Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 21 of 173
Found at i:5982660 original size:16 final size:16
Alignment explanation
Indices: 5982639--5982694 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
5982629 TGAATTACTT
5982639 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
5982655 ATTACAGCTCAATTCA
1 ATTACAGCTCTATTCC
*
5982671 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
5982687 ATTACAGC
1 ATTACAGC
5982695 GAACCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:5983302 original size:20 final size:20
Alignment explanation
Indices: 5983277--5983353 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
5983267 GATGCATAAC
5983277 AGAGGCACCAAAGTGCAGAT
1 AGAGGCACCAAAGTGCAGAT
* *
5983297 AGAGGCACTAATGTGC-GAT
1 AGAGGCACCAAAGTGCAGAT
* * * *
5983316 CAGAGGCACCGAAGTACAAAC
1 -AGAGGCACCAAAGTGCAGAT
* *
5983337 AAAGACACCAAAGTGCA
1 AGAGGCACCAAAGTGCA
5983354 AATCCCGACA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 3 0.07
20 39 0.91
21 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAGAT
Found at i:5987974 original size:24 final size:24
Alignment explanation
Indices: 5987938--5988096 Score: 118
Period size: 24 Copynumber: 7.0 Consensus size: 24
5987928 CAAGCTGTAT
5987938 CGTTGTGGTCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
*
5987962 CGTTGTGGCCAAGCCACTCAAT-A
1 CGTTGTGGTCAAGCCACTCAATAA
* ** *
5987985 --TCGCAGTCAAG---CT--ATAT
1 CGTTGTGGTCAAGCCACTCAATAA
5988002 CGTTGTGGTCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
* * *
5988026 TGTTGTGGACAAGCCACTCAATAG
1 CGTTGTGGTCAAGCCACTCAATAA
* * * * * *
5988050 TGCTATGGCCAAACCACTCAGTAA
1 CGTTGTGGTCAAGCCACTCAATAA
* *
5988074 CATTATGGTCAAGCCACTCAATA
1 CGTTGTGGTCAAGCCACTCAATA
5988097 TTGCAATAAA
Statistics
Matches: 102, Mismatches: 25, Indels: 16
0.71 0.17 0.11
Matches are distributed among these distances:
16 2 0.02
18 2 0.02
19 8 0.08
21 7 0.07
22 2 0.02
23 1 0.01
24 80 0.78
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTCAATAA
Found at i:5988003 original size:64 final size:64
Alignment explanation
Indices: 5987897--5988048 Score: 232
Period size: 64 Copynumber: 2.4 Consensus size: 64
5987887 ATAACACACC
* * * * *
5987897 ACGTTCTGGCTAAACCACTTAATATCACAGTCAAGCTGTATCGTTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATA
*
5987961 ACGTTGTGGCCAAGCCACTCAATATCGCAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATA
* *
5988025 ATGTTGTGGACAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATA
5988049 GTGCTATGGC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (64 bp):
ACGTTGTGGCCAAGCCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATA
Found at i:5997805 original size:7 final size:7
Alignment explanation
Indices: 5997793--5997824 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
5997783 TGATGTGTGT
5997793 AATTGAA
1 AATTGAA
5997800 AATTGAA
1 AATTGAA
5997807 AATTGAA
1 AATTGAA
5997814 AATTGAA
1 AATTGAA
5997821 AATT
1 AATT
5997825 ATGAATTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (7 bp):
AATTGAA
Found at i:5998073 original size:36 final size:36
Alignment explanation
Indices: 5998033--5998102 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
5998023 TGAACGCGGA
5998033 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
1 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
*
5998069 ATGGATTAGCTCTTTTGAGCATCTGGTGTGTTTC
1 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTC
5998103 AATTGGAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (36 bp):
ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
Found at i:5999908 original size:17 final size:17
Alignment explanation
Indices: 5999878--5999911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5999868 ATTACAAAAT
**
5999878 CAAATCTTCTAAGATTA
1 CAAATCTTAGAAGATTA
5999895 CAAATCTTAGAAGATTA
1 CAAATCTTAGAAGATTA
5999912 GTTTCCCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (17 bp):
CAAATCTTAGAAGATTA
Found at i:6004687 original size:28 final size:28
Alignment explanation
Indices: 6004648--6004703 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6004638 CACATTACAG
6004648 AAAAAACACCAGGACACTTGATGAAGCA
1 AAAAAACACCAGGACACTTGATGAAGCA
6004676 AAAAAACACCAGGACACTTGATGAAGCA
1 AAAAAACACCAGGACACTTGATGAAGCA
6004704 TCTTAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (28 bp):
AAAAAACACCAGGACACTTGATGAAGCA
Found at i:6008170 original size:3 final size:3
Alignment explanation
Indices: 6008164--6008220 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
6008154 TCATGGTTGT
* * * *
6008164 TGG TGG TGG TGG AGG TGG AGG TGG TGG TGG T-G TCG TGG TTG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
6008211 TGG TGG TGG T
1 TGG TGG TGG T
6008221 TGAGGTTGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.04, C:0.02, G:0.61, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:6009551 original size:31 final size:31
Alignment explanation
Indices: 6009501--6009560 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6009491 TTAAATTGAA
*
6009501 TTCTTAAAACCCAAAAATCTCAAGATAAAGT
1 TTCTGAAAACCCAAAAATCTCAAGATAAAGT
* * *
6009532 TTCTGAAAACTCAAGAATCTCGAGATAAA
1 TTCTGAAAACCCAAAAATCTCAAGATAAA
6009561 ATTTACATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (31 bp):
TTCTGAAAACCCAAAAATCTCAAGATAAAGT
Found at i:6016263 original size:93 final size:93
Alignment explanation
Indices: 6016092--6016263 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
6016082 TTGCTGTTTC
* **
6016092 CGTTGGTGTTAGGGACAGCTGTTGCGGTGACATCAGTGTTGTTCACAGCAGCCCTATCCACGTTG
1 CGTTGGTGTTAGGGACAGCTGTTACGGTGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
* **
6016157 TTGTCATTTTTGTTGTTGTTGTGGTGGT
66 TTCTCATGGTTGTTGTTGTTGTGGTGGT
* * *
6016185 CGTTGGTGTTAGGGACAGCTGTTATGGTGACATCAGTGTCATTCTCAGCATCCCTATCCACGTTG
1 CGTTGGTGTTAGGGACAGCTGTTACGGTGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
**
6016250 TTCTTGTGGTTGTT
66 TTCTCATGGTTGTT
6016264 ACTGGTGTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (93 bp):
CGTTGGTGTTAGGGACAGCTGTTACGGTGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
TTCTCATGGTTGTTGTTGTTGTGGTGGT
Found at i:6017999 original size:22 final size:23
Alignment explanation
Indices: 6017968--6018016 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
6017958 ATAATAAAAT
6017968 TAAATTGATTATAAATATTAGAA
1 TAAATTGATTATAAATATTAGAA
6017991 TAAA-TGATTATAAATATTAGAA
1 TAAATTGATTATAAATATTAGAA
6018013 TAAA
1 TAAA
6018017 ACTTTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (23 bp):
TAAATTGATTATAAATATTAGAA
Found at i:6019878 original size:14 final size:15
Alignment explanation
Indices: 6019855--6019888 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6019845 CCACATTAGC
6019855 AAAA-AAAATTAA-A
1 AAAATAAAATTAATA
6019868 AAAATAAAATTAATA
1 AAAATAAAATTAATA
6019883 AAAATA
1 AAAATA
6019889 TCTAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATTAATA
Found at i:6031330 original size:24 final size:24
Alignment explanation
Indices: 6031299--6031367 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
6031289 TATTAACATC
*
6031299 GTTCGTGAACATATTCAATTATAT
1 GTTCGTGAACATGTTCAATTATAT
* *
6031323 GTTTGTGAACATGTTCAGTTATAT
1 GTTCGTGAACATGTTCAATTATAT
*
6031347 GTTCGTGAACATGTTCGATTA
1 GTTCGTGAACATGTTCAATTA
6031368 AGTTAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (24 bp):
GTTCGTGAACATGTTCAATTATAT
Found at i:6032511 original size:22 final size:22
Alignment explanation
Indices: 6032481--6032559 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
6032471 ATATAACAAT
*
6032481 ACGTGCCAAAAAACATATAGAA
1 ACGTACCAAAAAACATATAGAA
*
6032503 ACGTACCAACAAAC-TA-A-AA
1 ACGTACCAAAAAACATATAGAA
*
6032522 AGCATAGCCAAAAAACATATAGAA
1 A-CGTA-CCAAAAAACATATAGAA
*
6032546 ACGTACCAACAAAC
1 ACGTACCAAAAAAC
6032560 TAAAAAGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.07
20 4 0.09
21 10 0.22
22 22 0.48
23 4 0.09
24 3 0.07
ACGTcount: A:0.56, C:0.23, G:0.10, T:0.11
Consensus pattern (22 bp):
ACGTACCAAAAAACATATAGAA
Found at i:6032546 original size:43 final size:43
Alignment explanation
Indices: 6032485--6032570 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
6032475 AACAATACGT
6032485 GCCAAAAAACATATAGAAACGTACCAACAAACTAAAAAGCATA
1 GCCAAAAAACATATAGAAACGTACCAACAAACTAAAAAGCATA
6032528 GCCAAAAAACATATAGAAACGTACCAACAAACTAAAAAGCATA
1 GCCAAAAAACATATAGAAACGTACCAACAAACTAAAAAGCATA
6032571 TACTTCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.58, C:0.21, G:0.09, T:0.12
Consensus pattern (43 bp):
GCCAAAAAACATATAGAAACGTACCAACAAACTAAAAAGCATA
Found at i:6033749 original size:3 final size:3
Alignment explanation
Indices: 6033741--6033775 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6033731 AGCGACCCCA
*
6033741 ACC ACC ACC ACC ACC ACG A-C ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
6033776 TCCGACAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 28 0.97
ACGTcount: A:0.34, C:0.63, G:0.03, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:6043451 original size:14 final size:14
Alignment explanation
Indices: 6043415--6043454 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
6043405 AAAAACCCTA
6043415 TTTTTCCTT-TTTC
1 TTTTTCCTTCTTTC
*
6043428 -TTTTCTTTCTTTC
1 TTTTTCCTTCTTTC
6043441 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
6043455 CTTTCTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 12 0.52
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:6043454 original size:27 final size:26
Alignment explanation
Indices: 6043415--6043467 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
6043405 AAAAACCCTA
*
6043415 TTTTTCCTTTTTCTTTTCTTTCTTTC
1 TTTTTCCTTTTTCCTTTCTTTCTTTC
*
6043441 TTTTTCCTTCTTTCCTTTCTTTGTTTC
1 TTTTTCCTT-TTTCCTTTCTTTCTTTC
6043468 GTTTGCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTCCTTTTTCCTTTCTTTCTTTC
Found at i:6043705 original size:20 final size:22
Alignment explanation
Indices: 6043670--6043709 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6043660 TTTATTTTAC
6043670 ATAATATAATATAATATATTTT
1 ATAATATAATATAATATATTTT
6043692 ATAAT-TAA-ATAATATATT
1 ATAATATAATATAATATATT
6043710 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATAATATAATATATTTT
Found at i:6043728 original size:28 final size:30
Alignment explanation
Indices: 6043670--6043728 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
6043660 TTTATTTTAC
* *
6043670 ATAATATAATATAATATATTTTATAATTAA
1 ATAATATAATATAATATATTTTAAAAATAA
6043700 ATAATAT-AT-TAATATA-TTTAAAACATAA
1 ATAATATAATATAATATATTTTAAAA-ATAA
6043728 A
1 A
6043729 AATCTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 11 0.42
29 2 0.08
30 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAATATAATATAATATATTTTAAAAATAA
Found at i:6049571 original size:50 final size:50
Alignment explanation
Indices: 6049490--6049781 Score: 311
Period size: 50 Copynumber: 5.9 Consensus size: 50
6049480 CATTTGGGTA
* *
6049490 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
6049540 AAGAGGTCCCATGTGAGACCATGTTTGGGACATGGCATTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** *
6049590 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** *
6049640 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** ** * * * * *
6049690 GAGAACTCCCATGTAAGAATATATTTGGGATATGACATTGGCA--G-TAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** *
6049737 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAG--AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6049782 TGTTATTATC
Statistics
Matches: 204, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
47 5 0.02
48 1 0.00
49 31 0.15
50 167 0.82
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:6069278 original size:85 final size:85
Alignment explanation
Indices: 6069120--6069280 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
6069110 GAAGATCTAC
* * * * * * * *
6069120 ATACTTGTATTGTTGTAGGCATGTTACAAGATCATTCGAAATTGGATTATGACCTTATATCTAAT
1 ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
6069185 AATATCTTATGTACGGTGAA
66 AATATCTTATGTACGGTGAA
* * * * *
6069205 ATACTTATGTTGTTGCAGGTATGTCACAAGACCATCCAAAATTGGATTCTGACCTAATCTCTGAC
1 ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
* *
6069270 ATTGTCTTATG
66 AATATCTTATG
6069281 GTTAGAATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (85 bp):
ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
AATATCTTATGTACGGTGAA
Found at i:6071332 original size:19 final size:19
Alignment explanation
Indices: 6071308--6071399 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
6071298 AATCATATCT
6071308 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6071327 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
6071346 TCTAAGATTGCATATCGTA
1 TCTAAGATTGCATATCATA
* *
6071365 CCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
6071384 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
6071400 CTTGAAGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6071357 original size:38 final size:38
Alignment explanation
Indices: 6071285--6071399 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
6071275 AAATTAAATC
*
6071285 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
6071327 TCTAAGATTACATATCATATCTAAGATTGCATATCGTA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
6071365 CCTAAGATTACATATCATATATAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
6071400 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 51 0.74
41 7 0.10
42 11 0.16
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.36
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:6071926 original size:45 final size:45
Alignment explanation
Indices: 6071875--6072338 Score: 244
Period size: 44 Copynumber: 10.6 Consensus size: 45
6071865 TTTGATGCGA
* * *
6071875 TCTGCTCTACTGTAATTTCAAGGG-GATAATACTTGATTTCTTAAG
1 TCTGCTCTACTGCAACTTC-AGGGAGATAAGACTTGATTTCTTAAG
* * * **
6071920 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTTTCTTGGG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAAG
* ** * *
6071965 TCTGCTCTACTGCAACTTCAGGGAAATAAGACCCGA-TGC--GA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAAG
* *
6072006 TCTGCTCT-CTGTAACTTCAGAGAGATAAGATCTGTGA-TT-TTAA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAAG
** * * *
6072049 TCCACTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAAG
* * * *** *
6072093 TCTGCTCCACTGCAACTTTAAGGAGATAAGA-TTCGCCATCTTCAG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-GATTTCTTAAG
* * * *
6072138 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AG
1 TCTGCTCT-ACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAAG
* * * * *
6072182 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGA-TGC--GA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAAG
*
6072223 TCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAAG
* * * * *
6072266 TCTGCTCCACTGCGACTTCAGAGAGATAGGA-TT-ATTAGCTTTAA-
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAAG
*
6072310 TCTGCTCCACTGCAACTTCAGGGAGATAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAA
6072339 AATTTGCCAT
Statistics
Matches: 324, Mismatches: 67, Indels: 57
0.72 0.15 0.13
Matches are distributed among these distances:
40 41 0.13
41 22 0.07
42 10 0.03
43 16 0.05
44 140 0.43
45 93 0.29
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAAG
Found at i:6072227 original size:217 final size:218
Alignment explanation
Indices: 6071913--6072357 Score: 680
Period size: 217 Copynumber: 2.0 Consensus size: 218
6071903 ATACTTGATT
* * * *
6071913 TCTTAAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTGCTCTACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTTACTTGAGTCTGCTCCACTGC
* *
6071978 AACTTCAGGGAAATAAGACCCGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGA
66 AACTTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
* *
6072043 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
131 TTTTAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAA
* *
6072108 CTTTAAGGAGATAAGATTCGCCA
196 CTTCAAGGAGATAAAATTCGCCA
*
6072131 TCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACT
1 TCTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTTGCTTACTTGAGTCTGCTCCACT
* * *
6072193 GCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGT
64 GCAACTTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGT
** *
6072258 GATTTTAATCTGCTCCACTGCGACTTCAGAGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
129 GATTTTAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
* *
6072323 AACTTCAGGGAGATAAAATTTGCCA
194 AACTTCAAGGAGATAAAATTCGCCA
6072348 TCTTCAGTCT
1 TCTTCAGTCT
6072358 TTTAAATTGT
Statistics
Matches: 206, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
217 166 0.81
218 40 0.19
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTTACTTGAGTCTGCTCCACTGC
AACTTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAA
CTTCAAGGAGATAAAATTCGCCA
Found at i:6072756 original size:44 final size:44
Alignment explanation
Indices: 6072706--6072827 Score: 178
Period size: 44 Copynumber: 2.8 Consensus size: 44
6072696 ATTTGCTATT
6072706 TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTT-ACAATC
*
6072750 TTCAACCTATTCCACTGTTGAC-CAGGGAGATAAGACTTACAATC
1 TTCAACCTATTCCACTGTTG-CTCAGGGAGATAGGACTTACAATC
*
6072794 TTCAACCTATTCCACTGCTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGTTGCT-CAGGGAGATAGG
6072828 GCTGGGGTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
44 68 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTTACAATC
Found at i:6072889 original size:88 final size:88
Alignment explanation
Indices: 6072827--6073140 Score: 502
Period size: 88 Copynumber: 3.6 Consensus size: 88
6072817 AGGGAGATAG
* * * *
6072827 GGCTGGGGTCATCGATCTGCTTCGCTGTCCGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
6072892 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
*
6072915 GGCTGGTGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
6072980 TTCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
6073003 GGTTGGTGTCTTCGATCTGCTTCACTATCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
6073068 TCCGCTACAACCGAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* **
6073091 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTATAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
6073141 TTATCTTCAC
Statistics
Matches: 208, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 208 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:6072957 original size:44 final size:44
Alignment explanation
Indices: 6072903--6073135 Score: 139
Period size: 44 Copynumber: 5.3 Consensus size: 44
6072893 CCGCTGCAAC
*
6072903 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGT
1 CCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGT
* * * * * ** * **
6072947 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTA-CAAC
1 CCAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTATCAGT
* * * *
6072991 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCACTATCGGT
1 CCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGT
* * * * * * ** * * *
6073035 GCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTA-CA-A
1 CCAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTATCAGT
* * *
6073078 CCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 CC-AGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGT
**
6073123 ATAGGAAGGCAAG
1 CCAGGAAGGCAAG
6073136 ATCTGTTATC
Statistics
Matches: 126, Mismatches: 57, Indels: 12
0.65 0.29 0.06
Matches are distributed among these distances:
43 35 0.28
44 56 0.44
45 35 0.28
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (44 bp):
CCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGT
Found at i:6075363 original size:25 final size:26
Alignment explanation
Indices: 6075312--6075372 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
6075302 AAGAAAATTC
* **
6075312 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
6075338 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
6075363 AAAATGAATG
1 AAAA-GAATG
6075373 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:6080045 original size:19 final size:19
Alignment explanation
Indices: 6080021--6080110 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
6080011 TCATATCTTT
6080021 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
6080040 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
* *
6080059 TAAGATTGCATATCGTACC
1 TAAGATTGCATATCATATC
* *
6080078 TAAGATTACATATCATATA
1 TAAGATTGCATATCATATC
6080097 TAAGATTGCATATC
1 TAAGATTGCATATC
6080111 CTTGAAGATT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:6080070 original size:38 final size:38
Alignment explanation
Indices: 6079996--6080110 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
6079986 AAATTAAATC
*
6079996 TCTAAGATTACAAAATCATATCTTTTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATATC---TAAGATTGCATATCATA
*
6080038 TCTAAGATTACATATCATATCTAAGATTGCATATCGTA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
6080076 CCTAAGATTACATATCATATATAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
6080111 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 49 0.71
41 9 0.13
42 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:6082734 original size:27 final size:27
Alignment explanation
Indices: 6082676--6082739 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
6082666 TTAGAATACG
* **
6082676 CCACAAAGGCGATCCATAAAGAGTATG
1 CCACAAAGGCGATACATAAAGAGTACA
* * *
6082703 TCACAAAGGCGATACATTAATAGTACA
1 CCACAAAGGCGATACATAAAGAGTACA
6082730 CCACAAAGGC
1 CCACAAAGGC
6082740 TGACAAGATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (27 bp):
CCACAAAGGCGATACATAAAGAGTACA
Found at i:6084430 original size:74 final size:68
Alignment explanation
Indices: 6084341--6084563 Score: 215
Period size: 74 Copynumber: 3.2 Consensus size: 68
6084331 CAAAAAAAAG
* *
6084341 AATTTATTCATTTTTTGATAAAATATAAATAAGTCTATTATTCATGTAAAAATACAATACAGTAC
1 AATTTATTCA-TTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACA-TAC
6084406 AATACAAAC
64 AAT----AC
* * **
6084415 AATTTATTCACTTTTTTATAAATTGTAAATAAGTAAATTATTAATGTAAAAATACAAT--A-A-A
1 AATTTATTCA-TTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACATACA
6084476 ATAC
65 ATAC
* * *
6084480 AATTTATTCATTTTTGGTAAATTATAAATAAG-CTGATTATTAATGTCAAATTACAATACAATAC
1 AATTTATTCATTTTTGATAAATTATAAATAAGTCT-ATTATTAATGTAAAAATACAATAC-ATAC
*
6084544 AA-AG
64 AATAC
*
6084548 AATTTTTTTCATTTTT
1 AA-TTTATTCATTTTT
6084564 TTTATAAACA
Statistics
Matches: 126, Mismatches: 16, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
64 39 0.31
65 12 0.10
67 1 0.01
68 4 0.03
69 17 0.13
70 1 0.01
72 1 0.01
74 51 0.40
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (68 bp):
AATTTATTCATTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACATACAA
TAC
Found at i:6084501 original size:64 final size:65
Alignment explanation
Indices: 6084403--6084545 Score: 193
Period size: 64 Copynumber: 2.2 Consensus size: 65
6084393 TACAATACAG
* *
6084403 TACAATACAA-ACAATTTATTCACTTTTTTATAAATTGTAAATAAG-TAAATTATTAATGTAAAA
1 TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCT-AATTATTAATGTAAAA
6084466 A
65 A
* * * * *
6084467 TACAATAAAATACAATTTATTCA-TTTTTGGTAAATTATAAATAAGCTGATTATTAATGTCAAAT
1 TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCTAATTATTAATGTAAAAA
6084531 TACAATACAATACAA
1 TACAATACAATACAA
6084546 AGAATTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 56 0.81
65 13 0.19
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (65 bp):
TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCTAATTATTAATGTAAAAA
Found at i:6087736 original size:16 final size:15
Alignment explanation
Indices: 6087715--6087758 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6087705 TAATCACATT
6087715 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
** *
6087731 AATATTATCTTGATA
1 AATATTAAATTAATA
6087746 AATATTAAATTAA
1 AATATTAAATTAA
6087759 ATTTCATATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:6090424 original size:42 final size:41
Alignment explanation
Indices: 6090364--6090487 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 41
6090354 CATGTTATCA
*
6090364 CATAT-CGATGCCACTGTCCCACACAGGGTCTTACACGAAAT
1 CATATACGATGCCA-TGTCCCAAACAGGGTCTTACACGAAAT
* * *
6090405 CATATACGATGCCGATGTCCCAGACATGGTCTTACACGTACAT
1 CATATACGATGCC-ATGTCCCAAACAGGGTCTTACACG-AAAT
* * *
6090448 CACAAATCGATGCCAATATCCCAAAC-GTGGTCTTACACGA
1 CATATA-CGATGCC-ATGTCCCAAACAG-GGTCTTACACGA
6090488 TAACACATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
41 5 0.07
42 28 0.41
43 9 0.13
44 27 0.39
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (41 bp):
CATATACGATGCCATGTCCCAAACAGGGTCTTACACGAAAT
Found at i:6090470 original size:44 final size:44
Alignment explanation
Indices: 6090334--6090486 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 44
6090324 ATACAACGCC
* * * *
6090334 ATATCCTAGATATGGTCTTACATGT-TATCACATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* * * * * *
6090377 CTGTCCCACACAGGGTCTTACACG-AAATCATATA-CGATGCCG
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* * *
6090419 ATGTCCCAGACATGGTCTTACACGTACATCACAAATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* *
6090463 ATATCCCAAACGTGGTCTTACACG
1 ATATCCCAGACATGGTCTTACACG
6090487 ATAACACATC
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 28 0.32
43 31 0.36
44 28 0.32
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (44 bp):
ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
Found at i:6097299 original size:40 final size:40
Alignment explanation
Indices: 6097237--6097331 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
6097227 CTTTTCTTTC
* *
6097237 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
6097278 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
6097318 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
6097332 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:6097361 original size:5 final size:5
Alignment explanation
Indices: 6097341--6097384 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
6097331 TTTCTTTGTC
*
6097341 ATAT- ATATA TATATA ATATA ATATA ATATA AAATA ATAATA ATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATA
6097385 ATCATTACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:6098111 original size:16 final size:17
Alignment explanation
Indices: 6098084--6098118 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6098074 TAGCATCGAG
*
6098084 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
6098101 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
6098117 TT
1 TT
6098119 AATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:6098963 original size:38 final size:38
Alignment explanation
Indices: 6098896--6098968 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
6098886 ACTTAATTAC
* *
6098896 TTTAATATTAAATTAATAAAATACTATTAAGATAAGAA
1 TTTAATATTAAATTAATAAAATACAATTAAAATAAGAA
*
6098934 TTTAAT-TTAATTTAATATTAAA-ACAATTAAAATAA
1 TTTAATATTAAATTAATA--AAATACAATTAAAATAA
6098969 TATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 10 0.33
38 17 0.57
39 3 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (38 bp):
TTTAATATTAAATTAATAAAATACAATTAAAATAAGAA
Found at i:6105146 original size:60 final size:60
Alignment explanation
Indices: 6105024--6105146 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
6105014 CAAAAAAGTT
** * *
6105024 AAGTTTAGGCACCTAATTGGACAAAAAAAAAAGATTAGGTACCAAATTGAACATCGAGGCC
1 AAGTTTAGAAACCTAATTGGAC-AAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
* * *
6105085 AAGTTTAGAAACCTAATTGGAC-AAAAAAAAGCTTTAGATACCAATTTGAACCTCGAAGCC
1 AAGTTTAGAAACCTAATTGGACAAAAAAAAAG-ATTAGATACCAAATTGAACATCGAAGCC
6105145 AA
1 AA
6105147 ATTCAAGTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 9 0.17
60 25 0.46
61 20 0.37
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (60 bp):
AAGTTTAGAAACCTAATTGGACAAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
Found at i:6109406 original size:22 final size:22
Alignment explanation
Indices: 6109381--6109425 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6109371 TTTAATAAAG
6109381 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
6109403 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
6109425 A
1 A
6109426 CACTACCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:6113176 original size:22 final size:22
Alignment explanation
Indices: 6113151--6113195 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6113141 TTTAATAAAG
6113151 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
6113173 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
6113195 A
1 A
6113196 CACAAAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:6115844 original size:22 final size:22
Alignment explanation
Indices: 6115816--6115877 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
6115806 GATAAATAAT
*
6115816 TTGTAATGTTTTGTGTAATTTG
1 TTGTAATATTTTGTGTAATTTG
* *
6115838 TTGTAATAATCTGTGTAA-TTG
1 TTGTAATATTTTGTGTAATTTG
6115859 --GATAATATTTTGTGTAATT
1 TTG-TAATATTTTGTGTAATT
6115878 ACACACAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 4 0.12
22 15 0.45
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGTAATATTTTGTGTAATTTG
Found at i:6120897 original size:24 final size:24
Alignment explanation
Indices: 6120847--6120897 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
6120837 TAATATAAAT
6120847 TATTTGTAAAATTAATGATACAAGA
1 TATTTGTAAAATTAA-GATACAAGA
6120872 TATTT-TAAAATTTAA-ATACAATGA
1 TATTTGTAAAA-TTAAGATACAA-GA
6120896 TA
1 TA
6120898 AATGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TATTTGTAAAATTAAGATACAAGA
Found at i:6120905 original size:31 final size:31
Alignment explanation
Indices: 6120860--6120928 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
6120850 TTGTAAAATT
*
6120860 AATGATACAAGATATTTTAA-AATTTAAATAC
1 AATGATACAAGATATTTAAATAATTT-AATAC
*
6120891 AATGATA-AATGATATTTAAATAATTTAATAT
1 AATGATACAA-GATATTTAAATAATTTAATAC
6120922 AATGATA
1 AATGATA
6120929 TTTGTGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 27 0.79
32 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (31 bp):
AATGATACAAGATATTTAAATAATTTAATAC
Found at i:6122296 original size:17 final size:19
Alignment explanation
Indices: 6122274--6122311 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6122264 TTAGTATTAC
6122274 AATTTT-ATTTTAA-TAAT
1 AATTTTAATTTTAAGTAAT
6122291 AATTTTAAATTTTAAGTAAT
1 AATTTT-AATTTTAAGTAAT
6122311 A
1 A
6122312 TACTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTTAATTTTAAGTAAT
Found at i:6129095 original size:25 final size:25
Alignment explanation
Indices: 6129053--6129104 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6129043 TACGTACAAT
6129053 TAATTTACTTTTACCTTTTCT-AGGG
1 TAATTTACTTTTACCTTTT-TGAGGG
6129078 TAATTTACTTTTTA-CTTTTTGAGGG
1 TAATTTAC-TTTTACCTTTTTGAGGG
6129103 TA
1 TA
6129105 TTTTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 1 0.04
25 19 0.76
26 5 0.20
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (25 bp):
TAATTTACTTTTACCTTTTTGAGGG
Found at i:6134182 original size:20 final size:20
Alignment explanation
Indices: 6134157--6134251 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
6134147 GCTTTTACCA
6134157 AAATATTTTGGTAAATCCTT
1 AAATATTTTGGTAAATCCTT
6134177 AAATATTTTGGTAAAGT-CTT
1 AAATATTTTGGTAAA-TCCTT
*
6134197 AGAA-ATTTTGGTGAATCCTT
1 A-AATATTTTGGTAAATCCTT
*
6134217 AGAA-ATATTGGTAAATCCTT
1 A-AATATTTTGGTAAATCCTT
**
6134237 GGATATTTTGGTAAA
1 AAATATTTTGGTAAA
6134252 AGCTTTTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.03
20 60 0.92
21 3 0.05
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (20 bp):
AAATATTTTGGTAAATCCTT
Found at i:6136135 original size:13 final size:13
Alignment explanation
Indices: 6136119--6136171 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
6136109 TTTAAACCAA
6136119 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
6136132 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
6136145 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
6136158 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
6136171 A
1 A
6136172 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:6142294 original size:6 final size:6
Alignment explanation
Indices: 6142284--6142314 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6142274 GAGTTGGAGT
*
6142284 GGGGAA CGGGAA GGGGAA GGGGAA GGGGAA G
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA G
6142315 AAAGGGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.03, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:6152186 original size:17 final size:17
Alignment explanation
Indices: 6152161--6152193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6152151 ATCCCAGTCC
*
6152161 AAAATCCAAAGTCCAAA
1 AAAAACCAAAGTCCAAA
6152178 AAAAACCAAAGTCCAA
1 AAAAACCAAAGTCCAA
6152194 GTCCAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.24, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAACCAAAGTCCAAA
Found at i:6152186 original size:24 final size:24
Alignment explanation
Indices: 6152159--6152224 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
6152149 AAATCCCAGT
6152159 CCAAAATCCAAAGTCCAAAAAAAA
1 CCAAAATCCAAAGTCCAAAAAAAA
*
6152183 CCAAAGTCC-AAGTCCAAAAAAAAA
1 CCAAAATCCAAAGTCC-AAAAAAAA
*
6152207 CCAAACTCCAAA-TCCAAA
1 CCAAAATCCAAAGTCCAAA
6152225 GTAATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 9 0.24
24 27 0.71
25 2 0.05
ACGTcount: A:0.58, C:0.29, G:0.05, T:0.09
Consensus pattern (24 bp):
CCAAAATCCAAAGTCCAAAAAAAA
Found at i:6152430 original size:20 final size:20
Alignment explanation
Indices: 6152393--6152430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6152383 TAATAACAAT
*
6152393 AACATAATTTAACTCATAAC
1 AACATAATTTAACGCATAAC
6152413 AACATTAATTTAA-GCATA
1 AACA-TAATTTAACGCATA
6152431 TCATAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (20 bp):
AACATAATTTAACGCATAAC
Found at i:6154701 original size:50 final size:50
Alignment explanation
Indices: 6154596--6154835 Score: 241
Period size: 50 Copynumber: 4.7 Consensus size: 50
6154586 TAAAGAGATT
*
6154596 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTC
* * *
6154652 TCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * **
6154702 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * **
6154752 CCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAATATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
*
6154801 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6154836 TGTTATTATC
Statistics
Matches: 157, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 81 0.52
53 3 0.02
55 1 0.01
56 32 0.20
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:6161032 original size:179 final size:176
Alignment explanation
Indices: 6160726--6161074 Score: 565
Period size: 179 Copynumber: 2.0 Consensus size: 176
6160716 TTTTTTTCTG
*
6160726 GTGGATTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTTTGGTTTGATAAACTTGTTAC
1 GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTTTGGTTTGATAAACTTGTTAC
*
6160791 ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCTAGGTTCTACTTACATTT
66 ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACATTT
* *
6160856 GGCTT-TGCAAAATGTTTTAGCAAAACAAGATTGTGTGTGTCTGTGT
131 GACTTAT-CAAAATGTTTTAGCAAAACAAGATTGCGTGTGTCTGTGT
*
6160902 GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTTTTCTATAAAACCTTTGGTTTGATCAACTTGT
1 GTGGACTTGATCTTTGGGACCTGTTC---TTTTTTTCTATAAAACCTTTGGTTTGATAAACTTGT
** * * *
6160967 TTGATTAGATTTGCATTTGTATTTCCCTGTGAGTTTGTGCTAAACATTTCAAGGTTCTGCTTACA
63 TACATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACA
6161032 TTTGACTTATCAAAATGTTTTAGCAAAACAAGATTGCGTGTGT
128 TTTGACTTATCAAAATGTTTTAGCAAAACAAGATTGCGTGTGT
6161075 GCGTGAAGAA
Statistics
Matches: 159, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
176 25 0.16
179 133 0.84
180 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (176 bp):
GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTTTGGTTTGATAAACTTGTTAC
ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACATTT
GACTTATCAAAATGTTTTAGCAAAACAAGATTGCGTGTGTCTGTGT
Found at i:6163642 original size:6 final size:6
Alignment explanation
Indices: 6163633--6163679 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
6163623 GATGATGGTG
*
6163633 ATGCTA ATGCTA ATGCTGA A-GCTGA A-GCTG ATGCTA ATGCTA ATGCT
1 ATGCTA ATGCTA ATGCT-A ATGCT-A ATGCTA ATGCTA ATGCTA ATGCT
6163680 GAAGATAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 34 0.92
7 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (6 bp):
ATGCTA
Found at i:6169668 original size:17 final size:17
Alignment explanation
Indices: 6169637--6169670 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6169627 CGGAGCCAGC
*
6169637 CTCCTCCACGTGCGCCA
1 CTCCTCCACGAGCGCCA
*
6169654 CTCCTCCATGAGCGCCA
1 CTCCTCCACGAGCGCCA
6169671 TGCCTTGCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.50, G:0.18, T:0.18
Consensus pattern (17 bp):
CTCCTCCACGAGCGCCA
Found at i:6169969 original size:6 final size:6
Alignment explanation
Indices: 6169958--6169984 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6169948 CATTTAAAAT
6169958 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
6169985 CTTACCTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:6174564 original size:21 final size:21
Alignment explanation
Indices: 6174534--6174579 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6174524 TAAGCTACAG
* *
6174534 AACTCTGAATTGAGATCCGTA
1 AACTCCGAATTGAGATCCGAA
6174555 AACTCCGAATTGAGATCCGAA
1 AACTCCGAATTGAGATCCGAA
6174576 AACT
1 AACT
6174580 TTATATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTCCGAATTGAGATCCGAA
Found at i:6177613 original size:23 final size:25
Alignment explanation
Indices: 6177568--6177631 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
6177558 TCTTTGAAAG
*
6177568 GCCTTAGTGGCTAGTATTATGTGAT
1 GCCTTAGTGGCTAGTATTATGTGAC
* *
6177593 GCCTTTGTGGC-A-TATTTTGTGAC
1 GCCTTAGTGGCTAGTATTATGTGAC
*
6177616 GCCTAAGTGGCTAGTA
1 GCCTTAGTGGCTAGTA
6177632 ATTGATAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.56
24 2 0.06
25 12 0.38
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.38
Consensus pattern (25 bp):
GCCTTAGTGGCTAGTATTATGTGAC
Found at i:6187916 original size:15 final size:15
Alignment explanation
Indices: 6187881--6187935 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
6187871 AATAAGCTCA
6187881 TCATATA-ATATCTT
1 TCATATACATATCTT
6187895 TCATATACATATGCTT
1 TCATATACATAT-CTT
6187911 TC-TATATCATAT-TT
1 TCATATA-CATATCTT
*
6187925 CCATATA-ATAT
1 TCATATACATAT
6187936 GTACATTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.11
14 10 0.28
15 12 0.33
16 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (15 bp):
TCATATACATATCTT
Found at i:6188144 original size:25 final size:25
Alignment explanation
Indices: 6188116--6188231 Score: 105
Period size: 24 Copynumber: 4.8 Consensus size: 25
6188106 GTACTTTCTC
6188116 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * * * **
6188141 GAGCCATGTAACATGAAACTTATCC
1 GAGCCATATAACAGGAAGCTCATGT
**
6188166 GAG-C-TATAACAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATGT
* *
6188189 GAGCCATAT-TCAGGTAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
*
6188213 GAGCCA-ATAACAGGTAGCT
1 GAGCCATATAACAGGAAGCT
6188232 TCGAAGAGCT
Statistics
Matches: 71, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
23 18 0.25
24 28 0.39
25 25 0.35
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:6188440 original size:64 final size:64
Alignment explanation
Indices: 6188316--6188442 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 64
6188306 ACGAAGATCC
* *** * * * *
6188316 ATATATCAGGACGCTTTTAAAGAGCTACAGTATATCCGTAATACATGCAGGATCACTACCGATT
1 ATATAACAGGACGCTCACAAAGAGCTACAGTATATCCGCAACACATGCAGAATCAATACCGATT
* * * *
6188380 ATATAACAGGACGCTCACAAAGAGCTCCGGTATGTCCGCAACACATTCAGAATCAATACCGAT
1 ATATAACAGGACGCTCACAAAGAGCTACAGTATATCCGCAACACATGCAGAATCAATACCGAT
6188443 CGAGATGGTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (64 bp):
ATATAACAGGACGCTCACAAAGAGCTACAGTATATCCGCAACACATGCAGAATCAATACCGATT
Found at i:6190887 original size:170 final size:170
Alignment explanation
Indices: 6190605--6190946 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 170
6190595 GCCAGGGTAG
** * *
6190605 TAGTTCGAGTTGCGTTATTATACATATAGGGGACACCTTATGTATATGACGCTTTGTACTCCATG
1 TAGTTCGAGTTGCAATATTATACATATAGGGGACACCTTAGGAATATGACGCTTTGTACTCCATG
* *
6190670 CCATGAAAAGTCTATTTTTAACAAAATTTTAAGTTGTAACGTCATATGCCGTTTTTGAAAATCTG
66 CCATAAAAAGTCTATTTTTAACAAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTG
*
6190735 ATGTAATTATTAGGCATCCTCTTTCATTAATATTTTGTTC
131 ATGTAATTATTAGACATCCTCTTTCATTAATATTTTGTTC
* * *
6190775 TAGTTCGATTTGCAATATTATGCATATAGGGGACACCTTAGGAATATGGCGCTTAT-TACTCCAT
1 TAGTTCGAGTTGCAATATTATACATATAGGGGACACCTTAGGAATATGACGCTT-TGTACTCCAT
*
6190839 GCCATAAAAAGTCTATTTTTAACAAAGTTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCT
65 GCCATAAAAAGTCTATTTTTAACAAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCT
* *
6190904 GATGTAATTATTAGACATTCTCTTTCATTAATCTTTTGTTC
130 GATGTAATTATTAGACATCCTCTTTCATTAATATTTTGTTC
6190945 TA
1 TA
6190947 AGAATAGTAA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
170 157 0.99
171 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (170 bp):
TAGTTCGAGTTGCAATATTATACATATAGGGGACACCTTAGGAATATGACGCTTTGTACTCCATG
CCATAAAAAGTCTATTTTTAACAAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTG
ATGTAATTATTAGACATCCTCTTTCATTAATATTTTGTTC
Found at i:6191233 original size:130 final size:130
Alignment explanation
Indices: 6191000--6191257 Score: 426
Period size: 130 Copynumber: 2.0 Consensus size: 130
6190990 TTACGCCTGT
* * * * * *
6191000 AGTAAATTTTTTGTTGAATGTTTAAGTTTTGTAATAGTCGATATTCAGATTCGGTAATTTGGGTC
1 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
*
6191065 GGGTATAGGATGTTACAATATAAGTTTGTATAATTAAAGCTATAGACTATTTGCACCATGAACCC
66 GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAACCC
* *
6191130 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTTGATATTCGGATCCGGTAATTCGGGTC
1 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
*
6191195 GGGTATAGGATGTTACAGTATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAAC
66 GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAAC
6191258 ACAAGTATTA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 118 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (130 bp):
AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAACCC
Found at i:6201873 original size:11 final size:11
Alignment explanation
Indices: 6201857--6201900 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6201847 AATATCAATG
6201857 AGAAAAGAAGA
1 AGAAAAGAAGA
*
6201868 AGAAAACAAGAA
1 AGAAAAGAAG-A
*
6201880 ACAAAAGAAGA
1 AGAAAAGAAGA
*
6201891 AGGAAAGAAG
1 AGAAAAGAAG
6201901 CTTAAAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAGA
Found at i:6203745 original size:40 final size:40
Alignment explanation
Indices: 6203701--6203779 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
6203691 TACGTGGACA
**
6203701 CAAAGCGCGCTTACGAGGACGCGTTTTGCTGCCACGTAGG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
* * * *
6203741 CAAAGCGCGCCCCCGGGGCCGCGTTTTGTTGCCACGTAG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAG
6203780 CGTGCCCCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (40 bp):
CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
Found at i:6203793 original size:34 final size:34
Alignment explanation
Indices: 6203744--6203835 Score: 157
Period size: 34 Copynumber: 2.7 Consensus size: 34
6203734 ACGTAGGCAA
*
6203744 AGCGCGCCCCCGGGGCCGCGTTTTGTTGCCACGT
1 AGCGCGCCCCTGGGGCCGCGTTTTGTTGCCACGT
*
6203778 AGCGTGCCCCTGGGGCCGCGTTTTGTTGCCACGT
1 AGCGCGCCCCTGGGGCCGCGTTTTGTTGCCACGT
*
6203812 AGCGCGCCCCTGGGGACGCGTTTT
1 AGCGCGCCCCTGGGGCCGCGTTTT
6203836 TATCGTTTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.07, C:0.35, G:0.36, T:0.23
Consensus pattern (34 bp):
AGCGCGCCCCTGGGGCCGCGTTTTGTTGCCACGT
Found at i:6206914 original size:59 final size:59
Alignment explanation
Indices: 6206822--6206946 Score: 250
Period size: 59 Copynumber: 2.1 Consensus size: 59
6206812 CATTGTAAAC
6206822 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
6206881 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
6206940 AAATTAT
1 AAATTAT
6206947 TAATTGTTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (59 bp):
AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
Found at i:6207060 original size:22 final size:22
Alignment explanation
Indices: 6207014--6207151 Score: 176
Period size: 22 Copynumber: 6.4 Consensus size: 22
6207004 ACGTTTAGGG
*
6207014 TTAGGGTTTTTAAGTTAAG-GG
1 TTAGGGTTTTTAAGTTAAGAGT
6207035 TTAGGGTTTTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGAGT
**
6207057 TTAGGGTTTTTAAGTT--GTTT
1 TTAGGGTTTTTAAGTTAAGAGT
*
6207077 GTTAGGGTTTTTAAGTTAAGAAT
1 -TTAGGGTTTTTAAGTTAAGAGT
* *
6207100 TTAGGATTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGAGT
6207122 TTAGGGTTTTTAAGTTAA-AGT
1 TTAGGGTTTTTAAGTTAAGAGT
6207143 GTTAGGGTT
1 -TTAGGGTT
6207152 AGGGTTAGGG
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
20 2 0.02
21 37 0.36
22 61 0.60
23 2 0.02
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGAGT
Found at i:6207063 original size:43 final size:43
Alignment explanation
Indices: 6207014--6207151 Score: 197
Period size: 43 Copynumber: 3.2 Consensus size: 43
6207004 ACGTTTAGGG
6207014 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGT
**** *
6207057 TTAGGGTTTTTAAGTTGTTTGTTAGGGTTTTTAAGTTAAGAAT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGT
*
6207100 TTAGGATTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-AGT
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGAGT
6207143 GTTAGGGTT
1 -TTAGGGTT
6207152 AGGGTTAGGG
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
43 56 0.69
44 25 0.31
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGT
Found at i:6207302 original size:12 final size:12
Alignment explanation
Indices: 6207287--6207340 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
6207277 AGGGTTTGTC
6207287 AATTAAATTATA
1 AATTAAATTATA
*
6207299 AATTTAATTATA
1 AATTAAATTATA
6207311 AATTATAAATT-TA
1 AA-T-TAAATTATA
*
6207324 ATTATAAATTATA
1 AAT-TAAATTATA
6207337 AATT
1 AATT
6207341 TATAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 22 0.63
13 8 0.23
14 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:6207314 original size:19 final size:19
Alignment explanation
Indices: 6207290--6207342 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
6207280 GTTTGTCAAT
6207290 TAAATTATAAATTTAATTA
1 TAAATTATAAATTTAATTA
6207309 TAAATTATAAATTTAATTA
1 TAAATTATAAATTTAATTA
6207328 TAAATTATAAATTTA
1 TAAATTATAAATTTA
6207343 TAAATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTATAAATTTAATTA
Found at i:6207349 original size:8 final size:7
Alignment explanation
Indices: 6207290--6207348 Score: 81
Period size: 7 Copynumber: 8.9 Consensus size: 7
6207280 GTTTGTCAAT
6207290 TAAATTA
1 TAAATTA
6207297 TAAATT-
1 TAAATTA
6207303 T-AATTA
1 TAAATTA
6207309 TAAATTA
1 TAAATTA
6207316 TAAATT-
1 TAAATTA
6207322 T-AATTA
1 TAAATTA
6207328 TAAATTA
1 TAAATTA
6207335 TAAATTTA
1 TAAA-TTA
6207343 TAAATT
1 TAAATT
6207349 TTTAATAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
5 8 0.17
6 4 0.09
7 28 0.60
8 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:6207356 original size:26 final size:25
Alignment explanation
Indices: 6207304--6207360 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
6207294 TTATAAATTT
6207304 AATTATAAATTATAAATTTAATTATA
1 AATTATAAATTATAAATTT-ATTATA
6207330 AATTATAAATTTATAAATTT-TTAATA
1 AATTATAAA-TTATAAATTTATT-ATA
6207356 AATTA
1 AATTA
6207361 ATTTAGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 2 0.07
26 17 0.59
27 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTATAAATTATAAATTTATTATA
Found at i:6209724 original size:52 final size:52
Alignment explanation
Indices: 6209666--6209771 Score: 135
Period size: 52 Copynumber: 2.0 Consensus size: 52
6209656 TAATTTTTTT
6209666 AAAATAATA-AAAAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCA
1 AAAATAA-ACAAAAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCA
** * * *
6209718 AAAATAAACTTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCA
1 AAAATAAACAAAAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCA
6209770 AA
1 AA
6209772 TTGAGAACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.02
52 45 0.96
53 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.23
Consensus pattern (52 bp):
AAAATAAACAAAAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCA
Found at i:6209767 original size:22 final size:21
Alignment explanation
Indices: 6209739--6209814 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
6209729 AAATATGGAT
*
6209739 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGA-AAATTTGGAAGAAAA
*
6209761 TTGAGAGCAAA-TTGAGAA-CAAA
1 TTGAGA--AAATTTG-GAAGAAAA
6209783 TTGAGAACAATTT-GAGAGAAAA
1 TTGAGAA-AATTTGGA-AGAAAA
6209805 TTGAGAAAAT
1 TTGAGAAAAT
6209815 AATTGAGAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
20 3 0.07
21 6 0.13
22 30 0.67
23 6 0.13
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (21 bp):
TTGAGAAAATTTGGAAGAAAA
Found at i:6209774 original size:11 final size:11
Alignment explanation
Indices: 6209758--6209822 Score: 78
Period size: 11 Copynumber: 5.8 Consensus size: 11
6209748 ATTTGGAAGG
*
6209758 AAATTGAGAGC
1 AAATTGAGAAC
6209769 AAATTGAGAAC
1 AAATTGAGAAC
6209780 AAATTGAGAAC
1 AAATTGAGAAC
*
6209791 AATTTGAGAGA-
1 AAATTGAGA-AC
*
6209802 AAATTGAGAAA
1 AAATTGAGAAC
6209813 ATAATTGAGA
1 A-AATTGAGA
6209823 GGATTGGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
10 1 0.02
11 38 0.79
12 9 0.19
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.22
Consensus pattern (11 bp):
AAATTGAGAAC
Found at i:6212962 original size:15 final size:15
Alignment explanation
Indices: 6212937--6212982 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6212927 GTTTGGACGA
*
6212937 AAATTAACCAAACTT
1 AAATTAGCCAAACTT
*
6212952 GAATTAGCCAAACTT
1 AAATTAGCCAAACTT
*
6212967 AAATTGAGCAAAACTT
1 AAATT-AGCCAAACTT
6212983 CATTCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (15 bp):
AAATTAGCCAAACTT
Found at i:6215928 original size:3 final size:3
Alignment explanation
Indices: 6215922--6215978 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
6215912 AGAATAAAAA
* *
6215922 AAG AAG AAG -AG AAG AA- ATG GAG AAG AAG AAG AA- AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
6215966 GAG AAG AAT AAG A
1 AAG AAG AAG AAG A
6215979 GAAAATGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
2 7 0.16
3 36 0.84
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:6215950 original size:25 final size:25
Alignment explanation
Indices: 6215922--6215978 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6215912 AGAATAAAAA
*
6215922 AAGAAGAAGAGAAGAA-ATGGAGAAG
1 AAGAAGAAAAGAAGAAGA-GGAGAAG
6215947 AAGAAGAAAAGAAGAAGAGGAGAAG
1 AAGAAGAAAAGAAGAAGAGGAGAAG
*
6215972 AATAAGA
1 AAGAAGA
6215979 GAAAATGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (25 bp):
AAGAAGAAAAGAAGAAGAGGAGAAG
Found at i:6215959 original size:14 final size:14
Alignment explanation
Indices: 6215942--6215983 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
6215932 GAAGAAATGG
6215942 AGAAGAAGAAGAAA
1 AGAAGAAGAAGAAA
* *
6215956 AGAAGAAGAGGAGA
1 AGAAGAAGAAGAAA
*
6215970 AGAATAAG-AGAAA
1 AGAAGAAGAAGAAA
6215983 A
1 A
6215984 TGGTAGCTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (14 bp):
AGAAGAAGAAGAAA
Found at i:6215981 original size:11 final size:11
Alignment explanation
Indices: 6215922--6215973 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
6215912 AGAATAAAAA
6215922 AAGAAGAAGAG
1 AAGAAGAAGAG
*
6215933 AAGAA-ATGGAG
1 AAGAAGA-AGAG
*
6215944 AAGAAGAAGAA
1 AAGAAGAAGAG
6215955 AAGAAGAAGAG
1 AAGAAGAAGAG
*
6215966 GAGAAGAA
1 AAGAAGAA
6215974 TAAGAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (11 bp):
AAGAAGAAGAG
Found at i:6217295 original size:20 final size:20
Alignment explanation
Indices: 6217266--6217303 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6217256 CTAAAATCCA
*
6217266 AAACAACAAACCCTAAACTT
1 AAACAACAAACACTAAACTT
*
6217286 AAACACCAAACACTAAAC
1 AAACAACAAACACTAAAC
6217304 CCTTAAACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.32, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACAACAAACACTAAACTT
Found at i:6217437 original size:27 final size:28
Alignment explanation
Indices: 6217407--6217459 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6217397 CATGAACACT
* *
6217407 AAATATATAAT-ATCAACACTAAACCAA
1 AAATATAGAATCATAAACACTAAACCAA
*
6217434 AAATATAGAATCATAAACCCTAAACC
1 AAATATAGAATCATAAACACTAAACC
6217460 CTAAAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.21
Consensus pattern (28 bp):
AAATATAGAATCATAAACACTAAACCAA
Found at i:6217585 original size:20 final size:20
Alignment explanation
Indices: 6217529--6217602 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
6217519 CACTTAACCT
* * *
6217529 TAAACACTAAATCTAAAATAT
1 TAAACCCTAAA-CTTAAATAA
6217550 TAAACCCTGAAAACTTAAATAA
1 TAAACCCT--AAACTTAAATAA
* *
6217572 TAAACCCTAAACTTAAACAC
1 TAAACCCTAAACTTAAATAA
*
6217592 TAAACCATAAA
1 TAAACCCTAAA
6217603 TTCCAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 20 0.44
21 7 0.16
22 15 0.33
23 3 0.07
ACGTcount: A:0.55, C:0.20, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCCTAAACTTAAATAA
Found at i:6217737 original size:21 final size:20
Alignment explanation
Indices: 6217708--6217759 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
6217698 CTAAGGTCAA
6217708 AAACA-TAAACTAAAAACAC
1 AAACACTAAACTAAAAACAC
* *
6217727 TAAACACTAAATCTAGAATCAC
1 -AAACACTAAA-CTAAAAACAC
*
6217749 AAACCCTAAAC
1 AAACACTAAAC
6217760 CCTAAACTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 13 0.48
22 8 0.30
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.15
Consensus pattern (20 bp):
AAACACTAAACTAAAAACAC
Found at i:6217944 original size:7 final size:7
Alignment explanation
Indices: 6217932--6218014 Score: 58
Period size: 7 Copynumber: 11.9 Consensus size: 7
6217922 AATAATATCA
6217932 TAAACCT
1 TAAACCT
*
6217939 TAAACCC
1 TAAACCT
6217946 TAAACCT
1 TAAACCT
*
6217953 TAAACAT
1 TAAACCT
*
6217960 TAAATCT
1 TAAACCT
* *
6217967 AAAATCT
1 TAAACCT
*
6217974 TAAACCA
1 TAAACCT
*
6217981 TAAACCC
1 TAAACCT
* *
6217988 AAAACAT
1 TAAACCT
*
6217995 TAAACCC
1 TAAACCT
* *
6218002 AAAACAT
1 TAAACCT
6218009 TAAACC
1 TAAACC
6218015 CAAAACCATA
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:6217951 original size:14 final size:14
Alignment explanation
Indices: 6217932--6218026 Score: 73
Period size: 14 Copynumber: 6.8 Consensus size: 14
6217922 AATAATATCA
6217932 TAAACCTTAAACCC
1 TAAACCTTAAACCC
**
6217946 TAAACCTTAAACAT
1 TAAACCTTAAACCC
* * * *
6217960 TAAATCTAAAATCT
1 TAAACCTTAAACCC
*
6217974 TAAACCATAAACCC
1 TAAACCTTAAACCC
* *
6217988 AAAACATTAAACCC
1 TAAACCTTAAACCC
* *
6218002 AAAACATTAAACCC
1 TAAACCTTAAACCC
* *
6218016 AAAACCATAAA
1 TAAACCTTAAA
6218027 TAAAAATATA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 65 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:6217985 original size:35 final size:35
Alignment explanation
Indices: 6217937--6218061 Score: 105
Period size: 35 Copynumber: 3.6 Consensus size: 35
6217927 TATCATAAAC
* *
6217937 CTTAAACCCTAAACCTTAAACATTAAATCTAAAAT
1 CTTAAACCATAAACCATAAACATTAAATCTAAAAT
* *
6217972 CTTAAACCATAAACCCA-AAACATTAAACCCAAAA-
1 CTTAAACCATAAA-CCATAAACATTAAATCTAAAAT
* * * *
6218006 CATTAAACCCA-AAACCATAAATA-AAAATATAGAAT
1 C-TTAAA-CCATAAACCATAAACATTAAATCTAAAAT
* *
6218041 CTCAAACCATAAACAATAAAC
1 CTTAAACCATAAACCATAAAC
6218062 CATAATAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
33 3 0.04
34 23 0.32
35 40 0.56
36 5 0.07
ACGTcount: A:0.55, C:0.24, G:0.01, T:0.20
Consensus pattern (35 bp):
CTTAAACCATAAACCATAAACATTAAATCTAAAAT
Found at i:6218276 original size:7 final size:7
Alignment explanation
Indices: 6218266--6218293 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6218256 AATCTAAAAT
6218266 CATAAAC
1 CATAAAC
6218273 CATAAAC
1 CATAAAC
6218280 CATAAAC
1 CATAAAC
6218287 CATAAAC
1 CATAAAC
6218294 TTAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (7 bp):
CATAAAC
Found at i:6218537 original size:22 final size:23
Alignment explanation
Indices: 6218501--6218543 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6218491 AAATCATAAA
* *
6218501 TAATAAACCATAAACCCTAAAAT
1 TAATAAACCACAAACACTAAAAT
6218524 TAATAAA-CACAAACACTAAA
1 TAATAAACCACAAACACTAAA
6218544 CCTTTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (23 bp):
TAATAAACCACAAACACTAAAAT
Found at i:6218641 original size:14 final size:14
Alignment explanation
Indices: 6218624--6218725 Score: 53
Period size: 14 Copynumber: 7.1 Consensus size: 14
6218614 ACCTAAACCC
*
6218624 TAAACCTTAAATTA
1 TAAACCTTAAACTA
* *
6218638 TAAACATAAAACTA
1 TAAACCTTAAACTA
* *
6218652 TAAACCATAAACTC
1 TAAACCTTAAACTA
* *
6218666 TAAATCTAAAATCT-
1 TAAACCTTAAA-CTA
* *
6218680 TAAACATTAAACATT
1 TAAACCTTAAAC-TA
* **
6218695 TAAAATCTTAAACCC
1 T-AAACCTTAAACTA
*
6218710 TAAACCCTAAACTA
1 TAAACCTTAAACTA
6218724 TA
1 TA
6218726 CACTCAAATA
Statistics
Matches: 63, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
13 1 0.02
14 49 0.78
15 4 0.06
16 9 0.14
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAACTA
Found at i:6219307 original size:43 final size:43
Alignment explanation
Indices: 6219209--6219307 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
6219199 TATGTGAAAA
6219209 AAACGCTACTAAAGAACATGACCTTTAACGACGCTTTACCCAC
1 AAACGCTACTAAAGAACATGACCTTTAACGACGCTTTACCCAC
* ** * * *
6219252 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCAC
1 AAACGCTACTAAAGAACATGACCTTTAACGACGC-TTTACCCAC
*
6219295 AAACACTACTAAA
1 AAACGCTACTAAA
6219308 TAACTTTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.22
Consensus pattern (43 bp):
AAACGCTACTAAAGAACATGACCTTTAACGACGCTTTACCCAC
Found at i:6222308 original size:27 final size:27
Alignment explanation
Indices: 6222265--6222317 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6222255 CCATAAAATA
*
6222265 AAAACCTAAGATAAAACTAGAAACCTT
1 AAAACCTAAGATAAAACCAGAAACCTT
* *
6222292 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAGATA-AAACCAGAAACCT
6222318 AAACTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAACCTAAGATAAAACCAGAAACCTT
Found at i:6222490 original size:20 final size:20
Alignment explanation
Indices: 6222467--6222641 Score: 69
Period size: 20 Copynumber: 8.8 Consensus size: 20
6222457 AAACTAAACC
6222467 ATAAACATAAACCCTAAAAT
1 ATAAACATAAACCCTAAAAT
* *
6222487 ATAAGCATAAACCCT-AATT
1 ATAAACATAAACCCTAAAAT
* * * * **
6222506 AT-ATCTTAAATCTTAAACC
1 ATAAACATAAACCCTAAAAT
* * * *
6222525 CTAAACCTAAACTC-AAACAC
1 ATAAACATAAACCCTAAA-AT
*
6222545 A-AAGCACTAAACCCT-AAAT
1 ATAAACA-TAAACCCTAAAAT
*
6222564 ATAAATCATAAACCAT-AAAT
1 ATAAA-CATAAACCCTAAAAT
* * *
6222584 ATAAACCTTAAACACTATAAT
1 ATAAA-CATAAACCCTAAAAT
*
6222605 -TATATCATAAACCCT-AAAT
1 ATA-AACATAAACCCTAAAAT
*
6222624 ATAAACCCTAAACCCTAA
1 ATAAA-CATAAACCCTAA
6222642 TAAAAAACTA
Statistics
Matches: 110, Mismatches: 33, Indels: 23
0.66 0.20 0.14
Matches are distributed among these distances:
18 8 0.07
19 20 0.18
20 75 0.68
21 7 0.06
ACGTcount: A:0.51, C:0.23, G:0.01, T:0.24
Consensus pattern (20 bp):
ATAAACATAAACCCTAAAAT
Found at i:6222629 original size:13 final size:13
Alignment explanation
Indices: 6222611--6222635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6222601 TAATTATATC
6222611 ATAAACCCTAAAT
1 ATAAACCCTAAAT
6222624 ATAAACCCTAAA
1 ATAAACCCTAAA
6222636 CCCTAATAAA
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:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAACCCTAAAT
Found at i:6222649 original size:20 final size:20
Alignment explanation
Indices: 6222551--6222660 Score: 64
Period size: 20 Copynumber: 5.6 Consensus size: 20
6222541 ACACAAAGCA
* *
6222551 CTAAACCCTAAATATAAATC
1 CTAAACCCTAAATAAAAACC
* * *
6222571 ATAAACCATAAATATAAACC
1 CTAAACCCTAAATAAAAACC
* * * * *
6222591 TTAAACACTATAAT-TATATC
1 CTAAACCCTA-AATAAAAACC
* *
6222611 ATAAACCCTAAATATAAACC
1 CTAAACCCTAAATAAAAACC
*
6222631 CTAAACCCT-AATAAAAA-A
1 CTAAACCCTAAATAAAAACC
*
6222649 CTAAACCATAAA
1 CTAAACCCTAAA
6222661 CATAAACTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.11
19 12 0.17
20 48 0.68
21 3 0.04
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAAACCCTAAATAAAAACC
Found at i:6222759 original size:21 final size:22
Alignment explanation
Indices: 6222735--6222814 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 22
6222725 CACTAAACCT
6222735 TAAA-TTATAAACCCTAAAATA
1 TAAACTTATAAACCCTAAAATA
*
6222756 TAAACCTTA-AAACCATAAAA-A
1 TAAA-CTTATAAACCCTAAAATA
* *
6222777 TAAACTT-TAAACCTTACAAT-
1 TAAACTTATAAACCCTAAAATA
6222797 TAAAC--ATAAACCCTAAAA
1 TAAACTTATAAACCCTAAAA
6222815 CTAGAATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.20
20 17 0.35
21 9 0.18
22 10 0.20
23 3 0.06
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACTTATAAACCCTAAAATA
Found at i:6222773 original size:15 final size:14
Alignment explanation
Indices: 6222728--6222767 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6222718 CACTAAACAC
*
6222728 TAAACCTTAAATTA
1 TAAACCTTAAAATA
*
6222742 TAAACCCTAAAATA
1 TAAACCTTAAAATA
6222756 TAAACCTTAAAA
1 TAAACCTTAAAA
6222768 CCATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:6223087 original size:18 final size:19
Alignment explanation
Indices: 6223054--6223090 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
6223044 AAAAATCAAC
6223054 CATAAACACTATAATTATAT
1 CATAAACAC-ATAATTATAT
6223074 CATAAACA-ATAATTATA
1 CATAAACACATAATTATA
6223091 AACCGTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (19 bp):
CATAAACACATAATTATAT
Found at i:6223100 original size:40 final size:40
Alignment explanation
Indices: 6223009--6223118 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
6222999 TCTTAAACCC
* * * * **
6223009 TAAACCCTAAACATTATACTTATATTATAAACCCTAAAAA
1 TAAACCATAAACACTATAATTATATCATAAACAATAAAAA
* **
6223049 TCAACCATAAACACTATAATTATATCATAAACAATAATTA
1 TAAACCATAAACACTATAATTATATCATAAACAATAAAAA
* * *
6223089 TAAACCGTAAAC-C-CTAATTATATCCTAAAC
1 TAAACCATAAACACTATAATTATATCATAAAC
6223119 CTTAAACCCT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 15 0.26
39 1 0.02
40 41 0.72
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (40 bp):
TAAACCATAAACACTATAATTATATCATAAACAATAAAAA
Found at i:6223119 original size:18 final size:18
Alignment explanation
Indices: 6223064--6223119 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
6223054 CATAAACACT
* *
6223064 ATAATTATATCATAAACA
1 ATAATTATATCCTAAACC
*
6223082 ATAATTATAAACCGTAAACC
1 ATAATTAT-ATCC-TAAACC
*
6223102 CTAATTATATCCTAAACC
1 ATAATTATATCCTAAACC
6223120 TTAAACCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 14 0.45
19 5 0.16
20 12 0.39
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATTATATCCTAAACC
Found at i:6223140 original size:21 final size:21
Alignment explanation
Indices: 6223114--6223174 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
6223104 AATTATATCC
6223114 TAAACCTTAAACCCTAAACCT
1 TAAACCTTAAACCCTAAACCT
* *
6223135 TAAACCATTAAACCTTATA-CT
1 TAAACC-TTAAACCCTAAACCT
*
6223156 TAAA-TTATAAACCCTAAAC
1 TAAACCT-TAAACCCTAAAC
6223175 TCAAACCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.03
20 9 0.28
21 12 0.38
22 10 0.31
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACCT
Found at i:6223147 original size:8 final size:7
Alignment explanation
Indices: 6223114--6223151 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
6223104 AATTATATCC
6223114 TAAACCT
1 TAAACCT
*
6223121 TAAACCC
1 TAAACCT
6223128 TAAACCT
1 TAAACCT
6223135 TAAACCAT
1 TAAACC-T
6223143 TAAACCT
1 TAAACCT
6223150 TA
1 TA
6223152 TACTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:6223200 original size:20 final size:21
Alignment explanation
Indices: 6223177--6223220 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
6223167 CCCTAAACTC
6223177 AAACCATCAAA-CCTAAA-TAT
1 AAACCAT-AAATCCTAAATTAT
*
6223197 AAACCGTAAATCCTAAATTAT
1 AAACCATAAATCCTAAATTAT
6223218 AAA
1 AAA
6223221 TACTAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.57
21 6 0.29
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (21 bp):
AAACCATAAATCCTAAATTAT
Found at i:6223233 original size:14 final size:14
Alignment explanation
Indices: 6223185--6223241 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
6223175 TCAAACCATC
6223185 AAACC-TAAATA-T
1 AAACCATAAATACT
* *
6223197 AAACCGTAAATCCT
1 AAACCATAAATACT
**
6223211 AAATTATAAATACT
1 AAACCATAAATACT
*
6223225 AAACCATAAAGACT
1 AAACCATAAATACT
6223239 AAA
1 AAA
6223242 ACTAAAATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 5 0.14
13 5 0.14
14 25 0.71
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.23
Consensus pattern (14 bp):
AAACCATAAATACT
Found at i:6223294 original size:20 final size:20
Alignment explanation
Indices: 6223271--6223368 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 20
6223261 ACCCAACAAT
*
6223271 TAAATTCTAAACCCT-AACCC
1 TAAA-TCTAAACCCTAAACCA
*
6223291 TAAACTCTAAACCTTAAACCA
1 TAAA-TCTAAACCCTAAACCA
*
6223312 TAAATCTAAACTC-AAA-CA
1 TAAATCTAAACCCTAAACCA
*
6223330 TAAAATACTAAACCCTAAA-TA
1 T-AAAT-CTAAACCCTAAACCA
*
6223351 TAAATCATAAACCGTAAA
1 TAAATC-TAAACCCTAAA
6223369 TATAAACCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.05
19 8 0.12
20 41 0.63
21 13 0.20
ACGTcount: A:0.51, C:0.24, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAATCTAAACCCTAAACCA
Found at i:6223308 original size:27 final size:26
Alignment explanation
Indices: 6223278--6223328 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
6223268 AATTAAATTC
* *
6223278 TAAACCCTAACCCTAAACTCTAAACCT
1 TAAACCATAAACCTAAACTC-AAACCT
*
6223305 TAAACCATAAATCTAAACTCAAAC
1 TAAACCATAAACCTAAACTCAAAC
6223329 ATAAAATACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (26 bp):
TAAACCATAAACCTAAACTCAAACCT
Found at i:6223369 original size:20 final size:20
Alignment explanation
Indices: 6223338--6223427 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
6223328 CATAAAATAC
6223338 TAAACCCTAAATATAAATCA
1 TAAACCCTAAATATAAATCA
* * *
6223358 TAAACCGTAAATATAAACCT
1 TAAACCCTAAATATAAATCA
* * *
6223378 TAAACACTGTAAT-TATATCA
1 TAAACCCT-AAATATAAATCA
* * *
6223398 TAAACCCTAAACATAAACCC
1 TAAACCCTAAATATAAATCA
6223418 TAAACCCTAA
1 TAAACCCTAA
6223428 TAAAAAACTA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
19 2 0.04
20 48 0.91
21 3 0.06
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAATATAAATCA
Found at i:6223414 original size:13 final size:13
Alignment explanation
Indices: 6223396--6223422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6223386 GTAATTATAT
6223396 CATAAACCCTAAA
1 CATAAACCCTAAA
6223409 CATAAACCCTAAA
1 CATAAACCCTAAA
6223422 C
1 C
6223423 CCTAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (13 bp):
CATAAACCCTAAA
Found at i:6223435 original size:20 final size:20
Alignment explanation
Indices: 6223398--6223456 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
6223388 AATTATATCA
*
6223398 TAAACCCTAAACATAAACCC
1 TAAACCCTAAACAAAAACCC
6223418 TAAACCCTAATA-AAAAA--C
1 TAAACCCTAA-ACAAAAACCC
* *
6223436 TAAACCATAAACATAAACCC
1 TAAACCCTAAACAAAAACCC
6223456 T
1 T
6223457 TATAAACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 1 0.03
18 14 0.44
20 16 0.50
21 1 0.03
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAACCCTAAACAAAAACCC
Found at i:6223439 original size:31 final size:31
Alignment explanation
Indices: 6223404--6223462 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6223394 ATCATAAACC
*
6223404 CTAAA-CATAAACCCTAAACCCTAATAAAAAA
1 CTAAACCATAAA-CATAAACCCTAATAAAAAA
*
6223435 CTAAACCATAAACATAAACCCTTATAAA
1 CTAAACCATAAACATAAACCCTAATAAA
6223463 CCCTAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (31 bp):
CTAAACCATAAACATAAACCCTAATAAAAAA
Found at i:6223575 original size:20 final size:20
Alignment explanation
Indices: 6223518--6223589 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
6223508 CCTTTAATTA
*
6223518 TAAACACTAAAATCTAAACCT
1 TAAACCCTAAAAT-TAAACCT
* * *
6223539 TAAAACATAAAAATAAACCT
1 TAAACCCTAAAATTAAACCT
* *
6223559 TAAACCCTACAATTAAA-CA
1 TAAACCCTAAAATTAAACCT
*
6223578 GAAACCCTAAAA
1 TAAACCCTAAAA
6223590 CTAGAATTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 11 0.28
20 20 0.50
21 9 0.22
ACGTcount: A:0.57, C:0.22, G:0.01, T:0.19
Consensus pattern (20 bp):
TAAACCCTAAAATTAAACCT
Found at i:6223813 original size:40 final size:39
Alignment explanation
Indices: 6223763--6223846 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
6223753 CCTTAAACCC
* * **
6223763 TAAACCTAAACATTATAATTATATTATAAACCCTAAATA
1 TAAACCTAAACACTATAATTATATCATAAACAATAAATA
*
6223802 TAAACCTTAAACACTATAATTATATCGTAAACAATAAATA
1 TAAACC-TAAACACTATAATTATATCATAAACAATAAATA
6223842 TAAAC
1 TAAAC
6223847 TGTAAAAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.31
Consensus pattern (39 bp):
TAAACCTAAACACTATAATTATATCATAAACAATAAATA
Found at i:6223832 original size:20 final size:20
Alignment explanation
Indices: 6223769--6223834 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
6223759 ACCCTAAACC
* *
6223769 TAAACATTATAATTATATTA
1 TAAACACTATAATTATATCA
* * * *
6223789 TAAACCCTA-AATATAAACCT
1 TAAACACTATAAT-TATATCA
*
6223809 TAAACACTATAATTATATCG
1 TAAACACTATAATTATATCA
6223829 TAAACA
1 TAAACA
6223835 ATAAATATAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAACACTATAATTATATCA
Done.