consensus size: 97
2093167 GGTGGCGTCT
* *
2093177 TCTTCTAAGTCCAATATCGCTGGCCTTGAATTC-GCATATTGGCACCTTTATCTTTAAGACCAAT
1 TCTTCTAAGTCCAATATCGCTGGCCTTGAA-TCAGCACATTGGCACC-TT-CCTTTAAGACCAAT
* *
2093241 G-C-CTGGCCTTGAATTAGCATATTGGCACCTTTA
63 GTCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * *
2093274 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGACCAATGT
1 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-CCTTTAAGACCAATGT
*
2093338 CGCTGGCCTTGAATCAGTACATTGGCACCTTTA
65 CGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * *
2093371 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATA
1 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTC--CTTTAAGACCAATG
* *
2093435 TCGTTGGCCTTGAATCAGTATATTGGCATCTTTA
64 TCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * * **
2093469 ACATTCCTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA
1 TC-TT-CTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2093515 ATCTTTTTCA
Statistics
Matches: 210, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
95 18 0.09
96 38 0.18
97 75 0.36
98 43 0.20
99 2 0.01
101 34 0.16
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (97 bp):
TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGTATATTGGCACCTTTA
Found at i:2093458 original size:146 final size:149
Alignment explanation
Indices: 2093179--2093554 Score: 419
Period size: 146 Copynumber: 2.6 Consensus size: 149
2093169 TGGCGTCTTC
* * * * *
2093179 TTCTAAGTCCAATATCGCTGGCCTTGAATTC-GCATATTGGCACCTTTATCTTTAAGACCAAT-G
1 TTCTAAGACCAATGTCGCTGGCCTTGAA-TCAGCACATTGGCACCTTTATCTTTAAGTCCAATAT
* * * *
2093242 C-CTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
65 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCA
* *
2093306 GCATATTGGCA-CCTT-GCC
130 GCATATTGGCATCCTTAACA
*
2093324 TT-TAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTTATCTTTAAGTCCAATATC
1 TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATC
* * * *
2093388 GCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAG
* *
2093453 TATATTGGCATCTTTAACA
131 CATATTGGCATCCTTAACA
* * ** * * *
2093472 TTCCTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA-ATCTT-T-TTCAAGTCTAATA
1 TT-CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATCTTTAAGTCCAATA
* *
2093534 TCGCAGGCCATGAATCAGCAC
64 TCGCTGGCCTTGAATCAGCAC
2093555 GTTGTCATTC
Statistics
Matches: 195, Mismatches: 28, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
143 2 0.01
144 51 0.26
145 3 0.02
146 65 0.33
147 3 0.02
148 33 0.17
149 2 0.01
150 36 0.18
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (149 bp):
TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAG
CATATTGGCATCCTTAACA
Found at i:2094470 original size:52 final size:52
Alignment explanation
Indices: 2094408--2094557 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 52
2094398 CATTACTCAA
* * *
2094408 ATGTATCGATACAC--TGATCTTTGACTCGATACATGTAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATGATATGT-A-TCGATACATGCAGGCAAATTTGCCCAG
* * *
2094460 ATGTATCGATACACTATGAAATGTATCGATACATACAAGCAAATTTGCCCAG
1 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTTGCCCAG
2094512 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTT
2094558 TCATATTTCG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 81 0.93
53 1 0.01
54 5 0.06
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATGATATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:2097386 original size:13 final size:13
Alignment explanation
Indices: 2097368--2097393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2097358 TACACCAAGT
2097368 ATGTATCGATACA
1 ATGTATCGATACA
2097381 ATGTATCGATACA
1 ATGTATCGATACA
2097394 CAAAAAAATT
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:2104537 original size:87 final size:87
Alignment explanation
Indices: 2104386--2104555 Score: 225
Period size: 87 Copynumber: 2.0 Consensus size: 87
2104376 AGCTTTGGTT
* * * ** *
2104386 TTCTAAGGCTTAACCTCCTTAGACAAGGGCTAACTAATATGGACTTGATTCGGACTTAGATGCCA
1 TTCTAAGGCTTAACCTCCTCAGACAAGGGCCAACTAATATGGACTTGACTCAAACATAGATGCCA
2104451 CCAACTCATGTGGACTTTAACA
66 CCAACTCATGTGGACTTTAACA
* * *
2104473 TTCTAAGTCTTAACCTCCTCAGAC-AGGTGCCAACTAATGTGGACTTGACTCAAACATAGCTGCC
1 TTCTAAGGCTTAACCTCCTCAGACAAGG-GCCAACTAATATGGACTTGACTCAAACATAGATGCC
* *
2104537 ACTAACTCATGTGGGCTTT
65 ACCAACTCATGTGGACTTT
2104556 GACTCGGGTG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 3 0.04
87 68 0.96
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (87 bp):
TTCTAAGGCTTAACCTCCTCAGACAAGGGCCAACTAATATGGACTTGACTCAAACATAGATGCCA
CCAACTCATGTGGACTTTAACA
Found at i:2104586 original size:31 final size:31
Alignment explanation
Indices: 2104531--2104620 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
2104521 CTCAAACATA
* ** *
2104531 GCTGCCACTAACTCATGTGGGCTTTGACTCGG
1 GCTGCCACCAACTTGTGCGGGCTTTGACT-GG
**
2104563 G-TGCTGCCAACTTGTGCGGGCTTTGACTGG
1 GCTGCCACCAACTTGTGCGGGCTTTGACTGG
*
2104593 GCTGCCACCAACTTGTGTGGGCTTTGAC
1 GCTGCCACCAACTTGTGCGGGCTTTGAC
2104621 ATTCTAAGGC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 3 0.06
31 44 0.92
32 1 0.02
ACGTcount: A:0.13, C:0.27, G:0.31, T:0.29
Consensus pattern (31 bp):
GCTGCCACCAACTTGTGCGGGCTTTGACTGG
Found at i:2104724 original size:31 final size:31
Alignment explanation
Indices: 2104681--2104800 Score: 168
Period size: 31 Copynumber: 3.9 Consensus size: 31
2104671 TTAAACTTAG
*
2104681 GTGCCACCAACTCATGTGGGCTTTGACTCAA
1 GTGCCACCAACTCATGTGGGCTTTGACTCGA
* *
2104712 GTGCCACTAACTCGTGTGGGCTTTGACTCGA
1 GTGCCACCAACTCATGTGGGCTTTGACTCGA
* * * *
2104743 GTGCCACCAACTTATGCGGGCTTTGACTTGG
1 GTGCCACCAACTCATGTGGGCTTTGACTCGA
*
2104774 GTGCCACCAACTCGTGTGGGCTTTGAC
1 GTGCCACCAACTCATGTGGGCTTTGAC
2104801 AATCTAAGGC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (31 bp):
GTGCCACCAACTCATGTGGGCTTTGACTCGA
Found at i:2104733 original size:149 final size:149
Alignment explanation
Indices: 2104446--2104769 Score: 418
Period size: 149 Copynumber: 2.2 Consensus size: 149
2104436 CGGACTTAGA
* * * * *
2104446 TGCCACCAACTCATGTGGACTTTAACATTCTAAGTCTTAACCTCCTCAGACAGGTGCCAACTAAT
1 TGCCACCAACTTATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACTAAG
* ** ** *
2104511 GTGGACTTGACTCAAACATAGCTGCCACTAACTCATGTGGGCTTTGACTCGGGTGCTGCCAACTT
66 GTGGACTTGACTCAAACATAGCTGCCACCAACTCATGTGGGCTTTGACTCAAGTGCCACCAACTC
*
2104576 GTGCGGGCTTTGACT-GGG
131 GTGCGGGCTTTGACTCGAG
* * *
2104594 CTGCCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACC-CTCTTAGATAGGTGCCAACTA
1 -TGCCACCAACTTATGTGGGCTTTGACATTCTAAGGCTTAACCTC-CTCAGACAGGTGCCAACTA
* * * * *
2104658 AGGTGGGCTTGACTTAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCAAGTGCCACTAAC
64 AGGTGGACTTGACTCAAACATAGCTGCCACCAACTCATGTGGGCTTTGACTCAAGTGCCACCAAC
*
2104723 TCGTGTGGGCTTTGACTCGAG
129 TCGTGCGGGCTTTGACTCGAG
*
2104744 TGCCACCAACTTATGCGGGCTTTGAC
1 TGCCACCAACTTATGTGGGCTTTGAC
2104770 TTGGGTGCCA
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 147 0.98
150 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (149 bp):
TGCCACCAACTTATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACTAAG
GTGGACTTGACTCAAACATAGCTGCCACCAACTCATGTGGGCTTTGACTCAAGTGCCACCAACTC
GTGCGGGCTTTGACTCGAG
Found at i:2104750 original size:62 final size:62
Alignment explanation
Indices: 2104681--2104800 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
2104671 TTAAACTTAG
* *
2104681 GTGCCACCAACTCATGTGGGCTTTGACTCAAGTGCCACTAACTCGTGTGGGCTTTGACTCGA
1 GTGCCACCAACTCATGCGGGCTTTGACTCAAGTGCCACCAACTCGTGTGGGCTTTGACTCGA
* ***
2104743 GTGCCACCAACTTATGCGGGCTTTGACTTGGGTGCCACCAACTCGTGTGGGCTTTGAC
1 GTGCCACCAACTCATGCGGGCTTTGACTCAAGTGCCACCAACTCGTGTGGGCTTTGAC
2104801 AATCTAAGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (62 bp):
GTGCCACCAACTCATGCGGGCTTTGACTCAAGTGCCACCAACTCGTGTGGGCTTTGACTCGA
Found at i:2104835 original size:180 final size:182
Alignment explanation
Indices: 2104533--2104950 Score: 594
Period size: 180 Copynumber: 2.3 Consensus size: 182
2104523 CAAACATAGC
* **
2104533 TGCCACTAACTCATGTGGGCTTTGACTCGGGTGCTGCCAACTTGTGCGGGCTTTGAC-TGGGCTG
1 TGCCACTAACTCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACTTGGGCTG
* * * *
2104597 CCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCCTCTTAGATAGGTGCCAACTAAGGT
66 CCACCAACTCGTGTGGGCTTTGACAATCTAAGGCTTAACCCTCTTAGACAAGTGCCAACTAAGGT
*
2104662 GGGCTTGACTTAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCAAG-
131 GGGCTTGACTAAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCAAGT
* *
2104713 TGCCACTAACTCGTGTGGGCTTTGACTCGAGTGCCACCAACTTATGCGGGCTTTGACTTGGG-TG
1 TGCCACTAACTCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACTTGGGCTG
*
2104777 CCACCAACTCGTGTGGGCTTTGACAATCTAAGGCTTAA-CCTCTTTAGACAAGTGCCAACTAATG
66 CCACCAACTCGTGTGGGCTTTGACAATCTAAGGCTTAACCCTC-TTAGACAAGTGCCAACTAAGG
* * **
2104841 TGGGCTTGACTAAAACTTAGGTGCCACCAACTCGTGTGGGTTTTGACTCGGGT
130 TGGGCTTGACTAAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCAAGT
* * * * * * *
2104894 TTCGAC-AACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACT
1 TGCCACTAACTCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACT
2104951 CAGGTGTAAC
Statistics
Matches: 211, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
179 4 0.02
180 199 0.94
181 8 0.04
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (182 bp):
TGCCACTAACTCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACTTGGGCTG
CCACCAACTCGTGTGGGCTTTGACAATCTAAGGCTTAACCCTCTTAGACAAGTGCCAACTAAGGT
GGGCTTGACTAAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCAAGT
Found at i:2104993 original size:30 final size:30
Alignment explanation
Indices: 2104858--2105007 Score: 160
Period size: 31 Copynumber: 4.9 Consensus size: 30
2104848 GACTAAAACT
*
2104858 TAGGTGCCACCAACTCGTGTGGGTTTTGAC
1 TAGGTGCCACCAACTCGTGTGGGCTTTGAC
* * * * *
2104888 TCGGGTTTCGA-CAACTTGTGCGGGCTTTGAC
1 T-AGG-TGCCACCAACTCGTGTGGGCTTTGAC
2104919 TAGGGTGCCACCAACTCGTGTGGGCTTTGAC
1 TA-GGTGCCACCAACTCGTGTGGGCTTTGAC
** *
2104950 TCAGGTGTAACCAACAT-ATGTGGGCTTTGAC
1 T-AGGTGCCACCAAC-TCGTGTGGGCTTTGAC
2104981 TAGGTGCCACCAACTCGTGTGGGCTTT
1 TAGGTGCCACCAACTCGTGTGGGCTTT
2105008 AACATTCTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
29 1 0.01
30 25 0.26
31 65 0.68
32 5 0.05
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.29
Consensus pattern (30 bp):
TAGGTGCCACCAACTCGTGTGGGCTTTGAC
Found at i:2105004 original size:61 final size:61
Alignment explanation
Indices: 2104858--2105007 Score: 212
Period size: 62 Copynumber: 2.4 Consensus size: 61
2104848 GACTAAAACT
* * * * * *
2104858 TAGGTGCCACCAACTCGTGTGGGTTTTGACTCGGGTTTCGACAACTTGTGCGGGCTTTGAC
1 TAGGTGCCACCAACTCGTGTGGGCTTTGACTCAGGTGTCAACAACATATGCGGGCTTTGAC
*
2104919 TAGGGTGCCACCAACTCGTGTGGGCTTTGACTCAGGTGT-AACCAACATATGTGGGCTTTGAC
1 TA-GGTGCCACCAACTCGTGTGGGCTTTGACTCAGGTGTCAA-CAACATATGCGGGCTTTGAC
2104981 TAGGTGCCACCAACTCGTGTGGGCTTT
1 TAGGTGCCACCAACTCGTGTGGGCTTT
2105008 AACATTCTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 28 0.35
62 52 0.65
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.29
Consensus pattern (61 bp):
TAGGTGCCACCAACTCGTGTGGGCTTTGACTCAGGTGTCAACAACATATGCGGGCTTTGAC
Found at i:2105072 original size:210 final size:210
Alignment explanation
Indices: 2104698--2105159 Score: 667
Period size: 210 Copynumber: 2.2 Consensus size: 210
2104688 CAACTCATGT
* * * *
2104698 GGGCTTTGACTCAAGTGCCACTAACTCGTGTGGGCTTTGACTCGAGTGCCACCAACTTATGCGGG
1 GGGCTTTGACT-AGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCAACCAACATATGCGGG
* *
2104763 CTTTGACTTGGGTGCCACCAACTCGTGTGGGCTTTGACAATCTAAGGCTTAACCTCTTTAGACAA
65 CTTTGACTTAGGTGCCACCAACTCGTGTGGGCTTTAACAATCTAAGGCTTAACCTCTTTAGACAA
* * * * *
2104828 GTGCCAACTAATGTGGGCTTGACTAAAACTTAGGTGCCACCAACTCGTGTGGGTTTTGACTCGGG
130 GTGCCAACAAATGTGGGCTTGACGAAAACTTAGGTGCCACCAACTCATGTGAGCTTTGACTCGGG
*
2104893 TTTCGACAACTTGTGC
195 TGTCGACAACTTGTGC
* *
2104909 GGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACTC-AGGTGTAACCAACATATGTGG
1 GGGCTTTGACTA-GGTGCCACCAACTCGTGTGGGCTTTGACTCGA-GTGCAACCAACATATGCGG
*
2104973 GCTTTGAC-TAGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCTTTAGACA
64 GCTTTGACTTAGGTGCCACCAACTCGTGTGGGCTTTAACAATCTAAGGCTTAACCTCTTTAGACA
* * *
2105037 AGTGCCAACAAATGTGGGCTTGACGCAAGCTTAGGTGCCACCATCTCATGTGAGCTTTGACTCGG
129 AGTGCCAACAAATGTGGGCTTGACGAAAACTTAGGTGCCACCAACTCATGTGAGCTTTGACTCGG
*
2105102 GTGTCGCCAACTTGTGC
194 GTGTCGACAACTTGTGC
** * *
2105119 AAGCTTTGACTAAGGTACCACCAACTTGTGTGGGCTTTGAC
1 GGGCTTTGACT-AGGTGCCACCAACTCGTGTGGGCTTTGAC
2105160 ATTATATGGC
Statistics
Matches: 225, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
210 162 0.72
211 63 0.28
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.28
Consensus pattern (210 bp):
GGGCTTTGACTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCAACCAACATATGCGGGC
TTTGACTTAGGTGCCACCAACTCGTGTGGGCTTTAACAATCTAAGGCTTAACCTCTTTAGACAAG
TGCCAACAAATGTGGGCTTGACGAAAACTTAGGTGCCACCAACTCATGTGAGCTTTGACTCGGGT
GTCGACAACTTGTGC
Found at i:2105191 original size:149 final size:148
Alignment explanation
Indices: 2104922--2105202 Score: 368
Period size: 149 Copynumber: 1.9 Consensus size: 148
2104912 CTTTGACTAG
* * * *
2104922 GGTGCCACCAACTCGTGTGGGCTTTGACTCAGGTGTAACCAACATATGTGGGCTTTGACTAGGTG
1 GGTGCCACCAACTCATGTGAGCTTTGACTCAGGTGTAACCAACATATGTGAGCTTTGACTAGGTA
* *
2104987 CCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACAAATGT
66 CCACCAACTCGTGTGGGCTTTAACATTATAAGGCTTAACCTCCTTAGACAAGTGCCAACAAATGT
2105052 GGGCTTGACGCAAGCTTA
131 GGGCTTGACGCAAGCTTA
* * **
2105070 GGTGCCACCATCTCATGTGAGCTTTGACTCGGGTGTCGCCAAC-T-TGTGCAAGCTTTGACTAAG
1 GGTGCCACCAACTCATGTGAGCTTTGACTCAGGTGTAACCAACATATGTG--AGCTTTGACT-AG
* * * * * * *
2105133 GTACCACCAACTTGTGTGGGCTTTGACATTATATGGCTTAACCTCCTTCGATAGGTGCCAACTAA
63 GTACCACCAACTCGTGTGGGCTTTAACATTATAAGGCTTAACCTCCTTAGACAAGTGCCAACAAA
2105198 TGTGG
128 TGTGG
2105203 ACTTTAGAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
146 4 0.04
147 1 0.01
148 46 0.41
149 62 0.55
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (148 bp):
GGTGCCACCAACTCATGTGAGCTTTGACTCAGGTGTAACCAACATATGTGAGCTTTGACTAGGTA
CCACCAACTCGTGTGGGCTTTAACATTATAAGGCTTAACCTCCTTAGACAAGTGCCAACAAATGT
GGGCTTGACGCAAGCTTA
Found at i:2105311 original size:42 final size:42
Alignment explanation
Indices: 2105237--2105500 Score: 179
Period size: 42 Copynumber: 6.3 Consensus size: 42
2105227 AGGGTTGTCC
* * ** *
2105237 TGCTCTTTAAAGACAAA-GAAAAAAGGATAATGAAATATGTCT
1 TGCTCTTTGAGGACAAAGGAAAAAAGGA-AATGAAATGCGTCA
* * * *
2105279 TGCTCTTTGAGGGA-AATGGAAAAAAAGAAATGAAGTGGGTCA
1 TGCTCTTTGA-GGACAAAGGAAAAAAGGAAATGAAATGCGTCA
* * * * *
2105321 TGCTCCTTGAGGACAAAAGAAAAAAGGAAGAAGGAAA-ACGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGG-A-AATGAAATGCGTCA
* * *
2105364 TGCTCCTTGAGGACAAAGGGAAAAAAAG-AAT-AACATGTGTCA
1 TGCTCTTTGAGGACAAA-GGAAAAAAGGAAATGAA-ATGCGTCA
* *
2105406 TGCTCTTTGAGGACAAAGGAGAAAAGGAAATGAAATGCGTCT
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGCGTCA
* * *
2105448 TGCTTTTTGCA-GACAAA--AAGAAAA-G-AAGGAAATGCGTCT
1 TGCTCTTTG-AGGACAAAGGAA-AAAAGGAAATGAAATGCGTCA
*
2105487 TGTTCTTTGAGGAC
1 TGCTCTTTGAGGAC
2105501 TAAAAGGTGC
Statistics
Matches: 176, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
38 1 0.01
39 23 0.13
40 4 0.02
41 18 0.10
42 82 0.47
43 35 0.20
44 13 0.07
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (42 bp):
TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGCGTCA
Found at i:2105368 original size:85 final size:86
Alignment explanation
Indices: 2105251--2105434 Score: 214
Period size: 85 Copynumber: 2.2 Consensus size: 86
2105241 CTTTAAAGAC
* * * * * * *
2105251 AAAGAAAAAAGG-ATAATGAAATATGTCTTGCTCTTTGAGG-GAAATGGAAAAAAAGAAATGAA-
1 AAAGAAAAAAGGAAGAAGGAAATACGTCCTGCTCCTTGAGGACAAAGGGAAAAAAAG-AAT-AAC
*
2105313 GTGGGTCATGCTCCTTGAGGACA
64 ATGGGTCATGCTCCTTGAGGACA
2105336 AAAGAAAAAAGGAAGAAGGAAA-ACGTCCTGCTCCTTGAGGACAAAGGGAAAAAAAGAATAACAT
1 AAAGAAAAAAGGAAGAAGGAAATACGTCCTGCTCCTTGAGGACAAAGGGAAAAAAAGAATAACAT
* *
2105400 GTGTCATGCTCTTTGAGGACA
66 GGGTCATGCTCCTTGAGGACA
* *
2105421 AAGGAGAAAAGGAA
1 AAAGAAAAAAGGAA
2105435 ATGAAATGCG
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.02
85 62 0.74
86 20 0.24
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (86 bp):
AAAGAAAAAAGGAAGAAGGAAATACGTCCTGCTCCTTGAGGACAAAGGGAAAAAAAGAATAACAT
GGGTCATGCTCCTTGAGGACA
Found at i:2105506 original size:39 final size:41
Alignment explanation
Indices: 2105409--2105506 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 41
2105399 TGTGTCATGC
*
2105409 TCTTTGAGGACAAAGGAGAAAAGGAAATGAAATGCGTCTTGCT
1 TCTTTGAGGACAAA--AGAAAAGGAAAGGAAATGCGTCTTGCT
2105452 T-TTTGCA-GACAAAAAGAAAA-G-AAGGAAATGCGTCTTG-T
1 TCTTTG-AGGAC-AAAAGAAAAGGAAAGGAAATGCGTCTTGCT
2105490 TCTTTGAGGACTAAAAG
1 TCTTTGAGGAC-AAAAG
2105507 GTGCCACAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
38 3 0.06
39 27 0.55
40 1 0.02
41 6 0.12
42 7 0.14
43 5 0.10
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (41 bp):
TCTTTGAGGACAAAAGAAAAGGAAAGGAAATGCGTCTTGCT
Found at i:2113901 original size:20 final size:20
Alignment explanation
Indices: 2113867--2113921 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
2113857 TCAAAAACCC
2113867 ATAATGTAT-AGATAC-AATGA
1 ATAATGTATCA-ATACAAAT-A
2113887 ATAATGTATCAATACAAATA
1 ATAATGTATCAATACAAATA
*
2113907 GTAAATGTATCAATA
1 AT-AATGTATCAATA
2113922 AATTTCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (20 bp):
ATAATGTATCAATACAAATA
Found at i:2115786 original size:3 final size:3
Alignment explanation
Indices: 2115780--2115812 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2115770 CTATAAGTAG
*
2115780 TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2115813 AATTTATGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2118481 original size:13 final size:13
Alignment explanation
Indices: 2118444--2118483 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2118434 TTATCTTCAT
2118444 AAAC-TATTAATA
1 AAACTTATTAATA
2118456 ACAA-TTA-TAATA
1 A-AACTTATTAATA
2118468 AAACTTATTAATA
1 AAACTTATTAATA
2118481 AAA
1 AAA
2118484 AAATACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.08
12 10 0.42
13 12 0.50
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
AAACTTATTAATA
Found at i:2120161 original size:167 final size:164
Alignment explanation
Indices: 2119921--2120389 Score: 537
Period size: 166 Copynumber: 2.8 Consensus size: 164
2119911 AAATATGGAG
* * * * * *
2119921 TTTTCTATTCCGTAAATGTTTTTGGAGGGATTTTT-TTAGTTTTTAATTTTTAAAATTCAGAAAA
1 TTTTCTATTCCGTAAATATTTTCGAAAGGATTTTTCATAGTTTTTAATTTTTAAAATTCATAAAA
* * * *
2119985 TATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTAATTTATATCCATGAGTTTTGAATT
66 TATTATTATTTAATTCAAATTAAATT-GTTTTCAAAAATTAATTTATTTTCATGAGTTTTAAATT
* *
2120050 TTTTCTTCAAAGTTTTTCTTGCTTTTGAAATACAAAA
130 TTTTCTTCAAA--TTCTCTTACTTTTGAAATACAAAA
* * * * *
2120087 TTTTCTATTCCGTAAATATTTTCAAAAGGATTTTTCCTACTTTTTAATTTTTAAAATTAATTAAA
1 TTTTCTATTCCGTAAATATTTTCGAAAGGATTTTTCATAGTTTTTAATTTTTAAAATTCATAAAA
* * * * *
2120152 TATTATTATTTATTTCAAATTAAATTGGTTTTCAAAAATTTATTCATTTTCATGAGTTTCACATT
66 TATTATTATTTAATTCAAATTAAATT-GTTTTCAAAAATTAATTTATTTTCATGAGTTTTAAATT
* * *
2120217 TTTTCCTTGAAATTCTCTTATTTTTGAAATACGAAA
130 TTTT-CTTCAAATTCTCTTACTTTTGAAATACAAAA
* * ** *
2120253 TTTTCTACTT-CGTAAATATTTTCGAACGAATTTTTCATAGTTTAAAATTTTTAAAATTCATCAA
1 TTTTCTA-TTCCGTAAATATTTTCGAAAGGATTTTTCATAGTTTTTAATTTTTAAAATTCATAAA
* * * * * *
2120317 ATATTATCATTTGATTCACATTAAATCTGTTTTGAAAAATTCATTTATTTTTATGAGTTTTAAAT
65 ATATTATTATTTAATTCAAATTAAAT-TGTTTTCAAAAATTAATTTATTTTCATGAGTTTTAAAT
2120382 TTTTTCTT
129 TTTTTCTT
2120390 TGAAATTTCT
Statistics
Matches: 255, Mismatches: 44, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
165 3 0.01
166 160 0.63
167 86 0.34
168 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (164 bp):
TTTTCTATTCCGTAAATATTTTCGAAAGGATTTTTCATAGTTTTTAATTTTTAAAATTCATAAAA
TATTATTATTTAATTCAAATTAAATTGTTTTCAAAAATTAATTTATTTTCATGAGTTTTAAATTT
TTTCTTCAAATTCTCTTACTTTTGAAATACAAAA
Found at i:2120437 original size:166 final size:166
Alignment explanation
Indices: 2119948--2120487 Score: 423
Period size: 166 Copynumber: 3.3 Consensus size: 166
2119938 GTTTTTGGAG
* ** ** * * * *
2119948 GGATTTTT-TTAGTTTTTAATTTTTAAAATTCAGAAAATATTATTATTTAATTCATATTAAATTA
1 GGATTTTTCATAGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAAATTG
* * * * ** * * *
2120012 GTTTTCAAAAATTAATTTATATCCATGAGTTTTGAATTTTTT-CTTCAAAGTTTTTCTTGCTTT-
66 GTTTTCAAAAATTCATTCATTTTCATGAGTTTCAAATTTTTTCCTTGAAA--TTCTCTT-ATTTC
** * * * *
2120075 TGAAATACAAAATTTTCTA-TTCCGTAAATATTTTCAAAA
128 CAAAAAACGAAATTTTCTACTT-CATAAATATTTTCGAAA
* * ** * * *
2120114 GGATTTTTCCTACTTTTTAATTTTTAAAATTAATTAAATATTATTATTTATTTCAAATTAAATTG
1 GGATTTTTCATAGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAAATTG
* * ***
2120179 GTTTTCAAAAATTTATTCATTTTCATGAGTTTCACATTTTTTCCTTGAAATTCTCTTATTTTTGA
66 GTTTTCAAAAATTCATTCATTTTCATGAGTTTCAAATTTTTTCCTTGAAATTCTCTTATTTCCAA
* * *
2120244 AATACGAAATTTTCTACTTCGTAAATATTTTCGAAC
131 AAAACGAAATTTTCTACTTCATAAATATTTTCGAAA
* *
2120280 GAATTTTTCATAGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTGA-TTCACATTAAATC
1 GGATTTTTCATAGTTTAAAATTTTTAAAATTCATCAAATATTATCATTT-ATTTCAAATTAAAT-
* * * * *
2120344 T-GTTTTGAAAAATTCATTTATTTTTATGAGTTTTAAATTTTTTCTTTGAAATT-TCTCTATTTC
64 TGGTTTTCAAAAATTCATTCATTTTCATGAGTTTCAAATTTTTTCCTTGAAATTCTCT-TATTTC
* * * * * *
2120407 CAAAAAATTG-AGTTTTTTATTTCATAAATATTTTTGAAG
128 CAAAAAA-CGAAATTTTCTACTTCATAAATATTTTCGAAA
* * * * *
2120446 GGA-TTTTCTTTGGTCTAAAATTTTAAAAATTCATCTAATATT
1 GGATTTTTC-ATAGTTTAAAATTTTTAAAATTCATCAAATATT
2120488 GTTATTAAAC
Statistics
Matches: 311, Mismatches: 54, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
165 11 0.04
166 206 0.66
167 88 0.28
168 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.50
Consensus pattern (166 bp):
GGATTTTTCATAGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAAATTG
GTTTTCAAAAATTCATTCATTTTCATGAGTTTCAAATTTTTTCCTTGAAATTCTCTTATTTCCAA
AAAACGAAATTTTCTACTTCATAAATATTTTCGAAA
Found at i:2121843 original size:14 final size:14
Alignment explanation
Indices: 2121824--2121871 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
2121814 TTAAGGTACG
* *
2121824 AAATAAAATTTTAA
1 AAATAAAATATAAA
*
2121838 AAATAAAAAATAAA
1 AAATAAAATATAAA
2121852 AAATAAAATA-AAA
1 AAATAAAATATAAA
*
2121865 TAATAAA
1 AAATAAA
2121872 TAAATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATATAAA
Found at i:2121848 original size:7 final size:7
Alignment explanation
Indices: 2121836--2121877 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
2121826 ATAAAATTTT
2121836 AAAAATA
1 AAAAATA
2121843 AAAAATA
1 AAAAATA
2121850 AAAAAT-
1 AAAAATA
2121856 -AAAATA
1 AAAAATA
2121862 AAATAATA
1 AAA-AATA
2121870 AATAAATA
1 AA-AAATA
2121878 TTTTTTATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.16
7 15 0.48
8 10 0.32
9 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:2121859 original size:12 final size:12
Alignment explanation
Indices: 2121837--2121875 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2121827 TAAAATTTTA
2121837 AAAATAAAAAAT
1 AAAATAAAAAAT
2121849 AAAA-AATAAAAT
1 AAAATAA-AAAAT
*
2121861 AAAATAATAAAT
1 AAAATAAAAAAT
2121873 AAA
1 AAA
2121876 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:2122697 original size:143 final size:144
Alignment explanation
Indices: 2122434--2122698 Score: 331
Period size: 143 Copynumber: 1.8 Consensus size: 144
2122424 ATTCTTTAGG
* * * * *
2122434 GGTATTGGATACTTTTATATCAAAGGTATCCCTTAGGGGTATTTTTGTAATTTCTCTAGAACCAA
1 GGTATTGGATACTTCTACATCAAAGGTATCCCTTAGGGGCATCTTCGTAATTTCTCTAGAACCAA
* * *** * * *
2122499 GTCCTAGGTTGTCACCAAGTTTGTATTTATGCTGAAGGTGGGTATTTAGGATAGGTTAATCCTTT
66 CTCCTAGGTTATCACCAAGTCACTATTTAAGCCGAAGGTGGGTATTTAAGATAGGTTAATCCTTT
2122564 GTAAGTCCTTTACA
131 GTAAGTCCTTTACA
* *
2122578 GGTATTGGATACTTCTACATCGAAGGTATCTCC-TAGGGGCATCTTCGTAATTT-TTTAGAACCA
1 GGTATTGGATACTTCTACATCAAAGGTATC-CCTTAGGGGCATCTTCGTAATTTCTCTAGAACCA
*
2122641 ACTCCTAGGTTATCA-CTAGATCCACT-TTTAAGCCGAAGGTGGGTATTTAAGATAGGTT
65 ACTCCTAGGTTATCACCAAG-T-CACTATTTAAGCCGAAGGTGGGTATTTAAGATAGGTT
2122699 CATCTCTTCT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
142 3 0.03
143 52 0.51
144 45 0.44
145 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (144 bp):
GGTATTGGATACTTCTACATCAAAGGTATCCCTTAGGGGCATCTTCGTAATTTCTCTAGAACCAA
CTCCTAGGTTATCACCAAGTCACTATTTAAGCCGAAGGTGGGTATTTAAGATAGGTTAATCCTTT
GTAAGTCCTTTACA
Found at i:2124168 original size:23 final size:23
Alignment explanation
Indices: 2124123--2124168 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2124113 CATTTTTTAC
*
2124123 TTATAAATTTCAATATATGTTGT
1 TTATAAATTTCAATATATCTTGT
*
2124146 TTATATATTTCAATA-ATCCTTGT
1 TTATAAATTTCAATATAT-CTTGT
2124169 GTTTTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TTATAAATTTCAATATATCTTGT
Found at i:2126436 original size:20 final size:21
Alignment explanation
Indices: 2126413--2126465 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2126403 ATTTCAAGCA
2126413 TGTATCGATACATTCACT-CC
1 TGTATCGATACATTCACTACC
* **
2126433 TGTATCGATACATTTACTATT
1 TGTATCGATACATTCACTACC
2126454 TGTATCGATACA
1 TGTATCGATACA
2126466 ATTTGTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCACTACC
Found at i:2127710 original size:109 final size:110
Alignment explanation
Indices: 2127499--2127771 Score: 311
Period size: 109 Copynumber: 2.5 Consensus size: 110
2127489 TTTCTGGCTA
* * * * *
2127499 AGGTTGTAAATAATTTAATTTAAGGCCAAGTCTTATAAAAATATATATTAGATAAAATAAGTCCA
1 AGGTTATAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAGCCCA
* *
2127564 CGTGCTTATTTAATTTATTTGGGCCTATTCTA-TTTT-ATTATATT
66 CATGCTTATTTAATTTATTT-GACCTATTCTACTTTTAATTATATT
* * * *
2127608 GGGTTATAAATTATTTAATTTAAGGTCAAGTCTCATAAAAACATATATTAGATAAAATAGGACCC
1 AGGTTATAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAG-CCC
**
2127673 ACATGCTTATTTAATTTATTT-ATTTAGGTT-TACTTTATTTAATTATATT
65 ACATGCTTATTTAATTTATTTGACCTA--TTCTAC--T-TTTAATTATATT
* * *
2127722 AAGATATAAATTATTTAATTTAATGTCAAGTCTAATAAAAATATATATTA
1 AGGTTATAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTA
2127772 TCTTAGTTGC
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
108 2 0.01
109 56 0.41
110 24 0.17
112 1 0.01
113 3 0.02
114 52 0.38
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (110 bp):
AGGTTATAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAGCCCA
CATGCTTATTTAATTTATTTGACCTATTCTACTTTTAATTATATT
Found at i:2127741 original size:114 final size:109
Alignment explanation
Indices: 2127505--2127771 Score: 329
Period size: 114 Copynumber: 2.4 Consensus size: 109
2127495 GCTAAGGTTG
* * * * *
2127505 TAAATAATTTAATTTAAGGCCAAGTCTTATAAAAATATATATTAGATAAAATAAGTCCACGTGCT
1 TAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAGCCCACATGCT
* * ** *
2127570 TATTTAATTTATTTGGGCCTATTCTATTTTATTATATTGGGTTA
66 TATTTAATTTATTTAGGCCTATTCTATTTAATTATATTAAGATA
* * *
2127614 TAAATTATTTAATTTAAGGTCAAGTCTCATAAAAACATATATTAGATAAAATAGGACCCACATGC
1 TAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAG-CCCACATGC
**
2127679 TTATTTAATTTATTTATTTAGGTTTACTT-TATTTAATTATATTAAGATA
65 TTATTT-A---ATTTATTTAGGCCTA-TTCTATTTAATTATATTAAGATA
*
2127728 TAAATTATTTAATTTAATGTCAAGTCTAATAAAAATATATATTA
1 TAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTA
2127772 TCTTAGTTGC
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
109 50 0.37
110 13 0.10
111 1 0.01
114 69 0.51
115 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (109 bp):
TAAATTATTTAATTTAAGGTCAAGTCTAATAAAAATATATATTAGATAAAATAAGCCCACATGCT
TATTTAATTTATTTAGGCCTATTCTATTTAATTATATTAAGATA
Found at i:2131802 original size:156 final size:155
Alignment explanation
Indices: 2131569--2132567 Score: 979
Period size: 156 Copynumber: 6.4 Consensus size: 155
2131559 TGTCCACTAA
* * * ** * * * * * *
2131569 GGATACCAAGATACATTCACATCAAAGGTATCACATAAGGGTATTTTCGTAATTTTTCAGAATCG
1 GGATACCAGGATACTTTCACGTCAAAGGTATC-CCCAGGGGTATTTTCATAATTTTTTAAAACCA
* * * * *
2131634 AGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGTGTATTTAGGATAGGTTCATTCCT
65 AGTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCT
*
2131699 TATATAGTCTTTTTTAAGTCCTTTAG
130 TTTATAGTCTTTTTTAAGTCCTTTAG
* * * * *
2131725 GGGTACCATGATACTTTCACGTCAAAGGTATCTCTCAGGGGCATTTTCATAATTTTTTAGAACCA
1 GGATACCAGGATACTTTCACGTCAAAGGTATC-CCCAGGGGTATTTTCATAATTTTTTAAAACCA
* ** * * * *
2131790 AGTCCTAAGTTATCACCAAGTCTACTTTTATGCC-GATGGTGGGCATTTAGGATAGGCTCATCAC
65 AGTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAAT-GTGGGTATTTAGGATAGGTTCATCCC
*
2131854 TTTTATAGTCTTTTTTAAGTCCTTCAAG
129 TTTTATAGTCTTTTTTAAGTCCTT-TAG
* * * ** *
2131882 GG-TACCGGGATACTTTCACGCCGAAA-GTATCCCCTAGGGGAATTTTTGTAATTTTTCAAAACC
1 GGATACCAGGATACTTTCACGTC-AAAGGTATCCCC-AGGGGTATTTTCATAATTTTTTAAAACC
* * * * * * * *
2131945 AAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGGTTTATCCC
64 AAGTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCC
* * **
2132010 CTTTATAGT-TCATTTTAATGTCCACTAG
129 TTTTATAGTCT-TTTTTAA-GTCCTTTAG
* * * * *
2132038 GGATACCGGGATACTTTCACGTCGAAGGTATCCCCTAGAGGTATTGTCATAATTTTTCAAAACCA
1 GGATACCAGGATACTTTCACGTCAAAGGTATCCCC-AGGGGTATTTTCATAATTTTTTAAAACCA
* * *
2132103 AGTCCTAGGTTATCACCAAGTCCGCTTTTATGCCAAATGTGGGTATTTAAGATAGGTTCATCCCT
65 AGTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCT
*
2132168 TTTATAGTC-ATTTTAAGTCCTTTAG
130 TTTATAGTCTTTTTTAAGTCCTTTAG
* * * * *
2132193 GGATGCC-GAGACACTTTCATGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAACC
1 GGATACCAG-GATACTTTCACGTCAAAGGTATCCCC-AGGGGTATTTTCATAATTTTTTAAAACC
* * ** * *
2132257 AAGTCTTAGGTTATCACCAGGTTTGCTTCTATGCCGAAA-GTGGTTATTTAGGATAGGTTCATCC
64 AAGTCCTAAGTTATCACCAGGTCCGCTTTTATGCC-AAATGTGGGTATTTAGGATAGGTTCATCC
*
2132321 CTTTTATAGTCCTTTTTAAGTCCTTTA-
128 CTTTTATAGTCTTTTTTAAGTCCTTTAG
* * * * * * * * *
2132348 TGAGTGCCGGGATACTTTCACATCGAAGGTATCCCCTGTGGGCATTTTCGTAATTTTTTAAGACC
1 GGA-TACCAGGATACTTTCACGTCAAAGGTATCCCCAG-GGGTATTTTCATAATTTTTTAAAACC
* * * * *
2132413 AAGTCCTACGTTATCATCGGGTCCGTTTTTATGCCAAATGTGGGTATTTAGGATAGATTCATCCC
64 AAGTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCC
* * ** *
2132478 TTTTATAGTCCTTTTAAATGTCCACTAA
129 TTTTATAGTCTTTTTTAA-GTCCTTTAG
* * *
2132506 GGATACCAGGATACTTTCACATCAAATGTATCCCTTAGGGGTATTTTCATAATTTTTTAAAA
1 GGATACCAGGATACTTTCACGTCAAAGGTATCCC-CAGGGGTATTTTCATAATTTTTTAAAA
2132568 TCGATTCCTA
Statistics
Matches: 703, Mismatches: 120, Indels: 39
0.82 0.14 0.05
Matches are distributed among these distances:
154 1 0.00
155 136 0.19
156 380 0.54
157 183 0.26
158 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (155 bp):
GGATACCAGGATACTTTCACGTCAAAGGTATCCCCAGGGGTATTTTCATAATTTTTTAAAACCAA
GTCCTAAGTTATCACCAGGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCTT
TTATAGTCTTTTTTAAGTCCTTTAG
Found at i:2132603 original size:468 final size:469
Alignment explanation
Indices: 2131550--2132591 Score: 1340
Period size: 468 Copynumber: 2.2 Consensus size: 469
2131540 TAATTATCTA
* * * *
2131550 TCATTTTAATGTCCACTAAGGATACCAAGATACATTCACATCAAAGGTATCACATAAGGGTATTT
1 TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
* * *
2131615 TCGTAATTTTTCAGAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGTGTAT
66 TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGGGTAT
* * * * *
2131680 TTAGGATAGGTTCATTCCTTATATAGTCTTTTTTAAGTCCTTTAGGGGTACCATGATACTTTCAC
131 TTAAGATAGGTTCATCCCTTATATAGTCTATTTTAAGTCCTTTAGGGATACCATGACACTTTCAC
*
2131745 GTCAAAGGTATCTCTCAGGGGCATTTTCATAATTTTTTAGAACCAAGTCCTAAGTTATCACCAAG
196 GTCAAAGGTATCCCTCAGGGGCATTTTCATAATTTTTTAGAACCAAGTCCTAAGTTATCACCAAG
* ** *
2131810 TCTACTTTTATGCCGATGGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCTTTTTTAAGTC
261 TCTACTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAGTC
* * *
2131875 CTTCAAGGGTACCGGGATACTTTCACGCCGAAAGTATCCCCTAGGGGAATTTTTGTAATTTTTCA
326 CTTCAAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAGGGGAATTTTCGTAATTTTTCA
* *
2131940 AAACCAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGGTTT
391 AAACCAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGATTC
2132005 ATCCCCTTTATAGT
456 ATCCCCTTTATAGT
* * * * * * *
2132019 TCATTTTAATGTCCACTAGGGATACCGGGATACTTTCACGTCGAAGGTATCCCCTAGAGGTATTG
1 TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
* * ** *
2132084 TCATAATTTTTCAAAACCAAGTCCTAGGTTATCACCAAGTCCGCTTTTATGCCAAATGTGGGTAT
66 TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGGGTAT
* *
2132149 TTAAGATAGGTTCATCCCTTTTATAGTC-ATTTTAAGTCCTTTAGGGATGCCGA-GACACTTTCA
131 TTAAGATAGGTTCATCCCTTATATAGTCTATTTTAAGTCCTTTAGGGATACC-ATGACACTTTCA
* * * * *
2132212 TGTCGAAGGTATCCC-CTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACCA
195 CGTCAAAGGTATCCCTC-AGGGGCATTTTCATAATTTTTTAGAACCAAGTCCTAAGTTATCACCA
* * * ** * *
2132276 GGTTTGCTTCTATGCCGAAAGTGGTTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAG
259 AGTCTACTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAG
* * * * * *
2132341 TCCTTTATGAGTGCCGGGATACTTTCACATCGAAGGTATCCCCT-GTGGGCATTTTCGTAATTTT
324 TCCTTCAAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAG-GGGAATTTTCGTAATTTT
* * * * * * ** * *
2132405 TTAAGACCAAGTCCTACGTTATCATC-GGGTCCGTTTTTATGCCAAATGTGGGTATTTAGGATAG
388 TCAAAACCAAATCCTAAGTTATC-TCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAG
*
2132469 ATTCATCCCTTTTATAG-
452 ATTCATCCCCTTTATAGT
* * *
2132486 TCCTTTTAAATGTCCACTAAGGATACCAGGATACTTTCACATCAAATGTATCCCTTAGGGGTATT
1 TCATTTT-AATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATT
* * * **
2132551 TTCATAATTTTTTAAAATCGATTCCTAAGTCGTCACCGGGT
65 TTCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGT
2132592 TCAGTTTTAT
Statistics
Matches: 485, Mismatches: 83, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
467 8 0.02
468 338 0.70
469 139 0.29
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (469 bp):
TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGGGTAT
TTAAGATAGGTTCATCCCTTATATAGTCTATTTTAAGTCCTTTAGGGATACCATGACACTTTCAC
GTCAAAGGTATCCCTCAGGGGCATTTTCATAATTTTTTAGAACCAAGTCCTAAGTTATCACCAAG
TCTACTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAGTC
CTTCAAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAGGGGAATTTTCGTAATTTTTCA
AAACCAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGATTC
ATCCCCTTTATAGT
Found at i:2132705 original size:468 final size:465
Alignment explanation
Indices: 2131550--2132742 Score: 1317
Period size: 468 Copynumber: 2.5 Consensus size: 465
2131540 TAATTATCTA
* * * *
2131550 TCATTTTAATGTCCACTAAGGATACCAAGATACATTCACATCAAAGGTATCACATAAGGGTATTT
1 TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
* *
2131615 TCGTAATTTTTCAGAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGTGTAT
66 TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTG-GTAT
* * *
2131680 TTAGGATAGGTTCAT-TCCTTATATAGTCTTTTTTAAGTCCTTTAGGGGTACCATGATACTTTCA
130 TTAGGATAGGTTCATCTCATTAT-TAGTC-ATTTTAAGTCCTTTA-GGGTATCA-GATACTTTCA
* * * * *
2131744 CGTCAAAGGTATCT-CTCAGGGGCATTTTCATAATTTTTTAGAACCAAGTCCTAAGTTATCACCA
191 TGTCGAAGGTATCTCCT-AGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACCA
* ** *
2131808 AGTCTACTTTTATGCCGATGGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCTTTTTTAAG
255 AGTCTACTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAG
* * *
2131873 TCCTTCAAGGGTACCGGGATACTTTCACGCCGAAAGTATCCCCTAGGGGAATTTTTGTAATTTTT
320 TCCTTCAAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAGGGGAATTTTCGTAATTTTT
*
2131938 CAAAACCAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGGT
385 CAAAACCAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGAT
*
2132003 TTATCCCCTTTATAGT
450 TCATCCCCTTTATAGT
* * * * * * *
2132019 TCATTTTAATGTCCACTAGGGATACCGGGATACTTTCACGTCGAAGGTATCCCCTAGAGGTATTG
1 TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
* * ** *
2132084 TCATAATTTTTCAAAACCAAGTCCTAGGTTATCACCAAGTCCGCTTTTATGCCAAATGTGGGTAT
66 TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGT-GGTAT
* * * *
2132149 TTAAGATAGGTTCATC-CCTTTTATAGTCATTTTAAGTCCTTTAGGG-ATGCCGAGACACTTTCA
130 TTAGGATAGGTTCATCTCATTAT-TAGTCATTTTAAGTCCTTTAGGGTAT--C-AGATACTTTCA
* *
2132212 TGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACCAG
191 TGTCGAAGGTATCTCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACCAA
* * ** * *
2132277 GTTTGCTTCTATGCCGAAAGTGGTTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGT
256 GTCTACTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAGT
* * * * * *
2132342 CCTTTATGAGTGCCGGGATACTTTCACATCGAAGGTATCCCCT-GTGGGCATTTTCGTAATTTTT
321 CCTTCAAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAG-GGGAATTTTCGTAATTTTT
* * * * * * ** * *
2132406 TAAGACCAAGTCCTACGTTATCATC-GGGTCCGTTTTTATGCCAAATGTGGGTATTTAGGATAGA
385 CAAAACCAAATCCTAAGTTATC-TCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGA
*
2132470 TTCATCCCTTTTATAG-
449 TTCATCCCCTTTATAGT
* * *
2132486 TCCTTTTAAATGTCCACTAAGGATACCAGGATACTTTCACATCAAATGTATCCCTTAGGGGTATT
1 TCATTTT-AATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATT
* * * ** * * * *
2132551 TTCATAATTTTTTAAAATCGATTCCTAAGTCGTCACCGGGTTCAG-TTTTATGCTAGAGGTAGAT
65 TTCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGG-TCCGCTTTTATGCCAAAGGT-GGT
* * * * *
2132615 ATTTAGGATACGTTCCTCTCATCTATTA-CCCTCTTTAAGT-CTTGTAGGAGTATCAGGTACTTT
128 ATTTAGGATAGGTTCATCTCAT-TATTAGTCAT-TTTAAGTCCTT-TAGG-GTATCAGATACTTT
* * * * * * * ** *
2132678 TATGTTGAATGTAACTCCTACGGGTATTTTTATAATTTTTTAGAGCTGAGTTTTAGGTTATCACC
189 CATGTCGAAGGTATCTCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACC
2132743 TGGTCTATAT
Statistics
Matches: 602, Mismatches: 106, Indels: 33
0.81 0.14 0.04
Matches are distributed among these distances:
466 1 0.00
467 10 0.02
468 426 0.71
469 159 0.26
470 4 0.01
471 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (465 bp):
TCATTTTAATGTCCACTAAGGATACCAGGATACTTTCACATCAAAGGTATCCCATAGGGGTATTT
TCATAATTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCAAAGGTGGTATT
TAGGATAGGTTCATCTCATTATTAGTCATTTTAAGTCCTTTAGGGTATCAGATACTTTCATGTCG
AAGGTATCTCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGGTTATCACCAAGTCTA
CTTCTATGCCGAAAGTGGGCATTTAGGATAGGCTCATCACTTTTATAGTCCTTTTTAAGTCCTTC
AAGAGTACCGGGATACTTTCACACCGAAAGTATCCCCTAGGGGAATTTTCGTAATTTTTCAAAAC
CAAATCCTAAGTTATCTCTAGATCCACTTTTATCCCAAATGTGGGTATTTAAGATAGATTCATCC
CCTTTATAGT
Found at i:2135639 original size:2 final size:2
Alignment explanation
Indices: 2135632--2135658 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2135622 AATTACATGC
2135632 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2135659 CATCCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2136424 original size:15 final size:15
Alignment explanation
Indices: 2136404--2136434 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2136394 CATGGACTTT
2136404 AAAAAAAG-AAACAA
1 AAAAAAAGAAAACAA
2136418 AAAAAAAGAAAACAA
1 AAAAAAAGAAAACAA
2136433 AA
1 AA
2136435 TTCAGATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAACAA
Found at i:2136785 original size:16 final size:16
Alignment explanation
Indices: 2136764--2136843 Score: 51
Period size: 17 Copynumber: 4.9 Consensus size: 16
2136754 TCCTCTAAAT
2136764 AAGAAAAATAAGAAAA
1 AAGAAAAATAAGAAAA
2136780 AAG-AAAATAA-AAAA
1 AAGAAAAATAAGAAAA
* * *
2136794 GTATG-CAAAGAAGAAAA
1 --AAGAAAAATAAGAAAA
*
2136811 AGTGCAAAAA-AAGAAAA
1 A-AG-AAAAATAAGAAAA
2136828 AAGAAAAATGAAGAAA
1 AAGAAAAAT-AAGAAA
2136844 GATGAGGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
14 4 0.08
15 13 0.25
16 13 0.25
17 18 0.35
18 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.07
Consensus pattern (16 bp):
AAGAAAAATAAGAAAA
Found at i:2136787 original size:24 final size:24
Alignment explanation
Indices: 2136760--2136862 Score: 68
Period size: 24 Copynumber: 4.1 Consensus size: 24
2136750 ATTTTCCTCT
2136760 AAATAAGAAAAATAAGAAAAAAGA
1 AAATAAGAAAAATAAGAAAAAAGA
* * *
2136784 AAATAA-AAAAGTATGCAAAGAAGA
1 AAATAAGAAAAATAAG-AAAAAAGA
*
2136808 AAA-AGTGCAAAAA-AAGAAAAAAGAA
1 AAATA-AG-AAAAATAAGAAAAAAG-A
* *
2136833 AAATGAAGAAAGATGAGGAAATAAAGA
1 AAAT-AAGAAAAAT-AAGAAA-AAAGA
2136860 AAA
1 AAA
2136863 GTTGTGTCCC
Statistics
Matches: 59, Mismatches: 10, Indels: 17
0.69 0.12 0.20
Matches are distributed among these distances:
23 8 0.14
24 22 0.37
25 10 0.17
26 5 0.08
27 10 0.17
28 4 0.07
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (24 bp):
AAATAAGAAAAATAAGAAAAAAGA
Found at i:2138108 original size:88 final size:87
Alignment explanation
Indices: 2137954--2138131 Score: 239
Period size: 88 Copynumber: 2.0 Consensus size: 87
2137944 CTATTGATGC
* * *** **
2137954 TTCACCTACATCTACATTTTAGATAACATTAGTATTTGCATTATTCCATATGAATTTGCCCTTTT
1 TTCACCTACATCTACATTTTAGATAACAATAGTATTTGCATCATTCCATATGAATCCACCAATTT
* *
2138019 ATTGATGTTTGCATTTGCATCAT
66 ATTGATGCTT-CATTTACATCAT
* * *
2138042 TTCACCTGCATCTACATTTTAGATAACAATAGTATTTGCATCATTCTATATGCATCCACCAATTT
1 TTCACCTACATCTACATTTTAGATAACAATAGTATTTGCATCATTCCATATGAATCCACCAATTT
2138107 ATTGATGCTTCATTTACATCAT
66 ATTGATGCTTCATTTACATCAT
2138129 TTC
1 TTC
2138132 GTGTGCATCT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 14 0.18
88 64 0.82
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (87 bp):
TTCACCTACATCTACATTTTAGATAACAATAGTATTTGCATCATTCCATATGAATCCACCAATTT
ATTGATGCTTCATTTACATCAT
Found at i:2138892 original size:130 final size:130
Alignment explanation
Indices: 2138659--2138919 Score: 389
Period size: 130 Copynumber: 2.0 Consensus size: 130
2138649 TGGTTTGGCC
*
2138659 TGCATATTCCTAATCATATCCCCTTCATCCAACCCCTAAAGGATATTGATGCATCACAAGGCCAA
1 TGCATATTCCTAATCATATCCCCTTCATCCAACCCCTAAAGGATATTGATACATCACAAGGCCAA
2138724 GAGGGGCACTTCCCACACATACCAGTCAAATCCCTCTTTCTAAAATACTAAATGCTATTGATGCA
66 GAGGGGCACTTCCCACACATACCAGTCAAATCCCTCTTTCTAAAATACTAAATGCTATTGATGCA
* *
2138789 TGCATATT-CTCAATCATATCCCCTTCATCCAATCCCTAGAGGATATTGATACATCACAAGGCCA
1 TGCATATTCCT-AATCATATCCCCTTCATCCAACCCCTAAAGGATATTGATACATCACAAGGCCA
* * * * * * * * * *
2138853 AGAGGGGCACTTCTCACATATTCTAGTCATATTCTTCTTTTTCAAATACTAAATGGTATTGATGC
65 AGAGGGGCACTTCCCACACATACCAGTCAAATCCCTCTTTCTAAAATACTAAATGCTATTGATGC
2138918 A
130 A
2138919 T
1 T
2138920 CACAAAGCCA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
129 2 0.02
130 115 0.98
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (130 bp):
TGCATATTCCTAATCATATCCCCTTCATCCAACCCCTAAAGGATATTGATACATCACAAGGCCAA
GAGGGGCACTTCCCACACATACCAGTCAAATCCCTCTTTCTAAAATACTAAATGCTATTGATGCA
Found at i:2138922 original size:77 final size:77
Alignment explanation
Indices: 2138832--2139102 Score: 337
Period size: 77 Copynumber: 3.5 Consensus size: 77
2138822 CCCTAGAGGA
* * * * *
2138832 TATTGATACATCACAAGGCCAAGAGGGGCACTTCTCACATATTCTAGTCATATTCTTCTTTTTCA
1 TATTGATGCATCACAAGGCCAAGAGGGGCACTTCCCACACATTCCAGTCATATCCTTCTTTTTCA
2138897 AATACTAAATGG
66 AATACTAAATGG
* ** * * * *
2138909 TATTGATGCATCACAAAGCCAAGAGGACCACTTCCCACCCATTCCATTCATATCCCTCTTTCTCA
1 TATTGATGCATCACAAGGCCAAGAGGGGCACTTCCCACACATTCCAGTCATATCCTTCTTTTTCA
2138974 AATACTAAATGG
66 AATACTAAATGG
* * *
2138986 TATTGATGCATCACATGGCTAAGAGGGGCACTTCCCACACACTTCCAGTCATATCCTTCATTCTT
1 TATTGATGCATCACAAGGCCAAGAGGGGCACTTCCCACACA-TTCCAGTCATATCCTTC-TTTTT
*
2139051 -AAATACTAAGTGG
64 CAAATACTAAATGG
* * * *
2139064 TATTGATGTATCATATGGCCATGAGGGGCACTTCCCACA
1 TATTGATGCATCACAAGGCCAAGAGGGGCACTTCCCACA
2139103 TGTTTCTAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
77 100 0.61
78 62 0.38
79 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (77 bp):
TATTGATGCATCACAAGGCCAAGAGGGGCACTTCCCACACATTCCAGTCATATCCTTCTTTTTCA
AATACTAAATGG
Found at i:2139143 original size:78 final size:77
Alignment explanation
Indices: 2138832--2139146 Score: 233
Period size: 77 Copynumber: 4.1 Consensus size: 77
2138822 CCCTAGAGGA
* * * * * * * * * *
2138832 TATTGATACATCACAAGGCCAAGAGGGGCACTTCTCACATA-TTCTAGTCATATTCTTCTTTTTC
1 TATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACACACTTCCAATCATATCCTT-ATTCTG
* *
2138896 AAATACTAAATGG
65 AAACACGAAATGG
** ** * *
2138909 TATTGATGCATCACAAAGCCAAGAGGACCACTTCCCACCCA-TTCCATTCATATCCCTCT-TTCT
1 TATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACACACTTCCAATCATAT-CCT-TATTCT
* * *
2138972 CAAATACTAAATGG
64 GAAACACGAAATGG
* * *
2138986 TATTGATGCATCACATGGCTAAGAGGGGCACTTCCCACACACTTCCAGTCATATCCTTCATTCTT
1 TATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACACACTTCCAATCATATCCTT-ATTCTG
* * *
2139051 AAATACTAAGTGG
65 AAACACGAAATGG
* * * *** *
2139064 TATTGATGTATCATATGGCCATGAGGGGCACTTCCCACATGTTTCTAATCATATCCCTT-TTCCT
1 TATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACACACTTCCAATCATAT-CCTTATT-CT
*
2139128 GAACCACGAAATGG
64 GAAACACGAAATGG
2139142 TATTG
1 TATTG
2139147 GCCCATCAAA
Statistics
Matches: 197, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
76 1 0.01
77 101 0.51
78 90 0.46
79 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (77 bp):
TATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACACACTTCCAATCATATCCTTATTCTGA
AACACGAAATGG
Found at i:2139649 original size:42 final size:42
Alignment explanation
Indices: 2139603--2140214 Score: 298
Period size: 42 Copynumber: 14.5 Consensus size: 42
2139593 TTGTTTTACT
*
2139603 GTCGACTTTGACCTGATAGACTTCTTCACCCTTTGTCTGCCC
1 GTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * * * * **
2139645 GTCGACATTGACC-CAGAAGACTTTTTTTATCTTTTGTCTGCTT
1 GTCGACTTTGACCTGAG-AGAC-TTCTTCACCCTTTGTCTGCCC
* * *
2139688 GT-TAGCTTTGACCCTGA-AGACTCCTTCA-CCTTCTGTTTGCCC
1 GTCGA-CTTTGA-CCTGAGAGACTTCTTCACCCTT-TGTCTGCCC
* * *** *
2139730 GTCGGCTTTGACCT-AGAGACTCCTTCATTTATTTGTCTGTCC
1 GTCGACTTTGACCTGAGAGACTTCTTCA-CCCTTTGTCTGCCC
* * * * * * *
2139772 ATCGGCTTTGACTTGGGAGACTTTTTCACCTTTTGTCTGCTC
1 GTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * * * *
2139814 ATCGATTTTGACCTG-GTAGACTTTTTTACCCTTTGTTTGTCC
1 GTCGACTTTGACCTGAG-AGACTTCTTCACCCTTTGTCTGCCC
* * * * * * *
2139856 ATCGACTTTGACC-CAGGATACTTTCTTTATCTTTTGTCTGCCT
1 GTCGACTTTGACCTGA-GAGAC-TTCTTCACCCTTTGTCTGCCC
* * * * * * *
2139899 ATTGGCTTCGACCCTG-GAGACTCCTTCACTCTTTATCTGCCC
1 GTCGACTTTGA-CCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * * * *
2139941 GTCGGCTTTGACCAGGGAGACTCCTTCACCTTTTTTCTGCCC
1 GTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * * * *
2139983 GTCGACTTTAACCCGAGTGACTTCTTCATCTCTTTGTCTACTC
1 GTCGACTTTGACCTGAGAGACTTCTTCA-CCCTTTGTCTGCCC
* * * * *
2140026 GTC-ATCTTTAACCTGGGAGACTCCTTTACCCTTTGTCTGTCC
1 GTCGA-CTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * *
2140068 GTCGATTTTGACCAGAGAGACTTTTTCACCCTTTATCTGCCC
1 GTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
* * * * * * *
2140110 ATCGGCTATGACCT-AGGAGACTTTTTTATCTTTTGTCTG-CC
1 GTCGACTTTGACCTGA-GAGACTTCTTCACCCTTTGTCTGCCC
* * *
2140151 GTCGGCTTAT-ACTTGGGAGACTTCTTCACCAC-TTGTCTGCCC
1 GTCGACTT-TGACCTGAGAGACTTCTTCACC-CTTTGTCTGCCC
*
2140193 GTCGACTTTGACC-GAGATACTT
1 GTCGACTTTGACCTGAGAGACTT
2140215 TCTCTATCTT
Statistics
Matches: 422, Mismatches: 121, Indels: 55
0.71 0.20 0.09
Matches are distributed among these distances:
40 1 0.00
41 60 0.14
42 259 0.61
43 97 0.23
44 4 0.01
45 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.39
Consensus pattern (42 bp):
GTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCC
Found at i:2139988 original size:127 final size:126
Alignment explanation
Indices: 2139854--2140209 Score: 318
Period size: 127 Copynumber: 2.8 Consensus size: 126
2139844 CTTTGTTTGT
*
2139854 CCATCGACTTTGACCCAGGATACTTTCTTTATCTTTTGTCTGCC-T-ATTGGCTTCGACCCT-GG
1 CCATCGACTTTGACCCAGGATACTTTCTTTATCTTTTGTCTGCCGTCA-T--CTT-GAACCTGGG
* * * * *
2139916 AGACTCCTTCACTCTTTATCTGCCCGTCGGCTTTGACCAGGGAGACTCCTTCACCTTTTTTCTGC
62 AGACTCCTTCACCCTTTATCTGCCCGTCGACTTTGACCAGAGAGACTCCTTCACCCTTTATCTGC
* * * * *
2139981 CCGTCGACTTTAACCC--GAGTGAC-TTCTTCATCTCTTTGTCTACTCGTCATCTTTAACCTGGG
1 CCATCGACTTTGACCCAGGA-T-ACTTTCTTTATCT-TTTGTCTGC-CGTCATCTTGAACCTGGG
* * * * **
2140043 AGACTCCTTTACCCTTTGTCTGTCCGTCGATTTTGACCAGAGAGACTTTTTCACCCTTTATCTGC
62 AGACTCCTTCACCCTTTATCTGCCCGTCGACTTTGACCAGAGAGACTCCTTCACCCTTTATCTGC
* * * * ** *
2140108 CCATCGGCTATGACCTAGGAGACTTT-TTTATCTTTTGTCTGCCGTCGGCTT-ATACTTGGGAGA
1 CCATCGACTTTGACCCAGGATACTTTCTTTATCTTTTGTCTGCCGTCATCTTGA-ACCTGGGAGA
* *
2140171 CTTCTTCACCAC-TTGTCTGCCCGTCGACTTTGACC-GAGA
65 CTCCTTCACC-CTTTATCTGCCCGTCGACTTTGACCAGAGA
2140210 TACTTTCTCT
Statistics
Matches: 185, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
124 5 0.03
125 47 0.25
126 23 0.12
127 102 0.55
128 3 0.02
129 4 0.02
130 1 0.01
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.37
Consensus pattern (126 bp):
CCATCGACTTTGACCCAGGATACTTTCTTTATCTTTTGTCTGCCGTCATCTTGAACCTGGGAGAC
TCCTTCACCCTTTATCTGCCCGTCGACTTTGACCAGAGAGACTCCTTCACCCTTTATCTGC
Found at i:2140190 original size:83 final size:82
Alignment explanation
Indices: 2139864--2140325 Score: 210
Period size: 83 Copynumber: 5.5 Consensus size: 82
2139854 CCATCGACTT
* * * * * * * *
2139864 TGACCCAGGATACTTTCTTTATCTTTTGTCTGCCTATTGGCTTCGACCCTGGAGACTCCTTCACT
1 TGACCAAGGAGACTTT-TTTATCTTTTGTCTGCC-GTCGGCTTAGACTCGGGAGACTTCTTCAC-
* * *
2139929 CTTTATCTGCCCGTCGGCTT
63 CCTTGTCTGCCCGTCGGCTA
* ** * * * * * * *
2139949 TGACCAGGGAGACTCCTTCACCTTTTTTCTGCCCGTCGACTTTA-ACCCGAGTGACTTCTTCATC
1 TGACCAAGGAGACTTTTTTATCTTTTGTCTG-CCGTCGGC-TTAGACTCGGGAGACTTCTTCA-C
* * * ** *
2140013 TCTTTGTCTACTCGTCATCTT
63 -CCTTGTCTGCCCGTCGGCTA
* ** ** * * ** * * *
2140034 TAACCTGGGAGACTCCTTTACCCTTTGTCTGTCCGTCGATTTTGAC-CAGAGAGACTTTTTCACC
1 TGACCAAGGAGACTTTTTTATCTTTTGTCTG-CCGTCGGCTTAGACTC-GGGAGACTTCTTCACC
* *
2140098 CTTTATCTGCCCATCGGCTA
64 C-TTGTCTGCCCGTCGGCTA
* * *
2140118 TGACCTAGGAGACTTTTTTATCTTTTGTCTGCCGTCGGCTTATACTTGGGAGACTTCTTCACCAC
1 TGACCAAGGAGACTTTTTTATCTTTTGTCTGCCGTCGGCTTAGACTCGGGAGACTTCTTCACC-C
* *
2140183 TTGTCTGCCCGTCGACTT
65 TTGTCTGCCCGTCGGCTA
* * * * * * * * * * *
2140201 TGACCGA-GATACTTTCTCTATCTTTTGCCTACTGTCGACTCAGACTCGGGAAACTTCTTTATCT
1 TGACCAAGGAGACTTT-TTTATCTTTTGTCTGCCGTCGGCTTAGACTCGGGAGACTTCTTCA-CC
* *
2140265 TTTGTCTGCCCGTCGGCTC
64 CTTGTCTGCCCGTCGGCTA
** * *
2140284 TGACCAAGGAGACTACTTTAGCCTTTGTCTGCTCGTCGGCTT
1 TGACCAAGGAGACTTTTTTATCTTTTGTCTGC-CGTCGGCTT
2140326 TGACCTGAAA
Statistics
Matches: 281, Mismatches: 84, Indels: 25
0.72 0.22 0.06
Matches are distributed among these distances:
82 7 0.02
83 113 0.40
84 82 0.29
85 79 0.28
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.37
Consensus pattern (82 bp):
TGACCAAGGAGACTTTTTTATCTTTTGTCTGCCGTCGGCTTAGACTCGGGAGACTTCTTCACCCT
TGTCTGCCCGTCGGCTA
Found at i:2140295 original size:125 final size:125
Alignment explanation
Indices: 2140129--2140353 Score: 276
Period size: 125 Copynumber: 1.8 Consensus size: 125
2140119 GACCTAGGAG
* * *** *
2140129 ACTTTTTTATCTTTTGTCTGCCGTCGGCTTATACTTGGGAGACTTCTTCA-CCACTTGTCTGCCC
1 ACTTCTTTATCTTTTGTCTGCCGTCGGCTTAGACCAAGGAGACTACTTCAGCC-CTTGTCTGCCC
* *
2140193 GTCGACTTTGACC-GAGATACTTTCTCTATCTTTTGCCTACTGTCGACTCAGACTCGGGAA
65 GTCGACTTTGACCTGAAAAACTTTCTCTATCTTTTGCCTACTGTCGACTCAGACTCGGGAA
* * *
2140253 ACTTCTTTATCTTTTGTCTGCCCGTCGGCTCT-GACCAAGGAGACTACTTTAGCCTTTGTCTGCT
1 ACTTCTTTATCTTTTGTCTG-CCGTCGGCT-TAGACCAAGGAGACTACTTCAGCCCTTGTCTGCC
* * *
2140317 CGTCGGCTTTGACCTGAAAAACTTTTTTTATCTTTTG
64 CGTCGACTTTGACCTGAAAAACTTTCTCTATCTTTTG
2140354 TCTGTCCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
124 19 0.23
125 43 0.52
126 21 0.25
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (125 bp):
ACTTCTTTATCTTTTGTCTGCCGTCGGCTTAGACCAAGGAGACTACTTCAGCCCTTGTCTGCCCG
TCGACTTTGACCTGAAAAACTTTCTCTATCTTTTGCCTACTGTCGACTCAGACTCGGGAA
Found at i:2140392 original size:42 final size:43
Alignment explanation
Indices: 2140343--2140443 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
2140333 AAAAACTTTT
* * *
2140343 TTTATCTTTTGTCTGTCCATTCG-CTCAAACCCCGGAGA-CTTC
1 TTTATCTTTTGTCTGCCCA-TCGACTCAAACCCAGGAGACCTCC
* * * *
2140385 TTTATCTTTTGTCTACCCATCGATTTAGACCCAGGAGACCTCC
1 TTTATCTTTTGTCTGCCCATCGACTCAAACCCAGGAGACCTCC
2140428 TTTATCTTTTGTCTGC
1 TTTATCTTTTGTCTGC
2140444 TTATCAGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.06
42 28 0.57
43 18 0.37
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.41
Consensus pattern (43 bp):
TTTATCTTTTGTCTGCCCATCGACTCAAACCCAGGAGACCTCC
Found at i:2140475 original size:43 final size:42
Alignment explanation
Indices: 2140378--2140479 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
2140368 CAAACCCCGG
*
2140378 AGACTTCTTTATCTTTTGTCTACCCATCGATTTAGACCCAGG
1 AGACTTCTTTATCTTTTGTCTACCCATCGATTTAGACCCAGA
* * ** *
2140420 AGACCTCCTTTATCTTTTGTCTGCTTATC-AGTTTAGACCCTGA
1 AGA-CTTCTTTATCTTTTGTCTACCCATCGA-TTTAGACCCAGA
2140463 AGACTTCTTTTATCTTT
1 AGACTTC-TTTATCTTT
2140480 CATCTACCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 7 0.14
43 43 0.86
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.43
Consensus pattern (42 bp):
AGACTTCTTTATCTTTTGTCTACCCATCGATTTAGACCCAGA
Found at i:2141817 original size:166 final size:164
Alignment explanation
Indices: 2141629--2142053 Score: 591
Period size: 166 Copynumber: 2.6 Consensus size: 164
2141619 TTTTTTTTAA
* *
2141629 TTTCTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATTAGTTTTTAAAAATT
1 TTTCCAATTTTTAAAATTCATCAAA-ATTATTATTTATTTCATATT-AATTAGTTTTAAAAAATT
* *
2141694 CATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAAACTCCTTTTTTTTCGAAATACGGTGTTTT
64 CATTTATTTTCATGAGTTTTTGATTTTTTCCTTGAAACTCCTTTTTTTTCGAAATACGGTGTTTT
*
2141759 CTACTCCATAAATTTTTTAAAAGGGATTTTTCTTGG
129 CTACTCCATAAATTTTTTAAAAGGGATTTTTCTCGG
* * * * * *
2141795 TTTCCAATTTTTAAAATTCATCAAACATCATAATTTATTTAATACTAATTCAATTTTCAAAAATT
1 TTTCCAATTTTTAAAATTCATCAAA-ATTATTATTTATTTCATATTAATT-AGTTTTAAAAAATT
** *
2141860 CATTTATTTTCATGAGTTACTGATTTTTTCCTTGAAACTCCTTTTTTTTTGAAATACGGTGTTTT
64 CATTTATTTTCATGAGTTTTTGATTTTTTCCTTGAAACTCCTTTTTTTTCGAAATACGGTGTTTT
* * ** *
2141925 TTACTCCGTAAATTTTTTCGAGGGGATTTTTCTCGG
129 CTACTCCATAAATTTTTTAAAAGGGATTTTTCTCGG
*
2141961 TTTCCAATTTTTAAAATTCATCAAAATTATTATTTGA-TTCATATTGAATCAGTTTTAAAAAATT
1 TTTCCAATTTTTAAAATTCATCAAAATTATTATTT-ATTTCATATT-AATTAGTTTTAAAAAATT
* *
2142025 AATTTATTTTCATGAGTTTTAGATTTTTT
64 CATTTATTTTCATGAGTTTTTGATTTTTT
2142054 TTGTTGAAAT
Statistics
Matches: 226, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
165 55 0.24
166 171 0.76
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (164 bp):
TTTCCAATTTTTAAAATTCATCAAAATTATTATTTATTTCATATTAATTAGTTTTAAAAAATTCA
TTTATTTTCATGAGTTTTTGATTTTTTCCTTGAAACTCCTTTTTTTTCGAAATACGGTGTTTTCT
ACTCCATAAATTTTTTAAAAGGGATTTTTCTCGG
Found at i:2142369 original size:14 final size:14
Alignment explanation
Indices: 2142350--2142382 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2142340 CAAATTTATC
*
2142350 TTAATTTTTAAATT
1 TTAATTTTTAAAAT
2142364 TTAATTTTTAAAAT
1 TTAATTTTTAAAAT
2142378 TTAAT
1 TTAAT
2142383 CTATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATTTTTAAAAT
Found at i:2144254 original size:156 final size:154
Alignment explanation
Indices: 2143972--2146428 Score: 1668
Period size: 156 Copynumber: 15.9 Consensus size: 154
2143962 TTATCTATCA
* * ***
2143972 TTTTAATGTCCATTAGGGATACCAGGATACTTTCACGTCGAAAGTATCGTTTAGGGGCATTTTTG
1 TTTTAA-GTCCTTTAGGG-TACCAGGATACTTTCACGTCGAAGGTATCCCCTA-GGGCATTTTTG
* * * ** ** *
2144037 TAATTTTTTAGAACCTAGTCCTAGGTTATTACCAAGTCCGCTTTTATGCTAAAGGTAGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
*
2144102 GGATAGGTTCATCCTTTTTATAGTCAT
128 GGATAGGTTCATCCTTTTTATAGTCCT
* * * * *
2144129 TTTTAAGTCCTTTAGTGGTACTAGGATGCTTTCACGTAGAAGGTATCCCCTAGGAGAATTTTCGT
1 TTTTAAGTCCTTTAG-GGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGG-GCATTTTTGT
** * ** * *
2144194 AATTTTTTGGAACCAAGTCCTAGGTTATCACCGAGTTTGCTTTGATGCCGAATGTGGGTATTTAG
64 AATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAG
*
2144259 GATAGGTTTATCCTTTTTATAGTCCT
129 GATAGGTTCATCCTTTTTATAGTCCT
* * * * * * ** * * *
2144285 TTTTAAGTCCTTCAGGGGCATC-GAAATACTTACACGTCCAAGGTATCCTTTAGAAGTATTTTCG
1 TTTTAAGTCCTTTA-GGGTACCAG-GATACTTTCACGTCGAAGGTATCCCCTAG-GGCATTTTTG
* * * * *
2144349 TAATTTTTCAAAACCATGTCCTAGGTTATCACCGAGTCCGTTTTTATGCCAAAGGTGGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
2144414 GGATAGGTTCAT-CTCTTTTATAGTCCT
128 GGATAGGTTCATCCT-TTTTATAGTCCT
* * * *
2144441 TTTTAAGTCCTTTAAAGGG-ACCAGGTTACTTTCACGTCAAAGGTATCCCCTACGGGAATTTTCG
1 TTTTAAGTCCTTT--AGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTA-GGGCATTTTTG
* * ** * * *
2144505 TAATTTTTTAGAACCAAGTCCTAGGTTATCATCGGGTTTGCTTTTATGTC-AACGATGGATATTT
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAA-GGTGGGTATTT
2144569 AGGATAGGTTCAT-C----------CCT
127 AGGATAGGTTCATCCTTTTTATAGTCCT
* * * *
2144586 TTTTAAGTCCTTTAGAGGTACC-GAGATACTTTCACGTCGAATGTATCTCTTAAGGGCATTTTTA
1 TTTTAAGTCCTTTAG-GGTACCAG-GATACTTTCACGTCGAAGGTATCCCCT-AGGGCATTTTTG
* * * * * *
2144650 TAA-TTTTCAAAATCATGTCCTAGGTTATCACTGGGTCTGCTTTTATGCTGAAGGTGGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
*
2144714 GGATAGGGTT-ATCCCTTTTATAGTCC-
128 GGATA-GGTTCATCCTTTTTATAGTCCT
* * * * **
2144740 -TTT-A-------AGGGCA-CTGAGATACTCTCACGTC-AAGGTATTCCCTAGGGGCATTTTCAT
1 TTTTAAGTCCTTTAGGGTACCAG-GATACTTTCACGTCGAAGGTATCCCCTA-GGGCATTTTTGT
* * * ** * * *
2144794 AATTTTTCAGAACCAAGTCCTAAGTTATCACCGGGTTAGCTTTGATGTCGAATGTGGGTATTTAG
64 AATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAG
*
2144859 GATAGGTTCATCCTTTTTATAGTCCA
129 GATAGGTTCATCCTTTTTATAGTCCT
* * * * * * * *
2144885 TTTTAAG-CTCTTCAAGGGCACCAAGATACTTTAACATCGAAAGTATCCCTTAGGGGTATTTTTG
1 TTTTAAGTC-CTT-TAGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTA-GGGCATTTTTG
* * * * * * **
2144949 T-ATTTTTTCAAAACCATGTCTTAGATTATCACCAGGTCCGTTTTTATGCCAAAAATGGGTATTT
63 TAATTTTTT-AAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
* *
2145013 AGGATAGGTTCATCATTTTTATAGTCCA
127 AGGATAGGTTCATCCTTTTTATAGTCCT
* * * * * *
2145041 TTTTAATGTCCACTAAGGATACCAAGATACTTTCACGTCGAAGGTATCCCTTAAGGGTATTTTTG
1 TTTTAA-GTCC-TTTAGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCT-AGGGCATTTTTG
* * * *
2145106 TAATTTTTCAAAACCTAGTCTTAGGTTATCACCGGGTCCGCTTTTATG-CGAAATGTGGGTATTT
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCG-AAGGTGGGTATTT
* *
2145170 AGGATAGGTTCATCCCTTTTATATTCCT
127 AGGATAGGTTCATCCTTTTTATAGTCCT
* * * *
2145198 TTTTAAGTCTTTTAGGGGTACTAGGATACTTTCATGTCGAAAGTAT-CCCTAAGAGGCATTTTTG
1 TTTTAAGTCCTTTA-GGGTACCAGGATACTTTCACGTCGAAGGTATCCCCT-AG-GGCATTTTTG
* * * *
2145262 TAA-TTTTTAAAACTAAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
* * * *
2145326 GGATATGTTTATCCCTTTTATAGTCCA
128 GGATAGGTTCATCCTTTTTATAGTCCT
** * * * *
2145353 TTTTAATGTCCACTAGGGGTACCGGGATACTTTCACGTCGAAAGTATCCCCAAGAGGCTTTTTTG
1 TTTTAA-GTCCTTTA-GGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAG-GGCATTTTTG
* * * ** *
2145418 TAATTTTTCAAAACCAAGTCCTAGGTTATCATCAGGTTTGCTTTTATACCGAAGGTGGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
*
2145483 GGATAGGTTCAT-CTCTTTATAGTCCT
128 GGATAGGTTCATCCTTTTTATAGTCCT
* * * * * * *
2145509 TTTTAAGCCCTTCACGGGTACCAAGATACTTTCATGTCAAAGGTATCTCCTATGGCCATTTTCT-
1 TTTTAAGTCCTTTA-GGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTA-GGGCATTTT-TG
* * * * **
2145573 TAATTTTTTAGAACAAAGTCCTAGGTTATCATCGGGTCCGCTTTTATGACGAATATGGGTATTTA
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
* *
2145638 GGATAGATTCATCCTTTTAATAGTCCT
128 GGATAGGTTCATCCTTTTTATAGTCCT
* * * *
2145665 TTTTAAGGCCCTCTAGGGATACCCA-GATACTTTCTTC-TCGAATGTATCCCCTAGGGACATTTT
1 TTTTAA-GTCCTTTAGGG-TA-CCAGGATACTTTC-ACGTCGAAGGTATCCCCTAGGG-CATTTT
* * * * * * * * * ** *
2145728 TATAATTTTTCAGAACCGACTCTTAGGTCT-TCCCCGGG-CCAGATTTTATGCTGAAGGAAGATA
61 TGTAATTTTTTAAAACCAAGTCCTAGGT-TATCACCGGGTCC-GCTTTTATGCCGAAGGTGGGTA
* * * *
2145791 TTTAGGATAGGTTCCT-CTCATCTATTA-CCCT
124 TTTAGGATAGGTTCATCCT-TTTTA-TAGTCCT
* ** * * ** * * **
2145822 CTTTAAGTCCTTTAAGGGTTTC-GGGTACTTTTACACCAAATGT-TTTCCTAGGGACATTTTTGT
1 TTTTAAGTCCTTT-AGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGG-CATTTTTGT
* * * * * * * * * * * *
2145885 AATTTTTTAGAATCGACTCTTAAGTCT-TCATCGGGTTCGATTTTATGCTGAAGGTAGATATTTA
64 AATTTTTTAAAACCAAGTCCTAGGT-TATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTA
*
2145949 GGATAGG-T--TCCTTTCATCTATTA-CCCT
128 GGATAGGTTCATCCTTT--T-TA-TAGTCCT
** * * * * * * *
2145976 TTTTAAGTCCTTTAGGGGTTTC-GGTTACTTTTAC-ACCAAGTGTTTCCCCTAAAGGCATTTTTA
1 TTTTAAGTCCTTTA-GGGTACCAGGATACTTTCACGTCGAAG-GTATCCCCT-AGGGCATTTTTG
* * * * * ** * *
2146039 TAAATTTTTAAAATCGAGTCTTAAGTTATCACCGGGTTTGCTTTTATGTCC-AAGGTAGATATTT
63 TAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATG-CCGAAGGTGGGTATTT
* *
2146103 AGGATAGGTTCAT-CTCTTATCTA-TCCT
127 AGGATAGGTTCATCCT-TTTTATAGTCCT
* * * * * * *
2146130 TTTTAAGTCGTTTAGAGGTACCAGG-TACTTTTATGTCGAAAGTATTCCTTAAGGGCATTTTTAT
1 TTTTAAGTCCTTTAG-GGTACCAGGATACTTTCACGTCGAAGGTATCCCCT-AGGGCATTTTTGT
** * ** ** * *
2146194 AATTTTTTAAAACTGAGTCCTAGGTTATTATTGGGTTTGCTTTCT-TGCCAAAGGTGAGTATTTA
64 AATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTT-TATGCCGAAGGTGGGTATTTA
* ** * *
2146258 GGATAGGTTCACCCCATATATA-TCAT
128 GGATAGGTTCATCCTTTTTATAGTCCT
* * ** * *
2146284 TTTTAAG-CCTTTTAGGGTTTCCA-AATACTTTCACGTCGAAGGTATACCTATAAGAGCATTTTC
1 TTTTAAGTCC-TTTAGGG-TACCAGGATACTTTCACGTCGAAGGTAT-CCCCT-AGGGCATTTTT
* * * * * *
2146347 GTAATTTTTTAGAACCAATTCCTAGGTCATCACTGGGTCCGCTTTTTCATGCCGATGGTGGGCAT
62 GTAATTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGC-TTTT-ATGCCGAAGGTGGGTAT
*
2146412 TTAAGATAGGTTCATCC
125 TTAGGATAGGTTCATCC
2146429 CATTTCTAAT
Statistics
Matches: 1853, Mismatches: 345, Indels: 204
0.77 0.14 0.08
Matches are distributed among these distances:
142 1 0.00
143 28 0.02
144 145 0.08
145 61 0.03
146 4 0.00
147 1 0.00
151 2 0.00
152 3 0.00
153 14 0.01
154 271 0.15
155 367 0.20
156 601 0.32
157 336 0.18
158 19 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (154 bp):
TTTTAAGTCCTTTAGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGGCATTTTTGTAA
TTTTTTAAAACCAAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGA
TAGGTTCATCCTTTTTATAGTCCT
Found at i:2145321 original size:155 final size:154
Alignment explanation
Indices: 2144754--2146459 Score: 1059
Period size: 155 Copynumber: 11.0 Consensus size: 154
2144744 AGGGCACTGA
* * * ** * *
2144754 GATACTCTCACGTC-AAGGTATTCCCTAGGGGCATTTTCATAATTTTTCAGAACCAAGTCCTAAG
1 GATACTTTCACGTCGAAAGTA-TCCCTAAGGGCATTTTTGTAATTTTT-AAAACCAAGTCCTAGG
* * *
2144818 TTATCACCGGGT-TAGCTTTGATG-TCGAATGTGGGTATTTAGGATAGGTTCATCCTTTTTATAG
64 TTATCACCGGGTCT-GCTTTTATGCT-GAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAG
* * * * *
2144881 TCCATTTTAAG-CTCTTCAAGGGCACCAA
127 TCCTTTTTAAGTC-CTTTAGGGGTACCAG
* * * * * * * *
2144909 GATACTTTAACATCGAAAGTATCCCTTAGGGGTATTTTTGTATTTTTTCAAAACCATGTCTTAGA
1 GATACTTTCACGTCGAAAGTATCCC-TAAGGGCATTTTTGTAATTTTT-AAAACCAAGTCCTAGG
* * * ** * **
2144974 TTATCACCAGGTCCGTTTTTATGCCAAAAATGGGTATTTAGGATAGGTTCATCATTTTTATAGTC
64 TTATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTC
* ** * * *
2145039 CATTTTAATGTCCACTAAGGATACCAA
129 CTTTTTAA-GTCCTTTAGGGGTACCAG
* * * *
2145066 GATACTTTCACGTCGAAGGTATCCCTTAAGGGTATTTTTGTAATTTTTCAAAACCTAGTCTTAGG
1 GATACTTTCACGTCGAAAGTATCCC-TAAGGGCATTTTTGTAATTTTT-AAAACCAAGTCCTAGG
* *
2145131 TTATCACCGGGTCCGCTTTTATGC-GAAATGTGGGTATTTAGGATAGGTTCATCCCTTTTATATT
64 TTATCACCGGGTCTGCTTTTATGCTGAAA-GTGGGTATTTAGGATAGGTTCATCCCTTTTATAGT
* *
2145195 CCTTTTTAAGTCTTTTAGGGGTACTAG
128 CCTTTTTAAGTCCTTTAGGGGTACCAG
* *
2145222 GATACTTTCATGTCGAAAGTATCCCTAAGAGGCATTTTTGTAATTTTTAAAACTAAGTCCTAGGT
1 GATACTTTCACGTCGAAAGTATCCCTAAG-GGCATTTTTGTAATTTTTAAAACCAAGTCCTAGGT
* *
2145287 TATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATATGTTTATCCCTTTTATAGTCC
65 TATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCC
* ** *
2145352 ATTTTAATGTCCACTAGGGGTACCGG
130 TTTTTAA-GTCCTTTAGGGGTACCAG
* *
2145378 GATACTTTCACGTCGAAAGTATCCCCAAGAGGCTTTTTTGTAATTTTTCAAAACCAAGTCCTAGG
1 GATACTTTCACGTCGAAAGTATCCCTAAG-GGCATTTTTGTAATTTTT-AAAACCAAGTCCTAGG
* * * * * * *
2145443 TTATCATCAGGTTTGCTTTTATACCGAAGGTGGGTATTTAGGATAGGTTCATCTC-TTTATAGTC
64 TTATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTC
* * * *
2145507 CTTTTTAAGCCCTTCACGGGTACCAA
129 CTTTTTAAGTCCTTTAGGGGTACCAG
* * * * *
2145533 GATACTTTCATGTC-AAAGGTATCTCCTATGGCCATTTTCT-TAATTTTTTAGAACAAAGTCCTA
1 GATACTTTCACGTCGAAA-GTATC-CCTAAGGGCATTTT-TGTAA-TTTTTAAAACCAAGTCCTA
* * *
2145596 GGTTATCATCGGGTCCGCTTTTATGAC-GAATA-TGGGTATTTAGGATAGATTCAT-CCTTTTAA
62 GGTTATCACCGGGTCTGCTTTTATG-CTGAA-AGTGGGTATTTAGGATAGGTTCATCCCTTTT-A
* * *
2145658 TAGTCCTTTTTAAGGCCCTCTAGGGATACCCA-
124 TAGTCCTTTTTAA-GTCCTTTAGGGGTA-CCAG
* * * * * * *
2145690 GATACTTTCTTC-TCGAATGTATCCCCT-AGGGACATTTTTATAATTTTTCAGAACCGACTCTTA
1 GATACTTTC-ACGTCGAAAGTAT-CCCTAAGGG-CATTTTTGTAATTTTT-AAAACCAAGTCCTA
* * * * * ** * * * * *
2145753 GGTCT-TCCCCGGGCCAGATTTTATGCTGAAGGAAGATATTTAGGATAGGTTCCTCTCATCTATT
62 GGT-TATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTA-T
* * * **
2145817 A-CCCTCTTTAAGTCCTTTAAGGGTTTC-G
125 AGTCCTTTTTAAGTCCTTTAGGGGTACCAG
* * * * * * * * * * * *
2145845 GGTACTTTTAC-ACCAAATGTTTTCCT-AGGGACATTTTTGTAATTTTTTAGAATCGACTCTTAA
1 GATACTTTCACGTCGAAA-GTATCCCTAAGGG-CATTTTTGTAA-TTTTTAAAACCAAGTCCTAG
* * * * * * ** * *
2145908 GTCT-TCATCGGGT-TCGATTTTATGCTGAAGGTAGATATTTAGGATAGGTTCCTTTCATCTATT
63 GT-TATCACCGGGTCT-GCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTA-T
* **
2145971 A-CCCTTTTTAAGTCCTTTAGGGGTTTC-G
125 AGTCCTTTTTAAGTCCTTTAGGGGTACCAG
* * * * * * * * * * * *
2145999 GTTACTTTTAC-ACCAAGTGTTTCCCCTAAAGGCATTTTTATAAATTTTTAAAATCGAGTCTTAA
1 GATACTTTCACGTCGAA-AGTAT-CCCTAAGGGCATTTTTGT-AATTTTTAAAACCAAGTCCTAG
* * * * * * * *
2146063 GTTATCACCGGGTTTGCTTTTATG-TCCAAGGTAGATATTTAGGATAGGTTCATCTCTTATCTA-
63 GTTATCACCGGGTCTGCTTTTATGCT-GAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAG
* *
2146126 TCCTTTTTAAGTCGTTTAGAGGTACCAG
127 TCCTTTTTAAGTCCTTTAGGGGTACCAG
* * * * **
2146154 G-TACTTTTATGTCGAAAGTATTCCTTAAGGGCATTTTTATAATTTTTTAAAACTGAGTCCTAGG
1 GATACTTTCACGTCGAAAGTA-TCCCTAAGGGCATTTTTGTAA-TTTTTAAAACCAAGTCCTAGG
* ** * * * * * *
2146218 TTATTATTGGGTTTGCTTTCT-TGC-CAAAGGTGAGTATTTAGGATAGGTTCACCCCATATATA-
64 TTATCACCGGGTCTGCTTT-TATGCTGAAA-GTGGGTATTTAGGATAGGTTCATCCCTTTTATAG
* * *
2146280 TCATTTTTAAG-CCTTTTAGGGTTTCCA-
127 TCCTTTTTAAGTCC-TTTAGGGGTACCAG
* * * * * * *
2146307 AATACTTTCACGTCGAAGGTATACCTATAAGAGCATTTTCGTAATTTTTTAGAACCAATTCCTAG
1 GATACTTTCACGTCGAAAGTAT-CC-CTAAGGGCATTTTTGTAA-TTTTTAAAACCAAGTCCTAG
* * * * ** * * * *
2146372 GTCATCACTGGGTCCGCTTTTTCATGCCGATGGTGGGCATTTAAGATAGGTTCATCCCATTTCTA
63 GTTATCACCGGGTCTGC-TTTT-ATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATA
*
2146437 AT-CTTTTTAAGT-CTATTAGGGGT
126 GTCCTTTTTAAGTCCT-TTAGGGGT
2146460 TCCCTTAGGG
Statistics
Matches: 1260, Mismatches: 230, Indels: 120
0.78 0.14 0.07
Matches are distributed among these distances:
153 7 0.01
154 290 0.23
155 336 0.27
156 282 0.22
157 330 0.26
158 15 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (154 bp):
GATACTTTCACGTCGAAAGTATCCCTAAGGGCATTTTTGTAATTTTTAAAACCAAGTCCTAGGTT
ATCACCGGGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCT
TTTTAAGTCCTTTAGGGGTACCAG
Found at i:2145904 original size:154 final size:154
Alignment explanation
Indices: 2145705--2146143 Score: 548
Period size: 154 Copynumber: 2.8 Consensus size: 154
2145695 TTTCTTCTCG
* * * * * *
2145705 AATGTATCCCCTAGGGACATTTTTATAATTTTTCAGAACCGACTCTTAGGTCTTCCCCGGGCCAG
1 AATGTTTCCCCTAGGGACATTTTTATAATTTTTTAGAATCGACTCTTAAGTCTTCACCGGGTC-G
* *
2145770 ATTTTATGCTGAAGGAAGATATTTAGGATAGGTTCCTCTCATCTATTACCCTCTTTAAGTCCTTT
65 ATTTTATGCTGAAGGTAGATATTTAGGATAGGTTCCTCTCATCTATTACCCTTTTTAAGTCCTTT
2145835 AAGGGTTTCGGGTACTTTTACACCA
130 AAGGGTTTCGGGTACTTTTACACCA
* * *
2145860 AATGTTT-TCCTAGGGACATTTTTGTAATTTTTTAGAATCGACTCTTAAGTCTTCATCGGGTTCG
1 AATGTTTCCCCTAGGGACATTTTTATAATTTTTTAGAATCGACTCTTAAGTCTTCACCGGG-TCG
*
2145924 ATTTTATGCTGAAGGTAGATATTTAGGATAGGTTCCTTTCATCTATTACCCTTTTTAAGTCCTTT
65 ATTTTATGCTGAAGGTAGATATTTAGGATAGGTTCCTCTCATCTATTACCCTTTTTAAGTCCTTT
* *
2145989 AGGGGTTTCGGTTACTTTTACACCA
130 AAGGGTTTCGGGTACTTTTACACCA
* * * * *
2146014 AGTGTTTCCCCTAAAGG-CATTTTTATAAATTTTTAAAATCGAGTCTTAAGT-TATCACCGGGTT
1 AATGTTTCCCCT-AGGGACATTTTTATAATTTTTTAGAATCGACTCTTAAGTCT-TCACCGGG-T
* * * * *
2146077 TGCTTTTATG-TCCAAGGTAGATATTTAGGATAGGTTCATCTC-T-TATCTATCCTTTTTAAGTC
63 CGATTTTATGCT-GAAGGTAGATATTTAGGATAGGTTCCTCTCATCTAT-TACCCTTTTTAAGTC
*
2146139 GTTTA
126 CTTTA
2146144 GAGGTACCAG
Statistics
Matches: 249, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
153 3 0.01
154 159 0.64
155 84 0.34
156 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (154 bp):
AATGTTTCCCCTAGGGACATTTTTATAATTTTTTAGAATCGACTCTTAAGTCTTCACCGGGTCGA
TTTTATGCTGAAGGTAGATATTTAGGATAGGTTCCTCTCATCTATTACCCTTTTTAAGTCCTTTA
AGGGTTTCGGGTACTTTTACACCA
Found at i:2148126 original size:81 final size:80
Alignment explanation
Indices: 2147885--2148331 Score: 362
Period size: 81 Copynumber: 5.6 Consensus size: 80
2147875 TTAACCATCG
** * * * ** *
2147885 GGGATACTCCAA-CCTCATCATTTCTAAGGGAACACTCCAACCCCATTTTTACTTC-CAAAATAT
1 GGGATACTCCAATCC-CATCATTTCCGAGGGGATACTCAAACCCTGTTTTTACTTCTAAAAATAT
*
2147948 CAAAATTTT-CA-CCATC
65 C-AAATTTTCCATCTA-C
* * * * *
2147964 GAAGATACTCCAA-CCACATCATTTTCAAAGGGAT-C-C-AACCCTGTTTTT--TTCAAAAAATA
1 G-GGATACTCCAATCC-CATCATTTCCGAGGGGATACTCAAACCCTGTTTTTACTTCTAAAAATA
*
2148023 TCAAAATTTCCATCTAC
64 TCAAATTTTCCATCTAC
*
2148040 GGGGATACTCCAA-CACCATCATTACCGAGGGGATACTTCAAACCC-GTTTTTACTTCTAAAAAT
1 -GGGATACTCCAATC-CCATCATTTCCGAGGGGATAC-TCAAACCCTGTTTTTACTTCTAAAAAT
*
2148103 ATCTAATTTTCCATCTAC
63 ATCAAATTTTCCATCTAC
* * ** * * * *
2148121 AGGGATACT-CTAGCCCTATCATTTCTAAAGGGATACTCCAACCCTATTTTTACTTCTAAAAATT
1 -GGGATACTCCAATCCC-ATCATTTCCGAGGGGATACTCAAACCCTGTTTTTACTTCTAAAAATA
*
2148185 TCAAATTTTTCATCTAC
64 TCAAATTTTCCATCTAC
* * * *
2148202 GAGGATACTCCAATCCCACCATTTCCGAGGGGATACTCCACCCCTATTTTTACTTCTAAAAATAT
1 G-GGATACTCCAATCCCATCATTTCCGAGGGGATACTCAAACCCTGTTTTTACTTCTAAAAATAT
**
2148267 CAAATTTTCCATCTTT
65 CAAATTTTCCATCTAC
* * * * *
2148283 GGAGATTCTCCAATCCCATTATCTCCGAGGGGATACTCCAACCCCGTTT
1 GG-GATACTCCAATCCCATCATTTCCGAGGGGATACTCAAACCCTGTTT
2148332 CTTTTCAAAT
Statistics
Matches: 301, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
75 9 0.03
76 36 0.12
77 15 0.05
78 1 0.00
79 9 0.03
80 43 0.14
81 183 0.61
82 5 0.02
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (80 bp):
GGGATACTCCAATCCCATCATTTCCGAGGGGATACTCAAACCCTGTTTTTACTTCTAAAAATATC
AAATTTTCCATCTAC
Found at i:2151662 original size:20 final size:19
Alignment explanation
Indices: 2151634--2151672 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2151624 TTACAATTTG
*
2151634 TATCGATACAAATAGTGAAT
1 TATCAATACAAA-AGTGAAT
*
2151654 TATCAATACATAAGTGAAT
1 TATCAATACAAAAGTGAAT
2151673 GTACTGATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (19 bp):
TATCAATACAAAAGTGAAT
Found at i:2152813 original size:23 final size:22
Alignment explanation
Indices: 2152787--2152835 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
2152777 TGTCTCTCCT
**
2152787 TTTTATGTATTTTTGTGCATTTA
1 TTTTATGTAAATTTGTGCA-TTA
* *
2152810 TTTTGTGTAAATTTGTTCATTA
1 TTTTATGTAAATTTGTGCATTA
2152832 TTTT
1 TTTT
2152836 CTTTTTTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.65
Consensus pattern (22 bp):
TTTTATGTAAATTTGTGCATTA
Found at i:2156754 original size:52 final size:52
Alignment explanation
Indices: 2156696--2156832 Score: 229
Period size: 52 Copynumber: 2.6 Consensus size: 52
2156686 TTAAGTTTCT
* * *
2156696 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAACAC
* *
2156748 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAACAC
2156800 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
2156833 TTAATCATCG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (52 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAACAC
Found at i:2156882 original size:28 final size:27
Alignment explanation
Indices: 2156812--2156884 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
2156802 ATTTTTCACA
2156812 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2156839 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2156865 TTCGAGGGGATACTCCAACC
1 ATC--GGGGATACTCCAACC
2156885 TCGACTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 4 0.10
27 23 0.55
28 15 0.36
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:2156922 original size:79 final size:79
Alignment explanation
Indices: 2156839--2157200 Score: 480
Period size: 79 Copynumber: 4.6 Consensus size: 79
2156829 CCCGTTAATC
* *
2156839 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAAT
2156904 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * *
2156918 ATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGGGATACTCCAACCCCGGTTTTTTTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTCCTAAAA
*
2156982 TATTGATTTCTCACA
65 TATTGATTTCTCATA
* * * *
2156997 ATCGGGGATACTCCAACACCATTA-TTTCTGAGGGGATACTTCAACCCC-AGTTTTATTCTTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGA-TTTTATTCCTAAA
*
2157060 ATATTGATTTCTCAAA
64 ATATTGATTTCTCATA
* * * * *
2157076 ATTGGGGATACTCTAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAAT
2157141 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * * *
2157155 ATTGGGGATACTCCAACCCCATTATTTTC-ACGGGGGTACTCTAACC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACC
2157201 TTGATTCTAT
Statistics
Matches: 248, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
78 5 0.02
79 240 0.97
80 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAAT
ATTGATTTCTCATA
Found at i:2157252 original size:158 final size:157
Alignment explanation
Indices: 2156839--2157253 Score: 500
Period size: 158 Copynumber: 2.6 Consensus size: 157
2156829 CCCGTTAATC
* * *
2156839 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTTC-AGGGGATACTCTAACCTCGACTTTATTCTTAAAAT
* * *
2156904 ATTGATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGT
65 ATTGATTTCTCATAATCGGGGATACTTCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGT
*
2156969 TTTTTTCCTAAAATATTGATTTCTCACA
130 TTTATTCCTAAAATATTGATTTCTCACA
* * * *
2156997 ATCGGGGATACTCCAACACCATTATTTCTGAGGGGATACT-TCAACC-CCAGTTTTATTCTTAAA
1 ATCGGGGATACTCCAACCCCATTATTT-TCAGGGGATACTCT-AACCTCGA-CTTTATTCTTAAA
* * *
2157060 ATATTGATTTCTCAAAATTGGGGATAC-TCTAACCCTGTTATTTCCGAGGGGATACTCCAACCCC
63 ATATTGATTTCTCATAATCGGGGATACTTC-AACCCTGTTATTTCCAAGGGGATACTCCAACCCC
*
2157124 GGTTTTATTCCTAAAATATTGATTTCTCATA
127 GGTTTTATTCCTAAAATATTGATTTCTCACA
* * * * *
2157155 ATTGGGGATACTCCAACCCCATTATTTTCACGGGGGTACTCTAACCTTGA-TTCTATTTTTGAAA
1 ATCGGGGATACTCCAACCCCATTATTTTCA-GGGGATACTCTAACCTCGACTT-TATTCTTAAAA
* **
2157219 CATCT-ATTT-TCTATAATCGGGGGCACTTCAACCCT
64 TAT-TGATTTCTC-ATAATCGGGGATACTTCAACCCT
2157254 TGCCTTATTT
Statistics
Matches: 218, Mismatches: 28, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
157 9 0.04
158 203 0.93
159 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (157 bp):
ATCGGGGATACTCCAACCCCATTATTTTCAGGGGATACTCTAACCTCGACTTTATTCTTAAAATA
TTGATTTCTCATAATCGGGGATACTTCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGTT
TTATTCCTAAAATATTGATTTCTCACA
Found at i:2159309 original size:20 final size:20
Alignment explanation
Indices: 2159264--2159309 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2159254 AGTAACAGCC
*
2159264 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
2159284 CTATGTTTCATGCA-TTTGCAG
1 C-ATGTTTCATGCATTTTG-AG
2159305 CATGT
1 CATGT
2159310 CCAACACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:2172362 original size:11 final size:11
Alignment explanation
Indices: 2172346--2172414 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
2172336 GGCGTCCTCC
2172346 ACAAAAAAAAA
1 ACAAAAAAAAA
*
2172357 AC-AAAACAAA
1 ACAAAAAAAAA
* * *
2172367 A-AAAAGAGAG
1 ACAAAAAAAAA
2172377 ACAAAAAAAAA
1 ACAAAAAAAAA
*
2172388 AC-AAACAAAA
1 ACAAAAAAAAA
*
2172398 ACAAAATAAAA
1 ACAAAAAAAAA
2172409 ACAAAA
1 ACAAAA
2172415 CAACAAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 22 0.49
11 23 0.51
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:2172369 original size:15 final size:15
Alignment explanation
Indices: 2172349--2172424 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 15
2172339 GTCCTCCACA
2172349 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
2172364 AAAAAAAAGAGAGACAAAA-
1 --AAAAAA-A-A-ACAAAAC
2172383 AAAAAACAAACAAAAAC
1 AAAAAA-AAAC-AAAAC
2172400 AAAATAAAAACAAAAC
1 AAAA-AAAAACAAAAC
2172416 AACAAAAAA
1 AA-AAAAAA
2172425 GGGTCCGGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
15 2 0.04
16 16 0.31
17 23 0.45
18 3 0.06
19 1 0.02
20 6 0.12
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:2172382 original size:26 final size:25
Alignment explanation
Indices: 2172348--2172425 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
2172338 CGTCCTCCAC
*
2172348 AAAAAAAAAACAAAACAAAAAAAAG
1 AAAACAAAAACAAAACAAAAAAAAG
* * *
2172373 AGAGACAAAAAAAAAACAAACAAAAAC
1 A-AAACAAAAACAAAACAAA-AAAAAG
*
2172400 AAAATAAAAACAAAACAACAAAAAAG
1 AAAACAAAAACAAAACAA-AAAAAAG
2172426 GGTCCGGATG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.02
26 34 0.81
27 7 0.17
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (25 bp):
AAAACAAAAACAAAACAAAAAAAAG
Found at i:2172424 original size:21 final size:19
Alignment explanation
Indices: 2172348--2172424 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
2172338 CGTCCTCCAC
2172348 AAAAAAAAAACAAAACAAAA
1 AAAAAAAAAAC-AAACAAAA
* * *
2172368 AAAAGAGAGACAAA-AAAA
1 AAAAAAAAAACAAACAAAA
* *
2172386 AAACAAACAA-AAACAAAA
1 AAAAAAAAAACAAACAAAA
*
2172404 TAAAAACAAAAC-AACAAAA
1 -AAAAAAAAAACAAACAAAA
2172423 AA
1 AA
2172425 GGGTCCGGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
17 3 0.07
18 15 0.35
19 17 0.40
20 8 0.19
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAACAAACAAAA
Found at i:2173491 original size:37 final size:37
Alignment explanation
Indices: 2173450--2173531 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
2173440 TGCCACAATC
2173450 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
2173487 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
2173524 ATGCATTT
1 ATGCATTT
2173532 ATGCTTCATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:2173959 original size:28 final size:28
Alignment explanation
Indices: 2173896--2174496 Score: 641
Period size: 28 Copynumber: 21.5 Consensus size: 28
2173886 ATTCCTCACC
2173896 TTTCAAAGCCCACAAG-TAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * * *
2173922 CTTCAGAAGCCCACAAGTCAATGGCATCT
1 TTTCA-AAGCCCACAAGTTAGTGGCAACT
* *
2173951 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * *
2173979 TTTCGAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
*
2174007 TTTCAAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * *
2174034 CTTCAGAAGCCCACAAGTCAGTGGCATCT
1 TTTCA-AAGCCCACAAGTTAGTGGCAACT
2174063 TTTCAAAGCCCACAAGTTAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * *
2174090 CTTCGGAAGCCCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCAACT
* * *
2174119 TTTCAAAACCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
*
2174147 TTTCAAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* *
2174174 CTTCAAAAGCCCACGAGTTAGTGGCAAC-
1 TTTC-AAAGCCCACAAGTTAGTGGCAACT
* *
2174202 CTTCAGAAGCCCACAAGTTAGTGGCATCT
1 TTTCA-AAGCCCACAAGTTAGTGGCAACT
2174231 TTTCAAAGCCCACAAGTTAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* *
2174258 CTTCAGAAGCCCACAAGTTAGTGGCATCT
1 TTTCA-AAGCCCACAAGTTAGTGGCAACT
* *
2174287 TTTCAAAACCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
*
2174315 TTTCAAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * *
2174342 CTTCAAAAGCCCACGAGTTAGTGGCAACC
1 TTTC-AAAGCCCACAAGTTAGTGGCAACT
* *
2174371 TTT-AGAAGCCCACAAGTTAGTGGTACCT
1 TTTCA-AAGCCCACAAGTTAGTGGCAACT
*
2174399 TTTCAAAGCCCATAAGTTAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * **
2174426 CTTCAAAGCCCATAAGGCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACT
* * *
2174453 CTTCAAAAGCACACAAGTTGGT-GCAACT
1 TTTC-AAAGCCCACAAGTTAGTGGCAACT
2174481 CTTTCAAAAGCCCACA
1 -TTTC-AAAGCCCACA
2174497 CGAGTTGGTG
Statistics
Matches: 495, Mismatches: 61, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.01
27 63 0.13
28 393 0.79
29 35 0.07
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCAACT
Found at i:2173997 original size:56 final size:56
Alignment explanation
Indices: 2173896--2174496 Score: 758
Period size: 56 Copynumber: 10.8 Consensus size: 56
2173886 ATTCCTCACC
*
2173896 TTTCAAAGCCCACAAG-TAGTGGCAACCTTCAGAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* *
2173951 TTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTC-GAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACC--TTCAGAAGCCCACAAGTCAGTGGCATCT
*
2174007 TTTCAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* *
2174063 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCGGAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* * *
2174119 TTTCAAAACCCACAAGTCAGTGGC-ACCTTTTCA-AAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACC--TTCAGAAGCCCACAAGTCAGTGGCATCT
* * *
2174174 CTTCAAAAGCCCACGAGTTAGTGGCAACCTTCAGAAGCCCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
*
2174231 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* *
2174287 TTTCAAAACCCACAAGTTAGTGGC-ACCTTTTCA-AAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACC--TTCAGAAGCCCACAAGTCAGTGGCATCT
* * * * * *
2174342 CTTCAAAAGCCCACGAGTTAGTGGCAACCTTTAGAAGCCCACAAGTTAGTGGTACCT
1 TTTC-AAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* * * *
2174399 TTTCAAAGCCCATAAGTTAGTGGCAACCTTCA-AAGCCCATAAGGCAGTGGCAAC-
1 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
* * * *
2174453 CTTCAAAAGCACACAAGTTGGT-GCAACTCTTTCAAAAGCCCACA
1 TTTC-AAAGCCCACAAGTTAGTGGCAAC-C-TTCAGAAGCCCACA
2174497 CGAGTTGGTG
Statistics
Matches: 481, Mismatches: 44, Indels: 40
0.85 0.08 0.07
Matches are distributed among these distances:
54 8 0.02
55 73 0.15
56 367 0.76
57 33 0.07
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTCAGTGGCATCT
Found at i:2174044 original size:84 final size:82
Alignment explanation
Indices: 2173892--2174496 Score: 741
Period size: 84 Copynumber: 7.2 Consensus size: 82
2173882 AGACATTCCT
* * * *
2173892 CACC-TTTCAAAGCCCACAAGT-AGTGGCAACCTTCAGAAGCCCACAAGTCAATGGCATCTTTTC
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA-AAGCCCACAAGTTAGTGGCAAC-CTTC
2173955 AAAGCCCACAAGTCAGTGG
64 AAAGCCCACAAGTCAGTGG
* *
2173974 CACCTTTTCGAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTC
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACC--TTCAAAGCCCACAAGTTAGTGGCAACCTTC
2174038 AGAAGCCCACAAGTCAGTGG
64 A-AAGCCCACAAGTCAGTGG
* * * * *
2174058 CATCTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCGGAAGCCCACAAGTTAGTGGCATCTTTTC
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTTAGTGGCAAC-CTTC
*
2174123 AAAACCCACAAGTCAGTGG
64 AAAGCCCACAAGTCAGTGG
*
2174142 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACGAGTTAGTGGCAACCTTCA
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTTAGTGGCAACCTTCA
*
2174207 GAAGCCCACAAGTTAGTGG
65 -AAGCCCACAAGTCAGTGG
* * * *
2174226 CATCTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCACAAGTTAGTGGCATCTTTTC
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA-AAGCCCACAAGTTAGTGGCAAC-CTTC
* *
2174291 AAAACCCACAAGTTAGTGG
64 AAAGCCCACAAGTCAGTGG
* *
2174310 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACGAGTTAGTGGCAACCTTTA
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTTAGTGGCAACCTTCA
*
2174375 GAAGCCCACAAGTTAGTGG
65 -AAGCCCACAAGTCAGTGG
* * * * **
2174394 TACCTTTTCAAAGCCCATAAGTTAGTGGCAACCTTCAAAGCCCATAAGGCAGTGGCAACCTTCAA
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTTAGTGGCAACCTTC-A
* **
2174459 AAGCACACAAGTTGGT-G
65 AAGCCCACAAGTCAGTGG
*
2174476 CAACTCTTTCAAAAGCCCACA
1 CACCT-TTTC-AAAGCCCACA
2174497 CGAGTTGGTG
Statistics
Matches: 460, Mismatches: 47, Indels: 30
0.86 0.09 0.06
Matches are distributed among these distances:
82 8 0.02
83 74 0.16
84 362 0.79
85 16 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (82 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTTAGTGGCAACCTTCAA
AGCCCACAAGTCAGTGG
Found at i:2174635 original size:48 final size:48
Alignment explanation
Indices: 2174518--2174735 Score: 176
Period size: 48 Copynumber: 4.8 Consensus size: 48
2174508 CATTTTCTTC
* * * *
2174518 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---T-T-
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTGTCTA
* * *** *
2174561 TAAGTCCAATTTTGTTGGCCTTGAATCAGCACATTGGCACCTTGTCTC
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTGTCTA
*
2174609 TAAGACCAATGTCACTGGCCTCGAATCAGCACATT-G------G--TA
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTGTCTA
* * * * *
2174648 TAAGCCCAATATCACTGTCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTGTCTA
* *
2174696 TAAGACCAACGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
2174736 AAGCCCAATA
Statistics
Matches: 138, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
39 31 0.22
40 1 0.01
41 1 0.01
43 37 0.27
46 2 0.01
47 2 0.01
48 64 0.46
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTGTCTA
Found at i:2174674 original size:39 final size:39
Alignment explanation
Indices: 2174609--2174684 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
2174599 ACCTTGTCTC
*
2174609 TAAGACCAATGTCACTGGCCTCGAATCAGCACATTGGTA
1 TAAGACCAATATCACTGGCCTCGAATCAGCACATTGGTA
* * * *
2174648 TAAGCCCAATATCACTGTCCTTGAATCAGCATATTGG
1 TAAGACCAATATCACTGGCCTCGAATCAGCACATTGG
2174685 CACCTTGTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCACTGGCCTCGAATCAGCACATTGGTA
Found at i:2174693 original size:87 final size:87
Alignment explanation
Indices: 2174576--2174777 Score: 305
Period size: 87 Copynumber: 2.3 Consensus size: 87
2174566 CCAATTTTGT
* *
2174576 TGGCCTTGAATCAGCACATTGGCACCTTGTCTCTAAGACCAATGTCACTGGCCTCGAATCAGCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAACGTCACTGGCCTCGAATCAGCAC
* * *
2174641 ATTGGTATAAGCCCAATATCAC
66 ATTGGCACAAGCCCAATACCAC
* * * *
2174663 TGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAACGTCGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAACGTCACTGGCCTCGAATCAGCAC
*
2174728 ATTGGCACAAGCCCAATACCGC
66 ATTGGCACAAGCCCAATACCAC
*
2174750 TGGCCTTGAATTAGCATATTGGCACCTT
1 TGGCCTTGAATCAGCATATTGGCACCTT
2174778 CATCTTTAAC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (87 bp):
TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAACGTCACTGGCCTCGAATCAGCAC
ATTGGCACAAGCCCAATACCAC
Found at i:2179285 original size:88 final size:87
Alignment explanation
Indices: 2179143--2179377 Score: 227
Period size: 88 Copynumber: 2.7 Consensus size: 87
2179133 CTTCTTAAAA
* * * *
2179143 TCCACAACTCCATGGCATCCTTC---TCAAAGTCCGTGACT-TAGTGGCA-ACCTTTTAAAGTCT
1 TCCACAACTCCATGGCA-CCTTCTTTTC-AAGTCCATAACTCT-GTGGCACCCCTTTTAAAGTCG
*
2179203 ACAACTCCATGGCACATTTTTTTAAAAAG
63 ACAACTCCATGGCAC-CTTTTTT---AAG
*
2179232 TCCACAAC-CCGGTGGCACC-TCTTTT-AAGTCCATAAC-CTGTGGCACCCCTTTTAAAGTCGAC
1 TCCACAACTCC-ATGGCACCTTCTTTTCAAGTCCATAACTCTGTGGCACCCCTTTTAAAGTCGAC
**
2179293 AACTCTGTGGCACCTTTTTTAAG
65 AACTCCATGGCACCTTTTTTAAG
* * *
2179316 TCCATAACTCCATGGCACCTTTTTTTTCAAGTCCATAACTTTGTGGCACCCCTTTTAAAGTC
1 TCCACAACTCCATGGCACC-TTCTTTTCAAGTCCATAACTCTGTGGCACCCCTTTTAAAGTC
2179378 CACGATTTAG
Statistics
Matches: 123, Mismatches: 12, Indels: 23
0.78 0.08 0.15
Matches are distributed among these distances:
84 17 0.14
85 2 0.02
86 5 0.04
87 25 0.20
88 60 0.49
89 13 0.11
90 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (87 bp):
TCCACAACTCCATGGCACCTTCTTTTCAAGTCCATAACTCTGTGGCACCCCTTTTAAAGTCGACA
ACTCCATGGCACCTTTTTTAAG
Found at i:2179304 original size:29 final size:29
Alignment explanation
Indices: 2179228--2180351 Score: 447
Period size: 29 Copynumber: 38.8 Consensus size: 29
2179218 ATTTTTTTAA
* * *
2179228 AAAGTCCACAACCCGGTGGCACCTCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
*
2179257 -AAGTCCATAAC-CTGTGGCACCCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* *
2179284 AAAGTCGACAACTCTGTGGCA-CCTTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * ** **
2179312 TAAGTCCATAACTCCATGGCACCTTTTTTTT
1 AAAGTCCACAACTCTGTGGCACC--CCTTTT
* * *
2179343 CAAGTCCATAACTTTGTGGCACCCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * *
2179372 AAAGTCCACGA-TTTAGTGGCA-ACCTTCTT
1 AAAGTCCACAACTCT-GTGGCACCCCTT-TT
* * ** *
2179401 AAGGGCCATGAC-CTAGTGGCA-ACCTTCTT
1 AAAGTCCACAACTCT-GTGGCACCCCTT-TT
* ** *
2179430 AAAGTCCACAATTCAATGGCA-TCCTTCTT
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
* *
2179459 AAAGTCCATAACTCCGTGGCACCCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * **
2179488 AAAGTTCACATCT-TAGTGGCACCTTTTTT
1 AAAGTCCACAACTCT-GTGGCACCCCTTTT
* * ** * *
2179517 GAAGTCCATAACTCAATGGCA-ACCTTTC
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * * * *
2179545 AAAGTTCATAACTCTGTAGTACCTCTTTTT
1 AAAGTCCACAACTCTGTGGCACC-CCTTTT
* * * * *
2179575 TAAGTCTACAACTCTATGGTAACCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * * *
2179604 AAAGTCTACGA-TTTAGTGGCA-ACCTTCTT
1 AAAGTCCACAACTCT-GTGGCACCCCTT-TT
** * * *
2179633 AAAGTCCATGACTCAGTGGCA-ACCTTCAT
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
** * *
2179662 AAAGTCCACAACTCAATAGCA--TCTTTCT
1 AAAGTCCACAACTCTGTGGCACCCCTTT-T
* * *
2179690 CAAAGTTCACAACTTTGTGGTACCCCTTTT
1 -AAAGTCCACAACTCTGTGGCACCCCTTTT
* * *
2179720 AAAGTCCACAATTCTATGGCACCTCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
** ** * *
2179749 AAAGTCCATGACTCAATGGCA-ACCTTTC
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
*
2179777 AAAGTCCACAACTTTGTGGCA-CCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* *
2179805 AAAGTCCACAAATCTGTGGCACCCTTTTTT
1 AAAGTCCACAACTCTGTGGCACCC-CTTTT
* * * *
2179835 AAA-ACCTAAAACT-TCATGGCA-CCTTTTT
1 AAAGTCC-ACAACTCT-GTGGCACCCCTTTT
* ** *
2179863 TAAGTTTACAATTCTGTGGCACCCCATTTTT
1 AAAGTCCACAACTCTGTGGCACCCC--TTTT
* *
2179894 AAA-TCCACAACTTTGTGGCACCACTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* ** **
2179922 AAAGTCCACAATTCAATGG-AAACCTTCTT
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
* * ***
2179951 AAAGTCTACAACTCAGTGG-AAATCTTCTT
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
* * *
2179980 AAAGTCCACAACTCAGTGGCA-TCCTTCTC
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
* * *
2180009 AAAGTCCATAACTCTGTGGCACTCTTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* *
2180038 AAATTCCACAACTCTGTGGCA-CCTTTTCT
1 AAAGTCCACAACTCTGTGGCACCCCTTT-T
* * *
2180067 AAAGTCCACAACTCAGTGGCA-ACCTTTC
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * ***
2180095 AAATTCCATAACTCTGTGGCACTAGTTTTT
1 AAAGTCCACAACTCTGTGGCAC-CCCTTTT
* * ***
2180125 TAAGTCCATAACTCTGTGGCACTAGTTTTT
1 AAAGTCCACAACTCTGTGGCAC-CCCTTTT
* *
2180155 TAAGTCCACAACTCTGTGGCACCCCCTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * * * *
2180184 AAAGTCCACGA-TTTAGTGACA-ACCTTCCT
1 AAAGTCCACAACTCT-GTGGCACCCCTT-TT
** * * *
2180213 AAAGTCCATGACT-TAGTGGGTA-ACCTTCCT
1 AAAGTCCACAACTCT-GT-GGCACCCCTT-TT
* * * ** *
2180243 GAAGTCCATAACTCGGTGGCA-TTCTTCTC
1 AAAGTCCACAACTCTGTGGCACCCCTT-TT
* *
2180272 AAAGTCCACAACTCCGTGGCACCACTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* ** *
2180301 AAAGCCCACAACTCCATGGAACCCCTTTT
1 AAAGTCCACAACTCTGTGGCACCCCTTTT
* * *
2180330 AAAATCCATAACTCTATGGCAC
1 AAAGTCCACAACTCTGTGGCAC
2180352 TCACGACTTA
Statistics
Matches: 842, Mismatches: 210, Indels: 86
0.74 0.18 0.08
Matches are distributed among these distances:
27 14 0.02
28 175 0.21
29 475 0.56
30 144 0.17
31 34 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAGTCCACAACTCTGTGGCACCCCTTTT
Found at i:2179348 original size:31 final size:28
Alignment explanation
Indices: 2179244--2179355 Score: 100
Period size: 28 Copynumber: 3.9 Consensus size: 28
2179234 CACAACCCGG
* **
2179244 TGGCACCTCTTTTAAGTCCATAAC-CTG
1 TGGCACCTTTTTTAAGTCCATAACTCCA
* * * * **
2179271 TGGCACCCCTTTTAAAGTCGACAACTCTG
1 TGGCA-CCTTTTTTAAGTCCATAACTCCA
2179300 TGGCACCTTTTTTAAGTCCATAACTCCA
1 TGGCACCTTTTTTAAGTCCATAACTCCA
2179328 TGGCACCTTTTTTTTCAAGTCCATAACT
1 TGGCACC--TTTTTT-AAGTCCATAACT
2179356 TTGTGGCACC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 5 0.07
28 38 0.55
29 8 0.12
30 6 0.09
31 12 0.17
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (28 bp):
TGGCACCTTTTTTAAGTCCATAACTCCA
Found at i:2179478 original size:58 final size:56
Alignment explanation
Indices: 2179130--2180350 Score: 530
Period size: 58 Copynumber: 21.0 Consensus size: 56
2179120 CCAATAAAGT
* * * ***
2179130 AACCTTCTTAAAATCCACAACTCCA-TGGCATCCTTCTCAAAGTCCGTGACT-TAGTGGC
1 AACCTT-TTAAAGTCCACAACT-CAGTGGCA-CCTTTTTAAAGTCCACAACTCT-GTGGC
* * * *
2179188 AACCTTTTAAAGTCTACAACTCCA-TGGCACATTTTTTTAAAAAGTCCACAACCCGGTGGC
1 AACCTTTTAAAGTCCACAACT-CAGTGGCAC--CTTTTT--AAAGTCCACAACTCTGTGGC
* * * * *
2179248 -ACCTCTTTTAAGTCCATAAC-CTGTGGCACCCCTTTTAAAGTCGACAACTCTGTGGC
1 AACCT-TTTAAAGTCCACAACTCAGTGGCA-CCTTTTTAAAGTCCACAACTCTGTGGC
* * * * *
2179304 -ACCTTTTTTAAGTCCATAACTCCA-TGGCACCTTTTTTTTCAAGTCCATAACTTTGTGGC
1 AACC-TTTTAAAGTCCACAACT-CAGTGGCACC---TTTTTAAAGTCCACAACTCTGTGGC
* * * * * * * **
2179363 ACCCCTTTTAAAGTCCACGATTTAGTGGCAACCTTCTTAAGGGCCATGAC-CTAGTGGC
1 A-ACCTTTTAAAGTCCACAACTCAGTGGC-ACCTTTTTAAAGTCCACAACTCT-GTGGC
* * * * *
2179421 AACCTTCTTAAAGTCCACAATTCAATGGCATCCTTCTTAAAGTCCATAACTCCGTGGC
1 AACCTT-TTAAAGTCCACAACTCAGTGGCA-CCTTTTTAAAGTCCACAACTCTGTGGC
* * * * * * **
2179479 ACCCCTTTTAAAGTTCACATCTTAGTGGCACCTTTTTTGAAGTCCATAACTCAATGGC
1 A-ACCTTTTAAAGTCCACAACTCAGTGGCACC-TTTTTAAAGTCCACAACTCTGTGGC
* * * * * * * * * *
2179537 AACCTTTCAAAGTTCATAACTCTGTAGTACCTCTTTTTTAAGTCTACAACTCTATGGT
1 AACCTTTTAAAGTCCACAACTCAGTGGCA-C-CTTTTTAAAGTCCACAACTCTGTGGC
* * * * * ** *
2179595 AACCCTTTTAAAGTCTACGATTTAGTGGCAACCTTCTTAAAGTCCATGACTCAGTGGC
1 AA-CCTTTTAAAGTCCACAACTCAGTGGC-ACCTTTTTAAAGTCCACAACTCTGTGGC
* * * * * * * *
2179653 AACCTTCATAAAGTCCACAACTCAATAGCATCTTTCTCAAAGTTCACAACTTTGTGGT
1 AACCTT-TTAAAGTCCACAACTCAGTGGCACCTTT-TTAAAGTCCACAACTCTGTGGC
* * ** **
2179711 ACCCCTTTTAAAGTCCACAATTCTA-TGGCACCTCTTTTAAAGTCCATGACTCAATGGC
1 A-ACCTTTTAAAGTCCACAACTC-AGTGGCACCT-TTTTAAAGTCCACAACTCTGTGGC
* ** * *
2179769 AACCTTTCAAAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCACAAATCTGTGGC
1 AACCTTTTAAAGTCCACAACTCAGTGGCACCTTTTTAAAGTCCACAACTCTGTGGC
* * * * ** *
2179825 ACCCTTTTTTAAA-ACCTAAAACTTCA-TGGCACCTTTTTTAAGTTTACAATTCTGTGGC
1 AACC--TTTTAAAGTCC-ACAAC-TCAGTGGCACCTTTTTAAAGTCCACAACTCTGTGGC
* ** * * ** *
2179883 ACCCCATTTTTAAA-TCCACAACTTTGTGGCACCACTTTTAAAGTCCACAATTCAATGGA
1 A-ACC--TTTTAAAGTCCACAACTCAGTGGCACC-TTTTTAAAGTCCACAACTCTGTGGC
* * * * *
2179942 AACCTTCTTAAAGTCTACAACTCAGTGGAAATCTTCTTAAAGTCCACAACTCAGTGGC
1 AACCTT-TTAAAGTCCACAACTCAGTGG-CACCTTTTTAAAGTCCACAACTCTGTGGC
* * * * *
2180000 ATCCTTCTCAAAGTCCATAACTCTGTGGCACTCTTTTTAAATTCCACAACTCTGTGGC
1 AACCTT-TTAAAGTCCACAACTCAGTGGCAC-CTTTTTAAAGTCCACAACTCTGTGGC
* * *
2180058 -ACCTTTTCTAAAGTCCACAACTCAGTGGCAACC-TTTCAAATTCCATAACTCTGTGGC
1 AACC-TTT-TAAAGTCCACAACTCAGTGGC-ACCTTTTTAAAGTCCACAACTCTGTGGC
** * * * * *
2180115 ACTAGTTTTTTAAGTCCATAACTCTGTGGCACTAGTTTTTTAAGTCCACAACTCTGTGGC
1 A--ACCTTTTAAAGTCCACAACTCAGTGGCAC--CTTTTTAAAGTCCACAACTCTGTGGC
* * * * * * ** ** *
2180175 ACCCCCTTTAAAGTCCACGATTTAGTGACAACCTTCCTAAAGTCCATGACT-TAGTGGGT
1 A-ACCTTTTAAAGTCCACAACTCAGTGGC-ACCTTTTTAAAGTCCACAACTCT-GT-GGC
* * * * * * * *
2180234 AACCTTCCTGAAGTCCATAACTCGGTGGCATTCTTCTCAAAGTCCACAACTCCGTGGC
1 AACCTT-TTAAAGTCCACAACTCAGTGGCA-CCTTTTTAAAGTCCACAACTCTGTGGC
* * * * * * *
2180292 ACCACTTTTAAAGCCCACAACTCCA-TGGAACCCCTTTTAAAATCCATAACTCTATGGC
1 AAC-CTTTTAAAGTCCACAACT-CAGTGGCA-CCTTTTTAAAGTCCACAACTCTGTGGC
2180350 A
1 A
2180351 CTCACGACTT
Statistics
Matches: 863, Mismatches: 238, Indels: 124
0.70 0.19 0.10
Matches are distributed among these distances:
56 62 0.07
57 124 0.14
58 449 0.52
59 154 0.18
60 69 0.08
61 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (56 bp):
AACCTTTTAAAGTCCACAACTCAGTGGCACCTTTTTAAAGTCCACAACTCTGTGGC
Found at i:2180457 original size:29 final size:31
Alignment explanation
Indices: 2180418--2180475 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2180408 CATAACTTCA
2180418 TAGCACCC-TTTTTTAAAACCCACAACTCCG
1 TAGCACCCTTTTTTTAAAACCCACAACTCCG
* *
2180448 TAGCA-CCTTTTTTTAAAGCCCATAACTC
1 TAGCACCCTTTTTTTAAAACCCACAACTC
2180476 TATGGTACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (31 bp):
TAGCACCCTTTTTTTAAAACCCACAACTCCG
Found at i:2180503 original size:29 final size:29
Alignment explanation
Indices: 2180370--2180563 Score: 142
Period size: 29 Copynumber: 6.6 Consensus size: 29
2180360 TATAGCAACC
*
2180370 TTTCAAAGTCCATAACTCTGTGGCACCCT
1 TTTCAAAGTCCACAACTCTGTGGCACCCT
* * *
2180399 TTT-AAAGTCCATAACT-TCATAGCACCCTT
1 TTTCAAAGTCCACAACTCT-GTGGCACCC-T
* ** * * *
2180428 TTTTAAAACCCACAACTCCGTAGCACCTTT
1 TTTCAAAGTCCACAACTCTGTGGCACC-CT
* * * * *
2180458 TTTTAAAGCCCATAACTCTATGGTACCCT
1 TTTCAAAGTCCACAACTCTGTGGCACCCT
*
2180487 TTCCAAAGTCCACAACT-TCGTGGCACCCT
1 TTTCAAAGTCCACAACTCT-GTGGCACCCT
* * *
2180516 TTTTAAAGTTCATAACTCTGTGGCACCTTCT
1 TTTCAAAGTCCACAACTCTGTGGCACC--CT
2180547 TTTCAAAGTCCACAACT
1 TTTCAAAGTCCACAACT
2180564 TCATGGCATA
Statistics
Matches: 128, Mismatches: 28, Indels: 16
0.74 0.16 0.09
Matches are distributed among these distances:
27 1 0.01
28 21 0.16
29 50 0.39
30 40 0.31
31 16 0.12
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (29 bp):
TTTCAAAGTCCACAACTCTGTGGCACCCT
Found at i:2180517 original size:60 final size:58
Alignment explanation
Indices: 2180369--2180571 Score: 164
Period size: 60 Copynumber: 3.5 Consensus size: 58
2180359 TTATAGCAAC
* * * *
2180369 CTTT-CAAAGTCCATAAC-TCTGTGGCACCCTTTTAAAGTCCATAACT-TCATAGCACC-
1 CTTTCCAAAGTCCACAACTTC-GTGGCACCTTTTTAAAGCCCATAACTCT-ATGGCACCT
** ** * * *
2180425 CTTTTTTAAAACCCACAACTCCGTAGCACCTTTTTTTAAAGCCCATAACTCTATGGTACC-
1 C-TTTCCAAAGTCCACAACTTCGTGGCACC--TTTTTAAAGCCCATAACTCTATGGCACCT
** *
2180485 CTTTCCAAAGTCCACAACTTCGTGGCACCCTTTTTAAAGTTCATAACTCTGTGGCACCTT
1 CTTTCCAAAGTCCACAACTTCGTGGCA-CCTTTTTAAAGCCCATAACTCTATGGCACC-T
* *
2180545 CTTTTCAAAGTCCACAACTTCATGGCA
1 CTTTCCAAAGTCCACAACTTCGTGGCA
2180572 TATTTCTTAA
Statistics
Matches: 116, Mismatches: 22, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
56 1 0.01
57 3 0.03
58 40 0.34
59 21 0.18
60 50 0.43
61 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (58 bp):
CTTTCCAAAGTCCACAACTTCGTGGCACCTTTTTAAAGCCCATAACTCTATGGCACCT
Found at i:2180533 original size:88 final size:89
Alignment explanation
Indices: 2180370--2180571 Score: 230
Period size: 88 Copynumber: 2.3 Consensus size: 89
2180360 TATAGCAACC
* * *
2180370 TTTCAAAGTCCATAACTCTGTGGCACCCTTTTAAAGTCCATAACTTCATAGCACCCTTTTTTAAA
1 TTTCAAAGTCCATAACTCTATGGCACCCTTTCAAAGTCCACAACTTCATAGCACCCTTTTTTAAA
2180435 ACCCACAACTCCGTAGCACCTT-T
66 ACCCACAACTCCGTAGCACCTTCT
* * * * *
2180458 TTTTAAAGCCCATAACTCTATGGTACCCTTTCCAAAGTCCACAACTTCGTGGCACCC-TTTTTAA
1 TTTCAAAGTCCATAACTCTATGGCACCCTTT-CAAAGTCCACAACTTCATAGCACCCTTTTTTAA
*** * * *
2180522 AGTTCATAACTCTGTGGCACCTTCT
65 AACCCACAACTCCGTAGCACCTTCT
*
2180547 TTTCAAAGTCCACAACT-TCATGGCA
1 TTTCAAAGTCCATAACTCT-ATGGCA
2180572 TATTTCTTAA
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 52 0.56
89 41 0.44
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (89 bp):
TTTCAAAGTCCATAACTCTATGGCACCCTTTCAAAGTCCACAACTTCATAGCACCCTTTTTTAAA
ACCCACAACTCCGTAGCACCTTCT
Found at i:2180724 original size:32 final size:32
Alignment explanation
Indices: 2180580--2180725 Score: 170
Period size: 31 Copynumber: 4.6 Consensus size: 32
2180570 CATATTTCTT
* *
2180580 AAAGCACACACAAGTAGGTGGCAACCCTTTTA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTA
* * *
2180612 AAAGCCCACACAAGTCGATGGCAA-CCTCTTA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTA
* * * *
2180643 AAAGCCCACACCAGTTAGTGGC-ATCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTA
*
2180674 AAAGCCCACACAAGTTGGTGGCAACCCTTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTA
* *
2180706 AAAGCCCGCACAAATTGGTG
1 AAAGCCCACACAAGTTGGTG
2180726 ACACTCAAAC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
30 1 0.01
31 49 0.52
32 45 0.47
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTTA
Found at i:2180850 original size:50 final size:49
Alignment explanation
Indices: 2180799--2181135 Score: 228
Period size: 50 Copynumber: 6.6 Consensus size: 49
2180789 CATTTCCTTC
* * *
2180799 TAAGTCCAATGTCGCTAGCCTTGAATCAGTATATTGGCACTCTTATTTT
1 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTCTTATTTT
** * * * * *
2180848 CTAAGTCTGATATCGTTGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTT
1 -TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTC-T-T-ATTTT
* * ** * *
2180901 AAAGCCCAATGTTGCTAACCTTAAATCAGCTTATTGGCACTCTTATCTTT
1 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTCTTAT-TTT
* * * * * *
2180951 TTAGTCCGATGTTGTTGGCCTTGAATCAGCATATCGACACTCTTGTCATCTT
1 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTC-T-T-ATTTT
* *
2181003 TAAG-CCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTTT
1 TAAGTCC-AATGTTGCTGGCCTTGAATCAGCATATTGGCACTCTTAT-TTT
* * *** * *
2181053 AAAGTCCAATATCATTGGCCTTGAATTAGCATATTAGCA-TCTTTATCATCTT
1 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTC-TTAT--T-TT
* * *
2181105 TAAGTCTAATGTTGTTGACCTTGAATCAGCA
1 TAAGTCCAATGTTGCTGGCCTTGAATCAGCA
2181136 CATTCACACT
Statistics
Matches: 216, Mismatches: 58, Indels: 24
0.72 0.19 0.08
Matches are distributed among these distances:
49 5 0.02
50 104 0.48
51 9 0.04
52 92 0.43
53 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (49 bp):
TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTCTTATTTT
Found at i:2180940 original size:52 final size:52
Alignment explanation
Indices: 2180864--2181135 Score: 232
Period size: 52 Copynumber: 5.3 Consensus size: 52
2180854 CTGATATCGT
*
2180864 TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTAAAGCCCAATGTTGC
1 TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTTAAGCCCAATGTTGC
** * * * * * * * *
2180916 TAACCTTAAATCAGCTTATTGGCACTCTTATC-T-TTTTAGTCCGATGTTGT
1 TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTTAAGCCCAATGTTGC
* *
2180966 TGGCCTTGAATCAGCATATCGACACTCTTGTCATCTTTAAGCCTAATGTTGC
1 TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTTAAGCCCAATGTTGC
* * * * ***
2181018 TGGCCTTGAATCAGCACATTGGCACT-TT-T-ATCTTTAAAGTCCAATATCAT
1 TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTT-AAGCCCAATGTTGC
* ** * * * *
2181068 TGGCCTTGAATTAGCATATTAGCA-TCTTTATCATCTTTAAGTCTAATGTTGT
1 TGGCCTTGAATCAGCATATCGGCACTC-TTGTCATCTTTAAGCCCAATGTTGC
*
2181120 TGACCTTGAATCAGCA
1 TGGCCTTGAATCAGCA
2181136 CATTCACACT
Statistics
Matches: 172, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
49 7 0.04
50 67 0.39
51 6 0.03
52 86 0.50
53 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTTAAGCCCAATGTTGC
Found at i:2181102 original size:102 final size:102
Alignment explanation
Indices: 2180806--2181248 Score: 419
Period size: 102 Copynumber: 4.3 Consensus size: 102
2180796 TTCTAAGTCC
* * * * **
2180806 AATGTCGCTAGCCTTGAATCAGTATATTGGCACTCTTAT-TTTCTAAGTCTGATATCGTTGGCCT
1 AATGTTGCTAGCCTTGAATCAGCACATTGGCACTCTTATCTTT-AAAGTCCAATATCGTTGGCCT
** * * *
2180870 TGAATCAGCATATCGGCACTCTTGTCATCTTAAAGCCC
65 TGAATCAGCATATTAGCACTCTTATCATCTTTAAGCCT
* * ** ** * * *
2180908 AATGTTGCTAACCTTAAATCAGCTTATTGGCACTCTTATCTTTTTAGTCCGATGTTGTTGGCCTT
1 AATGTTGCTAGCCTTGAATCAGCACATTGGCACTCTTATCTTTAAAGTCCAATATCGTTGGCCTT
* *
2180973 GAATCAGCATA-TCGACACTCTTGTCATCTTTAAGCCT
66 GAATCAGCATATTAG-CACTCTTATCATCTTTAAGCCT
* * *
2181010 AATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTTTAAAGTCCAATATCATTGGCCTT
1 AATGTTGCTAGCCTTGAATCAGCACATTGGCACTCTTATCTTTAAAGTCCAATATCGTTGGCCTT
* *
2181075 GAATTAGCATATTAGCA-TCTTTATCATCTTTAAGTCT
66 GAATCAGCATATTAGCACTC-TTATCATCTTTAAGCCT
* ** * * * * *
2181112 AATGTTG-TTGACCTTGAATCAGCACATTCACACTTTTCTCATCTTAAAGTCAAATATCGTCGAC
1 AATGTTGCTAG-CCTTGAATCAGCACATTGGCACTCTTATC-T-TTAAAGTCCAATATCGTTGGC
* * *
2181176 CTTGAATTAGCATATTAGCACTTTTTATCACCTTTAAGTCC-
63 CTTGAATCAGCATATTAGCAC-TCTTATCATCTTTAAG-CCT
* *
2181217 AATGTCGCTAGCCTTGAATTAGCACATTGGCA
1 AATGTTGCTAGCCTTGAATCAGCACATTGGCA
2181249 TCCTCATCAT
Statistics
Matches: 285, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
101 5 0.02
102 196 0.69
103 6 0.02
104 37 0.13
105 37 0.13
106 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (102 bp):
AATGTTGCTAGCCTTGAATCAGCACATTGGCACTCTTATCTTTAAAGTCCAATATCGTTGGCCTT
GAATCAGCATATTAGCACTCTTATCATCTTTAAGCCT
Found at i:2181154 original size:52 final size:51
Alignment explanation
Indices: 2180860--2181244 Score: 208
Period size: 52 Copynumber: 7.5 Consensus size: 51
2180850 AAGTCTGATA
* * ** * * * *
2180860 TCGTTGGCCTTGAATCAGCATATCGGCACTCTTGTCATCTTAAAGCCCAATG
1 TCGTTGACCTTGAATCAGCACAT-TACACTTTTATCATCTTTAAGTCCAATG
* * * * ** * * * *
2180912 TTGCTAACCTTAAATCAGCTTATTGGCACTCTTATC-T-TTTTAGTCCGATG
1 TCGTTGACCTTGAATCAGCACATT-ACACTTTTATCATCTTTAAGTCCAATG
* * * * * *
2180962 TTGTTGGCCTTGAATCAGCATATCGACACTCTTGTCATCTTTAAG-CCTAATG
1 TCGTTGACCTTGAATCAGCACAT-TACACTTTTATCATCTTTAAGTCC-AATG
* * * * * *
2181014 TTGCTGGCCTTGAATCAGCACATTGGCACTTTTATC-T-TTAAAGTCCAATA
1 TCGTTGACCTTGAATCAGCACATT-ACACTTTTATCATCTTTAAGTCCAATG
* * * * *
2181064 TCATTGGCCTTGAATTAGCATATTAGCA-TCTTTATCATCTTTAAGTCTAATG
1 TCGTTGACCTTGAATCAGCACATTA-CACT-TTTATCATCTTTAAGTCCAATG
* * * * *
2181116 TTGTTGACCTTGAATCAGCACATTCACACTTTTCTCATCTTAAAGTCAAATA
1 TCGTTGACCTTGAATCAGCACATT-ACACTTTTATCATCTTTAAGTCCAATG
* * * *
2181168 TCGTCGACCTTGAATTAGCATATTAGCACTTTTTATCACCTTTAAGTCCAATG
1 TCGTTGACCTTGAATCAGCACATTA-CAC-TTTTATCATCTTTAAGTCCAATG
* *
2181221 TCGCT-AGCCTTGAATTAGCACATT
1 TCGTTGA-CCTTGAATCAGCACATT
2181245 GGCATCCTCA
Statistics
Matches: 257, Mismatches: 60, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
49 1 0.00
50 71 0.28
51 9 0.04
52 137 0.53
53 39 0.15
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (51 bp):
TCGTTGACCTTGAATCAGCACATTACACTTTTATCATCTTTAAGTCCAATG
Found at i:2181179 original size:154 final size:155
Alignment explanation
Indices: 2180959--2181250 Score: 340
Period size: 154 Copynumber: 1.9 Consensus size: 155
2180949 TTTTAGTCCG
* * * * * * * *
2180959 ATGTTGTTGGCCTTGAATCAGCATATCGACACTCTTGTCATCTTTAAGCCTAATGTTGCTGGCCT
1 ATGTTGTTGACCTTGAATCAGCACATCGACACTCTTCTCATCTTAAAGCCAAATATCGCTGACCT
* * * *
2181024 TGAATCAGCACATTGGCAC-TTTTAT-CTTTAAAGTCCAATATCATTGGCCTTGAATTAGCATAT
66 TGAATCAGCACATTAGCACTTTTTATCCTTT-AAGTCCAATATCACTAGCCTTGAATTAGCACAT
2181087 TAGCATCTTTATCATCTTTAAGTCTA
130 TAGCATCTTTATCATCTTTAAGTCTA
* *
2181113 ATGTTGTTGACCTTGAATCAGCACATTC-ACACTTTTCTCATCTTAAAGTCAAATATCG-TCGAC
1 ATGTTGTTGACCTTGAATCAGCACA-TCGACACTCTTCTCATCTTAAAGCCAAATATCGCT-GAC
* * * *
2181176 CTTGAATTAGCATATTAGCACTTTTTATCACCTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCA
64 CTTGAATCAGCACATTAGCACTTTTTAT--CCTTTAAGTCCAATATCACTAGCCTTGAATTAGCA
*
2181241 CATTGGCATC
127 CATTAGCATC
2181251 CTCATCATTA
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
153 1 0.01
154 66 0.58
155 8 0.07
157 34 0.30
158 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (155 bp):
ATGTTGTTGACCTTGAATCAGCACATCGACACTCTTCTCATCTTAAAGCCAAATATCGCTGACCT
TGAATCAGCACATTAGCACTTTTTATCCTTTAAGTCCAATATCACTAGCCTTGAATTAGCACATT
AGCATCTTTATCATCTTTAAGTCTA
Found at i:2181975 original size:20 final size:20
Alignment explanation
Indices: 2181924--2181977 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2181914 TTTTACAATT
2181924 TGTATCGATACAATAAGTAAA
1 TGTATCGATAC-ATAAGTAAA
* *
2181945 TGTATCAATACATAAGTGAA
1 TGTATCGATACATAAGTAAA
*
2181965 TGTATTGATACAT
1 TGTATCGATACAT
2181978 GTCCAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:2182144 original size:51 final size:50
Alignment explanation
Indices: 2182033--2182163 Score: 124
Period size: 51 Copynumber: 2.5 Consensus size: 50
2182023 TTTGGAAGGA
* * *
2182033 AAATGTATCGATACATTTCTATTGTTTCGATAGATTCTGGGTTTTTGACTC
1 AAATGTATCGATACATTTC-ATTGTATCGATAGATTCTAGGTTTTTAACTC
**
2182084 AAACCTATCGATACATTATTCATTGTATCGAT-GTATTCTAGG-TTTTAAC-C
1 AAATGTATCGATACA-T-TTCATTGTATCGATAG-ATTCTAGGTTTTTAACTC
*
2182134 TAAATGTATCGATACAGTCTTCAATGTATC
1 -AAATGTATCGATACA-T-TTCATTGTATC
2182164 AATACATGCA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
50 1 0.02
51 44 0.67
52 18 0.27
53 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (50 bp):
AAATGTATCGATACATTTCATTGTATCGATAGATTCTAGGTTTTTAACTC
Found at i:2186349 original size:13 final size:13
Alignment explanation
Indices: 2186331--2186355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2186321 ACAACACTTA
2186331 TGTATCGATACAT
1 TGTATCGATACAT
2186344 TGTATCGATACA
1 TGTATCGATACA
2186356 AATTGTTGAA
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:2202499 original size:30 final size:30
Alignment explanation
Indices: 2202465--2202522 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
2202455 AGACAAAATG
*
2202465 TATCGATACATTAAAAAATGTATGGATACA
1 TATCGATACATTAAAAAATGTATCGATACA
*
2202495 TATCGATACATTGAAAAATGTATCGATA
1 TATCGATACATTAAAAAATGTATCGATA
2202523 GTTATAGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (30 bp):
TATCGATACATTAAAAAATGTATCGATACA
Found at i:2206799 original size:23 final size:23
Alignment explanation
Indices: 2206773--2206882 Score: 76
Period size: 24 Copynumber: 4.6 Consensus size: 23
2206763 CATGTTCATT
* *
2206773 ATAATTAAAAAGTCAATTAAATA
1 ATAATAAAAAAATCAATTAAATA
* * *
2206796 ATAATCAAAAAAATCTAATCAATTT
1 ATAAT-AAAAAAATC-AATTAAATA
* * * *
2206821 TTTATAAAAAAAACAAATAAATCA
1 ATAATAAAAAAATCAATTAAAT-A
* *
2206845 ATAATTAAAAAGTCAATTAAATA
1 ATAATAAAAAAATCAATTAAATA
*
2206868 ATAACCAAAAAAATC
1 ATAA-TAAAAAAATC
2206883 TAATCAATTT
Statistics
Matches: 62, Mismatches: 21, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
23 15 0.24
24 38 0.61
25 9 0.15
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
ATAATAAAAAAATCAATTAAATA
Found at i:2206902 original size:71 final size:72
Alignment explanation
Indices: 2206773--2206917 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
2206763 CATGTTCATT
*
2206773 ATAATTAAAAAGTCAATTAAATAATAATCAAAAAAATCTAATCAATTTTTTATAAAAAAAACAAA
1 ATAATTAAAAAGTCAATTAAATAATAACCAAAAAAATCTAATCAATTTTTTATAAAAAAAACAAA
2206838 TAAATCA
66 TAAATCA
2206845 ATAATTAAAAAGTCAATTAAATAATAACCAAAAAAATCTAATCAA-TTTTTATAAAAAAAACAAA
1 ATAATTAAAAAGTCAATTAAATAATAACCAAAAAAATCTAATCAATTTTTTATAAAAAAAACAAA
2206909 TAAATCA
66 TAAATCA
2206916 AT
1 AT
2206918 TTTAAGCTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 28 0.39
72 44 0.61
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.28
Consensus pattern (72 bp):
ATAATTAAAAAGTCAATTAAATAATAACCAAAAAAATCTAATCAATTTTTTATAAAAAAAACAAA
TAAATCA
Found at i:2207015 original size:43 final size:42
Alignment explanation
Indices: 2206925--2207006 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
2206915 AATTTTAAGC
* * *
2206925 TATTATTAAATAAAATTAATAAAATACAAATATTATTAAAAT
1 TATTATCAAATAAAAATAATAAAATACAAATATTACTAAAAT
**
2206967 TATTATCAAATATAAAATAATAAAATGTAAATATTACTAA
1 TATTATCAAATA-AAAATAATAAAATACAAATATTACTAA
2207007 TTATATTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 11 0.32
43 23 0.68
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.37
Consensus pattern (42 bp):
TATTATCAAATAAAAATAATAAAATACAAATATTACTAAAAT
Found at i:2208165 original size:46 final size:41
Alignment explanation
Indices: 2208113--2208207 Score: 102
Period size: 46 Copynumber: 2.2 Consensus size: 41
2208103 ACGATATAAA
*
2208113 ATATTTAAATATATTTAAGATA-AAATAATTAATATATATATTATTT
1 ATATTTAAA-AT-TTTAACATATAAATAATT--TATAT-TA-TATTT
*
2208159 ATATTTAAAATTTTAACATATTTAATAATTTATATTATATTT
1 ATATTTAAAATTTTAACATA-TAAATAATTTATATTATATTT
2208201 ATATTTA
1 ATATTTA
2208208 TAAAAAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
42 12 0.27
43 2 0.04
44 13 0.29
45 2 0.04
46 16 0.36
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (41 bp):
ATATTTAAAATTTTAACATATAAATAATTTATATTATATTT
Found at i:2208716 original size:15 final size:16
Alignment explanation
Indices: 2208696--2208725 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2208686 ATTTTGTTAA
2208696 ATTAATTAA-ATTTTC
1 ATTAATTAATATTTTC
2208711 ATTAATTAATATTTT
1 ATTAATTAATATTTT
2208726 TTACTAAATT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTAATATTTTC
Found at i:2210761 original size:13 final size:13
Alignment explanation
Indices: 2210743--2210767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2210733 ATGTTGCACA
2210743 GTATCGATACATT
1 GTATCGATACATT
2210756 GTATCGATACAT
1 GTATCGATACAT
2210768 GACAAAATGT
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):
GTATCGATACATT
Found at i:2210780 original size:20 final size:21
Alignment explanation
Indices: 2210755--2210806 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2210745 ATCGATACAT
*
2210755 TGTATCGATACATGACAAA-A
1 TGTATCGATACATGAAAAAGA
*
2210775 TGTATCGATAC-TTAAAAAGA
1 TGTATCGATACATGAAAAAGA
2210795 TGTATCGATACA
1 TGTATCGATACA
2210807 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:2210876 original size:13 final size:13
Alignment explanation
Indices: 2210858--2210882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2210848 ACACACAGTA
2210858 TGTATCGATACAT
1 TGTATCGATACAT
2210871 TGTATCGATACA
1 TGTATCGATACA
2210883 CCATAAAATG
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:2210879 original size:32 final size:33
Alignment explanation
Indices: 2210838--2210905 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2210828 GTAGCTAAAC
**
2210838 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
2210870 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
2210903 TTG
1 TTG
2210906 GCCTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:2212505 original size:9 final size:9
Alignment explanation
Indices: 2212488--2212523 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
2212478 TCAACCATCA
*
2212488 AAGACGATG
1 AAGATGATG
2212497 AAGATGATG
1 AAGATGATG
2212506 AAGATGATG
1 AAGATGATG
*
2212515 ATGATGATG
1 AAGATGATG
2212524 GTGACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.22
Consensus pattern (9 bp):
AAGATGATG
Found at i:2217822 original size:22 final size:23
Alignment explanation
Indices: 2217794--2217848 Score: 103
Period size: 22 Copynumber: 2.4 Consensus size: 23
2217784 TGGACATGTT
2217794 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
2217816 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2217839 AAAAATGCAT
1 AAAAATGCAT
2217849 AGTCAAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2218807 original size:20 final size:20
Alignment explanation
Indices: 2218760--2218834 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2218750 AAAAAGACAT
*
2218760 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2218779 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2218800 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2218820 AATGTATCGATACAT
1 AATGTATCGATACAT
2218835 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2218828 original size:40 final size:39
Alignment explanation
Indices: 2218757--2218834 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2218747 GGCAAAAAGA
* *
2218757 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2218796 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2218835 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2220799 original size:22 final size:21
Alignment explanation
Indices: 2220756--2220796 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2220746 CAAATTTCTT
2220756 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
2220778 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
2220797 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:2221092 original size:20 final size:21
Alignment explanation
Indices: 2221060--2221101 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2221050 CCTCTAGGCA
*
2221060 GCACCCACCAGGTCGCGACCG
1 GCACCCACCAGGTCGCAACCG
2221081 GCACCC-CCAGGTCGCAACCG
1 GCACCCACCAGGTCGCAACCG
2221101 G
1 G
2221102 GTAGTCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.48, G:0.29, T:0.05
Consensus pattern (21 bp):
GCACCCACCAGGTCGCAACCG
Done.