Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 320 of 373
Found at i:107773003 original size:36 final size:37
Alignment explanation
Indices: 107772874--107773005 Score: 132
Period size: 36 Copynumber: 3.7 Consensus size: 37
107772864 ATCTTTATTG
* * *
107772874 TTCAGTAACAGTC-AGTCA-TCAGTAATAATCAATTA
1 TTCAGTAACAGTCGAGTTATTCAGTAACAGTCAATTA
* * * *
107772909 TTCAGTAACGGTCG-TTTATTCAATATCAGTCAATTA
1 TTCAGTAACAGTCGAGTTATTCAGTAACAGTCAATTA
* *
107772945 TTCAGTAGCAG-CCAGTTATTCAGTAACAGTC-ATTGA
1 TTCAGTAACAGTCGAGTTATTCAGTAACAGTCAATT-A
107772981 TTCAGTAACAGTCGA-TTATTCAGTA
1 TTCAGTAACAGTCGAGTTATTCAGTA
107773006 GTGGTTAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
35 18 0.23
36 57 0.74
37 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (37 bp):
TTCAGTAACAGTCGAGTTATTCAGTAACAGTCAATTA
Found at i:107773202 original size:6 final size:6
Alignment explanation
Indices: 107773191--107773222 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
107773181 ACAAATCCAG
*
107773191 AACAGT AACAGT AATAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
107773223 GGTACGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:107773251 original size:63 final size:59
Alignment explanation
Indices: 107773134--107773267 Score: 180
Period size: 63 Copynumber: 2.2 Consensus size: 59
107773124 TACACAGCAT
* *
107773134 CAGTAACAGTAATAGTAGCAGTACGGTACATAGAGTACCTCATCGGAACAAATCCAGAA
1 CAGTAACAGTAATAGTAACAGTACAGTACATAGAGTACCTCATCGGAACAAATCCAGAA
* *
107773193 CAGTAACAGTAATAGTAACAGTAACAGTA-AGGTACGGAGTACCTCTTCGGAACAAATCCGGAA
1 CAGTAACAGTAATAGTAACAGT-ACAGTACA--TA--GAGTACCTCATCGGAACAAATCCAGAA
107773256 CAGTAACAGTAA
1 CAGTAACAGTAA
107773268 GGCGACACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
59 22 0.33
60 5 0.08
61 2 0.03
63 37 0.56
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (59 bp):
CAGTAACAGTAATAGTAACAGTACAGTACATAGAGTACCTCATCGGAACAAATCCAGAA
Found at i:107775907 original size:15 final size:14
Alignment explanation
Indices: 107775875--107775941 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
107775865 CCAGAAAAGT
107775875 AAATCATTTTCCAG
1 AAATCATTTTCCAG
107775889 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
* *
107775904 AAATTATTTTTCAG
1 AAATCATTTTCCAG
*
107775918 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
107775932 AAAACATTTT
1 AAATCATTTT
107775942 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:107776798 original size:33 final size:33
Alignment explanation
Indices: 107776756--107776818 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
107776746 CCATTTGGTC
*
107776756 TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
1 TAATTTCATTTTAAAACATCCTATTAAAAGGTA
*
107776789 TAATTTCATTTTAGAACATCCTATTAAAAG
1 TAATTTCATTTTAAAACATCCTATTAAAAG
107776819 AACAACAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (33 bp):
TAATTTCATTTTAAAACATCCTATTAAAAGGTA
Found at i:107782691 original size:15 final size:16
Alignment explanation
Indices: 107782668--107782700 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
107782658 AAAGGTCTAC
*
107782668 AAGTTAAAA-TAAATA
1 AAGTGAAAAGTAAATA
107782683 AAGTGAAAAGTAAATA
1 AAGTGAAAAGTAAATA
107782699 AA
1 AA
107782701 TTAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAGTGAAAAGTAAATA
Found at i:107782795 original size:28 final size:28
Alignment explanation
Indices: 107782764--107782817 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
107782754 ATTAAATAGT
*
107782764 TAAATAAAAGT-ATAAAAATTAAAATAAA
1 TAAAT-AAAGTAATAAAAAATAAAATAAA
107782792 TAAATAAAGTAATAAAAAATAAAATA
1 TAAATAAAGTAATAAAAAATAAAATA
107782818 TAGATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (28 bp):
TAAATAAAGTAATAAAAAATAAAATAAA
Found at i:107785756 original size:16 final size:17
Alignment explanation
Indices: 107785725--107785757 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107785715 TTTATAAGTA
107785725 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
107785742 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
107785758 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:107786267 original size:46 final size:46
Alignment explanation
Indices: 107786038--107786265 Score: 298
Period size: 46 Copynumber: 5.0 Consensus size: 46
107786028 TTATCTTTGA
* * * * *
107786038 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
107786084 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
107786130 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATGT
* *
107786176 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
107786222 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
107786266 ATCAGAGAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.03
46 155 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:107790613 original size:3 final size:3
Alignment explanation
Indices: 107790605--107790638 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
107790595 TTGCTTTAGA
107790605 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
107790639 TTGCATCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:107791278 original size:5 final size:5
Alignment explanation
Indices: 107791268--107791302 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
107791258 AAATTTGTAA
* *
107791268 TATAT TATAT TATAT TATAT TATTT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
107791303 AAATTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TATAT
Found at i:107800961 original size:29 final size:29
Alignment explanation
Indices: 107800929--107800989 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
107800919 AAAAATAGTA
*
107800929 AAAACTTGATTTAACCCTTTAAAAATGAT
1 AAAACTTGACTTAACCCTTTAAAAATGAT
* * *
107800958 AAAATTTGACTTAACTCTTTAAAAATTAT
1 AAAACTTGACTTAACCCTTTAAAAATGAT
107800987 AAA
1 AAA
107800990 GATATAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAACTTGACTTAACCCTTTAAAAATGAT
Found at i:107802862 original size:11 final size:11
Alignment explanation
Indices: 107802848--107802896 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
107802838 ATATCCAAAT
*
107802848 AATAACATCAA
1 AATAATATCAA
*
107802859 AATAGTATCAA
1 AATAATATCAA
*
107802870 TATAATATCAA
1 AATAATATCAA
* *
107802881 AATGATAGCAA
1 AATAATATCAA
107802892 AATAA
1 AATAA
107802897 CGAAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.24
Consensus pattern (11 bp):
AATAATATCAA
Found at i:107803354 original size:22 final size:21
Alignment explanation
Indices: 107803316--107803373 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
107803306 TTAATTATTA
107803316 TAAAATATAATTATTATAAATT
1 TAAAATATAATT-TTATAAATT
*
107803338 TAAATATATAATTTTATATATT
1 TAAA-ATATAATTTTATAAATT
107803360 TAAAATA-AATTTTA
1 TAAAATATAATTTTA
107803374 ATTGAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 16 0.47
23 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATATAATTTTATAAATT
Found at i:107810623 original size:23 final size:20
Alignment explanation
Indices: 107810597--107810648 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
107810587 TATATTATTA
107810597 AAAATATATATTTAAATTGTAAT
1 AAAATATATATTT--ATTGT-AT
107810620 AAAAT-TAATATTTATTGTAT
1 AAAATAT-ATATTTATTGTAT
*
107810640 AAAAAATAT
1 AAAATATAT
107810649 GTTGAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 8 0.31
21 6 0.23
22 1 0.04
23 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AAAATATATATTTATTGTAT
Found at i:107810644 original size:21 final size:22
Alignment explanation
Indices: 107810595--107810648 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
107810585 ATTATATTAT
107810595 TAAAAATATATATTTAAATTGTAA
1 TAAAAATATATATTT-AATTGT-A
*
107810619 TAAAATTA-ATATTT-ATTGTA
1 TAAAAATATATATTTAATTGTA
107810639 TAAAAA-ATAT
1 TAAAAATATAT
107810649 GTTGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 5 0.19
23 6 0.22
24 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAAATATATATTTAATTGTA
Found at i:107812697 original size:43 final size:43
Alignment explanation
Indices: 107812644--107812826 Score: 303
Period size: 43 Copynumber: 4.3 Consensus size: 43
107812634 CGCCACAAAA
* *
107812644 CTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAATGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
*
107812687 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCTCACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
107812730 CTAAAGGTCATGGCCTTTAACGGCGCTTTTCCTACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
*
107812773 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAATGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
107812816 CTAAATGTCAT
1 CTAAATGTCAT
107812827 AAATTCAAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
Found at i:107813123 original size:18 final size:19
Alignment explanation
Indices: 107813086--107813126 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
107813076 ATTTAGAATC
107813086 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
107813105 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
107813123 AAAA
1 AAAA
107813127 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:107813128 original size:31 final size:31
Alignment explanation
Indices: 107813052--107813125 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
107813042 TCAAATTATC
*
107813052 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
107813084 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
107813114 TTAAATATAAAA
1 TTAAATATAAAA
107813126 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:107814921 original size:12 final size:12
Alignment explanation
Indices: 107814904--107814928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107814894 ATCTATATAC
107814904 AGAAGATATTAA
1 AGAAGATATTAA
107814916 AGAAGATATTAA
1 AGAAGATATTAA
107814928 A
1 A
107814929 ACGCATAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AGAAGATATTAA
Found at i:107818412 original size:7 final size:7
Alignment explanation
Indices: 107818402--107818485 Score: 55
Period size: 7 Copynumber: 12.0 Consensus size: 7
107818392 CCATAAACAT
107818402 TAAACCC
1 TAAACCC
107818409 TAAACCC
1 TAAACCC
107818416 TAAACCC
1 TAAACCC
*
107818423 CAAACCC
1 TAAACCC
* *
107818430 TTACACCT
1 -TAAACCC
107818438 TAAACTCC
1 TAAAC-CC
*
107818446 --AACCA
1 TAAACCC
*
107818451 TAACCCC
1 TAAACCC
*
107818458 TAAACCT
1 TAAACCC
* *
107818465 TAAATCA
1 TAAACCC
*
107818472 TAATCCC
1 TAAACCC
107818479 TAAACCC
1 TAAACCC
107818486 ATAATTCATC
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 47 0.84
8 5 0.09
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:107818419 original size:21 final size:22
Alignment explanation
Indices: 107818364--107818420 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
107818354 ACTAATTAAT
* *
107818364 CTAAACCCTAAACTTCTTAACCC
1 CTAAACCCTAAAC-TATTAAACC
*
107818387 CT-ATCCCATAAAC-ATTAAACC
1 CTAAACCC-TAAACTATTAAACC
107818408 CTAAACCCTAAAC
1 CTAAACCCTAAAC
107818421 CCCAAACCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 13 0.46
22 8 0.29
23 7 0.25
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (22 bp):
CTAAACCCTAAACTATTAAACC
Found at i:107818427 original size:21 final size:21
Alignment explanation
Indices: 107818403--107818463 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
107818393 CATAAACATT
107818403 AAACCCTAAACCCTAAACCCC
1 AAACCCTAAACCCTAAACCCC
* * *
107818424 AAACCCTTACACCTTAAACTCC
1 AAACCC-TAAACCCTAAACCCC
* *
107818446 -AACCATAACCCCTAAACC
1 AAACCCTAAACCCTAAACC
107818464 TTAAATCATA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 9 0.29
21 10 0.32
22 12 0.39
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACCCC
Found at i:107818554 original size:14 final size:14
Alignment explanation
Indices: 107818537--107818615 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
107818527 CCTTAATCCC
107818537 TAAACCATATATCT
1 TAAACCATATATCT
*
107818551 TAAACCATAGTTAACTCA
1 TAAACCATA--T-A-TCT
* * * *
107818569 TAAACCTTAAACCC
1 TAAACCATATATCT
107818583 TAAACCATATATCT
1 TAAACCATATATCT
* *
107818597 TAAACCATAAACCT
1 TAAACCATATATCT
107818611 TAAAC
1 TAAAC
107818616 TGTAATGAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 37 0.74
15 1 0.02
16 1 0.02
17 1 0.02
18 10 0.20
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (14 bp):
TAAACCATATATCT
Found at i:107818564 original size:46 final size:46
Alignment explanation
Indices: 107818512--107818605 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
107818502 CTTCAAATAC
* *
107818512 TAGTTAACTCTTAAACCTTAATCCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
107818558 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
107818604 TA
1 TA
107818606 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:107818598 original size:21 final size:21
Alignment explanation
Indices: 107818528--107818609 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
107818518 ACTCTTAAAC
* *
107818528 CTTAATCCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
107818549 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
107818574 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
107818595 CTTAAACCATAAACC
1 CTTAAACCATAAACC
107818610 TTAAACTGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 28 0.57
22 3 0.06
24 3 0.06
25 15 0.31
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:107818840 original size:41 final size:41
Alignment explanation
Indices: 107818778--107819020 Score: 321
Period size: 41 Copynumber: 5.9 Consensus size: 41
107818768 TTATATGACT
* * *
107818778 TTTAGCAGCGTTTTACAAAAAGCGCCGCTAATGCTATGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
107818819 TTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTTGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
107818860 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
107818901 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
107818942 TTT-GCGGCGTTTTTTTACTAAAA-CGCCGCTATTGCTCT-GTT
1 TTTAGCGGCG---TTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
107818983 TTTAGCAGCGTTTTACCAAAAACGCCGCTATTGCTCTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
107819021 TATTTTACAA
Statistics
Matches: 183, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 10 0.05
40 21 0.11
41 124 0.68
42 18 0.10
43 10 0.05
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:107823239 original size:11 final size:11
Alignment explanation
Indices: 107823223--107823252 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
107823213 CATTGTGAAA
107823223 AAAATAAAATT
1 AAAATAAAATT
107823234 AAAATAAAATT
1 AAAATAAAATT
107823245 AAAATAAA
1 AAAATAAA
107823253 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:107827902 original size:18 final size:18
Alignment explanation
Indices: 107827881--107827915 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
107827871 TCTAACAAAC
* *
107827881 ATATTAAATTTTTATTCA
1 ATATCAAATTTTAATTCA
107827899 ATATCAAATTTTAATTC
1 ATATCAAATTTTAATTC
107827916 GGTTGAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATCAAATTTTAATTCA
Found at i:107829020 original size:20 final size:20
Alignment explanation
Indices: 107828997--107829055 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
107828987 AACTCTTTAA
107828997 AAAATAATTTAACTTGATTG
1 AAAATAATTTAACTTGATTG
*
107829017 AAAA-AATTCTAACATGATTG
1 AAAATAATT-TAACTTGATTG
*
107829037 -AAATCATTTTAACTTGATT
1 AAAAT-AATTTAACTTGATT
107829056 TGGAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 23 0.70
21 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAATAATTTAACTTGATTG
Found at i:107829326 original size:15 final size:15
Alignment explanation
Indices: 107829303--107829341 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
107829293 CTTTTAATTT
* *
107829303 TTTTCTTTCTTTCTTC
1 TTTT-TTTCTTGCTTA
107829319 TTTTTTTCTTGCTTA
1 TTTTTTTCTTGCTTA
107829334 TTTTTTTC
1 TTTTTTTC
107829342 ATCTTATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTTTCTTGCTTA
Found at i:107834195 original size:22 final size:22
Alignment explanation
Indices: 107834167--107834211 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
107834157 GGGTAAGAGG
107834167 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
107834189 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
107834211 T
1 T
107834212 AACATGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (22 bp):
TGTTACATTATCATCTAACACC
Found at i:107834221 original size:22 final size:21
Alignment explanation
Indices: 107834171--107834216 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
107834161 AAGAGGTGTT
*
107834171 ACATTATCATCTAACACCTGTT
1 ACATTATCATCTAACACC-GTA
107834193 ACATTATCATCTAACACC-TA
1 ACATTATCATCTAACACCGTA
107834213 ACAT
1 ACAT
107834217 GTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATTATCATCTAACACCGTA
Found at i:107836777 original size:21 final size:23
Alignment explanation
Indices: 107836730--107836783 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
107836720 CATTCAAGAT
**
107836730 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
107836753 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
107836774 AAAAT-ATATA
1 AAAATAATATA
107836784 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:107836830 original size:25 final size:24
Alignment explanation
Indices: 107836792--107836904 Score: 65
Period size: 24 Copynumber: 4.6 Consensus size: 24
107836782 TAATGTGTAA
*
107836792 AAAAAGTTTGAAAT-ACATAATATAT
1 AAAAA-TTTAAAATAAC-TAATATAT
* *
107836817 GAAAATATTAAAATAACTAATGTAT
1 AAAAAT-TTAAAATAACTAATATAT
*
107836842 AAAAATTTAAAATGAGCGT--TATAT
1 AAAAATTTAAAAT-AAC-TAATATAT
* *
107836866 AAAAAGTTAAAATAGA-TAATA-ACA
1 AAAAATTTAAAATA-ACTAATATA-T
*
107836890 AAAAATGTAAAATAA
1 AAAAATTTAAAATAA
107836905 ATAAATAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 38 0.55
25 24 0.35
26 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAAATTTAAAATAACTAATATAT
Found at i:107837016 original size:15 final size:15
Alignment explanation
Indices: 107836992--107837037 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
107836982 ATATAAATAG
*
107836992 AAATAAAAATATAAT
1 AAATAGAAATATAAT
107837007 AAATAGAAATATAAT
1 AAATAGAAATATAAT
107837022 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
107837038 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:107837025 original size:23 final size:23
Alignment explanation
Indices: 107836959--107837025 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
107836949 TATAAGAAAA
*
107836959 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
107836979 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
107837002 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
107837025 A
1 A
107837026 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:107837057 original size:15 final size:14
Alignment explanation
Indices: 107836984--107837064 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
107836974 ATATTAGTAT
*
107836984 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
107836997 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
107837013 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
107837027 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
107837042 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
107837057 ATAAATAA
1 ATAAATAA
107837065 TAATGGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 17 0.31
15 32 0.58
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:107837672 original size:5 final size:5
Alignment explanation
Indices: 107837619--107837665 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
107837609 CTAATTTAAT
107837619 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
107837666 AATAAAAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:107838303 original size:44 final size:44
Alignment explanation
Indices: 107838255--107838391 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
107838245 ATCTGCTCCA
*
107838255 CTACTACTTATGGAGATAAGATCTGTCATTTTCAGCCTGTTTCC
1 CTACTACTTAAGGAGATAAGATCTGTCATTTTCAGCCTGTTTCC
* * * ** * ** *
107838299 CTACTACTTAGGGGGATAAG-GCTCACCGTTTTCAATCTG-CTCC
1 CTACTACTTAAGGAGATAAGATCT-GTCATTTTCAGCCTGTTTCC
* * * *
107838342 ACTACTGCTTAAGGAGATAAGATGTGTAATTTTCAGCCTATTTCC
1 -CTACTACTTAAGGAGATAAGATCTGTCATTTTCAGCCTGTTTCC
107838387 CTACT
1 CTACT
107838392 GTTTAGAGGA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 5 0.07
44 58 0.87
45 4 0.06
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (44 bp):
CTACTACTTAAGGAGATAAGATCTGTCATTTTCAGCCTGTTTCC
Found at i:107838340 original size:88 final size:88
Alignment explanation
Indices: 107838161--107838499 Score: 394
Period size: 88 Copynumber: 3.8 Consensus size: 88
107838151 GTCTTCGATT
* * * *
107838161 TGCTCTACTACTACTTAGGGAGATAAAATCTGTAATTTTCAGCC-ATTTCCCTATTGCTTAGGGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
* * * *
107838225 GATAAGTCTCACTGTCTTCGATC
66 GATAAGGCTCACCGTTTTCAATC
* * *
107838248 TGCTCCACTACTACTTATGGAGATAAGATCTGTCATTTTCAGCCTGTTTCCCTACTACTTAGGGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
107838313 GATAAGGCTCACCGTTTTCAATC
66 GATAAGGCTCACCGTTTTCAATC
* * * ** *
107838336 TGCTCCACTACTGCTTAAGGAGATAAGATGTGTAATTTTCAGCCTATTTCCCTACTGTTTAGAGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
* * *
107838401 AATAAGGCTCACCATTTTCAACC
66 GATAAGGCTCACCGTTTTCAATC
* * * * * * *
107838424 TACTCCACTACTACTTAGGGAGATATGGTGGTCTGTCATTTTTAGCCT-GTTCCTTACTACTTAG
1 TGCTCCACTACTACTTAGGGAGATA---AGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAG
107838488 GGGGATAAGGCT
63 GGGGATAAGGCT
107838500 AGTGGCTTAA
Statistics
Matches: 212, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
87 40 0.19
88 135 0.64
90 22 0.10
91 15 0.07
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (88 bp):
TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
GATAAGGCTCACCGTTTTCAATC
Found at i:107838435 original size:44 final size:44
Alignment explanation
Indices: 107838299--107838448 Score: 112
Period size: 44 Copynumber: 3.4 Consensus size: 44
107838289 GCCTGTTTCC
* * * * * *
107838299 CTACTACTTAGGGGGATAAGGCTCACCGTTTTCAATCTGCTCCA
1 CTACTGCTTAAGGAGATAAGGCTCACCATTTTCAACCTACTCCA
* * *
107838343 CTACTGCTTAAGGAGATAAGATG-TGTA--ATTTTCAGCCTATTTCC-
1 CTACTGCTTAAGGAGATAAG--GCT-CACCATTTTCAACCTA-CTCCA
*
107838387 CTACTGTTTAGAGGA-ATAAGGCTCACCATTTTCAACCTACTCCA
1 CTACTGCTTA-AGGAGATAAGGCTCACCATTTTCAACCTACTCCA
* *
107838431 CTACTACTTAGGGAGATA
1 CTACTGCTTAAGGAGATA
107838449 TGGTGGTCTG
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.03
43 7 0.09
44 61 0.76
45 8 0.10
46 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAAGGAGATAAGGCTCACCATTTTCAACCTACTCCA
Found at i:107845386 original size:21 final size:23
Alignment explanation
Indices: 107845339--107845392 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
107845329 CATTCAAGAT
**
107845339 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
107845362 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
107845383 AAAAT-ATATA
1 AAAATAATATA
107845393 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:107845439 original size:25 final size:24
Alignment explanation
Indices: 107845401--107845513 Score: 65
Period size: 24 Copynumber: 4.6 Consensus size: 24
107845391 TAATGTGTAA
*
107845401 AAAAAGTTTGAAAT-ACATAATATAT
1 AAAAA-TTTAAAATAAC-TAATATAT
* *
107845426 GAAAATATTAAAATAACTAATGTAT
1 AAAAAT-TTAAAATAACTAATATAT
*
107845451 AAAAATTTAAAATGAGCGT--TATAT
1 AAAAATTTAAAAT-AAC-TAATATAT
* *
107845475 AAAAAGTTAAAATAGA-TAATA-ACA
1 AAAAATTTAAAATA-ACTAATATA-T
*
107845499 AAAAATGTAAAATAA
1 AAAAATTTAAAATAA
107845514 ATAAATAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 38 0.55
25 24 0.35
26 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAAATTTAAAATAACTAATATAT
Found at i:107845625 original size:15 final size:15
Alignment explanation
Indices: 107845601--107845646 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
107845591 ATATAAATAG
*
107845601 AAATAAAAATATAAT
1 AAATAGAAATATAAT
107845616 AAATAGAAATATAAT
1 AAATAGAAATATAAT
107845631 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
107845647 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:107845634 original size:23 final size:23
Alignment explanation
Indices: 107845568--107845634 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
107845558 TATAAGAAAA
*
107845568 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
107845588 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
107845611 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
107845634 A
1 A
107845635 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:107845666 original size:15 final size:14
Alignment explanation
Indices: 107845593--107845673 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
107845583 ATATTAGTAT
*
107845593 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
107845606 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
107845622 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
107845636 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
107845651 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
107845666 ATAAATAA
1 ATAAATAA
107845674 TAATGGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 17 0.31
15 32 0.58
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:107850201 original size:9 final size:9
Alignment explanation
Indices: 107850187--107850228 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
107850177 TCTTATATTT
107850187 TTTTTTTAC
1 TTTTTTTAC
107850196 TTTTTTTAC
1 TTTTTTTAC
*
107850205 TTTTTTAAC
1 TTTTTTTAC
107850214 -TTTTTTAC
1 TTTTTTTAC
107850222 TTTTTTT
1 TTTTTTT
107850229 CTTATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:107850210 original size:17 final size:18
Alignment explanation
Indices: 107850187--107850228 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
107850177 TCTTATATTT
107850187 TTTTTTTACTTTTTTTAC
1 TTTTTTTACTTTTTTTAC
*
107850205 TTTTTTAAC-TTTTTTAC
1 TTTTTTTACTTTTTTTAC
107850222 TTTTTTT
1 TTTTTTT
107850229 CTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTACTTTTTTTAC
Found at i:107850313 original size:36 final size:36
Alignment explanation
Indices: 107850244--107850317 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
107850234 ATTTTGCCTC
*
107850244 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
107850281 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
107850317 T
1 T
107850318 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:107850322 original size:18 final size:17
Alignment explanation
Indices: 107850271--107850318 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
107850261 TTTTTTAAGT
*
107850271 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
107850289 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
107850307 TTTATATTATTA
1 TTTATATTATTA
107850319 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:107850373 original size:23 final size:21
Alignment explanation
Indices: 107850347--107850393 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
107850337 TATATATTTA
*
107850347 AAATGTTTTATAATATTTTTTTT
1 AAAT-TTTTA-AATATTATTTTT
*
107850370 AAATTTTTAATTATTATTTTT
1 AAATTTTTAAATATTATTTTT
107850391 AAA
1 AAA
107850394 AATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 5 0.23
23 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
AAATTTTTAAATATTATTTTT
Found at i:107850376 original size:21 final size:21
Alignment explanation
Indices: 107850352--107850393 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
107850342 ATTTAAAATG
*
107850352 TTTTATAA-TATTTTTTTTAAA
1 TTTT-TAATTATTATTTTTAAA
107850373 TTTTTAATTATTATTTTTAAA
1 TTTTTAATTATTATTTTTAAA
107850394 AATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTATTATTTTTAAA
Found at i:107850396 original size:23 final size:24
Alignment explanation
Indices: 107850307--107850401 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 24
107850297 ACTTATTTAA
* *
107850307 TTTATATTATTAATTTTAAAAAAT
1 TTTATATTATTATTTTTAAAATAT
* *
107850331 TTGTA-A-TA-TATATTTAAAATGT
1 TT-TATATTATTATTTTTAAAATAT
* *
107850353 TTTATAATATT-TTTTTTAAAT-T
1 TTTATATTATTATTTTTAAAATAT
107850375 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
107850399 TTT
1 TTT
107850402 TTAACTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
21 7 0.12
22 23 0.41
23 16 0.29
24 8 0.14
25 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:107850836 original size:21 final size:23
Alignment explanation
Indices: 107850810--107850860 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
107850800 CTTATTATTA
* *
107850810 ATATTT-AAAAGTT-TGTAATGT
1 ATATTTGAAAAGTTCTATAATAT
*
107850831 ATATTTGAAATGTTCTATAATAT
1 ATATTTGAAAAGTTCTATAATAT
107850854 ATATTTG
1 ATATTTG
107850861 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
22 6 0.24
23 13 0.52
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (23 bp):
ATATTTGAAAAGTTCTATAATAT
Found at i:107850949 original size:22 final size:23
Alignment explanation
Indices: 107850916--107850960 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
107850906 TGTATATTTC
107850916 TAAAATTAATTTTTGAAA-ATTA
1 TAAAATTAATTTTTGAAATATTA
*
107850938 TAAATATT-ATTTTTTAAATATTA
1 TAAA-ATTAATTTTTGAAATATTA
107850961 ACCATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAAATTAATTTTTGAAATATTA
Found at i:107850951 original size:23 final size:22
Alignment explanation
Indices: 107850916--107850960 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
107850906 TGTATATTTC
107850916 TAAAATTAATTTTTGAAA-ATTA
1 TAAAATTAATTTTT-AAATATTA
*
107850938 TAAATATTATTTTTTAAATATTA
1 TAAA-ATTAATTTTTAAATATTA
107850961 ACCATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAAATTAATTTTTAAATATTA
Found at i:107851158 original size:10 final size:9
Alignment explanation
Indices: 107851139--107851246 Score: 67
Period size: 10 Copynumber: 11.6 Consensus size: 9
107851129 AAATTCTATG
107851139 TAAAAT-TT
1 TAAAATATT
*
107851147 AAAAATATT
1 TAAAATATT
107851156 TAAAATCATT
1 TAAAAT-ATT
107851166 TAAAATATT
1 TAAAATATT
*
107851175 AAAAAATATT
1 -TAAAATATT
*
107851185 TTAAATCATT
1 TAAAAT-ATT
*
107851195 TTAAATCATT
1 TAAAAT-ATT
* *
107851205 TTAAATGTTT
1 TAAAAT-ATT
*
107851215 TATAATATT
1 TAAAATATT
*
107851224 AAAAATATAT
1 TAAAATAT-T
*
107851234 T-TAATATT
1 TAAAATATT
107851242 TAAAA
1 TAAAA
107851247 AATATTTTGA
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
8 7 0.09
9 29 0.37
10 43 0.54
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
TAAAATATT
Found at i:107851210 original size:29 final size:29
Alignment explanation
Indices: 107851139--107851200 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
107851129 AAATTCTATG
*
107851139 TAAAAT-TT-AAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
107851166 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
107851195 TTAAAT
1 TAAAAT
107851201 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 2 0.06
29 23 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:107851229 original size:19 final size:19
Alignment explanation
Indices: 107851217--107851253 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
107851207 AAATGTTTTA
107851217 TAATA-TTAAAAATATATT
1 TAATATTTAAAAATATATT
107851235 TAATATTTAAAAA-ATATT
1 TAATATTTAAAAATATATT
107851253 T
1 T
107851254 TGAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTTAAAAATATATT
Found at i:107851261 original size:13 final size:13
Alignment explanation
Indices: 107851243--107851267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107851233 TTTAATATTT
107851243 AAAAAATATTTTG
1 AAAAAATATTTTG
107851256 AAAAAATATTTT
1 AAAAAATATTTT
107851268 TAATATTTAT
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:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTG
Found at i:107853713 original size:26 final size:24
Alignment explanation
Indices: 107853683--107853732 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
107853673 AAATAAAAAA
*
107853683 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
107853709 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
107853733 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:107853752 original size:21 final size:21
Alignment explanation
Indices: 107853703--107853761 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
107853693 ATAATAAATC
*
107853703 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
107853723 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
107853745 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
107853762 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:107853838 original size:15 final size:16
Alignment explanation
Indices: 107853808--107853840 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
107853798 AAATGGTTAT
107853808 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
107853825 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
107853840 A
1 A
107853841 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:107855380 original size:30 final size:30
Alignment explanation
Indices: 107855344--107855446 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
107855334 CCTATATCCA
*
107855344 GGTGATATGAACTCAAACCACCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
107855374 GGTGATATGAACTCGAACCACCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
* * *
107855404 GATGATATGAACTCGAACCATCTATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
*
107855434 GGTTATATGAACT
1 GGTGATATGAACT
107855447 GCTCTAGGAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCACCCATGTCCG
Found at i:107858478 original size:18 final size:18
Alignment explanation
Indices: 107858436--107858482 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
107858426 TAAAAAAAAA
*
107858436 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
107858453 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
107858469 ATATTTAAATTTAT
1 ATATTTAAATTTAT
107858483 TAATAGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:107858618 original size:22 final size:24
Alignment explanation
Indices: 107858590--107858637 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
107858580 AAAAGAATTT
107858590 AAAAATAATATT-T-AAA-ATTTTA
1 AAAAAT-ATATTATAAAACATTTTA
107858612 AAAAATATATTATAAAACATTTTA
1 AAAAATATATTATAAAACATTTTA
107858636 AA
1 AA
107858638 TATACATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 3 0.13
24 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATATATTATAAAACATTTTA
Found at i:107858654 original size:21 final size:23
Alignment explanation
Indices: 107858603--107858660 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
107858593 AATAATATTT
*
107858603 AAAATTTTAAAAAATATATTATA
1 AAAATTTTAAAAAATACATTATA
* *
107858626 AAACATTTT-AAATATACATTACA
1 AAA-ATTTTAAAAAATACATTATA
*
107858649 AAATTTTTAAAA
1 AAAATTTTAAAA
107858661 TTAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.14
23 20 0.69
24 5 0.17
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTTAAAAAATACATTATA
Found at i:107858786 original size:27 final size:28
Alignment explanation
Indices: 107858756--107858819 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
107858746 TTTAAAAAAA
* * *
107858756 TATTTAAAATATTATGAT-TTCTTATAT-
1 TATTTAAAAAATTATAATCTT-TTAAATG
107858783 TA-TTAAAAAATTATAATCTTTTAAATG
1 TATTTAAAAAATTATAATCTTTTAAATG
107858810 TATTTAAAAA
1 TATTTAAAAA
107858820 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 18 0.58
27 6 0.19
28 7 0.23
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (28 bp):
TATTTAAAAAATTATAATCTTTTAAATG
Found at i:107858821 original size:27 final size:26
Alignment explanation
Indices: 107858756--107858821 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
107858746 TTTAAAAAAA
* *
107858756 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
*
107858783 TATTAAAAAATTATAATCTT-TTAAAT
1 TATTTAAAAATTATAAT-TTCTTAAAT
107858809 GTATTTAAAAATT
1 -TATTTAAAAATT
107858822 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:107859420 original size:18 final size:18
Alignment explanation
Indices: 107859370--107859421 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
107859360 AAATTTTTTA
*
107859370 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
107859388 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
107859406 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
107859422 ACTTAAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:107859477 original size:9 final size:9
Alignment explanation
Indices: 107859463--107859495 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
107859453 AAATATAAGA
107859463 AAAAAAAGT
1 AAAAAAAGT
107859472 AAAAAAA-T
1 AAAAAAAGT
107859480 AAAAAAAGT
1 AAAAAAAGT
107859489 AAAAAAA
1 AAAAAAA
107859496 ATATAAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:107859498 original size:18 final size:17
Alignment explanation
Indices: 107859463--107859495 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
107859453 AAATATAAGA
107859463 AAAAAAAGTAAAAAAAT
1 AAAAAAAGTAAAAAAAT
107859480 AAAAAAAGTAAAAAAA
1 AAAAAAAGTAAAAAAA
107859496 ATATAAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAGTAAAAAAAT
Found at i:107859708 original size:24 final size:24
Alignment explanation
Indices: 107859668--107859740 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
107859658 GGTAAGACAT
*
107859668 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCATCTCTTCACCC
* *
107859692 TTTCCACTGTTCATCTCTTCACCC
1 TTTCCACAGCTCATCTCTTCACCC
* *
107859716 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCATCTCTTCACCC
107859740 T
1 T
107859741 ATCGATTGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.14, C:0.45, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCATCTCTTCACCC
Found at i:107859956 original size:13 final size:13
Alignment explanation
Indices: 107859938--107859962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107859928 CAAATGGGTA
107859938 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
107859951 GTTTTCTGCAAA
1 GTTTTCTGCAAA
107859963 CAGTTTCTAG
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:107886187 original size:21 final size:21
Alignment explanation
Indices: 107886130--107886181 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
107886120 AACTATATTA
107886130 TAAATATTTA-AATATA-ACTAT
1 TAAATATTTATAAT-TAGA-TAT
107886151 TAAATATTTATAATTAGATAT
1 TAAATATTTATAATTAGATAT
107886172 TAACATATTT
1 TAA-ATATTT
107886182 GTATTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATATTTATAATTAGATAT
Found at i:107887098 original size:30 final size:30
Alignment explanation
Indices: 107887054--107887116 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
107887044 ACTTAACAAG
* *
107887054 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
* *
107887084 CAAATGTCTTTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
107887114 CAA
1 CAA
107887117 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAACAAAATTAA
Found at i:107887878 original size:251 final size:251
Alignment explanation
Indices: 107887435--107887936 Score: 959
Period size: 251 Copynumber: 2.0 Consensus size: 251
107887425 TTATGTTTAT
*
107887435 GAGAAGTTATATTATACACAGTTTCAAGTTTTATTTTCATAACCCTCCGTTGACGGGTATTAAAA
1 GAGAAGTTATATTATACACAGTTTCAAGTTTTATTTTCATAACCCTCCATTGACGGGTATTAAAA
107887500 AACTAGTTGATCGCTGTCTCTCTCTTCTAGTTATTCACATGCTGAATATTCAAGTTTGACCCAAC
66 AACTAGTTGATCGCTGTCTCTCTCTTCTAGTTATTCACATGCTGAATATTCAAGTTTGACCCAAC
*
107887565 CAAATCCTACTATCCGTATCTTCTCATTCACCTTACAACCATTTTTAATATAAAAAGTTTTTCTG
131 CAAATCCTACTATCCGTATCTTCTCATTCACCTTACAACCATTTTTAATATAAAAAGTTTTTCCG
* *
107887630 AAAACATTCTGTAACGGCCCAAATTTCAGTGATATCGGAATAGTGATATTAGATCA
196 AAAACATTCTGTAACGGCCCAAATTTCAGTGATATCAGAATAGTGATATGAGATCA
107887686 GAGAAGTTATATTATACACAGTTTCAAGTTTTATTTTCATAACCCTCCATTGACGGGTATTAAAA
1 GAGAAGTTATATTATACACAGTTTCAAGTTTTATTTTCATAACCCTCCATTGACGGGTATTAAAA
107887751 AACTAGTTGATCGCTGTCTCTCTCTTCTAGTTATTCACATGCTGAATATTCAAGTTTGACCCAAC
66 AACTAGTTGATCGCTGTCTCTCTCTTCTAGTTATTCACATGCTGAATATTCAAGTTTGACCCAAC
*
107887816 CAAATCCTACTATTCGTATCTTCTCATTCACCTTACAACCATTTTTAATATAAAAAGTTTTTCCG
131 CAAATCCTACTATCCGTATCTTCTCATTCACCTTACAACCATTTTTAATATAAAAAGTTTTTCCG
107887881 AAAACATTCTGTAACGGCCCAAATTTCAGTGATATCAGAATAGTGATATGAGATCA
196 AAAACATTCTGTAACGGCCCAAATTTCAGTGATATCAGAATAGTGATATGAGATCA
107887937 CTAAATCCGA
Statistics
Matches: 246, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 246 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (251 bp):
GAGAAGTTATATTATACACAGTTTCAAGTTTTATTTTCATAACCCTCCATTGACGGGTATTAAAA
AACTAGTTGATCGCTGTCTCTCTCTTCTAGTTATTCACATGCTGAATATTCAAGTTTGACCCAAC
CAAATCCTACTATCCGTATCTTCTCATTCACCTTACAACCATTTTTAATATAAAAAGTTTTTCCG
AAAACATTCTGTAACGGCCCAAATTTCAGTGATATCAGAATAGTGATATGAGATCA
Found at i:107888479 original size:9 final size:9
Alignment explanation
Indices: 107888465--107888504 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
107888455 GGCCTCTCTA
107888465 TTTTTTCTT
1 TTTTTTCTT
107888474 TTTTTTC-T
1 TTTTTTCTT
*
107888482 CTTTTTCTT
1 TTTTTTCTT
107888491 TTTTTTCCTT
1 TTTTTT-CTT
107888501 TTTT
1 TTTT
107888505 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 7 0.26
9 13 0.48
10 7 0.26
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:107888488 original size:17 final size:16
Alignment explanation
Indices: 107888466--107888503 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
107888456 GCCTCTCTAT
107888466 TTTTTCTTTTTTTTCTC
1 TTTTTCTTTTTTTTC-C
107888483 TTTTTCTTTTTTTTCC
1 TTTTTCTTTTTTTTCC
107888499 TTTTT
1 TTTTT
107888504 TGAAATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTCC
Found at i:107891706 original size:23 final size:23
Alignment explanation
Indices: 107891624--107891710 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
107891614 CCTGATCAGT
*
107891624 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
107891646 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
107891666 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
107891689 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
107891711 TCGATAAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:107892105 original size:15 final size:15
Alignment explanation
Indices: 107892080--107892137 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
107892070 TCATATATAT
107892080 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
107892096 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
107892111 AATAATTTCAATCAA
1 TATAAATTCAATCAA
107892126 TATAAATTCAAT
1 TATAAATTCAAT
107892138 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:107893425 original size:5 final size:5
Alignment explanation
Indices: 107893415--107893448 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
107893405 TTACTTATTT
*
107893415 ATATA ATATA ATATA ATAATA ATATC ATATA ATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATA
107893449 ACAATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:107893438 original size:16 final size:16
Alignment explanation
Indices: 107893417--107893449 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
107893407 ACTTATTTAT
107893417 ATAATATAATATAATA
1 ATAATATAATATAATA
*
107893433 ATAATATCATATAATA
1 ATAATATAATATAATA
107893449 A
1 A
107893450 CAATTTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATATAATATAATA
Found at i:107893461 original size:16 final size:16
Alignment explanation
Indices: 107893419--107893453 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
107893409 TTATTTATAT
* *
107893419 AATATAATATAATAAT
1 AATATCATATAATAAC
107893435 AATATCATATAATAAC
1 AATATCATATAATAAC
107893451 AAT
1 AAT
107893454 TTCTTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATCATATAATAAC
Found at i:107893580 original size:21 final size:22
Alignment explanation
Indices: 107893541--107893591 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
107893531 CATACAATTG
*
107893541 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
107893563 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
107893583 ATAAAATAA
1 TTAAAATAA
107893592 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:107893782 original size:19 final size:22
Alignment explanation
Indices: 107893758--107893804 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
107893748 ATCCTTTCCA
107893758 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
107893777 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
107893798 CTAATTA
1 CTAATTA
107893805 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:107898590 original size:20 final size:20
Alignment explanation
Indices: 107898545--107898584 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
107898535 AATATGAAAG
107898545 TATAT-ATATGTAAAAATAA
1 TATATAATATGTAAAAATAA
*
107898564 TATATAATATGTATAAATAA
1 TATATAATATGTAAAAATAA
107898584 T
1 T
107898585 TAATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TATATAATATGTAAAAATAA
Found at i:107899262 original size:19 final size:19
Alignment explanation
Indices: 107899216--107899288 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
107899206 TTAAATCTCC
*
107899216 AAGATTACAAGATCATATCTT
1 AAGATTAC-ATATCATATC-T
107899237 CAAGATTACATATCATATCT
1 -AAGATTACATATCATATCT
*
107899257 AAGATTGCATATCATATCT
1 AAGATTACATATCATATCT
*
107899276 AAGATTGCATATC
1 AAGATTACATATC
107899289 CTTAAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
19 31 0.63
20 1 0.02
21 9 0.18
22 8 0.16
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
AAGATTACATATCATATCT
Found at i:107900758 original size:52 final size:52
Alignment explanation
Indices: 107900649--107900808 Score: 164
Period size: 52 Copynumber: 3.1 Consensus size: 52
107900639 TGACGGAAAA
* * ** * *
107900649 GATGTGATATATGATTCCGTATAAGACCATAGCCGGGCTATGGCATCAGTAC
1 GATGTGATATGTGATTCCATATAAGACCATAGTTGGGCTATGGCATCGGTAT
* *
107900701 AATGTGAT-TGGTG-TTCCCATATAAGACCATAGTTGGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGATT-CCATATAAGACCATAGTTGGGCTATGGCATCGGTAT
** *
107900753 GATGTGATAATGTGATTCTGTATAAGACCATA-TCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCATATAAGACCATAGT-TGGGCTATGGCATCGGTAT
107900806 GAT
1 GAT
107900809 ATGTGATCCG
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
51 3 0.03
52 47 0.53
53 36 0.40
54 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCATATAAGACCATAGTTGGGCTATGGCATCGGTAT
Found at i:107900827 original size:46 final size:52
Alignment explanation
Indices: 107900652--107900829 Score: 126
Period size: 52 Copynumber: 3.5 Consensus size: 52
107900642 CGGAAAAGAT
* ** * * ***
107900652 GTGAT-ATATGATTCCGTATAAGACCATAGCCGGGCTATGGCATCAGTACAA
1 GTGATAATGTGATTCCGTATAAGACCATAGTTGGGATATGGCATCGGTGTGA
* *
107900703 TGTGAT--TGGTG-TTCCCATATAAGACCATAGTTGGGCTATGGCATCGGTGTGA
1 -GTGATAAT-GTGATT-CCGTATAAGACCATAGTTGGGATATGGCATCGGTGTGA
*
107900755 TGTGATAATGTGATTCTGTATAAGACCATA-TCTGGGATATGGCATC-G-GT-A
1 -GTGATAATGTGATTCCGTATAAGACCATAGT-TGGGATATGGCATCGGTGTGA
*
107900805 -TGAT-ATGTGA-TCCGTGTAAGACCAT
1 GTGATAATGTGATTCCGTATAAGACCAT
107900830 GACAGGGCTA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
46 13 0.12
47 6 0.06
48 4 0.04
50 1 0.01
51 5 0.05
52 46 0.43
53 29 0.27
54 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (52 bp):
GTGATAATGTGATTCCGTATAAGACCATAGTTGGGATATGGCATCGGTGTGA
Found at i:107900842 original size:46 final size:48
Alignment explanation
Indices: 107900757--107900849 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 48
107900747 CGGTGTGATG
* *
107900757 TGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGTA
1 TGATAATGTGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTA
* * *
107900805 TGAT-ATGTGA-TCCGTGTAAGACCATGA-CAGGGCTATGGCTTCGGT
1 TGATAATGTGATTCCGTATAAGACCAT-ATCAGGGATATGGCATCGGT
107900850 GTGTGATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 28 0.72
47 7 0.18
48 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
TGATAATGTGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTA
Found at i:107905929 original size:5 final size:5
Alignment explanation
Indices: 107905906--107905944 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
107905896 AGTATTCCAA
107905906 TTTAT TATTAT TATTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
107905945 ATAAATTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:107916784 original size:21 final size:21
Alignment explanation
Indices: 107916758--107916807 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
107916748 NNNNNNNNNN
107916758 CGACACACGAGGTGCCTGATA
1 CGACACACGAGGTGCCTGATA
107916779 CGACACACGAGGTGCCTGATA
1 CGACACACGAGGTGCCTGATA
107916800 --ACACACGA
1 CGACACACGA
107916808 CACTGATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.28
21 21 0.72
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.12
Consensus pattern (21 bp):
CGACACACGAGGTGCCTGATA
Found at i:107917221 original size:15 final size:15
Alignment explanation
Indices: 107917196--107917252 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
107917186 TCATGTATAT
107917196 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
107917212 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
107917227 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
107917241 TATAAATTCAAT
1 TATAAATTCAAT
107917253 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.34
15 21 0.55
16 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:107917237 original size:29 final size:27
Alignment explanation
Indices: 107917199--107917256 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
107917189 TGTATATTAT
107917199 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATTCAAT-AA
107917227 ATAATTTCAATCAATATAAATTCAATAA
1 ATAA-TTCAATCAATATAAATTCAATAA
107917255 AT
1 AT
107917257 TCATCGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATTCAATAA
Found at i:107917495 original size:19 final size:19
Alignment explanation
Indices: 107917456--107917491 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
107917446 TGACTACGAA
*
107917456 ATTAATACAATTCATAATC
1 ATTAATACAATTAATAATC
107917475 ATTAATAC-ATTAATAAT
1 ATTAATACAATTAATAAT
107917492 TCATATCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAATACAATTAATAATC
Found at i:107920717 original size:34 final size:34
Alignment explanation
Indices: 107920677--107920741 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
107920667 GGGTTTAAGT
107920677 AATTAATTAAATTAAAATTTAGGGTTTTTAAGAA
1 AATTAATTAAATTAAAATTTAGGGTTTTTAAGAA
***
107920711 AATTAATTAAATTAGGGTTTAGGGTTTTTAA
1 AATTAATTAAATTAAAATTTAGGGTTTTTAA
107920742 AATAATTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (34 bp):
AATTAATTAAATTAAAATTTAGGGTTTTTAAGAA
Found at i:107920731 original size:25 final size:30
Alignment explanation
Indices: 107920666--107920731 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 30
107920656 TTAGGTTTTA
107920666 AGGGTTTAAGTAATTAATTAAATTAAAATTT
1 AGGGTTTAAGTAA-TAATTAAATTAAAATTT
107920697 AGGGTTTTTAAG-AA-AATT-AATT-AAA-TT
1 AGGG--TTTAAGTAATAATTAAATTAAAATTT
107920724 AGGGTTTA
1 AGGGTTTA
107920732 GGGTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
25 4 0.12
27 6 0.18
28 3 0.09
29 4 0.12
30 4 0.12
31 4 0.12
32 2 0.06
33 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (30 bp):
AGGGTTTAAGTAATAATTAAATTAAAATTT
Found at i:107921056 original size:120 final size:120
Alignment explanation
Indices: 107920829--107921330 Score: 588
Period size: 123 Copynumber: 4.1 Consensus size: 120
107920819 GATTTTGTTT
* * *
107920829 TTTTTCTACAGTAGTTTCTGAAAAATTAATTATGAGAAGACAATTCTAAAAAATAGTGACAAAAA
1 TTTTTCTACAGTAGTTTCT-AAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGT--C-AAAA
* * *
107920894 CACTTCAAGCAGGATACACTATCA--ACAAAGTACTG-AAAAGCTCCCACGTGGATGCTC
62 CACTTCAAGCAGGATGCACTATCAGTA-AAATTACTGAAAAAGCTCCCACGTGGACGCTC
* *
107920951 -TTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAAT-GTCAAAACAC
1 TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCT-AAAAAATAGTCAAAACAC
* * *
107921014 TTCAAGCAGTATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
65 TTCAAGCAGGATGCACTATCAGTAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
* * * * * * *
107921071 TTTTTATACAGTAGTTCCT-GAAAATAATTTTGAGAAGGCGGTTTTGAAAAAATAATATCAAAAC
1 TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCT-AAAAAAT-A-GTCAAAAC
* * * * *
107921135 GCTTCAAACATGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
63 ACTTCAAGCAGGATGCACTATCAGTAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
*
107921194 TTTTTCTACAGTA-TTTCCTAAAAATTAATTTTGAGAAGACGATTCTAAAAAATAGTATCAAAAC
1 TTTTTCTACAGTAGTTT-CTAAAAAATAATTTTGAGAAGACGATTCTAAAAAATAG--TCAAAAC
*
107921258 GCTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAGCTCCCA-GTGGACGCTC
63 ACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
*
107921315 TTTTTCTATAGTAGTT
1 TTTTTCTACAGTAGTT
107921331 CCTGCTTGGC
Statistics
Matches: 331, Mismatches: 35, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
117 25 0.08
118 9 0.03
119 1 0.00
120 76 0.23
121 63 0.19
122 17 0.05
123 119 0.36
124 21 0.06
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (120 bp):
TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGTCAAAACACT
TCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
Found at i:107926162 original size:18 final size:18
Alignment explanation
Indices: 107926122--107926164 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
107926112 GACTGGGAAA
* *
107926122 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
107926140 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
107926158 CGGATAC
1 AGGATAC
107926165 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:107926686 original size:7 final size:7
Alignment explanation
Indices: 107926676--107926701 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
107926666 TTATATACAT
107926676 AATACTA
1 AATACTA
107926683 AATACTA
1 AATACTA
107926690 AATACTA
1 AATACTA
107926697 AATAC
1 AATAC
107926702 AAAACAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:107931756 original size:41 final size:37
Alignment explanation
Indices: 107931661--107931766 Score: 95
Period size: 41 Copynumber: 2.8 Consensus size: 37
107931651 TTCAAAATAA
* *
107931661 TAAATTGACACCCAATGTCTCATCGGCTAAACCGAAG
1 TAAATTGACACCCAGTGTCTCATCGACTAAACCGAAG
* * * * *
107931698 TAAACTGGCACCTAGTGTCTCATCGAATTAATCCGAAGTAG
1 TAAATTGACACCCAGTGTCTCATCG-ACTAAACCG-A--AG
* *
107931739 TAAATTGACACCCAGTGTTTCATGGACT
1 TAAATTGACACCCAGTGTCTCATCGACT
107931767 TGAAGTTGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
37 21 0.40
38 6 0.12
39 1 0.02
40 2 0.04
41 22 0.42
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (37 bp):
TAAATTGACACCCAGTGTCTCATCGACTAAACCGAAG
Found at i:107931967 original size:24 final size:24
Alignment explanation
Indices: 107931923--107931968 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
107931913 ATATATACCA
107931923 ATTCAATCAATATAAATTCAATAT
1 ATTCAATCAATATAAATTCAATAT
107931947 ATTC-ATCACATACTAAA-TCAAT
1 ATTCAATCA-ATA-TAAATTCAAT
107931969 CCATTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTCAATCAATATAAATTCAATAT
Found at i:107939645 original size:47 final size:47
Alignment explanation
Indices: 107939587--107940152 Score: 673
Period size: 47 Copynumber: 12.3 Consensus size: 47
107939577 AAAGTGTATA
* *
107939587 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107939634 TATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107939681 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
107939728 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107939775 TATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107939822 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107939869 TATATATGTGATAAGGCCTAATGGCCGATGTGA--ATATGT----GTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTG
* * * * * *
107939911 -ATA-A-G-GCCTAATAGCC-GAT-G-TGATGAATG-TGAAAGT----GTA
1 TATATACGTG-ATAA-GGCCTAATGGCCGATG--TGATGAATGTGAAAGTG
* *
107939950 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
107939997 TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTTAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
107940044 TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
107940091 TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
107940138 CATAAATGTGATAAG
1 TATATACGTGATAAG
107940153 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 41, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
37 4 0.01
38 2 0.00
39 13 0.03
40 8 0.02
41 6 0.01
42 11 0.02
43 8 0.02
44 4 0.01
45 1 0.00
46 4 0.01
47 398 0.87
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:107939804 original size:141 final size:141
Alignment explanation
Indices: 107939587--107940152 Score: 874
Period size: 141 Copynumber: 4.1 Consensus size: 141
107939577 AAAGTGTATA
107939587 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
107939652 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
107939717 ATGTGAAAGTG
131 ATGTGAAAGTG
107939728 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
107939793 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
107939858 ATGTGAAAGTG
131 ATGTGAAAGTG
*
107939869 TATATATGTGATAAGGCCTAATGGCCGA--TG-TGAA--T---A-TG----T--GTGATAAGGCC
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
* *
107939919 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
107939984 GAATGTGAAAGTG
129 GAATGTGAAAGTG
** * *
107939997 TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTTAAAGTGTATATGCGTGATAAGGCT
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
* * * * * *
107940062 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
107940127 ATGTGAAAGTG
131 ATGTGAAAGTG
* *
107940138 CATAAATGTGATAAG
1 TATATATGTGATAAG
107940153 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 19, Indels: 34
0.88 0.04 0.08
Matches are distributed among these distances:
126 39 0.10
128 72 0.19
130 2 0.01
131 4 0.01
132 2 0.01
133 2 0.01
136 2 0.01
137 2 0.01
138 4 0.01
139 2 0.01
141 220 0.57
143 38 0.10
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (141 bp):
TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTG
Found at i:107939913 original size:32 final size:32
Alignment explanation
Indices: 107939870--107939933 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
107939860 GTGAAAGTGT
*
107939870 ATATATGTGATAAGGCCTAATGGCCGATGTGA
1 ATATATGTGATAAGGCCTAATAGCCGATGTGA
*
107939902 ATATGTGTGATAAGGCCTAATAGCCGATGTGA
1 ATATATGTGATAAGGCCTAATAGCCGATGTGA
107939934 TGAATGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (32 bp):
ATATATGTGATAAGGCCTAATAGCCGATGTGA
Found at i:107939921 original size:79 final size:80
Alignment explanation
Indices: 107939823--107939982 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 80
107939813 GTGAAAGTGT
*
107939823 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCC
107939887 TAATGGCCGATGTGA
66 TAATGGCCGATGTGA
*
107939902 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGC
*
107939967 TTAATGGCCGATGTGA
65 CTAATGGCCGATGTGA
107939983 TGAATGTGAA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 44 0.58
81 32 0.42
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (80 bp):
ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCC
TAATGGCCGATGTGA
Found at i:107939983 original size:22 final size:22
Alignment explanation
Indices: 107939955--107940077 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
107939945 GTGTATATAT
107939955 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
107939977 ATGTGATGAATG-TGAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
107940000 ATGCGTGATAAGGCTTAATGGCCG
1 AT--GTGATAAGGCTTAATGGCCG
* * ***
107940024 ATGTGATGAATG-TTAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
107940047 ATGCGTGATAAGGCTTAATGGCCG
1 AT--GTGATAAGGCTTAATGGCCG
107940071 ATGTGAT
1 ATGTGAT
107940078 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 26 0.38
23 12 0.17
24 12 0.17
25 19 0.28
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:107940009 original size:128 final size:126
Alignment explanation
Indices: 107939776--107940152 Score: 448
Period size: 128 Copynumber: 2.9 Consensus size: 126
107939766 GTGAAAGTGT
*
107939776 ATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
107939841 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGA
*
107939902 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
* * *
107939967 TTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATG
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCC-----GATG
107940032 AATGTTAAA
124 --TG----A
* * * *
107940041 GTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
1 ----ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * * * *
107940106 GCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
62 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAG
107940153 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 20, Indels: 19
0.85 0.08 0.08
Matches are distributed among these distances:
126 44 0.21
128 69 0.32
133 4 0.02
135 2 0.01
139 1 0.00
141 51 0.24
143 43 0.20
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (126 bp):
ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGA
Found at i:107940064 original size:25 final size:25
Alignment explanation
Indices: 107939991--107940064 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
107939981 GATGAATGTG
107939991 AAAGTGTATATGCGTGATAAGGCTT
1 AAAGTGTATATGCGTGATAAGGCTT
* *** *
107940016 AATG-GCCGAT--GTGATGAATG-TT
1 AAAGTGTATATGCGTGAT-AAGGCTT
107940038 AAAGTGTATATGCGTGATAAGGCTT
1 AAAGTGTATATGCGTGATAAGGCTT
107940063 AA
1 AA
107940065 TGGCCGATGT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
22 10 0.29
23 6 0.18
24 6 0.18
25 12 0.35
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.31
Consensus pattern (25 bp):
AAAGTGTATATGCGTGATAAGGCTT
Found at i:107940071 original size:222 final size:220
Alignment explanation
Indices: 107939682--107940101 Score: 759
Period size: 222 Copynumber: 1.9 Consensus size: 220
107939672 GTGAAAGTGT
*
107939682 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTT
107939747 AATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAA
*
107939812 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
107939877 TGATAAGGCCTAATGGCCGATGTGA
196 TGATAAGGCCTAATGGCCGATGTGA
*
107939902 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
*
107939967 TTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATG
64 TTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATG
* * *
107940032 AATGTTAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
129 AATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
107940097 TGTGA
194 TGTGA
107940102 CAGGGCCGAG
Statistics
Matches: 191, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
220 44 0.23
222 147 0.77
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (220 bp):
ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTT
AATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCTAATGGCCGATGTGA
Found at i:107940124 original size:269 final size:267
Alignment explanation
Indices: 107939635--107940152 Score: 883
Period size: 269 Copynumber: 1.9 Consensus size: 267
107939625 GTGAAAGTGT
*
107939635 ATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
107939700 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAA
107939765 TGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * *
107939830 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
196 TGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAATGGCC
107939895 GATGTGA
261 GATGTGA
*
107939902 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
* *
107939967 TTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATG
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATG
* *
107940032 AATGTTAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
129 AATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
107940097 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
194 TGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAG
107940153 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
267 44 0.19
269 190 0.81
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (267 bp):
ATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAATGGCC
GATGTGA
Found at i:107940328 original size:37 final size:37
Alignment explanation
Indices: 107940273--107940348 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
107940263 GAGTTCTAAG
* * * *
107940273 GACCCGATGACTATGTGTGGGGATTTTGTCTGGGTAA
1 GACCCGATAACTATGTGTGGAGATTATGTCCGGGTAA
107940310 GACCCGATAACT-TCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTAT-GTGTGGAGATTATGTCCGGGTAA
107940347 GA
1 GA
107940349 TTTCGTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (37 bp):
GACCCGATAACTATGTGTGGAGATTATGTCCGGGTAA
Found at i:107942387 original size:43 final size:43
Alignment explanation
Indices: 107942199--107942384 Score: 363
Period size: 43 Copynumber: 4.3 Consensus size: 43
107942189 TTGGTTTTCA
107942199 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
107942242 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
107942285 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
107942328 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
107942371 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
107942385 GGCTTGAAAT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:107942404 original size:29 final size:29
Alignment explanation
Indices: 107942369--107942442 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
107942359 GTTGTGAGAT
* *
107942369 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
107942398 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
107942427 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
107942443 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:107942779 original size:40 final size:39
Alignment explanation
Indices: 107942735--107943002 Score: 245
Period size: 40 Copynumber: 6.7 Consensus size: 39
107942725 CATTTGAATG
*
107942735 ATATCCGGGCTAAGTCCCGAAGGCAATTGAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGA-T
* * * *
107942775 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGC-TAGTGAT
* *
107942815 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGAT
* * *
107942855 ATATCCGGGCTAAGACCCGAAGGC-ATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCAATT-GTGCTAGTGA-T
* * * * *
107942895 AAATCCGGGCTAAATTCCGAAGAGC-ATTCATGCTAGCGAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAATT-GTGCTAGTGAT
* **
107942935 GTATCCGGGCTAAGTTTCGAAGAGC-ATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAATT-GTGCTAGTGAT
* *
107942975 ATATCCGTGCTAAATCCCGAAGAGCAAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAAT
107943003 CATGCTGGTG
Statistics
Matches: 193, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
39 7 0.04
40 169 0.88
41 17 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGAT
Found at i:107943006 original size:80 final size:78
Alignment explanation
Indices: 107942735--107943013 Score: 274
Period size: 80 Copynumber: 3.5 Consensus size: 78
107942725 CATTTGAATG
* *
107942735 ATATCCGGGCTAAGTCCCGAAGGCAATTGA-GCTAGTGATTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCAA-TCATGCTAGTGA-TATATCCGGGCTAAGACCCGAAGGC
* *
107942799 ATTTGTGCGAATTGAT
64 ATTCGTGC-AAGTGAT
** *
107942815 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAA-ATCCCGAAGGCAATCATGCTAG-TGATATATCCGGGCTAAGACCCGAAGGC
* * *
107942879 ATTGGTGCGAGTTACT
64 ATTCGTGCAAGTGA-T
* * * * * ***
107942895 AAATCCGGGCTAAATTCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTTTCGAAGAGC
1 ATATCCGGGCTAAATCCCGAAG-GCAATCATGCTAGTGATATATCCGGGCTAAGACCCGAAG-GC
*
107942960 ATTCGTGCTAGTGAT
64 ATTCGTGCAAGTGAT
* *
107942975 ATATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATATCCGGGCTAAATCCCGAAG-GCAATCATGCTAGTGA
107943014 CGTGTATTCG
Statistics
Matches: 164, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
79 5 0.03
80 134 0.82
81 25 0.15
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAATCCCGAAGGCAATCATGCTAGTGATATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGAT
Found at i:107946463 original size:47 final size:47
Alignment explanation
Indices: 107946405--107946714 Score: 531
Period size: 47 Copynumber: 6.7 Consensus size: 47
107946395 AAAGTGTATA
*
107946405 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
**
107946452 TATATGCGTGATAA-GCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107946497 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107946544 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
**
107946591 TATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107946638 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107946685 TATA-ATGTGATAA-GCCTAATGG-CGATGTGA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGA
107946715 ATATGTGTAT
Statistics
Matches: 250, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
44 8 0.03
45 45 0.18
46 22 0.09
47 175 0.70
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:107946665 original size:141 final size:139
Alignment explanation
Indices: 107946405--107946850 Score: 623
Period size: 141 Copynumber: 3.3 Consensus size: 139
107946395 AAAGTGTATA
107946405 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGCCT
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGCCT
107946470 AATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 AATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
107946535 GTGAAAGTG
131 GTGAAAGTG
107946544 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCC
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAA-GCC
107946609 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
107946674 ATGTGAAAGTG
129 ATGTGAAAGTG
*
107946685 TATA-ATGTGATAA-GCCTAATGG-CGA--TG-TGAA--T---A-TG----T--GT-ATAAG-CT
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGCCT
*
107946730 AATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATG
66 AAT-GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
107946795 AATGTGAAAGTG
128 AATGTGAAAGTG
* ** * *
107946807 TATATATGTGA-CAGGCCGAGT-GCC-ATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
107946851 CATAAATGTG
Statistics
Matches: 284, Mismatches: 7, Indels: 40
0.86 0.02 0.12
Matches are distributed among these distances:
120 29 0.10
121 1 0.00
122 57 0.20
123 14 0.05
124 2 0.01
125 4 0.01
127 1 0.00
129 2 0.01
130 2 0.01
131 2 0.01
133 1 0.00
135 4 0.01
136 2 0.01
138 3 0.01
139 69 0.24
140 16 0.06
141 75 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (139 bp):
TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGCCT
AATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTG
Done.