Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 316 of 325
Found at i:101704229 original size:54 final size:54
Alignment explanation
Indices: 101704165--101704275 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
101704155 TTAGTTATGT
101704165 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
1 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
*
101704219 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTCAAAAGAAAATTA
1 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
101704273 ATT
1 ATT
101704276 TAGTCTATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (54 bp):
ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
Found at i:101706220 original size:56 final size:56
Alignment explanation
Indices: 101706120--101706229 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
101706110 GACCATGGCA
* *
101706120 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTAGACGTTAGCATCGATATGTGACT
*
101706176 TCGATATATGTGTGCGAGTAAGACC-C-TGTTTGGGACAG-TAGCATCGATATGTGA
1 TCGATATATGTGTGCGAGTAAGACCACAT-TTT-AGAC-GTTAGCATCGATATGTGA
101706230 TCACATGTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
54 1 0.02
55 4 0.08
56 42 0.88
57 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTTAGACGTTAGCATCGATATGTGACT
Found at i:101709009 original size:28 final size:28
Alignment explanation
Indices: 101708972--101709078 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
101708962 GCAATCAAAT
*
101708972 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
101709000 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
101709028 ATGTCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
101709056 ATGGCACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
101709079 CGAATGATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:101711075 original size:28 final size:28
Alignment explanation
Indices: 101711044--101711255 Score: 208
Period size: 28 Copynumber: 7.5 Consensus size: 28
101711034 GTGAACATAG
*
101711044 GCACTGTGTGTGTGAGTTCCGTTACCGA
1 GCACTGTGTGTGCGAGTTCCGTTACCGA
* * ***
101711072 GCACTGTGTGTGCGAGATCTGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTTACCGA
*
101711100 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTTACCGA
* * ***
101711129 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTTACCGA
* *
101711157 GGCACTGTGTGTGCGAGTTCCATAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTTACCGA
* * ***
101711186 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTTACCGA
* *
101711214 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTTACCGA
101711243 GCACTGTGTGTGC
1 GCACTGTGTGTGC
101711256 AAGATCGGTT
Statistics
Matches: 142, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
28 78 0.55
29 64 0.45
ACGTcount: A:0.16, C:0.20, G:0.35, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTTACCGA
Found at i:101711111 original size:29 final size:29
Alignment explanation
Indices: 101711042--101711285 Score: 190
Period size: 28 Copynumber: 8.5 Consensus size: 29
101711032 AAGTGAACAT
* * ***
101711042 AGGCACTGTGTGTGTGAGTTCCGTTACCG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
*
101711071 A-GCACTGTGTGTGCGAGATCTGTTGTTG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
* ****
101711099 AGGCACTGTGTGTGCGAGTTCCGTAACCG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
*
101711128 A-GCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
* * ****
101711156 AGGCACTGTGTGTGCGAGTTCCATAACCG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
*
101711185 A-GCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
* ****
101711213 AGGCACTGTGTGTGCGAGTTCCG-TAACC
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
* * *
101711241 AAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGATCCGTTGTTG
*
101711270 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
101711286 AAATGAGATC
Statistics
Matches: 161, Mismatches: 48, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
28 85 0.53
29 69 0.43
31 7 0.04
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (29 bp):
AGGCACTGTGTGTGCGAGATCCGTTGTTG
Found at i:101711111 original size:57 final size:57
Alignment explanation
Indices: 101711042--101711285 Score: 407
Period size: 57 Copynumber: 4.2 Consensus size: 57
101711032 AAGTGAACAT
* * *
101711042 AGGCACTGTGTGTGTGAGTTCCGTTACCGAGCACTGTGTGTGCGAGATCTGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
101711099 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
101711156 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
101711213 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
101711270 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
101711286 AAATGAGATC
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
57 170 0.96
59 7 0.04
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:101713391 original size:93 final size:93
Alignment explanation
Indices: 101713279--101713450 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
101713269 CGCCCATAAG
* *
101713279 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
101713344 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
101713372 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
*
101713437 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
101713451 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:101713447 original size:46 final size:46
Alignment explanation
Indices: 101713274--101713447 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
101713264 TAACCCGCCC
* * *
101713274 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
* * *
101713320 ATAAGTGAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCT
* *
101713370 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
* *
101713413 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
101713448 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
46 61 0.58
47 27 0.25
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
Found at i:101713466 original size:46 final size:46
Alignment explanation
Indices: 101713280--101713466 Score: 120
Period size: 46 Copynumber: 4.0 Consensus size: 46
101713270 GCCCATAAGC
** * *
101713280 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
* *
101713326 GAACTCGGAATCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * * *
101713373 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
101713419 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
101713465 GA
1 GA
101713467 CATATCACTT
Statistics
Matches: 109, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
44 8 0.07
45 1 0.01
46 61 0.56
47 28 0.26
49 4 0.04
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:101718982 original size:28 final size:28
Alignment explanation
Indices: 101718941--101719047 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
101718931 GCAATCAAAT
*
101718941 ATGATACTTAGTGTACGAAATATTGAGA
1 ATGACACTTAGTGTACGAAATATTGAGA
*
101718969 ATGACACTTGGTGTACGAAATATTGAGA
1 ATGACACTTAGTGTACGAAATATTGAGA
* * *
101718997 ATGTCACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTACGAAATATTGAGA
* *
101719025 ATGACACTTAGTGTGCAAAATAT
1 ATGACACTTAGTGTACGAAATAT
101719048 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (28 bp):
ATGACACTTAGTGTACGAAATATTGAGA
Found at i:101721558 original size:34 final size:34
Alignment explanation
Indices: 101721520--101721586 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
101721510 ATAAAAAAAT
101721520 GTTTTATAAATAAATATTATAACACTTTTATAAA
1 GTTTTATAAATAAATATTATAACACTTTTATAAA
101721554 GTTTTATAAATAAATATTATAACACTTTTATAA
1 GTTTTATAAATAAATATTATAACACTTTTATAA
101721587 CATGTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (34 bp):
GTTTTATAAATAAATATTATAACACTTTTATAAA
Found at i:101731555 original size:7 final size:7
Alignment explanation
Indices: 101731539--101731592 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
101731529 AACTTAAACT
101731539 TGAAAAA
1 TGAAAAA
*
101731546 TGAAACA
1 TGAAAAA
101731553 TGAAAAA
1 TGAAAAA
101731560 TG-AAAA
1 TGAAAAA
101731566 --AAAAA
1 TGAAAAA
*
101731571 TGGAAAA
1 TGAAAAA
*
101731578 TGGAAAA
1 TGAAAAA
*
101731585 TGGAAAA
1 TGAAAAA
101731592 T
1 T
101731593 AGATTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.10
6 4 0.10
7 33 0.80
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:101731556 original size:14 final size:14
Alignment explanation
Indices: 101731534--101731564 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101731524 TAATTAACTT
*
101731534 AAACTTGAAAAATG
1 AAACATGAAAAATG
101731548 AAACATGAAAAATG
1 AAACATGAAAAATG
101731562 AAA
1 AAA
101731565 AAAAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (14 bp):
AAACATGAAAAATG
Found at i:101731572 original size:25 final size:25
Alignment explanation
Indices: 101731541--101731591 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
101731531 CTTAAACTTG
101731541 AAAAAT-GAAACATGAAAAATGAAAA
1 AAAAATGGAAA-ATGAAAAATGAAAA
* *
101731566 AAAAATGGAAAATGGAAAATGGAAA
1 AAAAATGGAAAATGAAAAATGAAAA
101731591 A
1 A
101731592 TAGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAAATGGAAAATGAAAAATGAAAA
Found at i:101736118 original size:22 final size:21
Alignment explanation
Indices: 101736085--101736127 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
101736075 TAACTTCTTA
*
101736085 TATTTTTCGAATTTATTTTAAT
1 TATTTTTCGAATAT-TTTTAAT
101736107 TATTATTT-GAATATTTTTAAT
1 TATT-TTTCGAATATTTTTAAT
101736128 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
TATTTTTCGAATATTTTTAAT
Found at i:101737695 original size:110 final size:110
Alignment explanation
Indices: 101737502--101737721 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
101737492 GTCTCCTCCA
101737502 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
1 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
101737567 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
66 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
101737612 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
1 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
101737677 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
66 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
101737722 TGAAAAAGTA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (110 bp):
AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
Found at i:101741444 original size:30 final size:31
Alignment explanation
Indices: 101741383--101741450 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
101741373 TCAAAATTTT
** **
101741383 ATATATAAAATTACGCGTTAAATTAAAGTTC
1 ATATATAAAATTACGAATTAAACCAAAGTTC
*
101741414 ATATATAAAATTAC-AATTAAACCAATGTTC
1 ATATATAAAATTACGAATTAAACCAAAGTTC
*
101741444 ATGTATA
1 ATATATA
101741451 TTTTTTAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (31 bp):
ATATATAAAATTACGAATTAAACCAAAGTTC
Found at i:101746043 original size:28 final size:28
Alignment explanation
Indices: 101746003--101746056 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
101745993 AAGTGTAGAG
101746003 TATCAAGTTCTTTACAATGTAATAATGT
1 TATCAAGTTCTTTACAATGTAATAATGT
101746031 TATCAAGTTCTTTACAATGTAATAAT
1 TATCAAGTTCTTTACAATGTAATAAT
101746057 CCTATGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (28 bp):
TATCAAGTTCTTTACAATGTAATAATGT
Found at i:101758384 original size:3 final size:3
Alignment explanation
Indices: 101758376--101758432 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
101758366 CGATAAAGAC
101758376 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101758424 ATT ATT ATT
1 ATT ATT ATT
101758433 CATAAAGATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:101774921 original size:14 final size:14
Alignment explanation
Indices: 101774902--101774928 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101774892 ATAAAATCTC
101774902 TGTGTTTTATTTTT
1 TGTGTTTTATTTTT
101774916 TGTGTTTTATTTT
1 TGTGTTTTATTTT
101774929 GTGATCATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (14 bp):
TGTGTTTTATTTTT
Found at i:101775898 original size:17 final size:17
Alignment explanation
Indices: 101775876--101775924 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
101775866 AAAATTAAAT
101775876 TTAAATGAAATAAAAAA
1 TTAAATGAAATAAAAAA
*
101775893 TTAAAT-AAATAGATAAA
1 TTAAATGAAATA-AAAAA
101775910 TTAAAATG-AATAAAA
1 TT-AAATGAAATAAAA
101775925 TTGGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 5 0.19
17 14 0.52
18 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
TTAAATGAAATAAAAAA
Found at i:101776280 original size:30 final size:29
Alignment explanation
Indices: 101776235--101776303 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
101776225 AAATAAATAG
101776235 AAAAAT-ATATAAAATTATTAAATATTAAATT
1 AAAAATAATATAAAATTATT---TATTAAATT
*
101776266 -AAAATAATAT-AAATTATTTTTTAAATT
1 AAAAATAATATAAAATTATTTATTAAATT
101776293 AAAAATAATAT
1 AAAAATAATAT
101776304 TGGCGGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 8 0.23
28 10 0.29
30 13 0.37
31 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAATAATATAAAATTATTTATTAAATT
Found at i:101778066 original size:24 final size:25
Alignment explanation
Indices: 101778019--101778069 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
101778009 ATACATGTTC
*
101778019 ATAATATATAAAACATACATATAAT
1 ATAATATATAAAACATACACATAAT
**
101778044 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
101778068 AT
1 AT
101778070 GTACACACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:101778166 original size:21 final size:21
Alignment explanation
Indices: 101778142--101778181 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
101778132 AAGATATACT
*
101778142 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
101778163 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
101778182 ATGCATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:101779163 original size:23 final size:21
Alignment explanation
Indices: 101779116--101779171 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
101779106 AAGGTAAAAC
101779116 TTTATTT-TTTT-TATTTTTT
1 TTTATTTGTTTTATATTTTTT
101779135 TATTATTTGTTTTATATTTCCTTT
1 T-TTATTTGTTTTATATTT--TTT
*
101779159 TTTATATGTTTTA
1 TTTATTTGTTTTA
101779172 GTATATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
23 11 0.35
24 4 0.13
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTATTTGTTTTATATTTTTT
Found at i:101780556 original size:80 final size:79
Alignment explanation
Indices: 101780385--101780551 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
101780375 AAAAAAACGA
* * *
101780385 AAATTGAAAATACCTCAGCGTGCGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGCAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TAT
*
101780450 TTTTTTGAAAAGAAT
65 TTTTTTGAAAAGAAG
* * *
101780465 AACTTGAAAATACCTCAGCGTGTAAGCCAATGCTCAACTCACCTCTCGCAATATGAGTT-A-ATT
1 AAATTGAAAATACCTCAGCGTGCAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
*
101780528 TTTTTGAGAAGAAG
66 TTTTTGAAAAGAAG
101780542 AAATTGAAAA
1 AAATTGAAAA
101780552 AAATATCTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
77 23 0.29
79 1 0.01
80 54 0.69
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (79 bp):
AAATTGAAAATACCTCAGCGTGCAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
TTTTTGAAAAGAAG
Found at i:101780734 original size:74 final size:74
Alignment explanation
Indices: 101780560--101780788 Score: 311
Period size: 74 Copynumber: 3.1 Consensus size: 74
101780550 AAAAATATCT
* * * * * *
101780560 ATTGAAAATACATCAGCGTAT--GACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 ATTGAAAATACCTC-GC-TATGCGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTT
101780623 TG-AAACATAA
64 TGAAAACATAA
* *
101780633 ATTAAAAATACCTCGCTATGCGACCCGATGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCGCTATGCGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
*
101780698 AAAACGTAA
66 AAAACATAA
* *
101780707 ATTGAAAATACCTCGCTATGCGACCCGAGGCTCAATTCACCTTTAGCACTATGAATTGATTTTTG
1 ATTGAAAATACCTCGCTATGCGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
*
101780772 AAAACATAT
66 AAAACATAA
101780781 ATTGAAAA
1 ATTGAAAA
101780789 ACAGAAATCA
Statistics
Matches: 138, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
71 3 0.02
72 2 0.01
73 50 0.36
74 83 0.60
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (74 bp):
ATTGAAAATACCTCGCTATGCGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
AAAACATAA
Found at i:101780962 original size:73 final size:72
Alignment explanation
Indices: 101780799--101781003 Score: 311
Period size: 73 Copynumber: 2.8 Consensus size: 72
101780789 ACAGAAATCA
* * * *
101780799 AAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAGTATGAGTTGATTTTGACAAACA
1 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACATCTCACAATATGAGTTGATTTTGACAAACA
101780864 GTAATTG
66 GTAATTG
* * * *
101780871 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACTTCCCGCAATATGAGTTGATTTTTGACAAAT
1 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACATCTCACAATATGAGTTGA-TTTTGACAAAC
101780936 AGTAATTG
65 AGTAATTG
*
101780944 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACATCTCACAATATGAGTTGAATTTTGA
1 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACATCTCACAATATGAGTTG-ATTTTGA
101781004 AACAGAAATA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
72 47 0.39
73 72 0.60
74 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (72 bp):
AAAATACCTCAGCATGCCCCGAGGCTCAACTCACATCTCACAATATGAGTTGATTTTGACAAACA
GTAATTG
Found at i:101789269 original size:16 final size:18
Alignment explanation
Indices: 101789238--101789271 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
101789228 GGGTCAAATG
101789238 TGAATTTAGATGAATTTT
1 TGAATTTAGATGAATTTT
101789256 TGAA-TTAG-TGAATTTT
1 TGAATTTAGATGAATTTT
101789272 GTGATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (18 bp):
TGAATTTAGATGAATTTT
Found at i:101790065 original size:47 final size:47
Alignment explanation
Indices: 101789996--101790094 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
101789986 ATTGATGGAA
* *
101789996 AAGACCATGATTGGACCATGGCAAC-ATGTGATATGTGATTTCCGTAT
1 AAGACCATGATTGGACCATGGCAACGATGTGATATGTG-CTTCCATAT
* * * *
101790043 AAGACCAT-AGTTGGGCTATGGCATCGGTGTGATATGTGCTTCCATAT
1 AAGACCATGA-TTGGACCATGGCAACGATGTGATATGTGCTTCCATAT
101790090 AAGAC
1 AAGAC
101790095 AATAACTGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 1 0.02
47 32 0.73
48 11 0.25
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (47 bp):
AAGACCATGATTGGACCATGGCAACGATGTGATATGTGCTTCCATAT
Found at i:101790228 original size:47 final size:47
Alignment explanation
Indices: 101790022--101790243 Score: 187
Period size: 47 Copynumber: 4.6 Consensus size: 47
101790012 CATGGCAACA
* * * *
101790022 TGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGG
1 TGTGATATGTGA-TTCCATATAAGACCATA-TCTGGGATATGACATCAG
* * * * *
101790070 TGTGATATGTGCTTCCATATAAGACAATAACTGGGTTATGACATTAGTG
1 TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCA--G
* ** * * *
101790119 TAATGTGATTATGTGCTTCCATATAAGATTATATATGAGATATGACATCGG
1 ---TGTGA-TATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
**
101790170 TGTGATATGTGATTCTTTATAAGACCATATCTGGGATATGACATCAG
1 TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
* *
101790217 TGTGATATGTGA-TCCGTGTAAGACCAT
1 TGTGATATGTGATTCCATATAAGACCAT
101790244 GGTTGGGCTA
Statistics
Matches: 140, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
46 12 0.09
47 72 0.51
48 16 0.11
49 1 0.01
51 1 0.01
52 5 0.04
53 33 0.24
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (47 bp):
TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
Found at i:101800569 original size:40 final size:40
Alignment explanation
Indices: 101800512--101800591 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
101800502 GTTATCACTT
101800512 GATGATGGTTCAATTCTAGTTGAGATAAAAGTTAAACTGA
1 GATGATGGTTCAATTCTAGTTGAGATAAAAGTTAAACTGA
* *
101800552 GATGATGGTTCACTTCTAGTTGGGATAAAAGTTAAACTGA
1 GATGATGGTTCAATTCTAGTTGAGATAAAAGTTAAACTGA
101800592 CTTTTCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (40 bp):
GATGATGGTTCAATTCTAGTTGAGATAAAAGTTAAACTGA
Found at i:101802956 original size:3 final size:3
Alignment explanation
Indices: 101802948--101803041 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
101802938 TGAATTTCTA
* * * *
101802948 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
101802996 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TA- TATT TAC TAT TAT TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
101803041 T
1 T
101803042 TATAAATATT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
2 5 0.07
3 53 0.77
4 11 0.16
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:101802974 original size:13 final size:13
Alignment explanation
Indices: 101802948--101802982 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
101802938 TGAATTTCTA
101802948 TATTATTA-TTAT
1 TATTATTACTTAT
*
101802960 TATTGTTACTTAT
1 TATTATTACTTAT
101802973 TATTATTACT
1 TATTATTACT
101802983 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:101802974 original size:19 final size:19
Alignment explanation
Indices: 101802950--101802986 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
101802940 AATTTCTATA
*
101802950 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
101802969 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
101802987 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:101803026 original size:18 final size:18
Alignment explanation
Indices: 101803005--101803041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
101802995 TTATTTATAC
101803005 TATACTTAATATTATTAT
1 TATACTTAATATTATTAT
* *
101803023 TATATTTACTATTATTAT
1 TATACTTAATATTATTAT
101803041 T
1 T
101803042 TATAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TATACTTAATATTATTAT
Found at i:101803219 original size:3 final size:3
Alignment explanation
Indices: 101803205--101803265 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
101803195 GTATTTTTGC
*
101803205 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T
*
101803251 TAT ATAA TAT TAT TA
1 TAT -TAT TAT TAT TA
101803266 ATAGGTACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 41 0.82
4 7 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:101803722 original size:18 final size:19
Alignment explanation
Indices: 101803673--101803726 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
101803663 TTTGCTTATC
* *
101803673 TTATTATGTACATATATTT
1 TTATTATGTATATATATTA
* *
101803692 TTCAATATTTATATATA-TA
1 TT-ATTATGTATATATATTA
101803711 TTATTATGTATATATA
1 TTATTATGTATATATA
101803727 CTTTAGCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 12 0.43
19 5 0.18
20 11 0.39
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (19 bp):
TTATTATGTATATATATTA
Found at i:101804751 original size:20 final size:20
Alignment explanation
Indices: 101804726--101804765 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
101804716 GTAAGTTAGT
101804726 ATTAAATTTTCGATAAGAGA
1 ATTAAATTTTCGATAAGAGA
*
101804746 ATTAAATTTTCGTTAAGAGA
1 ATTAAATTTTCGATAAGAGA
101804766 TTTTAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTAAATTTTCGATAAGAGA
Found at i:101805990 original size:53 final size:53
Alignment explanation
Indices: 101805838--101805991 Score: 165
Period size: 52 Copynumber: 2.9 Consensus size: 53
101805828 TGACGGAAAA
*
101805838 GATGTGATATGT-ACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGACTTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
* * * * **
101805890 AATATGAT-T-CGAGTTCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGT
1 GATGTGATATGTGACTT-CCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAC
* *
101805942 GATGTGATAATGTGA-TTCCGTATAAGACCATATCTGGGATATGACATCGG
1 GATGTGAT-ATGTGACTTCCGTATAAGACCATATCTGGGCTATGGCATCGG
101805992 CATGTTATGT
Statistics
Matches: 83, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
51 4 0.05
52 45 0.54
53 29 0.35
54 3 0.04
55 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
GATGTGATATGTGACTTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
Found at i:101809119 original size:13 final size:13
Alignment explanation
Indices: 101809101--101809128 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
101809091 TTATTTATCA
101809101 TATAAATATCTTT
1 TATAAATATCTTT
101809114 TATAAATATCTTT
1 TATAAATATCTTT
101809127 TA
1 TA
101809129 ATAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (13 bp):
TATAAATATCTTT
Found at i:101820940 original size:20 final size:20
Alignment explanation
Indices: 101820915--101820977 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
101820905 TTTTAAATAC
101820915 AATTTTAAATAATTTATTAA
1 AATTTTAAATAATTTATTAA
* * *
101820935 AATTTTTATTCA-TT-TTAA
1 AATTTTAAATAATTTATTAA
* *
101820953 AAGTTTTAGATAATATATTAA
1 AA-TTTTAAATAATTTATTAA
101820974 AATT
1 AATT
101820978 CAAGTCTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAAATAATTTATTAA
Found at i:101820941 original size:21 final size:21
Alignment explanation
Indices: 101820917--101820977 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
101820907 TTAAATACAA
101820917 TTTTAAATAATTTATTAAAAT
1 TTTTAAATAATTTATTAAAAT
* * *
101820938 TTTT-ATTCA-TT-TTAAAAG
1 TTTTAAATAATTTATTAAAAT
* *
101820956 TTTTAGATAATATATTAAAAT
1 TTTTAAATAATTTATTAAAAT
101820977 T
1 T
101820978 CAAGTCTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
20 4 0.14
21 11 0.38
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (21 bp):
TTTTAAATAATTTATTAAAAT
Found at i:101823546 original size:3 final size:3
Alignment explanation
Indices: 101823523--101823565 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
101823513 TTATTGTATC
* * *
101823523 TAT TAA TAT TAT CAC TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
101823566 TTCATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:101823773 original size:15 final size:17
Alignment explanation
Indices: 101823753--101823793 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
101823743 TCATCGTTTC
101823753 TATTATTATTTCA-T-T
1 TATTATTATTTCACTGT
101823768 TATTA-T-TTTCACTGT
1 TATTATTATTTCACTGT
101823783 TATTATTATTT
1 TATTATTATTT
101823794 TATTATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.23
14 2 0.09
15 11 0.50
16 1 0.05
17 3 0.14
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATTATTTCACTGT
Found at i:101824276 original size:16 final size:16
Alignment explanation
Indices: 101824250--101824289 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
101824240 AATTATACGT
*
101824250 GTATATATTTTTATATA
1 GTAT-TATTTTCATATA
101824267 GTATTATTTTCATATA
1 GTATTATTTTCATATA
*
101824283 ATATTAT
1 GTATTAT
101824290 ACTCATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (16 bp):
GTATTATTTTCATATA
Found at i:101824472 original size:21 final size:21
Alignment explanation
Indices: 101824439--101824485 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
101824429 ATATATATTG
101824439 TATATGTTCATTTCTACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
101824462 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
101824481 TATAT
1 TATAT
101824486 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:101824477 original size:15 final size:15
Alignment explanation
Indices: 101824459--101824492 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
101824449 TTTCTACTAT
*
101824459 GTATATATGTATTTA
1 GTATATATATATTTA
*
101824474 GTATGTATATATTTA
1 GTATATATATATTTA
101824489 GTAT
1 GTAT
101824493 TATTATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:101824616 original size:24 final size:24
Alignment explanation
Indices: 101824576--101824632 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
101824566 TTTTTACATC
101824576 TTATATC-T-TATATATGTATATT
1 TTATATCTTATATATATGTATATT
101824598 TTATATCTTATATATATGTATATT
1 TTATATCTTATATATATGTATATT
*
101824622 TTATATGTTAT
1 TTATATCTTAT
101824633 GTACATACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 7 0.22
23 1 0.03
24 24 0.75
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (24 bp):
TTATATCTTATATATATGTATATT
Found at i:101824628 original size:13 final size:13
Alignment explanation
Indices: 101824586--101824629 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
101824576 TTATATCTTA
101824586 TATATGTATATTT
1 TATATGTATATTT
* *
101824599 TATATCT-TA-TA
1 TATATGTATATTT
101824610 TATATGTATATTT
1 TATATGTATATTT
101824623 TATATGT
1 TATATGT
101824630 TATGTACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.28
12 4 0.16
13 14 0.56
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (13 bp):
TATATGTATATTT
Found at i:101838414 original size:37 final size:37
Alignment explanation
Indices: 101838297--101838414 Score: 89
Period size: 38 Copynumber: 3.1 Consensus size: 37
101838287 TATAATGATT
101838297 TTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTA
1 TTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTA
* * * * * * * **
101838334 TTGAAATTGATCGGAC-CT-TACATTATTTCTTATATGATT-
1 TTGAAGTT-CTTGAACTCTCT-GATT-TATCGTGCAT--TTA
101838373 TTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTA
1 TTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTA
101838410 TTGAA
1 TTGAA
101838415 ATTGATCGGA
Statistics
Matches: 55, Mismatches: 18, Indels: 16
0.62 0.20 0.18
Matches are distributed among these distances:
36 3 0.05
37 17 0.31
38 20 0.36
39 12 0.22
40 3 0.05
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (37 bp):
TTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTA
Found at i:101838417 original size:76 final size:76
Alignment explanation
Indices: 101838291--101838442 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
101838281 GCATTATATA
101838291 ATGATTTTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTATTGAAATTGATCGGACCTTACA
1 ATGATTTTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTATTGAAATTGATCGGACCTTACA
101838356 TTATTTCTTAT
66 TTATTTCTTAT
101838367 ATGATTTTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTATTGAAATTGATCGGACCTTACA
1 ATGATTTTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTATTGAAATTGATCGGACCTTACA
101838432 TTATTTCTTAT
66 TTATTTCTTAT
101838443 CAAAATTGAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (76 bp):
ATGATTTTGAAGTTCTTGAACTCTCTGATTTATCGTGCATTTATTGAAATTGATCGGACCTTACA
TTATTTCTTAT
Found at i:101845821 original size:24 final size:25
Alignment explanation
Indices: 101845783--101845837 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
101845773 TAATTCAAAT
101845783 ATATAAACTATATTTTAAATATTAAA
1 ATAT-AACTATATTTTAAATATTAAA
101845809 ATATAAC-ATATTTTAAATATTAAA
1 ATATAACTATATTTTAAATATTAAA
101845833 ATATA
1 ATATA
101845838 TAATATCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 22 0.76
25 3 0.10
26 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATAACTATATTTTAAATATTAAA
Found at i:101845838 original size:26 final size:26
Alignment explanation
Indices: 101845779--101845840 Score: 92
Period size: 24 Copynumber: 2.4 Consensus size: 26
101845769 AAATTAATTC
101845779 AAATATATAAACTATATTTTAAATATT
1 AAATATAT-AACTATATTTTAAATATT
101845806 AAA-ATATAAC-ATATTTTAAATATT
1 AAATATATAACTATATTTTAAATATT
101845830 AAAATATATAA
1 -AAATATATAA
101845841 TATCACATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 14 0.42
25 6 0.18
26 10 0.30
27 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATATATAACTATATTTTAAATATT
Found at i:101845843 original size:31 final size:32
Alignment explanation
Indices: 101845799--101845858 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
101845789 ACTATATTTT
*
101845799 AAATATTAAAATATAACATATTTTAAATATTA
1 AAATATTAAAATATAACATATTTAAAATATTA
* *
101845831 AAATA-TATAATATCACATATTTAAAATA
1 AAATATTAAAATATAACATATTTAAAATA
101845859 AATTTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATATTAAAATATAACATATTTAAAATATTA
Found at i:101848194 original size:20 final size:20
Alignment explanation
Indices: 101848169--101848218 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
101848159 TGGCTTAAAA
101848169 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
101848189 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
101848206 GTGGTAGTGGATT
1 TTGGTAGTGGATT
101848219 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:101852831 original size:20 final size:20
Alignment explanation
Indices: 101852806--101852855 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
101852796 TGGCTTAAAA
101852806 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
101852826 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
101852843 GTGGTAGTGGATT
1 TTGGTAGTGGATT
101852856 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:101854796 original size:17 final size:18
Alignment explanation
Indices: 101854755--101854801 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
101854745 GTTTATATAT
101854755 TTTTAAT-TTTTATTTAC
1 TTTTAATATTTTATTTAC
101854772 TTTT--TATTTTATTTA-
1 TTTTAATATTTTATTTAC
*
101854787 TTTTAATATTATATT
1 TTTTAATATTTTATT
101854802 ATTCTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 12 0.46
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTAATATTTTATTTAC
Found at i:101875974 original size:4 final size:4
Alignment explanation
Indices: 101875965--101875992 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
101875955 TAAGAAGAAG
101875965 AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA
101875993 GCTAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:101877120 original size:30 final size:30
Alignment explanation
Indices: 101877079--101877138 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
101877069 GAGTATCCAA
* *
101877079 ACTAAATCCAATTGGTAATAGAAGGAGGAC
1 ACTAAAGCCAATTCGTAATAGAAGGAGGAC
*
101877109 ACTAAAGCCAATTCGTAATCGAAGGAGGAC
1 ACTAAAGCCAATTCGTAATAGAAGGAGGAC
101877139 TTAACTCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (30 bp):
ACTAAAGCCAATTCGTAATAGAAGGAGGAC
Found at i:101895259 original size:27 final size:25
Alignment explanation
Indices: 101895204--101895278 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 25
101895194 GTTGTTTATC
* *
101895204 AAAAACTT-TTAATATTTAAAAATT
1 AAAAAATTATTAATATTTAAAAATA
*
101895228 TAAAAATTATTAATATTATTAAAAATA
1 AAAAAATTATTAATA-T-TTAAAAATA
* *
101895255 AAAAAATTATATATTTTTTAAAAA
1 AAAAAATTAT-TAATATTTAAAAA
101895279 ATAATAGCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.15
25 6 0.15
26 8 0.20
27 18 0.44
28 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAAATTATTAATATTTAAAAATA
Found at i:101896420 original size:6 final size:6
Alignment explanation
Indices: 101896385--101896419 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
101896375 TAAAGTGGGA
*
101896385 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAA GGAAA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAA
101896420 ACAATTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:101897522 original size:39 final size:39
Alignment explanation
Indices: 101897479--101897557 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
101897469 GTTTAGGATT
*
101897479 AATATCT-ATATATAAATTCAAAAAAATTGAAAATTATAA
1 AATATCTCA-ATATAAATTCAAAAAAATTAAAAATTATAA
* ** *
101897518 AATATCTCAATATAATTTTTAAAAATTTAAAAATTATAA
1 AATATCTCAATATAAATTCAAAAAAATTAAAAATTATAA
101897557 A
1 A
101897558 TGGAGAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 33 0.97
40 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (39 bp):
AATATCTCAATATAAATTCAAAAAAATTAAAAATTATAA
Found at i:101900875 original size:17 final size:17
Alignment explanation
Indices: 101900838--101900879 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
101900828 GTATTATTAA
*
101900838 AAAATTTAAATAACATT
1 AAAATTTTAATAACATT
101900855 -AAATTTTAATAGA-ATT
1 AAAATTTTAATA-ACATT
101900871 AAAATTTTA
1 AAAATTTTA
101900880 TTGTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAATTTTAATAACATT
Found at i:101902826 original size:8 final size:8
Alignment explanation
Indices: 101902813--101902846 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
101902803 AATATACCTC
101902813 ATATACAT
1 ATATACAT
101902821 ATATACAT
1 ATATACAT
*
101902829 ATATATAT
1 ATATACAT
101902837 ATATACAT
1 ATATACAT
101902845 AT
1 AT
101902847 TGTTACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATACAT
Found at i:101903578 original size:3 final size:3
Alignment explanation
Indices: 101903570--101903594 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101903560 TATTATATTC
101903570 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
101903595 CAATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101904025 original size:15 final size:15
Alignment explanation
Indices: 101904005--101904042 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
101903995 TCAAAATTAA
101904005 ATTTTTTTAATA-TC
1 ATTTTTTTAATATTC
*
101904019 TATTTTTATAATATTC
1 -ATTTTTTTAATATTC
101904035 ATTTTTTT
1 ATTTTTTT
101904043 CTTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAATATTC
Found at i:101911296 original size:21 final size:21
Alignment explanation
Indices: 101911254--101911298 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
101911244 GAGGGATCAA
*
101911254 ATGCCGGAGTCCCAAAAAAAC
1 ATGCCGGAGTCACAAAAAAAC
* * *
101911275 ATGCTGGAGTCACAGAACAAC
1 ATGCCGGAGTCACAAAAAAAC
101911296 ATG
1 ATG
101911299 ATGACCAGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.13
Consensus pattern (21 bp):
ATGCCGGAGTCACAAAAAAAC
Found at i:101919161 original size:133 final size:133
Alignment explanation
Indices: 101918919--101919403 Score: 729
Period size: 133 Copynumber: 3.6 Consensus size: 133
101918909 CAGATATCAT
* * * *
101918919 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGATATTATCTTCGCTGAGCAG
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTGAGCAG
* *
101918984 GAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGC
66 GAGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATATATCGGCAATGGAGCAGATTTCAGC
101919049 CAC
131 CAC
101919052 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTGAGCAG
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTGAGCAG
* ** *
101919117 AAATGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATATATCGGCAATGGAGCAGATTTCAG
66 GAGCGAAGCAGATCAAATTTTGGTGAA-TCTTATCTCCATATATCGGCAATGGAGCAGATTTCAG
101919181 CCAC
130 CCAC
* * *
101919185 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGATCTTATCTTCGCTGAGCAG
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTGAGCAG
* * * *
101919250 GAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCTATATATCTGCAATGGAGCAGATTTCAGT
66 GAGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATATATCGGCAATGGAGCAGATTTCAGC
101919315 CAC
131 CAC
* * * *
101919318 CAGCCTTATCTTCATTAAGCAGGAGTGGAGCAGGCTAAACATACCGGATCTTATCTTTACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACCAGATCTTATCTTCACTGAGC
**
101919383 AGGAGTAAAGCAGATCAAATT
64 AGGAGCGAAGCAGATCAAATT
101919404 ACAGCAGATC
Statistics
Matches: 317, Mismatches: 31, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
132 2 0.01
133 273 0.86
134 3 0.01
135 39 0.12
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTGAGCAG
GAGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATATATCGGCAATGGAGCAGATTTCAGC
CAC
Found at i:101924291 original size:59 final size:54
Alignment explanation
Indices: 101924218--101924352 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
101924208 TAGGGTCTGA
* *
101924218 ATTTAGCCTGAACTGGTAATTCAGATCCAA-GCTC-ATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGAACTGGTAATTCAGA--CAATACTCTA-T-GAGT--TTAT-ATTGCAGGGG
* *
101924277 ATTTAGCCTGAACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGGGG
1 ATTTAGCCTGAACTGGTAATTCAGACAATACTCTATGAGTTTATATTGCAGGGG
*
101924331 ATTTAGCCTGGACTGGTAATTC
1 ATTTAGCCTGAACTGGTAATTC
101924353 CGCTGCAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
54 30 0.44
55 3 0.04
57 7 0.10
58 4 0.06
59 24 0.35
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (54 bp):
ATTTAGCCTGAACTGGTAATTCAGACAATACTCTATGAGTTTATATTGCAGGGG
Found at i:101925197 original size:29 final size:28
Alignment explanation
Indices: 101925141--101925204 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
101925131 AGGGGTATTA
* *
101925141 CATAATTAGGGACCATTTTATAATTTTT
1 CATAGTTAGGGACCATTTTATAACTTTT
* *
101925169 CATAGTTAGGTGATCATTTTGTAACTTTT
1 CATAGTTAGG-GACCATTTTATAACTTTT
101925198 CATAGTT
1 CATAGTT
101925205 GGATGACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (28 bp):
CATAGTTAGGGACCATTTTATAACTTTT
Found at i:101926396 original size:58 final size:58
Alignment explanation
Indices: 101926321--101926430 Score: 193
Period size: 58 Copynumber: 1.9 Consensus size: 58
101926311 ATCACATTTA
*
101926321 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTTGCTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTTGCTTG
* *
101926379 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGT
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
101926431 CATTGATCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (58 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTTGCTTG
Found at i:101927371 original size:35 final size:34
Alignment explanation
Indices: 101927332--101927419 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 34
101927322 TATGCTTACC
*
101927332 TATATTATTTTTTAATTTTTAAAAAATATTTATAT
1 TATATTATTTTTTAATATTTAAAAAAT-TTTATAT
* *
101927367 TATATTA--TTTTAATATTT-AATAATTTTATTT
1 TATATTATTTTTTAATATTTAAAAAATTTTATAT
*
101927398 TATATAATTATTTTAATATTTA
1 TATATTATT-TTTTAATATTTA
101927420 TATTAGAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 12 0.27
32 5 0.11
33 10 0.22
34 11 0.24
35 7 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TATATTATTTTTTAATATTTAAAAAATTTTATAT
Found at i:101927406 original size:15 final size:15
Alignment explanation
Indices: 101927360--101927406 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
101927350 TTAAAAAATA
* *
101927360 TTTATATTATATTAT
1 TTTATTTTATATAAT
101927375 TTTAATATTTA-ATAAT
1 TTT-AT-TTTATATAAT
101927391 TTTATTTTATATAAT
1 TTTATTTTATATAAT
101927406 T
1 T
101927407 ATTTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 9 0.33
17 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTTTATATAAT
Found at i:101942870 original size:12 final size:13
Alignment explanation
Indices: 101942841--101942865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101942831 AAACATATTT
101942841 ATATTTTTTAAAA
1 ATATTTTTTAAAA
101942854 ATATTTTTTAAA
1 ATATTTTTTAAA
101942866 TTATTAAATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:101944632 original size:29 final size:29
Alignment explanation
Indices: 101944598--101944655 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
101944588 GGTAGAAATT
*
101944598 ATTTTTAGGAGAGTAGAAAT-TAAATTTTA
1 ATTTTTAGGAGAGTAAAAATAT-AATTTTA
* *
101944627 ATTTTTATGATAGTAAAAATATAATTTTA
1 ATTTTTAGGAGAGTAAAAATATAATTTTA
101944656 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (29 bp):
ATTTTTAGGAGAGTAAAAATATAATTTTA
Found at i:101946040 original size:20 final size:20
Alignment explanation
Indices: 101945998--101946061 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 20
101945988 CCAAAATTAT
101945998 TATTTTAGAATATTTTTAT--A
1 TATTTT-GAA-ATTTTTATAAA
101946018 TATTTTGAAATTTTTATAAA
1 TATTTTGAAATTTTTATAAA
*
101946038 TATTTT-AAATTTTAATAAA
1 TATTTTGAAATTTTTATAAA
101946057 TATTT
1 TATTT
101946062 GGATTTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
18 8 0.20
19 20 0.49
20 13 0.32
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTTGAAATTTTTATAAA
Found at i:101946069 original size:19 final size:19
Alignment explanation
Indices: 101946009--101946081 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
101945999 ATTTTAGAAT
*
101946009 ATTTTT-ATATAT-TTTGAA
1 ATTTTTAATAAATATTTG-A
*
101946027 ATTTTT-ATAAATATTTTA
1 ATTTTTAATAAATATTTGA
* *
101946045 AATTTTAATAAATATTTGG
1 ATTTTTAATAAATATTTGA
*
101946064 ATTTTTAAAAAATTATTT
1 ATTTTTAATAAA-TATTT
101946082 TTAACTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
18 17 0.38
19 23 0.51
20 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTTAATAAATATTTGA
Found at i:101961001 original size:6 final size:6
Alignment explanation
Indices: 101960990--101961022 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
101960980 TTCTTCTATC
101960990 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
101961023 GGCTTCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:101962961 original size:16 final size:16
Alignment explanation
Indices: 101962940--101962974 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
101962930 AAAGGATAAT
101962940 ATTATACTTACTCTCC
1 ATTATACTTACTCTCC
101962956 ATTATACTTACTCTCC
1 ATTATACTTACTCTCC
101962972 ATT
1 ATT
101962975 CCACTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATACTTACTCTCC
Found at i:101962980 original size:16 final size:16
Alignment explanation
Indices: 101962940--101962980 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
101962930 AAAGGATAAT
*
101962940 ATTATACTTACTCTCC
1 ATTACACTTACTCTCC
*
101962956 ATTATACTTACTCTCC
1 ATTACACTTACTCTCC
*
101962972 ATTCCACTT
1 ATTACACTT
101962981 GCCTTTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTACACTTACTCTCC
Found at i:101968032 original size:33 final size:33
Alignment explanation
Indices: 101967992--101968055 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
101967982 ATTGGCAATG
101967992 ATGTCAATATTAACTAAATTTGGTCATGTAACA
1 ATGTCAATATTAACTAAATTTGGTCATGTAACA
*
101968025 ATGTCAATTTTAACTAAATTTGGTCATGTAA
1 ATGTCAATATTAACTAAATTTGGTCATGTAA
101968056 GTTTTTGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (33 bp):
ATGTCAATATTAACTAAATTTGGTCATGTAACA
Found at i:101971510 original size:25 final size:25
Alignment explanation
Indices: 101971476--101971537 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
101971466 AATCAGAAAC
101971476 CAAGTTACATCTCCGTGACGATTGA
1 CAAGTTACATCTCCGTGACGATTGA
101971501 CAAGTTACATCTCCGTGACGATTGA
1 CAAGTTACATCTCCGTGACGATTGA
101971526 CAAGTTACATCT
1 CAAGTTACATCT
101971538 TATGTGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (25 bp):
CAAGTTACATCTCCGTGACGATTGA
Found at i:101972128 original size:130 final size:130
Alignment explanation
Indices: 101971947--101972208 Score: 497
Period size: 130 Copynumber: 2.0 Consensus size: 130
101971937 ACATTAGATT
*
101971947 AGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAACTTTGAATAGCACTCTTAGCTTTCAA
1 AGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAACTTTGAACAGCACTCTTAGCTTTCAA
* *
101972012 TTCTTTTTTTCTTTACAGTTCCTTAGGCTCTGGTTGCTTGGTTGAGAAGTATGAGATCAAATGAA
66 TTCTTTTTTTCTTCACAGTTCCTTAGGCTCTGGTTGCTTGGTTGAGAAGTATGAGATCAAATCAA
101972077 AGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAACTTTGAACAGCACTCTTAGCTTTCAA
1 AGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAACTTTGAACAGCACTCTTAGCTTTCAA
101972142 TTCTTTTTTTCTTCACAGTTCCTTAGGCTCTGGTTGCTTGGTTGAGAAGTATGAGATCAAATCAA
66 TTCTTTTTTTCTTCACAGTTCCTTAGGCTCTGGTTGCTTGGTTGAGAAGTATGAGATCAAATCAA
101972207 AG
1 AG
101972209 TTAATTCCAG
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (130 bp):
AGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAACTTTGAACAGCACTCTTAGCTTTCAA
TTCTTTTTTTCTTCACAGTTCCTTAGGCTCTGGTTGCTTGGTTGAGAAGTATGAGATCAAATCAA
Found at i:101972448 original size:135 final size:135
Alignment explanation
Indices: 101972205--101972476 Score: 517
Period size: 135 Copynumber: 2.0 Consensus size: 135
101972195 AGATCAAATC
*
101972205 AAAGTTAATTCCAGTATTTGTGGATATGCATATTAACTGCCTGTAGTTTAATGATAATCCACTAA
1 AAAGTTAATTCCAGTATTCGTGGATATGCATATTAACTGCCTGTAGTTTAATGATAATCCACTAA
101972270 AATTCATGCTACACATAACATGAAACCTGTAATTCAATCATTTGGATCCAACAGCATACAAAGGA
66 AATTCATGCTACACATAACATGAAACCTGTAATTCAATCATTTGGATCCAACAGCATACAAAGGA
101972335 AATTG
131 AATTG
101972340 AAAGTTAATTCCAGTATTCGTGGATATGCATATTAACTGCCTGTAGTTTAATGATAATCCACTAA
1 AAAGTTAATTCCAGTATTCGTGGATATGCATATTAACTGCCTGTAGTTTAATGATAATCCACTAA
* *
101972405 AATTCATGCTACACATAACATGAAACCTGTAATTCAATTATTTGGATCCAGCAGCATACAAAGGA
66 AATTCATGCTACACATAACATGAAACCTGTAATTCAATCATTTGGATCCAACAGCATACAAAGGA
101972470 AATTG
131 AATTG
101972475 AA
1 AA
101972477 GGGCCAAAAT
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (135 bp):
AAAGTTAATTCCAGTATTCGTGGATATGCATATTAACTGCCTGTAGTTTAATGATAATCCACTAA
AATTCATGCTACACATAACATGAAACCTGTAATTCAATCATTTGGATCCAACAGCATACAAAGGA
AATTG
Found at i:101972785 original size:166 final size:168
Alignment explanation
Indices: 101972456--101972786 Score: 587
Period size: 166 Copynumber: 2.0 Consensus size: 168
101972446 TTGGATCCAG
**
101972456 CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAATTTTTTTATATCATTGTGTAATCTT
1 CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAA-TAATTTATATCATTGTGTAATCTT
101972521 GTTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
65 GTTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
101972586 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
130 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
101972625 CAGCATACAAAGGAAATTGAAGGGCCAAAATGATAAAA-AA-AATTTATATCATTGTGTAATCTT
1 CAGCATACAAAGGAAATTGAAGGGCCAAAATGA-AAAAGAATAATTTATATCATTGTGTAATCTT
* *
101972688 GTTTCTAGAACAGAATCAATCACGAGTACTATATGGCT-AAATGTAATGAACCACCCATACTTTA
65 GTTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
101972752 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTC
130 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTC
101972787 GTGCTACACA
Statistics
Matches: 157, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
166 61 0.39
167 57 0.36
169 35 0.22
170 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (168 bp):
CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAATAATTTATATCATTGTGTAATCTTG
TTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTAG
TGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
Found at i:101980484 original size:22 final size:22
Alignment explanation
Indices: 101980456--101980506 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
101980446 AATTTTATAA
*
101980456 ATTAAATCACAC-AAACTCGTTC
1 ATTAAATCAC-CTAAACTCATTC
* *
101980478 ATTAAATTACCTCAACTCATTC
1 ATTAAATCACCTAAACTCATTC
101980500 ATTAAAT
1 ATTAAAT
101980507 TACTTATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTAAATCACCTAAACTCATTC
Found at i:101987831 original size:16 final size:16
Alignment explanation
Indices: 101987810--101987842 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101987800 ATAATATTGC
101987810 ATTTTCACTATTTTAA
1 ATTTTCACTATTTTAA
101987826 ATTTTCACTATTTTAA
1 ATTTTCACTATTTTAA
101987842 A
1 A
101987843 AAAAATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTCACTATTTTAA
Found at i:101999931 original size:21 final size:21
Alignment explanation
Indices: 101999905--101999944 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
101999895 CCAAGCTCCT
* *
101999905 ATCTTCTTCCTCTTCATCGTC
1 ATCTTCTTCATCGTCATCGTC
101999926 ATCTTCTTCATCGTCATCG
1 ATCTTCTTCATCGTCATCG
101999945 AACTCCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.45
Consensus pattern (21 bp):
ATCTTCTTCATCGTCATCGTC
Found at i:101999935 original size:15 final size:15
Alignment explanation
Indices: 101999915--101999943 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101999905 ATCTTCTTCC
101999915 TCTTCATCGTCATCT
1 TCTTCATCGTCATCT
101999930 TCTTCATCGTCATC
1 TCTTCATCGTCATC
101999944 GAACTCCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.07, T:0.45
Consensus pattern (15 bp):
TCTTCATCGTCATCT
Found at i:102003771 original size:6 final size:6
Alignment explanation
Indices: 102003760--102003784 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102003750 TTATAATTTA
102003760 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
102003785 AAAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:102010585 original size:22 final size:22
Alignment explanation
Indices: 102010545--102010586 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
102010535 TTTAAAATTT
* * *
102010545 TAAAAATTCTTTAATAAAATCA
1 TAAAAATTATATAAAAAAATCA
102010567 TAAAAATTATATAAAAAAAT
1 TAAAAATTATATAAAAAAAT
102010587 ATTTTGAAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAATTATATAAAAAAATCA
Found at i:102012716 original size:18 final size:19
Alignment explanation
Indices: 102012674--102012730 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
102012664 TTACAAAAAA
*
102012674 AAAATATCAAAATAATTTTT
1 AAAATATCAAAAT-ATTTAT
*
102012694 GAAAT-TCAAAATATTTAT
1 AAAATATCAAAATATTTAT
*
102012712 AAAATATCTAAA-ATTTAT
1 AAAATATCAAAATATTTAT
102012730 A
1 A
102012731 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.50
19 12 0.38
20 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATATCAAAATATTTAT
Found at i:102012916 original size:16 final size:16
Alignment explanation
Indices: 102012897--102012927 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102012887 TGAATTTTTT
102012897 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
102012913 TTTCAAATTTATATG
1 TTTCAAATATATATG
102012928 CTTCAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:102015979 original size:15 final size:15
Alignment explanation
Indices: 102015959--102015990 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
102015949 ACGCATTTTC
102015959 GTCCGATTAGTCTTT
1 GTCCGATTAGTCTTT
102015974 GTCCGATTAGTCTTT
1 GTCCGATTAGTCTTT
102015989 GT
1 GT
102015991 AATGTTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (15 bp):
GTCCGATTAGTCTTT
Found at i:102016799 original size:69 final size:69
Alignment explanation
Indices: 102016688--102016825 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
102016678 GTAGTTCAAG
102016688 CAAACCAGAGTGCTATCTGAGTCTGCCGAATATGGTGGGAAGGAGAAAAAAGAAAGCTTTTCAGA
1 CAAACCAGAGTGCTATCTGAGTCTGCCGAATATGGTGGGAAGGAGAAAAAAGAAAGCTTTTCAGA
102016753 ATTT
66 ATTT
102016757 CAAACCAGAGTGCTATCTGAGTCTGCCGAATATGGTGGGAAGGAGAAAAAAGAAAGCTTTTCAGA
1 CAAACCAGAGTGCTATCTGAGTCTGCCGAATATGGTGGGAAGGAGAAAAAAGAAAGCTTTTCAGA
102016822 ATTT
66 ATTT
102016826 GAAAGATCGC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (69 bp):
CAAACCAGAGTGCTATCTGAGTCTGCCGAATATGGTGGGAAGGAGAAAAAAGAAAGCTTTTCAGA
ATTT
Found at i:102021943 original size:31 final size:31
Alignment explanation
Indices: 102021886--102021948 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
102021876 AACAATTATA
*
102021886 TTAAATATATACATTGAATTAAAATCAAAGT
1 TTAAATATATACATTGAATCAAAATCAAAGT
*
102021917 TTAATATATATAC-TTGAATCATAATCAAAGT
1 TTAA-ATATATACATTGAATCAAAATCAAAGT
102021948 T
1 T
102021949 CATGTATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (31 bp):
TTAAATATATACATTGAATCAAAATCAAAGT
Found at i:102023379 original size:11 final size:11
Alignment explanation
Indices: 102023365--102023390 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
102023355 TTTTTAAATT
102023365 TTTTTGTTTAA
1 TTTTTGTTTAA
102023376 TTTTTGTTTAA
1 TTTTTGTTTAA
102023387 TTTT
1 TTTT
102023391 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTGTTTAA
Found at i:102023501 original size:18 final size:20
Alignment explanation
Indices: 102023465--102023502 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
102023455 TTCATGTATA
102023465 AATTATTTATGATTATTTAT
1 AATTATTTATGATTATTTAT
*
102023485 AATT-TTTA-GATTTTTTAT
1 AATTATTTATGATTATTTAT
102023503 TTTTTATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTATTTATGATTATTTAT
Found at i:102027184 original size:7 final size:7
Alignment explanation
Indices: 102027176--102027238 Score: 90
Period size: 7 Copynumber: 9.0 Consensus size: 7
102027166 AAAGTCCAAA
*
102027176 ATTCAAA
1 ATTCAAG
*
102027183 ATTTAAG
1 ATTCAAG
*
102027190 ATTTAAG
1 ATTCAAG
*
102027197 ATTTAAG
1 ATTCAAG
102027204 ATTCAAG
1 ATTCAAG
102027211 ATTCAAG
1 ATTCAAG
102027218 ATTCAAG
1 ATTCAAG
102027225 ATTCAAG
1 ATTCAAG
102027232 ATTCAAG
1 ATTCAAG
102027239 GTCCTATGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (7 bp):
ATTCAAG
Found at i:102028986 original size:29 final size:28
Alignment explanation
Indices: 102028954--102029026 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
102028944 TTTTATTATT
*
102028954 TTAATATTCTA-TATTTTTATAGGATTAAA
1 TTAAT-TTCTATTATTTTTAGAGG-TTAAA
*
102028983 TTAATTTTTATTATTTTTAGAGGTTAAAA
1 TTAATTTCTATTATTTTTAGAGGTT-AAA
102029012 TATAATTT-TATTATT
1 T-TAATTTCTATTATT
102029027 ATTAATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 6 0.15
29 27 0.69
30 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (28 bp):
TTAATTTCTATTATTTTTAGAGGTTAAA
Found at i:102029010 original size:28 final size:30
Alignment explanation
Indices: 102028965--102029026 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
102028955 TAATATTCTA
*
102028965 TATTTTTATAGGATT-AAAT-TAATTTTTAT
1 TATTTTTAGAGGATTAAAATATAA-TTTTAT
102028994 TATTTTTAGAGG-TTAAAATATAATTTTAT
1 TATTTTTAGAGGATTAAAATATAATTTTAT
102029023 TATT
1 TATT
102029027 ATTAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 2 0.07
29 25 0.83
30 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (30 bp):
TATTTTTAGAGGATTAAAATATAATTTTAT
Found at i:102029285 original size:22 final size:22
Alignment explanation
Indices: 102029260--102029306 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
102029250 AATTTAAATT
102029260 TTTA-TATTTTTATTTATAGAAA
1 TTTAGTATTTTTATTTATA-AAA
* *
102029282 TTTAGTTTTTTTATTTTTAAAA
1 TTTAGTATTTTTATTTATAAAA
102029304 TTT
1 TTT
102029307 CAAAAATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTAGTATTTTTATTTATAAAA
Found at i:102030697 original size:8 final size:8
Alignment explanation
Indices: 102030684--102030712 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
102030674 TCAATAAATA
102030684 AAAATATT
1 AAAATATT
102030692 AAAATA-T
1 AAAATATT
102030699 AAAATATT
1 AAAATATT
102030707 AAAATA
1 AAAATA
102030713 ATATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAATATT
Found at i:102030720 original size:23 final size:21
Alignment explanation
Indices: 102030684--102030739 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
102030674 TCAATAAATA
*
102030684 AAAATATTAAAATATAAAATATT
1 AAAATAATAAAATAT-AAAT-TT
*
102030707 AAAATAATATAATATAAATTT
1 AAAATAATAAAATATAAATTT
*
102030728 AAAAAAATAAAA
1 AAAATAATAAAA
102030740 AATTAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.41
22 4 0.14
23 13 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAATAAAATATAAATTT
Found at i:102030724 original size:15 final size:15
Alignment explanation
Indices: 102030679--102030712 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
102030669 AACTTTCAAT
102030679 AAATA-AAAATATTA
1 AAATATAAAATATTA
102030693 AAATATAAAATATTA
1 AAATATAAAATATTA
102030708 AAATA
1 AAATA
102030713 ATATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATAAAATATTA
Found at i:102030745 original size:16 final size:16
Alignment explanation
Indices: 102030679--102030745 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
102030669 AACTTTCAAT
102030679 AAATAAAAATATT-AAA
1 AAATAAAAA-ATTAAAA
* *
102030695 ATATAAAATATTAAAA
1 AAATAAAAAATTAAAA
102030711 TAATATAATATAAATTTAAAA
1 -AA-ATAA-A-AAA-TTAAAA
102030732 AAATAAAAAATTAA
1 AAATAAAAAATTAA
102030746 TATGGGAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 3 0.07
16 14 0.34
17 4 0.10
18 5 0.12
19 5 0.12
20 4 0.10
21 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAAAAATTAAAA
Found at i:102036374 original size:23 final size:24
Alignment explanation
Indices: 102036330--102036376 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
102036320 TTAAATATGT
*
102036330 ATAAATCTAAAAAAATTCTTAAAA
1 ATAAAACTAAAAAAATTCTTAAAA
*
102036354 ATAAAACTAAAAAAGTT-TTAAAA
1 ATAAAACTAAAAAAATTCTTAAAA
102036377 CTATCCTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAAACTAAAAAAATTCTTAAAA
Found at i:102036525 original size:5 final size:5
Alignment explanation
Indices: 102036515--102036539 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
102036505 ACTTTAAATA
102036515 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
102036540 AAAGTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:102047547 original size:132 final size:132
Alignment explanation
Indices: 102047310--102048064 Score: 1357
Period size: 132 Copynumber: 5.7 Consensus size: 132
102047300 CGTAAATAGG
* *
102047310 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCACATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
102047375 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
102047440 GA
131 GA
* *
102047442 TCCTATCTTCTTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTTCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
102047507 CGAAGTAGATCGCAGAAAGCAGATCTTCTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
102047572 GA
131 GA
102047574 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
102047639 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
102047704 GA
131 GA
102047706 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
102047771 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
102047836 GA
131 GA
* *
102047838 TTCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
102047903 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
*
102047968 GG
131 GA
* * * *
102047970 TCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
102048035 TGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTC
102048065 CCTGTATTTG
Statistics
Matches: 600, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 600 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
GA
Found at i:102048605 original size:13 final size:13
Alignment explanation
Indices: 102048574--102048607 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
102048564 GCCCATTTAC
102048574 AAACCCAAAATCT
1 AAACCCAAAATCT
*
102048587 -AACCCAAAATTT
1 AAACCCAAAATCT
102048599 AAACCCAAA
1 AAACCCAAA
102048608 CAAATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACCCAAAATCT
Found at i:102049812 original size:3 final size:3
Alignment explanation
Indices: 102049788--102049858 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
102049778 AATATCCTTG
* * * **
102049788 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
102049835 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
102049859 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:102049855 original size:23 final size:22
Alignment explanation
Indices: 102049801--102049861 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
102049791 TTTTTATATT
*
102049801 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
102049822 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
102049844 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
102049862 CGTGTATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:102049868 original size:23 final size:23
Alignment explanation
Indices: 102049824--102049869 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
102049814 GTATTACCAT
*
102049824 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
102049847 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
102049870 CCTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:102050134 original size:19 final size:19
Alignment explanation
Indices: 102050099--102050135 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
102050089 ATATATTACC
**
102050099 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
102050118 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
102050136 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:102059406 original size:14 final size:14
Alignment explanation
Indices: 102059387--102059426 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
102059377 TTGATTGGCT
102059387 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
102059401 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
102059415 GGAAAATGTTTT
1 GTAAAATGTTTT
102059427 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:102059439 original size:34 final size:35
Alignment explanation
Indices: 102059395--102059461 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
102059385 CTGTAAAATG
* *
102059395 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
102059429 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
102059462 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:102059448 original size:20 final size:20
Alignment explanation
Indices: 102059410--102059449 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
102059400 CGTAAAATGA
**
102059410 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
102059430 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
102059450 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:102062551 original size:16 final size:17
Alignment explanation
Indices: 102062530--102062564 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
102062520 TAATGTCTAG
102062530 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
102062546 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
102062564 G
1 G
102062565 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:102065611 original size:12 final size:12
Alignment explanation
Indices: 102065580--102065612 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
102065570 ATAATTTTTA
102065580 AAAAATT-ATAT
1 AAAAATTAATAT
102065591 AAAAA-TAATAT
1 AAAAATTAATAT
102065602 AAAAATTAATA
1 AAAAATTAATA
102065613 CGAGCCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATTAATAT
Done.