Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 75 of 221
Found at i:21753793 original size:6 final size:6
Alignment explanation
Indices: 21753784--21753835 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
21753774 TTGATTTTGA
* * * *
21753784 TTTTTC TTTTTC TTCTTTT TTTTTG TTTTTG TTTTTGA TTTTTC TTTTTC
1 TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTTTC
21753834 TT
1 TT
21753836 CTATTTTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
6 30 0.75
7 10 0.25
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:21753808 original size:38 final size:38
Alignment explanation
Indices: 21753752--21753847 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 38
21753742 TTATTCTCTC
*
21753752 TTTCTTCATTTTCATTTTGACTTTGATTTTGATTTTTCTT
1 TTTCTTC-TTTT-TTTTTGACTTTGATTTTGATTTTTCTT
** *
21753792 TTTCTTCTTTTTTTTTGTTTTTGTTTTTGATTTTTCTT
1 TTTCTTCTTTTTTTTTGACTTTGATTTTGATTTTTCTT
21753830 TTTCTTCTATTTTGTTTT
1 TTTCTTCT-TTTT-TTTT
21753848 TGATTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 31 0.62
39 8 0.16
40 11 0.22
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.75
Consensus pattern (38 bp):
TTTCTTCTTTTTTTTTGACTTTGATTTTGATTTTTCTT
Found at i:21758010 original size:18 final size:17
Alignment explanation
Indices: 21757982--21758015 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21757972 GACAAAGAAT
21757982 CAATAAATACAAATAAA
1 CAATAAATACAAATAAA
*
21757999 CAATACAATACACATAA
1 CAATA-AATACAAATAA
21758016 GAGCAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (17 bp):
CAATAAATACAAATAAA
Found at i:21765625 original size:25 final size:24
Alignment explanation
Indices: 21765592--21765646 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
21765582 TTGGTTTATT
*
21765592 TTTAGTTATA-TTTAAAATATTTTAA
1 TTTATTTATACTTT-AAA-ATTTTAA
*
21765617 TTTATTTATACTTTTAAATTTTAA
1 TTTATTTATACTTTAAAATTTTAA
21765641 TTTATT
1 TTTATT
21765647 AACATTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 11 0.41
26 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTATTTATACTTTAAAATTTTAA
Found at i:21766543 original size:21 final size:20
Alignment explanation
Indices: 21766519--21766581 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
21766509 ATTGGATAAA
*
21766519 TTTAAAAAATAAATCTAAGTT
1 TTTAAAAAATAAATATAA-TT
**
21766540 TTTATTAAATAAATATAA-T
1 TTTAAAAAATAAATATAATT
*
21766559 TTTAAATATATAAATATAATT
1 TTTAAA-AAATAAATATAATT
21766580 TT
1 TT
21766582 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 18 0.53
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTAAAAAATAAATATAATT
Found at i:21766573 original size:41 final size:40
Alignment explanation
Indices: 21766514--21766591 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
21766504 ATATAATTGG
*
21766514 ATAAATTTAAAAAATAAATCTAAGTTTT-TATTAAATAAAT
1 ATAAATTTAAAAAATAAATATAA-TTTTATATTAAATAAAT
* * *
21766554 ATAATTTTAAATATATAAATATAATTTTATTTTAAATA
1 ATAAATTTAAA-AAATAAATATAATTTTATATTAAATA
21766592 TGATAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 18 0.56
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (40 bp):
ATAAATTTAAAAAATAAATATAATTTTATATTAAATAAAT
Found at i:21767999 original size:12 final size:11
Alignment explanation
Indices: 21767976--21768006 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
21767966 TTCTCCGTTC
21767976 TTCTTTTCTTT
1 TTCTTTTCTTT
21767987 TTCTTTGTCTTT
1 TTCTTT-TCTTT
21767999 TTCTTTTC
1 TTCTTTTC
21768007 CTTTCTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:21769015 original size:14 final size:14
Alignment explanation
Indices: 21768996--21769022 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21768986 GTATGCTTAT
21768996 ATCTATATCTGTAC
1 ATCTATATCTGTAC
21769010 ATCTATATCTGTA
1 ATCTATATCTGTA
21769023 TTGGGGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
ATCTATATCTGTAC
Found at i:21777175 original size:56 final size:50
Alignment explanation
Indices: 21777081--21777278 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 50
21777071 ATTTGGGTAA
* * * * *
21777081 AGAGATCCCATGTAAGACTATGTTTGAGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C--CGAG---ATG
*
21777137 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
* * *
21777187 AGAGGTCCCCTGTAAGACCATATCTGGGACATGACA-TGGCCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGG-CACCGAGATG
** * * * * *
21777237 AGAACTCCCATGTAAGGCTATATCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
21777279 TGTTATTATC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 3 0.02
50 76 0.62
51 3 0.02
53 3 0.02
55 1 0.01
56 37 0.30
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:21784057 original size:50 final size:52
Alignment explanation
Indices: 21783955--21784070 Score: 137
Period size: 56 Copynumber: 2.2 Consensus size: 52
21783945 GGTAAAAAGA
* * *
21783955 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTATAGGACATGGCATTGGAACCA-T-AG--TATGAGAGG
*
21784011 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGAACCA-AG-ATGAGAGG
1 TCCCATGTAAGACCATGTATAGGACATGGCATTGGAACCATAGTATGAGAGG
*
21784061 TCCCCTGTAA
1 TCCCATGTAA
21784071 ACTTACTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 17 0.31
53 2 0.04
56 36 0.65
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTATAGGACATGGCATTGGAACCATAGTATGAGAGG
Found at i:21787675 original size:61 final size:61
Alignment explanation
Indices: 21787580--21787707 Score: 202
Period size: 61 Copynumber: 2.1 Consensus size: 61
21787570 GAGTCCAGTC
* *
21787580 CGTGTGCCTCCAAACAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
1 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
* * * *
21787641 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTATACGCCCATGTACGACCTTACATGCC
1 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
21787702 CGTGTG
1 CGTGTG
21787708 CATGGACCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (61 bp):
CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
Found at i:21797223 original size:25 final size:25
Alignment explanation
Indices: 21797195--21797274 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
21797185 ATGCTCATGT
*
21797195 GAGCTATGGATCGGTATGCTCTCAC
1 GAGCTATGGATCGGTAAGCTCTCAC
21797220 GAGC--TGGAAATCGGTAAGCTCAT-AC
1 GAGCTATGG--ATCGGTAAGCTC-TCAC
* *
21797245 GAGCTGA-GAATCGGTAAGCTCTCAT
1 GAGCT-ATGGATCGGTAAGCTCTCAC
21797270 GAGCT
1 GAGCT
21797275 GGTGTGTCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
23 3 0.07
24 1 0.02
25 39 0.87
26 1 0.02
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (25 bp):
GAGCTATGGATCGGTAAGCTCTCAC
Found at i:21797275 original size:25 final size:25
Alignment explanation
Indices: 21797204--21797276 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
21797194 TGAGCTATGG
*
21797204 ATCGGTATGCTCTCACGAGCTGGAA
1 ATCGGTAAGCTCTCACGAGCTGGAA
21797229 ATCGGTAAGCTCAT-ACGAGCT-GAGA
1 ATCGGTAAGCTC-TCACGAGCTGGA-A
*
21797254 ATCGGTAAGCTCTCATGAGCTGG
1 ATCGGTAAGCTCTCACGAGCTGG
21797277 TGTGTCTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.07
25 37 0.88
26 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (25 bp):
ATCGGTAAGCTCTCACGAGCTGGAA
Found at i:21798808 original size:40 final size:40
Alignment explanation
Indices: 21798759--21798941 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
21798749 CATTCTTTTA
* * * *
21798759 AATAGATTCAGTAGGTATGACT-TAAGAGCGCATACATTTC
1 AATAGATTCAATAGGTATGGCTCGAA-AGCGCATACGTTTC
* *
21798799 AATAAATTCAATAGGTATGGCTCGAAAGCACATACGTTTC
1 AATAGATTCAATAGGTATGGCTCGAAAGCGCATACGTTTC
* * *
21798839 AGTACATTCAATAGGTATGGCTCGAAAGTGCATACGTTTC
1 AATAGATTCAATAGGTATGGCTCGAAAGCGCATACGTTTC
* * ** * *
21798879 AGTAGATTCAGTAGGTATCACTCGAAATCGCATATGTATT-
1 AATAGATTCAATAGGTATGGCTCGAAAGCGCATACGT-TTC
* * *
21798919 AGTAGATTCAGTAGGTATTGCTC
1 AATAGATTCAATAGGTATGGCTC
21798942 ATTCGAGCTC
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 118 0.97
41 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (40 bp):
AATAGATTCAATAGGTATGGCTCGAAAGCGCATACGTTTC
Found at i:21806695 original size:18 final size:16
Alignment explanation
Indices: 21806670--21806719 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
21806660 GCAACCCAAT
21806670 TTTTATTTTAGTTATTA
1 TTTTATTTTA-TTATTA
21806687 TTATTA-TTTATTACTTTA
1 TT-TTATTTTATTA--TTA
21806705 TTTTATTTTATTATT
1 TTTTATTTTATTATT
21806720 TACTACTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 15 0.52
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:21806699 original size:13 final size:12
Alignment explanation
Indices: 21806668--21806716 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
21806658 AGGCAACCCA
21806668 ATTT-TTATTTT
1 ATTTATTATTTT
*
21806679 AGTTATTATTATT
1 ATTTATTATT-TT
*
21806692 ATTTATTACTTT
1 ATTTATTATTTT
21806704 A-TT-TTATTTT
1 ATTTATTATTTT
21806714 ATT
1 ATT
21806717 ATTTACTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 7 0.23
11 6 0.19
12 8 0.26
13 10 0.32
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (12 bp):
ATTTATTATTTT
Found at i:21806715 original size:25 final size:25
Alignment explanation
Indices: 21806681--21806731 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
21806671 TTTATTTTAG
*
21806681 TTATTATTATTATTTATTACTTTATT
1 TTATTATTATTATTTACTAC-TTATT
21806707 TTATT-TTATTATTTACTACTTATT
1 TTATTATTATTATTTACTACTTATT
21806731 T
1 T
21806732 GGATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 5 0.21
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATTATTATTATTTACTACTTATT
Found at i:21808045 original size:101 final size:100
Alignment explanation
Indices: 21807855--21808045 Score: 269
Period size: 101 Copynumber: 1.9 Consensus size: 100
21807845 AAGAACATGT
* * *
21807855 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTGAAAAGGTTCGATGCA
1 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATACA
*
21807920 TTTTGAAGAAAAAATTATAGTAAATTAGGAGTGTGC
66 TTTTAAAGAAAAAA-TATAGTAAATTAGGAGTGTGC
* * *
21807956 TGGGCTGAGTAATCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATA
1 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATACA
21808021 TTTCTAAAGCATAAAAA-ATA-TAAAT
66 TTT-TAAAG-A-AAAAATATAGTAAAT
21808046 AATAAATAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
101 67 0.84
102 7 0.09
103 1 0.01
104 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (100 bp):
TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATACA
TTTTAAAGAAAAAATATAGTAAATTAGGAGTGTGC
Found at i:21808054 original size:20 final size:19
Alignment explanation
Indices: 21808031--21808077 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
21808021 TTTCTAAAGC
*
21808031 ATAAAAAATATAAATAATAA
1 ATAAAAAA-ATAAATAAAAA
21808051 ATAAATAAAATAAATAAAAA
1 ATAAA-AAAATAAATAAAAA
*
21808071 AGAAAAA
1 ATAAAAA
21808078 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (19 bp):
ATAAAAAAATAAATAAAAA
Found at i:21808670 original size:15 final size:15
Alignment explanation
Indices: 21808645--21808679 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21808635 GACTCTATTT
*
21808645 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
21808659 TAATTAATATTAAGA
1 TAATTAATATTAAGA
21808674 TAATTA
1 TAATTA
21808680 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:21820713 original size:21 final size:22
Alignment explanation
Indices: 21820676--21820716 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21820666 GCACCCTAGG
*
21820676 CTTTTATTTTATGATTCCTTTC
1 CTTTTATTTAATGATTCCTTTC
21820698 CTTTTATTTAAT-ATTCCTT
1 CTTTTATTTAATGATTCCTT
21820717 AAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.63
Consensus pattern (22 bp):
CTTTTATTTAATGATTCCTTTC
Found at i:21820946 original size:13 final size:13
Alignment explanation
Indices: 21820928--21820952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21820918 TAGGTTATAT
21820928 GTGTGAAAATTTC
1 GTGTGAAAATTTC
21820941 GTGTGAAAATTT
1 GTGTGAAAATTT
21820953 AATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:21822669 original size:41 final size:41
Alignment explanation
Indices: 21822612--21822691 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
21822602 TGATCGAATG
* * * *
21822612 TAATTCAGACTTATTGTCCAGGAGGCTTGATGCCGGTGATA
1 TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGATA
*
21822653 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGA
1 TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGA
21822692 AATTATTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGATA
Found at i:21825537 original size:7 final size:7
Alignment explanation
Indices: 21825525--21825550 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21825515 ATAGAACACC
21825525 TAAATAA
1 TAAATAA
21825532 TAAATAA
1 TAAATAA
21825539 TAAATAA
1 TAAATAA
21825546 TAAAT
1 TAAAT
21825551 TAGTAAAGTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAATAA
Found at i:21825584 original size:21 final size:19
Alignment explanation
Indices: 21825525--21825591 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 19
21825515 ATAGAACACC
21825525 TAAATAATAAATAATAAATAA
1 TAAATAATAAA-AATAAA-AA
* **
21825546 TAAATTAGTAAAGTTAAAAA
1 TAAA-TAATAAAAATAAAAA
21825566 TTAAATAAATAAAAATAAAAA
1 -TAAAT-AATAAAAATAAAAA
21825587 CTAAA
1 -TAAA
21825592 CTGTAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 3 0.08
21 27 0.75
22 6 0.17
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (19 bp):
TAAATAATAAAAATAAAAA
Found at i:21826691 original size:12 final size:13
Alignment explanation
Indices: 21826674--21826705 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
21826664 GTGGCTATGC
21826674 AAGGGAAA-GGAA
1 AAGGGAAATGGAA
21826686 AAGGGAAATGGAA
1 AAGGGAAATGGAA
21826699 AAGGGAA
1 AAGGGAA
21826706 TGATAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (13 bp):
AAGGGAAATGGAA
Found at i:21827219 original size:21 final size:22
Alignment explanation
Indices: 21827181--21827228 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
21827171 ATTATGAATA
*
21827181 TTAATTCATAATATAATTAATT
1 TTAATTCATAATACAATTAATT
* *
21827203 TTAATT-ATAATCCAATTTATT
1 TTAATTCATAATACAATTAATT
21827224 TTAAT
1 TTAAT
21827229 CCAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATTCATAATACAATTAATT
Found at i:21833488 original size:106 final size:106
Alignment explanation
Indices: 21833303--21833495 Score: 307
Period size: 106 Copynumber: 1.8 Consensus size: 106
21833293 ATACATACGA
* * *
21833303 ATAGGCTTATCCCGGATCAATCAAAGTAGTAACATTAGTGTCAAAGATAGAAAAAGTACTAGTAA
1 ATAGGCTTATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTAA
*
21833368 TAACATCTGGAGCAGAAGCTTCCTATCGTGCACGAATCTAG
66 TAACATCTGGAGCAGAAACTTCCTATCGTGCACGAATCTAG
* *
21833409 ATAGG-TTGATCCCGAATCAATCAAAGCAGTAGCATTAGTGTCAAAGATAGAAAAAGTCCCAGTA
1 ATAGGCTT-ATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTA
*
21833473 ATAATATCTGGAGCAGAAACTTC
65 ATAACATCTGGAGCAGAAACTTC
21833496 ATCTTGTGCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 2 0.03
106 77 0.97
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (106 bp):
ATAGGCTTATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTAA
TAACATCTGGAGCAGAAACTTCCTATCGTGCACGAATCTAG
Found at i:21838485 original size:79 final size:81
Alignment explanation
Indices: 21838382--21838563 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
21838372 GCTACCCGTT
* * *
21838382 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21838445 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
21838462 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
21838526 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
21838542 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
21838564 AGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 31 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21838499 original size:39 final size:40
Alignment explanation
Indices: 21838382--21838563 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
21838372 GCTACCCGTT
* *
21838382 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21838422 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
21838462 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21838501 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21838542 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
21838564 AGACATCATT
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21841381 original size:45 final size:45
Alignment explanation
Indices: 21841332--21841444 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
21841322 TGAATTAGAA
* *
21841332 CATAGTTGAAAGACACTATGGCACTAT-TATAGAAACAAATAAGAC
1 CATAGTTGAAAGACACTATGGCAATATGT-CAGAAACAAATAAGAC
* * *
21841377 CATAGTTGAAAGACACTATGTCAATATGTCGGAAATAAATAAGAC
1 CATAGTTGAAAGACACTATGGCAATATGTCAGAAACAAATAAGAC
* * *
21841422 CATGGCTAAAAGACACTATGGCA
1 CATAGTTGAAAGACACTATGGCA
21841445 TACTTAAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (45 bp):
CATAGTTGAAAGACACTATGGCAATATGTCAGAAACAAATAAGAC
Found at i:21844731 original size:27 final size:27
Alignment explanation
Indices: 21844701--21844878 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
21844691 ATATTGAGCC
* *
21844701 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
21844728 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21844755 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21844783 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21844810 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21844837 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
21844864 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21844879 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21844813 original size:55 final size:54
Alignment explanation
Indices: 21844701--21844878 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
21844691 ATATTGAGCC
* * * * *
21844701 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
21844755 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
21844810 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
21844864 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21844879 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:21860359 original size:45 final size:45
Alignment explanation
Indices: 21860308--21860394 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
21860298 TGAACCGAAC
* *
21860308 ATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAT
21860353 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
21860395 AGTATCTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAT
Found at i:21867122 original size:17 final size:18
Alignment explanation
Indices: 21867100--21867136 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
21867090 TCATTCATCT
21867100 ATCATTC-CTCACT-TCTC
1 ATCATTCTCTC-CTCTCTC
21867117 ATCATTCTCTCCTCTCTC
1 ATCATTCTCTCCTCTCTC
21867135 AT
1 AT
21867137 TTGTCTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.41, G:0.00, T:0.43
Consensus pattern (18 bp):
ATCATTCTCTCCTCTCTC
Found at i:21873004 original size:27 final size:27
Alignment explanation
Indices: 21872959--21873484 Score: 432
Period size: 27 Copynumber: 19.7 Consensus size: 27
21872949 AAAAGGTAGT
* * *
21872959 TAAACTTACCGAAACACCCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
21872986 TAAAATTATCAAAATACCCCCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
21873013 TAATATTACCGAAATACCC-CGAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * * *
21873039 TAAAATTATTGAAATACCCCCAAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
21873066 TAAAACTATTGAAATACCCCCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
*
21873093 TAAAATTA-CTAAAATACCCTCGATGGG
1 TAAAATTATC-GAAATACCCTCGATGGG
** *
21873120 TAAAATTA-CTGAAATACCCTTAATAGG
1 TAAAATTATC-GAAATACCCTCGATGGG
** * *
21873147 TAAAATTATTAAAATACCCT-GAAGCG
1 TAAAATTATCGAAATACCCTCGATGGG
* * **
21873173 TAAAATTA-CTAAAATACCC-CTGAAGCA
1 TAAAATTATC-GAAATACCCTC-GATGGG
* * *
21873200 TAAAATTACCAAAATACCC-CTAATGGG
1 TAAAATTATCGAAATACCCTC-GATGGG
* *
21873227 TAATATTATCGAAATACCC-CTGAAGGG
1 TAAAATTATCGAAATACCCTC-GATGGG
* * *
21873254 TAAAATTATTGAAATA-CCTACAAAGGG
1 TAAAATTATCGAAATACCCT-CGATGGG
* *
21873281 TAAAATTA-CTGAAATACCCTTGATTGG
1 TAAAATTATC-GAAATACCCTCGATGGG
* * *
21873308 TAAACTTACCAAAATACCCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
21873335 TAAAATTATTGAAAT-GCCTTGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
*
21873361 TAAAATTATCGAAATACCCTCGAGGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
21873388 TAAAATTA-CCAAATACTCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
21873414 TAAAATTACCAAAATA-CC-CGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
21873439 TAAAATTATCGAAACACCCTCGAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
21873466 TAAAATTATCGAAATACCC
1 TAAAATTATCGAAATACCC
21873485 CCATAGGGTA
Statistics
Matches: 410, Mismatches: 73, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.05
26 92 0.22
27 292 0.71
28 6 0.01
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGATGGG
Found at i:21873176 original size:107 final size:106
Alignment explanation
Indices: 21872959--21873496 Score: 577
Period size: 107 Copynumber: 5.0 Consensus size: 106
21872949 AAAAGGTAGT
* * * * * *
21872959 TAAACTTACCGAAACACCCTCGATGGGTAAAATTATCAAAATACCCCCGATGGGTAATATTACCG
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATA-CCCCGATGGGTAAAATTACTG
* *
21873024 AAATACCCCGAAGGGTAAAATTATTGAAATACCCCCAAAGGG
65 AAATACCCTGAAGGGTAAAATTATTGAAATACCCTCAAAGGG
* * * *
21873066 TAAAACTATTGAAATACCCCCGATGGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTACTG
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCC-CGATGGGTAAAATTACTG
* * * * *
21873131 AAATACCCTTAATAGGTAAAATTATTAAAATACCCT-GAAGCG
65 AAATACCCTGAA-GGGTAAAATTATTGAAATACCCTCAAAGGG
* * ** * *
21873173 TAAAATTACTAAAATACCC-CTGAAGCATAAAATTACCAAAATACCCCTAATGGGTAATATTA-T
1 TAAAATTACTGAAATACCCTC-GATGGGTAAAATTACCAAAATACCCC-GATGGGTAAAATTACT
21873236 CGAAATACCCCTGAAGGGTAAAATTATTGAAATA-CCTACAAAGGG
64 -GAAATA-CCCTGAAGGGTAAAATTATTGAAATACCCT-CAAAGGG
* * * *
21873281 TAAAATTACTGAAATACCCTTGATTGGTAAACTTACCAAAATACCCTCGATGGGTAAAATTATTG
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCC-CGATGGGTAAAATTACTG
* * * * * *
21873346 AAATGCCTTGATGGGTAAAATTATCGAAATACCCTCGAGGGG
65 AAATACCCTGAAGGGTAAAATTATTGAAATACCCTCAAAGGG
* *
21873388 TAAAATTAC-CAAATACTCTCGATGGGTAAAATTACCAAAATA-CCCGATGGGTAAAATTA-TCG
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCGATGGGTAAAATTACT-G
* * * *
21873450 AAACACCCTCGAAGGGTAAAATTATCGAAATACCCCCATAGGG
65 AAATACCCT-GAAGGGTAAAATTATTGAAATACCCTCAAAGGG
21873493 TAAA
1 TAAA
21873497 CTGACTGTTA
Statistics
Matches: 358, Mismatches: 59, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
103 1 0.00
104 22 0.06
105 34 0.09
106 37 0.10
107 174 0.49
108 88 0.25
109 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (106 bp):
TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCGATGGGTAAAATTACTGA
AATACCCTGAAGGGTAAAATTATTGAAATACCCTCAAAGGG
Found at i:21873215 original size:134 final size:134
Alignment explanation
Indices: 21872959--21873485 Score: 464
Period size: 134 Copynumber: 3.9 Consensus size: 134
21872949 AAAAGGTAGT
* * * * * * * *
21872959 TAAACTTACCGAAACACCCTCGATGGGTAAAATTA-TCAAAATACCCCCGATGGGTAATATTACC
1 TAAAATTATCGAAATACCCTCGATGGGTAAAATTACT-GAAATACCCTCAATAGGTAAAATTACC
* * * * ** * *
21873023 GAAATACCCCGAAGGGTAAAATTATTGAAATACCCCCAAAGGGTAAAACTATTGAAATACCCCCG
65 AAAATACCCTGAAGGGTAAAATTACTAAAATACCCCTGAAGGGTAAAATTATTGAAATACCCCTG
21873088 ATGGG
130 ATGGG
* * **
21873093 TAAAATTA-CTAAAATACCCTCGATGGGTAAAATTACTGAAATACCCTTAATAGGTAAAATTATT
1 TAAAATTATC-GAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAATAGGTAAAATTACC
* ** *** *
21873157 AAAATACCCTGAAGCGTAAAATTACTAAAATACCCCTGAAGCATAAAATTACCAAAATACCCCTA
65 AAAATACCCTGAAGGGTAAAATTACTAAAATACCCCTGAAGGGTAAAATTATTGAAATACCCCTG
21873222 ATGGG
130 ATGGG
* * *
21873227 TAATATTATCGAAATACCC-CTGAAGGGTAAAATTATTGAAATA-CCTACAA-AGGGTAAAATTA
1 TAAAATTATCGAAATACCCTC-GATGGGTAAAATTACTGAAATACCCT-CAATA-GGTAAAATTA
** ** * * * *
21873289 CTGAAATACCCTTGATTGGTAAACTTACCAAAATA-CCCTCGATGGGTAAAATTATTGAAAT-GC
63 CCAAAATACCC-TGAAGGGTAAAATTACTAAAATACCCCT-GAAGGGTAAAATTATTGAAATACC
*
21873352 CTTGATGGG
126 CCTGATGGG
* * * * *
21873361 TAAAATTATCGAAATACCCTCGAGGGGTAAAATTAC-CAAATACTCTCGATGGGTAAAATTACCA
1 TAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAATAGGTAAAATTACCA
* ** *
21873425 AAATACCC-GATGGGTAAAATTA-TCGAA-ACACCCTCGAAGGGTAAAATTATCGAAATACCCC
66 AAATACCCTGAAGGGTAAAATTACTAAAATAC-CCCT-GAAGGGTAAAATTATTGAAATACCCC
21873486 CATAGGGTAA
Statistics
Matches: 314, Mismatches: 65, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
129 1 0.00
130 2 0.01
131 36 0.11
132 2 0.01
133 32 0.10
134 205 0.65
135 36 0.11
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (134 bp):
TAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAATAGGTAAAATTACCA
AAATACCCTGAAGGGTAAAATTACTAAAATACCCCTGAAGGGTAAAATTATTGAAATACCCCTGA
TGGG
Found at i:21876465 original size:27 final size:28
Alignment explanation
Indices: 21876424--21876713 Score: 278
Period size: 27 Copynumber: 10.7 Consensus size: 28
21876414 TCACACGAGC
**
21876424 GTAAAATTATTAAAATACCCTC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* *
21876451 GTAATATTACCAAAATACCC-CTAATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* * * *
21876478 GTAATATTATCGAAATACCCCCGAA-GG
1 GTAAAATTACCAAAATACCCTCGAATGG
*
21876505 GTAAAATTACTAAAATACCCT-G-ATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
*
21876531 GTAAAATTACCATAATACCCTC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* * *
21876558 GTAAAATTATCGAAATACCC-CTAATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* *
21876585 GTAAAATTATCGAAATACCCTCGAA-GG
1 GTAAAATTACCAAAATACCCTCGAATGG
**
21876612 GTAAAATTACTGAAATACCCTCGAA-GG
1 GTAAAATTACCAAAATACCCTCGAATGG
**
21876639 GTAAAATTACTGAAATACCCTC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
** *
21876666 GTAAAATTTTCAAAATACCCCCCG-ATGG
1 GTAAAATTACCAAAATA-CCCTCGAATGG
* *
21876694 GTAAAATTATCAGAATACCC
1 GTAAAATTACCAAAATACCC
21876714 CTATAGGGTA
Statistics
Matches: 227, Mismatches: 26, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.00
26 26 0.11
27 171 0.75
28 29 0.13
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (28 bp):
GTAAAATTACCAAAATACCCTCGAATGG
Found at i:21876494 original size:54 final size:54
Alignment explanation
Indices: 21876424--21876713 Score: 315
Period size: 54 Copynumber: 5.4 Consensus size: 54
21876414 TCACACGAGC
** *
21876424 GTAAAATTATTAAAATACCCTCAATGGGTAATATTACCAAAATACCCCTAATGG
1 GTAAAATTATCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
* * * *
21876478 GTAATATTATCGAAATACCCCCGAA-GGGTAAAATTACTAAAATA-CCCTGATGG
1 GTAAAATTATCGAAATACCCTC-AATGGGTAAAATTACCAAAATACCCCTAATGG
* * *
21876531 GTAAAATTA-CCATAATACCCTCAATGGGTAAAATTATCGAAATACCCCTAATGG
1 GTAAAATTATCGA-AATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
** *
21876585 GTAAAATTATCGAAATACCCTCGAA-GGGTAAAATTACTGAAATACCCTCGAA-GG
1 GTAAAATTATCGAAATACCCTC-AATGGGTAAAATTACCAAAATACCC-CTAATGG
** **
21876639 GTAAAATTA-CTGAAATACCCTCAATGGGTAAAATTTTCAAAATACCCCCCGATGG
1 GTAAAATTATC-GAAATACCCTCAATGGGTAAAATTACCAAAATA-CCCCTAATGG
21876694 GTAAAATTATC-AGAATACCC
1 GTAAAATTATCGA-AATACCC
21876714 CTATAGGGTA
Statistics
Matches: 199, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
52 4 0.02
53 43 0.22
54 121 0.61
55 30 0.15
56 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (54 bp):
GTAAAATTATCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
Found at i:21876610 original size:107 final size:108
Alignment explanation
Indices: 21876424--21876714 Score: 417
Period size: 107 Copynumber: 2.7 Consensus size: 108
21876414 TCACACGAGC
* * * * *
21876424 GTAAAATTATTAAAATACCCTCAATGGGTAATATTACCAAAATACCCCTAATGGGTAATATTATC
1 GTAAAATTACTCAAATACCCTCAATGGGTAAAATTATCAAAATACCCCTAATGGGTAAAATTATC
*
21876489 GAAATACCCCCGAAGGGTAAAATTACTAAAATACCCT-GATGG
66 GAAATACCCCCGAAGGGTAAAATTACTAAAATACCCTCGAAGG
*
21876531 GTAAAATTAC-CATAATACCCTCAATGGGTAAAATTATCGAAATACCCCTAATGGGTAAAATTAT
1 GTAAAATTACTCA-AATACCCTCAATGGGTAAAATTATCAAAATACCCCTAATGGGTAAAATTAT
* *
21876595 CGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGAAGG
65 CGAAATACCCCCGAAGGGTAAAATTACTAAAATACCCTCGAAGG
* * **
21876639 GTAAAATTACTGAAATACCCTCAATGGGTAAAATTTTCAAAATACCCCCCGATGGGTAAAATTAT
1 GTAAAATTACTCAAATACCCTCAATGGGTAAAATTATCAAAATA-CCCCTAATGGGTAAAATTAT
21876704 C-AGAATACCCC
65 CGA-AATACCCC
21876715 TATAGGGTAA
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
106 1 0.01
107 92 0.56
108 44 0.27
109 27 0.16
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (108 bp):
GTAAAATTACTCAAATACCCTCAATGGGTAAAATTATCAAAATACCCCTAATGGGTAAAATTATC
GAAATACCCCCGAAGGGTAAAATTACTAAAATACCCTCGAAGG
Found at i:21890500 original size:49 final size:50
Alignment explanation
Indices: 21890440--21890568 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
21890430 GATAATAACA
*
21890440 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTT-TC-T-TGTAC
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGG-TGTTCTCATAT-TAC
* * **
21890489 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGTGTTCTCATATTGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGTGTTCTCATATTAC
* * *
21890539 TGCCCATGCCATGTCCCAGACATGATCTTA
1 TGCCAATGTCATGTCCCAGACATGGTCTTA
21890569 TGGGGGACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.06
49 35 0.52
50 27 0.40
51 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGTGTTCTCATATTAC
Found at i:21890582 original size:50 final size:50
Alignment explanation
Indices: 21890528--21890686 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
21890518 ACATGGGTGT
* * * **
21890528 TCTCATATTGGTGCCCATGCCATGTCCCAGACATGATCTTATGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
* * *
21890578 TCTCATCTCGGTTCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
* * * * * *
21890628 TCTTATAACTTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 TCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
21890684 TCT
1 TCT
21890687 TTACCCAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
50 47 0.53
53 2 0.02
56 39 0.44
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
Found at i:21904797 original size:40 final size:40
Alignment explanation
Indices: 21904737--21905045 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
21904727 TGAGCATTGG
21904737 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21904777 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21904817 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21904857 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
21904897 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21904937 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21904977 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21905017 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
21905046 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:21913473 original size:40 final size:40
Alignment explanation
Indices: 21913413--21913721 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
21913403 TGAGCATTGG
21913413 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913453 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913493 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913533 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
21913573 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913613 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913653 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
21913693 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
21913722 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:21919986 original size:13 final size:13
Alignment explanation
Indices: 21919968--21920003 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21919958 CCATTTGTTA
*
21919968 TGTCACCATACTT
1 TGTCACCAAACTT
21919981 TGTCACCAAACTT
1 TGTCACCAAACTT
*
21919994 TGCCACCAAA
1 TGTCACCAAA
21920004 TCATTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (13 bp):
TGTCACCAAACTT
Found at i:21936147 original size:25 final size:25
Alignment explanation
Indices: 21936105--21936158 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21936095 TTTTCTCAAA
*
21936105 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
21936130 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
21936155 AATT
1 AATT
21936159 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:21936854 original size:32 final size:32
Alignment explanation
Indices: 21936816--21936886 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 32
21936806 TGTAGATGAT
* *
21936816 TTTTTAAAATATTTACAAAAAGAGGCATC-TAA
1 TTTTTAAAATATTTACAAAAAGA-GCAACAAAA
21936848 TTTTT--AATATTTACAAAAAGAGCAACAAAA
1 TTTTTAAAATATTTACAAAAAGAGCAACAAAA
21936878 TTTTTAAAA
1 TTTTTAAAA
21936887 ATAATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 4 0.12
30 23 0.68
32 7 0.21
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.35
Consensus pattern (32 bp):
TTTTTAAAATATTTACAAAAAGAGCAACAAAA
Found at i:21948150 original size:30 final size:30
Alignment explanation
Indices: 21948093--21948154 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
21948083 GGTTTTTGAA
* * *
21948093 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
*
21948123 AATATTTACAAAAAGAGTAACCAAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
21948153 AA
1 AA
21948155 AAATAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAACCAAATTTTT
Found at i:21957028 original size:17 final size:16
Alignment explanation
Indices: 21957003--21957043 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
21956993 TTTAGCCATT
*
21957003 TTTTATTTTTATTTTAA
1 TTTT-TTTTTAATTTAA
21957020 TATTTTTTTTAATTTAA
1 T-TTTTTTTTAATTTAA
21957037 TTTTTTT
1 TTTTTTT
21957044 ATATGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTAATTTAA
Found at i:21962906 original size:9 final size:10
Alignment explanation
Indices: 21962883--21962907 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21962873 AAGTTTTTTA
21962883 AAAAATATGC
1 AAAAATATGC
21962893 AAAAATATGC
1 AAAAATATGC
21962903 AAAAA
1 AAAAA
21962908 AAAATTGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAATATGC
Found at i:21963920 original size:3 final size:3
Alignment explanation
Indices: 21963914--21963989 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
21963904 CTCCCCTTAT
* * * *
21963914 TTA TTA TTA -TA TT- TTT TTA TTA TTA CTA TTA TTA CTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
21963960 TTC TGT- TTA TTA TATG TTG TTA TTA TTA TT
1 TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TT
21963990 TGTTTAGTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
2 5 0.08
3 51 0.86
4 3 0.05
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21965007 original size:37 final size:37
Alignment explanation
Indices: 21964957--21965033 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
21964947 ATGATGCATA
* * *
21964957 CTTTCTTTGGAGCACGGTGATGCGACGCC-AATTTGAT
1 CTTTCTTTCGAGCACAGCGATGCGAC-CCTAATTTGAT
21964994 CTTTCTTTCGAGCACAGCGATGCGACCCTAATTTGAT
1 CTTTCTTTCGAGCACAGCGATGCGACCCTAATTTGAT
21965031 CTT
1 CTT
21965034 GCATATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (37 bp):
CTTTCTTTCGAGCACAGCGATGCGACCCTAATTTGAT
Found at i:21978925 original size:43 final size:43
Alignment explanation
Indices: 21978877--21979136 Score: 206
Period size: 43 Copynumber: 6.1 Consensus size: 43
21978867 AAAAACTGCT
* *
21978877 GCTAAAGATCATGGTCTTTAGTGGCGCTTCTTCCACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * * *** *
21978920 GCTAAATATCATGGCCTTTAGCAGCACTTCTTTTGCAAACGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * *
21978963 GTTAAAGATCATGAG-CTTTAGCGGCGCTTCTACCACAAACGCC
1 GCTAAAGATCATG-GCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * * *
21979006 ACTAAAGATCATGGTCTTTAGCGGTGCTT-TTACCACAAATGTC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTT-CCACAAATGCC
* * * * * ** *
21979049 ACTAAAAAT-ATGACCTTTGGCGACATTTC-TACACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * * *
21979090 GCTAAAGATCATGACCTTTAGTGGTGCTTCTAT-TACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCT-TCCACAAATGCC
21979133 GCTA
1 GCTA
21979137 TAAAAATGAT
Statistics
Matches: 168, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
41 16 0.10
42 29 0.17
43 121 0.72
44 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
Found at i:21979168 original size:84 final size:84
Alignment explanation
Indices: 21978990--21979179 Score: 195
Period size: 84 Copynumber: 2.2 Consensus size: 84
21978980 TTAGCGGCGC
* ** * *
21978990 TTCTACCACAAACGCCACTAAAGATCATGGTCTTTAGCGGTGCTTTTACCACAAATGTCACTAAA
1 TTCTA-CACAAACGCCGCTAAAGATCATGACCTTTAGCGGTGCTTCTACCACAAATGCCACTAAA
*
21979055 AATATGACCTTTGGCGACAT
65 AATATGACCTTTAGCGACAT
* * ** *
21979075 TTCTACACAAATGCCGCTAAAGATCATGACCTTTAGTGGTGCTTCTATTACAAATGCCGCTATAA
1 TTCTACACAAACGCCGCTAAAGATCATGACCTTTAGCGGTGCTTCTACCACAAATGCCACTA-AA
** *
21979140 AA-ATGATTTTTAGCGGCACT
65 AATATGACCTTTAGCGACA-T
* *
21979160 TT-TTCACAAACGACGCTAAA
1 TTCTACACAAACGCCGCTAAA
21979180 AACTTGACTT
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
84 74 0.86
85 12 0.14
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (84 bp):
TTCTACACAAACGCCGCTAAAGATCATGACCTTTAGCGGTGCTTCTACCACAAATGCCACTAAAA
ATATGACCTTTAGCGACAT
Found at i:21995603 original size:7 final size:7
Alignment explanation
Indices: 21995591--21995617 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21995581 ATTTTGATAT
21995591 TTTAAAA
1 TTTAAAA
21995598 TTTAAAA
1 TTTAAAA
21995605 TTTAAAA
1 TTTAAAA
21995612 TTTAAA
1 TTTAAA
21995618 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:21995798 original size:31 final size:31
Alignment explanation
Indices: 21995760--21995843 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
21995750 GAATATATTA
*
21995760 TTGGGTGACTAAAACGAAAGTGACCTAG-GAG
1 TTGGGTGACCAAAACGAAAGTGA-CTAGCGAG
* * *
21995791 TTGGGTGACCAAAATGAAAGTCACTTGCGAG
1 TTGGGTGACCAAAACGAAAGTGACTAGCGAG
21995822 TTGGGTGACCAAAACGAAAGTG
1 TTGGGTGACCAAAACGAAAGTG
21995844 CAAACATGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.07
31 43 0.93
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (31 bp):
TTGGGTGACCAAAACGAAAGTGACTAGCGAG
Found at i:22000400 original size:21 final size:21
Alignment explanation
Indices: 22000371--22000420 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
22000361 AACAAAATAT
*
22000371 ATAAAATTATCATAAAGATAA
1 ATAATATTATCATAAAGATAA
*
22000392 ATAATATTATCATAAATATAA
1 ATAATATTATCATAAAGATAA
*
22000413 ATATTATT
1 ATAATATT
22000421 CAATTAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATATTATCATAAAGATAA
Found at i:22004149 original size:25 final size:25
Alignment explanation
Indices: 22004121--22004266 Score: 161
Period size: 25 Copynumber: 5.8 Consensus size: 25
22004111 CGGACACACA
*
22004121 ATAGCTCGT-ATGAGCTTACCAATTT
1 ATAGCTCGTGA-GAGCATACCAATTT
22004146 ATAGCTCGTGAGAGCATACCAATTT
1 ATAGCTCGTGAGAGCATACCAATTT
*
22004171 ACAGCTCGTGAGAGCATACCAATTTAT
1 ATAGCTCGTGAGAGCATACCAA-TT-T
**
22004198 ATAGCTCGTGAGAGCATACGGATTT
1 ATAGCTCGTGAGAGCATACCAATTT
* * * *
22004223 ACAGCTCGAGAGAGCATACCGATTC
1 ATAGCTCGTGAGAGCATACCAATTT
*
22004248 ACAGCTCGT-ATGAGCATAC
1 ATAGCTCGTGA-GAGCATAC
22004267 ATATACATGA
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
24 1 0.01
25 81 0.76
26 5 0.05
27 20 0.19
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATACCAATTT
Found at i:22004215 original size:52 final size:50
Alignment explanation
Indices: 22004123--22004266 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 50
22004113 GACACACAAT
*
22004123 AGCTCGT-ATGAGCTTACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
1 AGCTCGTGA-GAGCATACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
**
22004173 AGCTCGTGAGAGCATACCAATTTATATAGCTCGTGAGAGCATACGGATTTAC
1 AGCTCGTGAGAGCATACCAA-TT-TATAGCTCGTGAGAGCATACCAATTTAC
* * * *
22004225 AGCTCGAGAGAGCATACCGATTCACAGCTCGT-ATGAGCATAC
1 AGCTCGTGAGAGCATACCAATTTATAGCTCGTGA-GAGCATAC
22004267 ATATACATGA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.01
50 33 0.40
51 5 0.06
52 44 0.53
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
AGCTCGTGAGAGCATACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
Found at i:22010968 original size:25 final size:25
Alignment explanation
Indices: 22010900--22010980 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
22010890 TATGCTCGTA
* *
22010900 CGAGCTATGAATCGGTATGGT-TACT
1 CGAGCTATGAATCAGTATGCTCT-CT
* * *
22010925 TGAGCTATAGATTGA-TATGCTCTCT
1 CGAGCTAT-GAATCAGTATGCTCTCT
* *
22010950 CGAGCTATGAATCAGTATGCTCACA
1 CGAGCTATGAATCAGTATGCTCTCT
22010975 CGAGCT
1 CGAGCT
22010981 GTAGGTCAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.09
25 35 0.81
26 4 0.09
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
CGAGCTATGAATCAGTATGCTCTCT
Found at i:22021229 original size:72 final size:72
Alignment explanation
Indices: 22021149--22021283 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
22021139 CACCTACACG
* *
22021149 TATACGCCAAAATAATAATTTTGGAGGATAACACCACACCAAATAGACTGTTTACTGCTATACGT
1 TATACGCCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATACGT
22021214 CAACGCT
66 CAACGCT
* * ** *
22021221 TATACGCCAAAATAATCATTTGGGTGGATAACACCACGTCAGACAGACTGTTTACTGCTATAC
1 TATACGCCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATAC
22021284 TCCCAAAACC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (72 bp):
TATACGCCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATACGT
CAACGCT
Found at i:22023559 original size:22 final size:22
Alignment explanation
Indices: 22023534--22023575 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
22023524 AGAACTAAAA
22023534 TAAACAAACGTTAGTGGTTAAC
1 TAAACAAACGTTAGTGGTTAAC
22023556 TAAACAAACGTTAGTGGTTA
1 TAAACAAACGTTAGTGGTTA
22023576 GTTTAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (22 bp):
TAAACAAACGTTAGTGGTTAAC
Found at i:22024634 original size:23 final size:24
Alignment explanation
Indices: 22024590--22024653 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
22024580 TTAATGTTCA
*
22024590 CGAACATGTTCATTTAAC-TT-AAT
1 CGAACATGTTCA-TGAACATTAAAT
*
22024613 CGAACATGTTCACGAACATTAAAT
1 CGAACATGTTCATGAACATTAAAT
22024637 -GAACATGTTCATGAACA
1 CGAACATGTTCATGAACA
22024654 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.08
23 30 0.83
24 3 0.08
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (24 bp):
CGAACATGTTCATGAACATTAAAT
Found at i:22044997 original size:21 final size:21
Alignment explanation
Indices: 22044972--22045014 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
22044962 TGTAATTAAA
*
22044972 TAATTATGAGT-GAAAAATAAT
1 TAATT-TGAGTCGAAAAAGAAT
*
22044993 TAATTTGGGTCGAAAAAGAAT
1 TAATTTGAGTCGAAAAAGAAT
22045014 T
1 T
22045015 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (21 bp):
TAATTTGAGTCGAAAAAGAAT
Found at i:22053427 original size:58 final size:56
Alignment explanation
Indices: 22053365--22053512 Score: 176
Period size: 57 Copynumber: 2.6 Consensus size: 56
22053355 TTTTAATAAG
*
22053365 ATTATTATTAAATATAATTTAATAAAAATAATAAAAAAATTAATCATATT-TTAACAT
1 ATTATTATTAAATATAATTTAATAAAAATAATAAAAAAATTAATAATATTCTT-A-AT
* * * *
22053422 AATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATATTCTTAAT
1 -ATTATTATTAAATATAATTTAATAAAAATAATAAAAAAATTAATAATATTCTTAAT
*
22053478 ATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
22053513 TATATAATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
55 9 0.12
56 12 0.15
57 33 0.42
58 24 0.31
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAAAAAATTAATAATATTCTTAAT
Found at i:22053517 original size:24 final size:23
Alignment explanation
Indices: 22053490--22053539 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
22053480 TATTATTAAA
*
22053490 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
22053514 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
22053537 ATA
1 ATA
22053540 ACCTACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:22056547 original size:21 final size:22
Alignment explanation
Indices: 22056511--22056554 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
22056501 ATAAGTGCTT
*
22056511 TGATTTTTTTAATTATTTTGGA
1 TGATTTTTTTAATTATTCTGGA
*
22056533 TGATTTTTTT-CTTATTCTGGA
1 TGATTTTTTTAATTATTCTGGA
22056554 T
1 T
22056555 TGGTTGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
TGATTTTTTTAATTATTCTGGA
Found at i:22058152 original size:101 final size:101
Alignment explanation
Indices: 22057972--22058183 Score: 334
Period size: 101 Copynumber: 2.1 Consensus size: 101
22057962 ACTCGACAAC
* * * * *
22057972 TTGTATGAGCAGCATTGTGTAGCCTCCATTCTGACTGTCAGCTTTTGTTAGCAGGCCCATTTTAC
1 TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATGTGAGCAGGCCCATTTTAC
* *
22058037 TGCTCATATGAGCTACGACTATATGTTTACCACACT
66 AGCTCATATAAGCTACGACTATATGTTTACCACACT
*
22058073 TTGTGTGAGCAACATTGTGTAGCTTCCATTCTGACCGTCAGCTTATGTGAGCAGGCCCATTTTAC
1 TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATGTGAGCAGGCCCATTTTAC
* *
22058138 AGCTCGTATAAGCTATGACTATATGTTTACCACACT
66 AGCTCATATAAGCTACGACTATATGTTTACCACACT
22058174 TTGTGTGAGC
1 TTGTGTGAGC
22058184 TTTACCGTGT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (101 bp):
TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATGTGAGCAGGCCCATTTTAC
AGCTCATATAAGCTACGACTATATGTTTACCACACT
Found at i:22065272 original size:23 final size:23
Alignment explanation
Indices: 22065245--22065343 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
22065235 AGTGTTATTG
22065245 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22065268 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22065291 -TACAGTGGTAGCTTCGGCTACAT
1 AT-CAGTGGTAGCTTCGGCTACAT
*
22065314 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22065337 ATCAGTG
1 ATCAGTG
22065344 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22065593 original size:23 final size:25
Alignment explanation
Indices: 22065547--22065594 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
22065537 GAAATTGCTA
* *
22065547 AGAAATGTTTGATTAGTTATATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
22065572 AGAAATG-TTAATT-GTTAAATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
22065595 TATTTATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (25 bp):
AGAAATGTTTAATTAGTTAAATGAG
Found at i:22069245 original size:9 final size:9
Alignment explanation
Indices: 22069231--22069255 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22069221 GAGACGAAAA
22069231 AAAGAAATG
1 AAAGAAATG
22069240 AAAGAAATG
1 AAAGAAATG
22069249 AAAGAAA
1 AAAGAAA
22069256 AGGAACAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (9 bp):
AAAGAAATG
Found at i:22069400 original size:18 final size:18
Alignment explanation
Indices: 22069362--22069403 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22069352 AAACCGAAAG
* **
22069362 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCAA
22069380 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCAA
22069398 AAAAGA
1 AAAAGA
22069404 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCAA
Found at i:22071896 original size:30 final size:32
Alignment explanation
Indices: 22071841--22071910 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
22071831 AAATGTTCCC
* *
22071841 TTCACACACTAAGGCCTTTCAATTTCGTGT-G
1 TTCACACACTAAGGCCTATCAATTTCCTGTAG
*
22071872 TTCACACAC-AAGGCCTGATC-ATTTCCTTTAG
1 TTCACACACTAAGGCCT-ATCAATTTCCTGTAG
22071903 TTCACACA
1 TTCACACA
22071911 TAGAAACGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
TTCACACACTAAGGCCTATCAATTTCCTGTAG
Found at i:22078256 original size:22 final size:22
Alignment explanation
Indices: 22078229--22078274 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22078219 GTTAAGAACA
22078229 TTTTTTGCTAGACTGAGTTTTT
1 TTTTTTGCTAGACTGAGTTTTT
22078251 TTTTTTGCTAGACTGAGTTTTT
1 TTTTTTGCTAGACTGAGTTTTT
22078273 TT
1 TT
22078275 AAGGATAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.09, G:0.17, T:0.61
Consensus pattern (22 bp):
TTTTTTGCTAGACTGAGTTTTT
Found at i:22081870 original size:20 final size:20
Alignment explanation
Indices: 22081847--22081900 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
22081837 AACTAAGAAC
22081847 GAGCTGAATGAGCTAAGGAT
1 GAGCTGAATGAGCTAAGGAT
* * *
22081867 GAGCTCAATGAGCTATGGTT
1 GAGCTGAATGAGCTAAGGAT
22081887 GAGCTGAATGAGCT
1 GAGCTGAATGAGCT
22081901 TGAAGTAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (20 bp):
GAGCTGAATGAGCTAAGGAT
Found at i:22082205 original size:14 final size:15
Alignment explanation
Indices: 22082186--22082226 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
22082176 GTTGTAAAGT
22082186 TTTATTTTTATTTA-
1 TTTATTTTTATTTAG
*
22082200 TTTATTTTTACTTAG
1 TTTATTTTTATTTAG
22082215 TTTAATTTTTAT
1 TTT-ATTTTTAT
22082227 GTAAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATTTAG
Found at i:22086071 original size:23 final size:22
Alignment explanation
Indices: 22086020--22086071 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
22086010 CCTCGTCTTT
*
22086020 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
22086042 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
22086065 TTCTTTT
1 TTCTTTT
22086072 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:22095081 original size:20 final size:20
Alignment explanation
Indices: 22095058--22095111 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
22095048 AACTAAGAAC
*
22095058 GAGCTGAATAAGCTAAGGAT
1 GAGCTGAATGAGCTAAGGAT
* * * *
22095078 GAGCTCAATGGGCTATGGTT
1 GAGCTGAATGAGCTAAGGAT
22095098 GAGCTGAATGAGCT
1 GAGCTGAATGAGCT
22095112 TGAAGTAGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (20 bp):
GAGCTGAATGAGCTAAGGAT
Found at i:22099678 original size:22 final size:21
Alignment explanation
Indices: 22099647--22099688 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
22099637 CTCATTTAAC
*
22099647 ACTTAACTAAATTAATTAAAT
1 ACTTAACTAAATTAACTAAAT
22099668 ACTTAAACTAAATTAACTAAA
1 ACTT-AACTAAATTAACTAAA
22099689 ATTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTTAACTAAATTAACTAAAT
Found at i:22101577 original size:15 final size:15
Alignment explanation
Indices: 22101556--22101614 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
22101546 AGTCTCACTC
22101556 TCTTTTTCAATTTCTT
1 TCTTTTTC-ATTTCTT
22101572 TC-TTTT--TTTC-T
1 TCTTTTTCATTTCTT
* *
22101583 TCTTTTTCTTTTTTT
1 TCTTTTTCATTTCTT
22101598 TCTTTTTCAATTTCTT
1 TCTTTTTC-ATTTCTT
22101614 T
1 T
22101615 TTCACTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
11 3 0.09
12 8 0.23
14 3 0.09
15 13 0.37
16 8 0.23
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTTCATTTCTT
Found at i:22101590 original size:9 final size:8
Alignment explanation
Indices: 22101570--22101604 Score: 52
Period size: 9 Copynumber: 4.1 Consensus size: 8
22101560 TTTCAATTTC
22101570 TTTCTTTT
1 TTTCTTTT
22101578 TTTCTTCTT
1 TTTCTT-TT
22101587 TTTCTTTTT
1 TTTC-TTTT
22101596 TTTCTTTT
1 TTTCTTTT
22101604 T
1 T
22101605 CAATTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 11 0.44
9 12 0.48
10 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTCTTTT
Found at i:22101611 original size:21 final size:21
Alignment explanation
Indices: 22101556--22101616 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
22101546 AGTCTCACTC
22101556 TCTTTTTCAATTTCTTTCTTTT
1 TCTTTTTCAATTTCTTT-TTTT
* **
22101578 T-TTCTTCTTTTTCTTTTTTT
1 TCTTTTTCAATTTCTTTTTTT
22101598 TCTTTTTCAATTTCTTTTT
1 TCTTTTTCAATTTCTTTTT
22101617 CACTTTCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.16
21 26 0.81
22 1 0.03
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (21 bp):
TCTTTTTCAATTTCTTTTTTT
Found at i:22101617 original size:12 final size:12
Alignment explanation
Indices: 22101596--22101630 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
22101586 TTTTCTTTTT
22101596 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
22101608 TTTCTTTTTCAC
1 TTTCTTTTTCAA
22101620 TTTCATTTTTC
1 TTTC-TTTTTC
22101631 TCTTCTCGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:22102789 original size:10 final size:10
Alignment explanation
Indices: 22102776--22102832 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
22102766 ATTTCTATGA
22102776 TTTTTTTAA-
1 TTTTTTTAAT
22102785 TTTTTTT-AT
1 TTTTTTTAAT
*
22102794 TTTTTTGAAT
1 TTTTTTTAAT
*
22102804 TTTTTTTTAT
1 TTTTTTTAAT
*
22102814 TTTTTTGAAAT
1 TTTTTT-TAAT
22102825 TTTTTTTA
1 TTTTTTTA
22102833 CAATATCGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 13 0.33
10 17 0.44
11 8 0.21
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:22102811 original size:21 final size:20
Alignment explanation
Indices: 22102785--22102832 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
22102775 ATTTTTTTAA
22102785 TTTTTTTATTTTTTTGAATT
1 TTTTTTTATTTTTTTGAATT
*
22102805 TTTTTTTATTTTTTTGAAAT
1 TTTTTTTATTTTTTTGAATT
22102825 TTTTTTTA
1 TTTTTTTA
22102833 CAATATCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTATTTTTTTGAATT
Found at i:22103109 original size:31 final size:31
Alignment explanation
Indices: 22103066--22103130 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
22103056 AAGGCTGAAG
22103066 AAAGAACAGATATTATATGCAATATCAACCC
1 AAAGAACAGATATTATATGCAATATCAACCC
*
22103097 AAAGAACCGATATTATATGCAATATCAACCC
1 AAAGAACAGATATTATATGCAATATCAACCC
22103128 AAA
1 AAA
22103131 TCTTGCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (31 bp):
AAAGAACAGATATTATATGCAATATCAACCC
Found at i:22114849 original size:19 final size:20
Alignment explanation
Indices: 22114797--22114850 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
22114787 AGCTCAATTC
* *
22114797 AGCTCAATTTTAGCTCAATA
1 AGCTCATTTTTAGCTCAACA
**
22114817 AGCTCATTCCTAGCTC-ACA
1 AGCTCATTTTTAGCTCAACA
*
22114836 AGCTCGTTTTTAGCT
1 AGCTCATTTTTAGCT
22114851 TACTTTAGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (20 bp):
AGCTCATTTTTAGCTCAACA
Found at i:22117045 original size:23 final size:23
Alignment explanation
Indices: 22117018--22117074 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
22117008 AAATAAATAT
* *
22117018 TAAA-CTATAATTACAATTGAAAA
1 TAAACCTA-AATTACAAGTAAAAA
22117041 TAAACCTAAATTACAAGTAAAAA
1 TAAACCTAAATTACAAGTAAAAA
*
22117064 TAAAACTAAAT
1 TAAACCTAAAT
22117075 AGGAAACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAACCTAAATTACAAGTAAAAA
Found at i:22123516 original size:27 final size:26
Alignment explanation
Indices: 22123485--22123662 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
22123475 GAAATTGTAC
22123485 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
22123512 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
22123538 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
22123566 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* * *
22123594 AGCACTAAGTGTGCGATTTCATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
22123621 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
22123648 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22123663 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:22123544 original size:54 final size:55
Alignment explanation
Indices: 22123485--22123662 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 55
22123475 GAAATTGTAC
*
22123485 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
* * ** *
22123540 -GCACTAAGTGTGCGAATT-GACCATGCGGCACTAAGTGTGCGAGTCTGACTATG-T
1 AGCACTAAGTGTGCG-ATTCGACTATGTGGCACTAAGTGTGCGA-AATGAATATGAT
* * ** *
22123594 AGCACTAAGTGTGCGATTTC-ATTACGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
*
22123648 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22123663 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
54 58 0.56
55 45 0.44
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
Found at i:22123626 original size:82 final size:81
Alignment explanation
Indices: 22123486--22123641 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
22123476 AAATTGTACA
* * * *
22123486 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAAGTGT
22123551 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
22123567 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTCATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATCAATACGAT-GCACTAAGT
*
22123631 GTGCGAGTTGA
64 GTGCGAATTGA
22123642 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22123653 original size:82 final size:81
Alignment explanation
Indices: 22123482--22123662 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
22123472 AGCGAAATTG
* * * *
22123482 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAA
22123547 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22123563 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTCATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATCAATACGAT-GCACT
* **
22123627 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22123645 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22123663 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22128028 original size:24 final size:22
Alignment explanation
Indices: 22127986--22128029 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
22127976 CTTGGACCAA
22127986 GATTTTCAAATTTTGAAATCTT
1 GATTTTCAAATTTTGAAATCTT
*
22128008 GATTTTCTTAATTCTTGAAATC
1 GATTTTC-AAATT-TTGAAATC
22128030 GCTCCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (22 bp):
GATTTTCAAATTTTGAAATCTT
Found at i:22129007 original size:24 final size:24
Alignment explanation
Indices: 22128980--22129026 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
22128970 CACACTTGTG
22128980 TGAATACTTTAGTTTTGGTGTGCA
1 TGAATACTTTAGTTTTGGTGTGCA
22129004 TGAATACTTTAGTTTTGGTGTGC
1 TGAATACTTTAGTTTTGGTGTGC
22129027 CAGTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.47
Consensus pattern (24 bp):
TGAATACTTTAGTTTTGGTGTGCA
Found at i:22132821 original size:15 final size:15
Alignment explanation
Indices: 22132801--22132846 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
22132791 CTTAAATTAC
22132801 GTTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
*
22132816 GTTTAAAT-A-TTAT
1 GTTTAAGTCACTTAT
22132829 GTTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
22132844 GTT
1 GTT
22132847 AACATGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.41
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (15 bp):
GTTTAAGTCACTTAT
Found at i:22135472 original size:35 final size:34
Alignment explanation
Indices: 22135432--22135619 Score: 128
Period size: 35 Copynumber: 5.4 Consensus size: 34
22135422 ATCTTTTTGC
*
22135432 GCCCAGTACTAGTTGGATATACCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATA-ACCAACGATAAGTGT
* * * * ** *
22135467 GCCCAGTACTAGTCGAATAATCGCCAATG-T-TTTGC
1 GCCCAGCACTAGTTGGATAA---CCAACGATAAGTGT
* *
22135502 GCCCAGCGCTAGTTGGATAAGCCAACGATAGGTGT
1 GCCCAGCACTAGTTGGATAA-CCAACGATAAGTGT
* * * * *** *
22135537 GCCCAGCACTAGTCGAATAATCGACGATGTTTTGC
1 GCCCAGCACTAGTTGGATAACCAACGAT-AAGTGT
*
22135572 GCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATAA-CCAACGATAAGTGT
22135607 GCCCAGCACTAGT
1 GCCCAGCACTAGT
22135620 CAAGTAATCG
Statistics
Matches: 113, Mismatches: 33, Indels: 14
0.71 0.21 0.09
Matches are distributed among these distances:
33 6 0.05
34 8 0.07
35 87 0.77
36 7 0.06
37 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (34 bp):
GCCCAGCACTAGTTGGATAACCAACGATAAGTGT
Found at i:22135514 original size:70 final size:70
Alignment explanation
Indices: 22135426--22135660 Score: 350
Period size: 70 Copynumber: 3.3 Consensus size: 70
22135416 AAAATAATCT
** *
22135426 TTTTGCGCCCAGTACTAGTTGGATATA-CCAACGATAAGTGTGCCCAGTACTAGTCGAATAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATA-AGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCG
*
22135490 CCAATG
65 ACAATG
*
22135496 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAGGTGTGCCCAGCACTAGTCGAATAATCGA
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
*
22135561 CGATG
66 CAATG
22135566 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTC-AAGTAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAA-TAATCG
22135630 ACAA-G
65 ACAATG
*
22135635 ATTTTTGCGCCCAGCGCTAGTCGGAT
1 --TTTTGCGCCCAGCGCTAGTTGGAT
22135661 TAACCGACAA
Statistics
Matches: 152, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
69 4 0.03
70 125 0.82
71 23 0.15
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (70 bp):
TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
CAATG
Found at i:22136683 original size:27 final size:27
Alignment explanation
Indices: 22136645--22136708 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
22136635 TTATTTTTAT
*
22136645 TATA-ATAGTATTA-ACATCACATATATA
1 TATATATA-TATTATACATAACATA-ATA
*
22136672 TATATATATATTATACTTAACATAATA
1 TATATATATATTATACATAACATAATA
*
22136699 CATATATATA
1 TATATATATA
22136709 GAATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (27 bp):
TATATATATATTATACATAACATAATA
Found at i:22146209 original size:98 final size:98
Alignment explanation
Indices: 22146040--22146237 Score: 308
Period size: 98 Copynumber: 2.0 Consensus size: 98
22146030 AATAATCCTT
* *
22146040 AGCAAATTGAAGGATGAAAAATGAATTCCCACGGCTCCTTAAAGAAAATCAAGAAGAAAACTAAT
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTAAT
*
22146105 TCTAAAAATCACAAGAAAGCAATCTTGCACAAA
66 TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
* * * *
22146138 AGCAATTTGAAGGATGAAGAATAAATTCCCATGACTCCTTAAAGAAAATCAAGAAGAAAAC-AGC
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTA-A
*
22146202 TTCTAAAAACCATAAGAAAGCAATCTTGCACAAA
65 TTCTAAAAACCACAAGAAAGCAATCTTGCACAAA
22146236 AG
1 AG
22146238 AACTAACTCT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
97 1 0.01
98 90 0.99
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (98 bp):
AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTAAT
TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
Found at i:22151599 original size:13 final size:13
Alignment explanation
Indices: 22151583--22151607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22151573 ACTTAATTAA
22151583 ATTATTATATTTT
1 ATTATTATATTTT
22151596 ATTATTATATTT
1 ATTATTATATTT
22151608 CATGTCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:22152477 original size:126 final size:126
Alignment explanation
Indices: 22152252--22152677 Score: 644
Period size: 126 Copynumber: 3.4 Consensus size: 126
22152242 ATAAAATATC
* * * *
22152252 AGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
*
22152317 TTTCGAGTTGACGTTTCTCAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
*
22152378 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* *
22152443 TTTCGAGTTCACGTTTCTGAGCAAATAGTATAAAATAACGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
* ** *
22152504 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTATTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * * *
22152569 TTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATC-A--CTTCTAGTAGGATGCT-TTATG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-CAACGCTGCAAGCAGGATGCTATT-TG
*
22152628 AGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
22152678 CATGTTTGGG
Statistics
Matches: 276, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
123 2 0.01
124 63 0.23
126 211 0.76
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (126 bp):
AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
Found at i:22153310 original size:22 final size:22
Alignment explanation
Indices: 22153279--22153645 Score: 494
Period size: 22 Copynumber: 17.0 Consensus size: 22
22153269 GCTCGAAAGA
*
22153279 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
22153301 GTTTAGGGTTTTTAAGTTAA-G
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
22153322 GTTTATGGATTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153344 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153366 GTTTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
22153388 G-TTAAGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153409 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
22153431 GTTTAGGGGTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153453 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153475 GTTTAGGGTTTTTAAGTTAAGA
1 GTTTAGGGTTTTTAAGTTAAGG
22153497 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*** *
22153519 G-TTACTATTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
22153540 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
22153562 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
22153584 ATTTATGGTTTTTAAGTT--GG
1 GTTTAGGGTTTTTAAGTTAAGG
*
22153604 GTTTAGGGTTTTTAAGTTGAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
22153626 G-TTAGGATTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAG
22153646 AATTAAGGGT
Statistics
Matches: 305, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.06
21 71 0.23
22 216 0.71
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (22 bp):
GTTTAGGGTTTTTAAGTTAAGG
Found at i:22153385 original size:65 final size:65
Alignment explanation
Indices: 22153279--22153645 Score: 526
Period size: 65 Copynumber: 5.7 Consensus size: 65
22153269 GCTCGAAAGA
* *
22153279 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTATGGATTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTATGGTTTTTAGGTTAAGG
* * * *
22153344 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAAGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTATGGTTTTTAGGTTAAGG
* * * *
22153409 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGGTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGTTTATGGTTTTTAGGTTAAG
22153474 G
65 G
* * *
22153475 GTTTAGGGTTTTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTACT-ATTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTA-TGGTTTTTAGGTTAAG
22153539 G
65 G
*
22153540 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGATTTATGGTTTTTAAGTT--G
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-TTTATGGTTTTTAGGTTAAG
22153603 G
65 G
* * *
22153604 GTTTAGGGTTTTTAAGTTGAGGG-TTAGGATTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
22153646 AATTAAGGGT
Statistics
Matches: 276, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
63 17 0.06
64 24 0.09
65 164 0.59
66 71 0.26
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (65 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTATGGTTTTTAGGTTAAGG
Found at i:22153428 original size:87 final size:88
Alignment explanation
Indices: 22153279--22153645 Score: 512
Period size: 87 Copynumber: 4.2 Consensus size: 88
22153269 GCTCGAAAGA
* * *
22153279 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGTTTATGGATTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
*
22153343 GGTTTATGGTTTTTAAGTTAAGG
66 GGTTTAGGGTTTTTAAGTTAAGG
* * *
22153366 GTTTAGGGTTTTTAGGTTAAGGG-TTAAGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
* *
22153430 GGTTTAGGGGTTTTAGGTTAAGG
66 GGTTTAGGGTTTTTAAGTTAAGG
* * *
22153453 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
*** *
22153518 GG-TTACTATTTTTAGGTTAAGG
66 GGTTTAGGGTTTTTAAGTTAAGG
*
22153540 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGATTTATGGTTTTTAAGTT--G
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
*
22153603 GGTTTAGGGTTTTTAAGTTGAGG
66 GGTTTAGGGTTTTTAAGTTAAGG
* *
22153626 G-TTAGGATTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAG
22153646 AATTAAGGGT
Statistics
Matches: 247, Mismatches: 30, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
85 20 0.08
86 32 0.13
87 156 0.63
88 39 0.16
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (88 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
GGTTTAGGGTTTTTAAGTTAAGG
Found at i:22154255 original size:18 final size:18
Alignment explanation
Indices: 22154229--22154271 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22154219 GACTCGAAAA
* *
22154229 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
22154247 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
22154265 AGGAAAC
1 AGGAAAC
22154272 GCACCTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:22155100 original size:20 final size:20
Alignment explanation
Indices: 22155063--22155100 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22155053 TTTATTTTTA
*
22155063 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
22155083 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
22155101 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:22156082 original size:51 final size:51
Alignment explanation
Indices: 22156038--22156137 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
22156028 AATTATTTAA
*
22156038 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * * *
22156089 AAATATGAATTTAAGAGAAATTTGGAAGGAATTTGAGAGTAAATTGAGA
1 AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
22156138 GGATATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:22156140 original size:22 final size:21
Alignment explanation
Indices: 22156115--22156173 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
22156105 GAAATTTGGA
*
22156115 AGGAATTTGAGAGTAAATTGAG
1 AGGAATTTGAGAG-AAAATGAG
22156137 AGGATATTTTGAG-GAAAATGAG
1 AGGA-A-TTTGAGAGAAAATGAG
*
22156159 ATGAAATTTGAGAGA
1 A-GGAATTTGAGAGA
22156174 TGATTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 6 0.19
22 15 0.48
23 4 0.13
24 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (21 bp):
AGGAATTTGAGAGAAAATGAG
Found at i:22157390 original size:17 final size:18
Alignment explanation
Indices: 22157368--22157414 Score: 80
Period size: 17 Copynumber: 2.7 Consensus size: 18
22157358 TTTTTCACAT
22157368 AAAAAATATAAATTATC-
1 AAAAAATATAAATTATCA
22157385 AAAAAATA-AAATTATCA
1 AAAAAATATAAATTATCA
22157402 AAAAAATATAAAT
1 AAAAAATATAAAT
22157415 ATTATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.29
17 16 0.57
18 4 0.14
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATATAAATTATCA
Found at i:22157393 original size:15 final size:16
Alignment explanation
Indices: 22157368--22157406 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
22157358 TTTTTCACAT
22157368 AAAAAATATAAATTATC
1 AAAAAATA-AAATTATC
22157385 AAAAAATAAAATTATC
1 AAAAAATAAAATTATC
22157401 AAAAAA
1 AAAAAA
22157407 ATATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAAAATTATC
Found at i:22157470 original size:9 final size:9
Alignment explanation
Indices: 22157458--22157572 Score: 74
Period size: 9 Copynumber: 12.2 Consensus size: 9
22157448 AAACTCTAAT
22157458 AAATTATAA
1 AAATTATAA
22157467 AAATTAT-A
1 AAATTATAA
22157475 AAATTCATAA
1 AAATT-ATAA
22157485 AATATT-TAA
1 AA-ATTATAA
*
22157494 AATTTTATAA
1 AA-ATTATAA
*
22157504 AAATGCATTAA
1 AAAT-TA-TAA
*
22157515 AATTCTATAA
1 AAAT-TATAA
*
22157525 AAATCATAA
1 AAATTATAA
*
22157534 AAA-TATTA
1 AAATTATAA
22157542 AAATTAATATA
1 AAATT-ATA-A
*
22157553 AACTTATAA
1 AAATTATAA
*
22157562 AAAATATAA
1 AAATTATAA
22157571 AA
1 AA
22157573 TAAATCAGTC
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
8 12 0.14
9 36 0.43
10 20 0.24
11 15 0.18
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:22157505 original size:19 final size:18
Alignment explanation
Indices: 22157461--22157573 Score: 86
Period size: 19 Copynumber: 6.0 Consensus size: 18
22157451 CTCTAATAAA
22157461 TTATAAAAATTATAAAAT
1 TTATAAAAATTATAAAAT
*
22157479 TCATAAAATATT-TAAAATT
1 TTATAAAA-ATTATAAAA-T
*
22157498 TTATAAAAATGCATTAAAAT
1 TTATAAAAAT-TA-TAAAAT
*
22157518 TCTATAAAAATCATAAAA-
1 T-TATAAAAATTATAAAAT
* * *
22157536 ATATTAAAATTAATATAAAC
1 TTATAAAAATT-ATA-AAAT
*
22157556 TTATAAAAAATATAAAAT
1 TTATAAAAATTATAAAAT
22157574 AAATCAGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.11
18 20 0.26
19 22 0.29
20 12 0.16
21 14 0.18
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (18 bp):
TTATAAAAATTATAAAAT
Found at i:22157536 original size:20 final size:20
Alignment explanation
Indices: 22157462--22157537 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 20
22157452 TCTAATAAAT
*
22157462 TATAAAAATTA-TAAAATTC
1 TATAAAAATCATTAAAATTC
*
22157481 -AT-AAAAT-ATTTAAAATTT
1 TATAAAAATCA-TTAAAATTC
22157499 TATAAAAATGCATTAAAATTC
1 TATAAAAAT-CATTAAAATTC
*
22157520 TATAAAAATCATAAAAAT
1 TATAAAAATCATTAAAAT
22157538 ATTAAAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.02
17 5 0.10
18 9 0.19
19 2 0.04
20 13 0.27
21 17 0.35
22 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (20 bp):
TATAAAAATCATTAAAATTC
Found at i:22157561 original size:28 final size:28
Alignment explanation
Indices: 22157462--22157573 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
22157452 TCTAATAAAT
*
22157462 TATAAAAATTATAAAATTCA-TAAAA-TA
1 TATAAAAATTATAAAAAT-ATTAAAATTA
* * *
22157489 TTTAAAATTTTATAAAAATGCATTAAAATTC
1 TATAAAA-ATTATAAAAAT--ATTAAAATTA
*
22157520 TATAAAAATCATAAAAATATTAAAATTA
1 TATAAAAATTATAAAAATATTAAAATTA
*
22157548 -ATATAAACTTATAAAAA-ATATAAAAT
1 TATA-AAAATTATAAAAATAT-TAAAAT
22157574 AAATCAGTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
27 11 0.16
28 35 0.51
29 2 0.03
30 14 0.20
31 7 0.10
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
TATAAAAATTATAAAAATATTAAAATTA
Found at i:22159746 original size:5 final size:5
Alignment explanation
Indices: 22159705--22159744 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
22159695 TTCTTTTTAG
* * *
22159705 AATTT AATTT AATTT AATTT AATTT GATTT GATTT TATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
22159745 TACTTTGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (5 bp):
AATTT
Found at i:22170339 original size:40 final size:40
Alignment explanation
Indices: 22170284--22170550 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
22170274 AACATTGGAT
22170284 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22170324 TATATCCGGACTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
22170364 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
22170404 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22170444 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
22170484 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22170524 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
22170551 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:22172979 original size:27 final size:27
Alignment explanation
Indices: 22172948--22173070 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
22172938 CTCGTATCAA
* * *
22172948 GTATTTTGATCATTTTACCATATGGGG
1 GTATTTCGATCATTTTACCCTATAGGG
* *
22172975 GTATTTCGGTTAATTTT-CCCTAT-GAGG
1 GTATTTC-GATCATTTTACCCTATAG-GG
* *
22173002 GTATTTTGATCAATTTACCCTATAGGG
1 GTATTTCGATCATTTTACCCTATAGGG
* * * *
22173029 GTATTTCGGTTATTTTATCGTATAGGG
1 GTATTTCGATCATTTTACCCTATAGGG
22173056 GTATTTCGATCATTT
1 GTATTTCGATCATTT
22173071 ATCGACCTCT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
26 7 0.09
27 61 0.80
28 8 0.11
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (27 bp):
GTATTTCGATCATTTTACCCTATAGGG
Found at i:22173012 original size:54 final size:54
Alignment explanation
Indices: 22172948--22173070 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
22172938 CTCGTATCAA
*
22172948 GTATTTTGATCATTTTACCATATGGGGGTATTTCGGTTAATTTT-CCCTAT-GAGG
1 GTATTTTGATCATTTTACCATATAGGGGTATTTCGGTT-ATTTTACCCTATAG-GG
* * * *
22173002 GTATTTTGATCAATTTACCCTATAGGGGTATTTCGGTTATTTTATCGTATAGGG
1 GTATTTTGATCATTTTACCATATAGGGGTATTTCGGTTATTTTACCCTATAGGG
*
22173056 GTATTTCGATCATTT
1 GTATTTTGATCATTT
22173071 ATCGACCTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
53 5 0.08
54 54 0.90
55 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (54 bp):
GTATTTTGATCATTTTACCATATAGGGGTATTTCGGTTATTTTACCCTATAGGG
Found at i:22173592 original size:12 final size:12
Alignment explanation
Indices: 22173575--22173616 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
22173565 ATCTCAATAT
22173575 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
22173587 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
22173599 TCCCTCCTCAAA
1 TCTCTCCTCAAA
22173611 TCTCTC
1 TCTCTC
22173617 TATGACCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Done.