Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 60 of 103
Found at i:22797760 original size:2 final size:2
Alignment explanation
Indices: 22797753--22797800 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22797743 TAGGGGATGT
22797753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22797795 TA TA TA
1 TA TA TA
22797801 CTCAGTTCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22807653 original size:43 final size:43
Alignment explanation
Indices: 22807537--22807666 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
22807527 CTCCACACTC
* * * * *
22807537 AGCTCATGTGCACTCCCTAC-TAGCACATAACCGAGTCATCATC
1 AGCTCATGTGCACTCCC-ACACAGCACATAGCTGGGTCATCATT
* *
22807580 AGCTCATGTGCACTCCCACACCGCATATAGCTGGGTCATCATT
1 AGCTCATGTGCACTCCCACACAGCACATAGCTGGGTCATCATT
*
22807623 AGCTCATGTGCACTCCCACACAGCACATAGCTAGGTCATCATT
1 AGCTCATGTGCACTCCCACACAGCACATAGCTGGGTCATCATT
22807666 A
1 A
22807667 TCACACAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 2 0.03
43 74 0.97
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (43 bp):
AGCTCATGTGCACTCCCACACAGCACATAGCTGGGTCATCATT
Found at i:22808542 original size:24 final size:23
Alignment explanation
Indices: 22808494--22808542 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
22808484 TCATTATTTC
* *
22808494 TATTTTCTTCATCATTTTATCCT
1 TATTTTCATCATCATTTTATACT
22808517 TATTTTCATCATTCA-TTTATGACT
1 TATTTTCATCA-TCATTTTAT-ACT
22808541 TA
1 TA
22808543 GGCCTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTTCATCATCATTTTATACT
Found at i:22813195 original size:30 final size:30
Alignment explanation
Indices: 22813161--22813222 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
22813151 TGAATTTGAG
22813161 ACCTCAAATCACACCTACATTTAACATGTT
1 ACCTCAAATCACACCTACATTTAACATGTT
22813191 ACCTCAAATCACACCTACATTTAACATGTT
1 ACCTCAAATCACACCTACATTTAACATGTT
22813221 AC
1 AC
22813223 AATTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (30 bp):
ACCTCAAATCACACCTACATTTAACATGTT
Found at i:22833105 original size:18 final size:18
Alignment explanation
Indices: 22833082--22833116 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22833072 ATAAAATATT
22833082 AATATTAA-ATTATAAATA
1 AATATTAATATT-TAAATA
22833100 AATATTAATATTTAAAT
1 AATATTAATATTTAAAT
22833117 TATCAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTAATATTTAAATA
Found at i:22833126 original size:32 final size:30
Alignment explanation
Indices: 22833089--22833149 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
22833079 ATTAATATTA
22833089 AATTATAAATAAATATTAATATT-TAAATTATC
1 AATTATAAATAAA-A-TAA-ATTATAAATTATC
*
22833121 AATTATTAATAAAATAAATTATAAATTAT
1 AATTATAAATAAAATAAATTATAAATTAT
22833150 TAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 11 0.41
31 1 0.04
32 12 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTATAAATAAAATAAATTATAAATTATC
Found at i:22833320 original size:24 final size:24
Alignment explanation
Indices: 22833293--22833643 Score: 127
Period size: 24 Copynumber: 15.3 Consensus size: 24
22833283 ATTATCATAA
22833293 TAATATTTAAAATTAAATAAATAT
1 TAATATTTAAAATTAAATAAATAT
** **
22833317 TAATATTTAAAATTATCT-TTTAT
1 TAATATTTAAAATTAAATAAATAT
*
22833340 TAATATTTTAAA-TAAA-AAA-AT
1 TAATATTTAAAATTAAATAAATAT
* *
22833361 TAA-ATTCAAAA-AANAATAAATAAT
1 TAATATTTAAAATTA-AATAAAT-AT
* * *
22833385 CAAT-TATTAATATTCAA-AAATA-
1 TAATAT-TTAAAATTAAATAAATAT
** * * *
22833407 -AATAAAATAAAA-TAATTGATCATAA
1 TAAT-ATTTAAAATTAAAT-A-AATAT
22833432 TAATATTT-AAATTAAATAAATAT
1 TAATATTTAAAATTAAATAAATAT
22833455 TAATATTTTAAAA-T-AATAAATAAT
1 TAATA-TTTAAAATTAAATAAAT-AT
22833479 TAA-A-TT---A-TAAATAAATAT
1 TAATATTTAAAATTAAATAAATAT
* *
22833497 TAATA-TTGAAA-T-AATCAATTAT
1 TAATATTTAAAATTAAAT-AAATAT
*
22833519 TAATATTTTAAA-TAAATTATCAATTAT
1 TAATATTTAAAATTAAA-TA--AA-TAT
* *
22833546 TAATATTT-TAATTGAATAAA-A-
1 TAATATTTAAAATTAAATAAATAT
* * * *
22833567 TAA-AATAAAAATT-AAT-CATAA
1 TAATATTTAAAATTAAATAAATAT
22833588 TAATATTT-AAATTAAATAAAATAT
1 TAATATTTAAAATTAAAT-AAATAT
22833612 TAATATTT-AAATTAAATAAAATAT
1 TAATATTTAAAATTAAAT-AAATAT
22833636 TAATATTT
1 TAATATTT
22833644 TAATTTTATT
Statistics
Matches: 247, Mismatches: 41, Indels: 78
0.67 0.11 0.21
Matches are distributed among these distances:
18 7 0.03
19 11 0.04
20 13 0.05
21 32 0.13
22 27 0.11
23 38 0.15
24 81 0.33
25 16 0.06
26 8 0.03
27 14 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (24 bp):
TAATATTTAAAATTAAATAAATAT
Found at i:22833350 original size:109 final size:106
Alignment explanation
Indices: 22833081--22833355 Score: 289
Period size: 109 Copynumber: 2.6 Consensus size: 106
22833071 AATAAAATAT
*
22833081 TAATA-TTAAATTATAAATAAATATTAATATTTAAATTATCAATTATTAATA---AAATAAATTA
1 TAATATTTAAAAT-TAAATAAATATTAATATTTAAATTATCAATTATTAATATTTAAATAAATTA
*
22833142 TAAATTATTAATATCTAAAAATAAAATAAAATAAAAAACTAA
65 TAAATTATCAATATCTAAAAATAAAATAAAATAAAAAACTAA
* * *
22833184 T-ATCATTT-AAATTAGATAAATAATATTAATAATTAAATCATCAATTATTAATATTTAAATAAA
1 TAAT-ATTTAAAATTA-A-ATA-AATATTAATATTTAAATTATCAATTATTAATATTTAAATAAA
* ** *
22833247 TT-TACCAATTATCAAT-TTTAAAAAATAAAATAAAA-AATTATCATAA
62 TTATA--AATTATCAATATCT-AAAAATAAAATAAAATAAAAAAC-TAA
**
22833293 TAATATTTAAAATTAAATAAATATTAATATTTAAAATTATCTTTTATTAATATTTTAAATAAA
1 TAATATTTAAAATTAAATAAATATTAATATTT-AAATTATCAATTATTAATA-TTTAAATAAA
22833356 AAAATTAAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
102 4 0.03
103 6 0.04
104 4 0.03
105 30 0.21
107 14 0.10
108 33 0.23
109 43 0.30
110 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (106 bp):
TAATATTTAAAATTAAATAAATATTAATATTTAAATTATCAATTATTAATATTTAAATAAATTAT
AAATTATCAATATCTAAAAATAAAATAAAATAAAAAACTAA
Found at i:22833508 original size:18 final size:19
Alignment explanation
Indices: 22833469--22833510 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
22833459 ATTTTAAAAT
*
22833469 AATAAATAATTAAATTATA
1 AATAAATAATTAAATTAGA
22833488 AATAAAT-ATTAATATT-GA
1 AATAAATAATTAA-ATTAGA
22833506 AATAA
1 AATAA
22833511 TCAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATAAATAATTAAATTAGA
Found at i:22833509 original size:40 final size:39
Alignment explanation
Indices: 22833428--22833622 Score: 122
Period size: 40 Copynumber: 5.0 Consensus size: 39
22833418 ATAATTGATC
*
22833428 ATAATAATATTTAAA-TTAAATAAATATTAATATTTTAAA
1 ATAATAATAATTAAATTTAAATAAATATTAATA-TTTAAA
*
22833467 ATAATAAATAATTAAATTATAAATAAATATTAATA-TTGAA
1 ATAAT-AATAATTAAATT-TAAATAAATATTAATATTTAAA
* *
22833507 ATAATCAATTATTAATATTTTAAATAAATTATCAAT-TATT--A
1 ATAAT-AATAATTAA-A-TTTAAATAAA-TATTAATAT-TTAAA
** * * * * *
22833548 AT-ATTTTAATTGAA-TAAAATAAA-A-TAAAAATTAATC
1 ATAATAATAATTAAATTTAAATAAATATTAATATTTAA-A
*
22833584 ATAATAATATTTAAA-TTAAATAAAATATTAATATTTAAA
1 ATAATAATAATTAAATTTAAAT-AAATATTAATATTTAAA
22833623 TTAAATAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 32
0.69 0.13 0.19
Matches are distributed among these distances:
33 4 0.03
34 1 0.01
36 10 0.08
37 13 0.11
38 4 0.03
39 11 0.09
40 36 0.31
41 13 0.11
42 24 0.20
43 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (39 bp):
ATAATAATAATTAAATTTAAATAAATATTAATATTTAAA
Found at i:22833527 original size:64 final size:62
Alignment explanation
Indices: 22833378--22833535 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 62
22833368 AAAAAANAAT
** ** * *
22833378 AAATAATCAATTATTAATATTCAAAAATAAATAAAATAAAATAATTGATCATAATAATATTT
1 AAATAATCAATTATTAATATTTTAAAATAAATAAAATAAAATAATAAATAATAATAATATTG
* * * *
22833440 AAATTAAAT-AAATATTAATATTTTAAAAT-AATAAATAATTAAATTATAAATAAATATTAATAT
1 AAA-T-AATCAATTATTAATATTTTAAAATAAAT-AA-AATAAAATAATAAAT-AATAATAATAT
22833503 TG
61 TG
22833505 AAATAATCAATTATTAATATTTT-AAATAAAT
1 AAATAATCAATTATTAATATTTTAAAATAAAT
22833536 TATCAATTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
62 6 0.08
63 27 0.35
64 32 0.41
65 13 0.17
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.39
Consensus pattern (62 bp):
AAATAATCAATTATTAATATTTTAAAATAAATAAAATAAAATAATAAATAATAATAATATTG
Found at i:22833540 original size:27 final size:27
Alignment explanation
Indices: 22833505--22833556 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22833495 ATTAATATTG
22833505 AAATAATCAATTATTAATATTTTAAAT
1 AAATAATCAATTATTAATATTTTAAAT
*
22833532 AAATTATCAATTATTAATATTTTAA
1 AAATAATCAATTATTAATATTTTAA
22833557 TTGAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
AAATAATCAATTATTAATATTTTAAAT
Found at i:22833646 original size:20 final size:20
Alignment explanation
Indices: 22833599--22833671 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
22833589 AATATTTAAA
22833599 TTAAATAAAATATTAATATTT
1 TTAAATAAAATATTAATA-TT
22833620 AAATTAAATAAAATATTAATATT
1 ---TTAAATAAAATATTAATATT
* ** *
22833643 TTAATTTTATTATTAATATT
1 TTAAATAAAATATTAATATT
*
22833663 TTAATTAAA
1 TTAAATAAA
22833672 TTCTAGATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
20 23 0.53
23 2 0.05
24 18 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATAAAATATTAATATT
Found at i:22833700 original size:24 final size:26
Alignment explanation
Indices: 22833651--22833700 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22833641 TTTTAATTTT
*
22833651 ATTATTAATATTTTAATTAAATTCTAG
1 ATTATTAATATTTTAA-TAAAATCTAG
22833678 ATTATTAATA-TTTAA-AAAATCTA
1 ATTATTAATATTTTAATAAAATCTA
22833701 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
26 5 0.23
27 10 0.45
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATTAATATTTTAATAAAATCTAG
Found at i:22838347 original size:41 final size:40
Alignment explanation
Indices: 22838280--22838362 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 40
22838270 TACATATGCA
* *
22838280 ATGTATCGATACATTTTCAAAAGTATCGATAGACTTATTGC
1 ATGTATCGATACA-TTTCAAAAGTATCAATAGAATTATTGC
*
22838321 ATGTATCGATACA-TTCAAGAATGTATCAATAGAATTGTTGC
1 ATGTATCGATACATTTCAA-AA-GTATCAATAGAATTATTGC
22838362 A
1 A
22838363 GAAAAGGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 5 0.14
40 2 0.05
41 30 0.81
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (40 bp):
ATGTATCGATACATTTCAAAAGTATCAATAGAATTATTGC
Found at i:22843955 original size:40 final size:40
Alignment explanation
Indices: 22843911--22844008 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
22843901 ACTGTTTTTT
* *
22843911 CAAGGATAAAGCATAACCATTCACAAAGTCT-TTCTCTTTC
1 CAAGGTTAAAGCATAACCATTCACAAAGTCTCTAC-CTTTC
* * *
22843951 CAAGGTTAAAACATAACCTTTCACAAAGTCTCTACCTTTT
1 CAAGGTTAAAGCATAACCATTCACAAAGTCTCTACCTTTC
*
22843991 CAAGGTTAAAGCACAACC
1 CAAGGTTAAAGCATAACC
22844009 CCTTTACCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.28
Consensus pattern (40 bp):
CAAGGTTAAAGCATAACCATTCACAAAGTCTCTACCTTTC
Found at i:22847916 original size:23 final size:23
Alignment explanation
Indices: 22847886--22847935 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
22847876 TCTTCTATGC
22847886 TGAATTGGAAAACGTGATAAACA
1 TGAATTGGAAAACGTGATAAACA
22847909 TGAATTGGAAAACGTGATAAACA
1 TGAATTGGAAAACGTGATAAACA
22847932 TGAA
1 TGAA
22847936 AGTTGTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (23 bp):
TGAATTGGAAAACGTGATAAACA
Found at i:22852351 original size:13 final size:13
Alignment explanation
Indices: 22852333--22852369 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
22852323 GTGGTATTAG
22852333 TCTTGCTTGTGAT
1 TCTTGCTTGTGAT
22852346 TCTTGCTTGTGAT
1 TCTTGCTTGTGAT
*
22852359 TCGTGCTTGTG
1 TCTTGCTTGTG
22852370 GTGCTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.05, C:0.16, G:0.27, T:0.51
Consensus pattern (13 bp):
TCTTGCTTGTGAT
Found at i:22852515 original size:75 final size:74
Alignment explanation
Indices: 22852378--22852517 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 74
22852368 TGGTGCTTTA
* * *
22852378 ATGCCACCCATGTGAGATTACTCTGTGTGATGCCATCCATTGAGAGATTACTATAGATGATGATT
1 ATGCCACCCATGTGAGATTACTCAGTGTGATGCCATCCATTGAGAGATTACTACAGACGATGATT
22852443 ATGTAAGTG
66 ATGTAAGTG
** * *
22852452 ATGCCACTCCATGTGAGATTACTCCAG-GTGATGCCATCTGTTGGGAGATTACTCCAGACGATGA
1 ATGCCAC-CCATGTGAGATTACT-CAGTGTGATGCCATCCATTGAGAGATTACTACAGACGATGA
22852516 TT
64 TT
22852518 TAGTTCTCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
74 7 0.12
75 48 0.84
76 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (74 bp):
ATGCCACCCATGTGAGATTACTCAGTGTGATGCCATCCATTGAGAGATTACTACAGACGATGATT
ATGTAAGTG
Found at i:22856596 original size:17 final size:17
Alignment explanation
Indices: 22856566--22856598 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22856556 TTCTTGATAA
22856566 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
22856583 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
22856599 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:22856839 original size:59 final size:59
Alignment explanation
Indices: 22856739--22856912 Score: 205
Period size: 59 Copynumber: 3.0 Consensus size: 59
22856729 TTAAGACAAC
* * * *
22856739 TCTTGTCTTTAATTAAGAT-AAAATTATTTTATCTTGT-TTAAATTGAGACAAATATGTTT
1 TCTTGTC-TAAATTAAGATAAAAAATATTTT-TCTTGTCTTAAATTAAGACAAACATGTTT
* * *
22856798 TCTTGTCTAGATTAAGATAAAAAATATTTTTCTTATCTTAAATTAAGACAAACATATTT
1 TCTTGTCTAAATTAAGATAAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATGTTT
* *
22856857 TCTTGTCTAAATTAAGA-ACAAACATA-CTTTCTTGTC-TAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGATA-AAAAATATTTTTCTTGTCTTAAATTAAGACAAACATGTT
22856913 AAAGTTGTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 19 0.19
58 23 0.23
59 58 0.58
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (59 bp):
TCTTGTCTAAATTAAGATAAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATGTTT
Found at i:22856877 original size:29 final size:28
Alignment explanation
Indices: 22856739--22856909 Score: 164
Period size: 29 Copynumber: 5.9 Consensus size: 28
22856729 TTAAGACAAC
* *
22856739 TCTTGTCTTTAATTAAGATAAA-ATTATTTT
1 TCTTGTC-TAAATTAAGACAAACA-TA-TTT
* * * *
22856769 ATCTTGTTTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
* * *
22856798 TCTTGTCTAGATTAAGATAAAAAATATTTT
1 TCTTGTCTAAATTAAGA-CAAACATA-TTT
*
22856828 TCTTATCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
*
22856857 TCTTGTCTAAATTAAGAACAAACATACTT
1 TCTTGTCTAAATTAAG-ACAAACATATTT
22856886 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
22856910 GTTAAAGTTG
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
28 31 0.26
29 44 0.37
30 27 0.23
31 16 0.14
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:22881667 original size:21 final size:21
Alignment explanation
Indices: 22881643--22881682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22881633 AATAATGGTC
*
22881643 AAATTAAAGTAAATAAATATA
1 AAATTAAAATAAATAAATATA
*
22881664 AAATTAAAATAAATTAATA
1 AAATTAAAATAAATAAATA
22881683 AAACTAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATTAAAATAAATAAATATA
Found at i:22892038 original size:36 final size:36
Alignment explanation
Indices: 22891969--22892102 Score: 115
Period size: 36 Copynumber: 3.9 Consensus size: 36
22891959 CAACTCAGTT
* * ** *
22891969 CATGTGCACTCCCACACCTCACATAGCTGATATCCT
1 CATGTGCACTCCCACACCGCACATGGCAAATATCCG
22892005 CATGTGCACTCCCACACCGCACATGGCAAATAT-CG
1 CATGTGCACTCCCACACCGCACATGGCAAATATCCG
* **
22892040 C--GTACACTCCCACA-C-CACAT--C--ATCATTGG
1 CATGTGCACTCCCACACCGCACATGGCAAAT-ATCCG
*
22892069 CATGTGCACTCCCATACCGCACATGGCAAATATC
1 CATGTGCACTCCCACACCGCACATGGCAAATATC
22892103 ATGTACACTC
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
27 2 0.03
28 2 0.03
29 3 0.04
31 16 0.21
32 2 0.03
33 17 0.22
35 3 0.04
36 31 0.40
37 2 0.03
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (36 bp):
CATGTGCACTCCCACACCGCACATGGCAAATATCCG
Found at i:22892053 original size:33 final size:33
Alignment explanation
Indices: 22892011--22892116 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 33
22892001 TCCTCATGTG
22892011 CACTCCCACACCGCACATGGCAAATATCGCGTA
1 CACTCCCACACCGCACATGGCAAATATCGCGTA
* * *
22892044 CACTCCCACA-C-CACAT--CATCAT-TGGCATGTG
1 CACTCCCACACCGCACATGGCA-AATATCGC--GTA
* **
22892075 CACTCCCATACCGCACATGGCAAATATCATGTA
1 CACTCCCACACCGCACATGGCAAATATCGCGTA
22892108 CACTCCCAC
1 CACTCCCAC
22892117 TCCACATCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
29 5 0.09
30 2 0.04
31 16 0.29
32 2 0.04
33 25 0.45
34 2 0.04
35 3 0.05
ACGTcount: A:0.29, C:0.40, G:0.12, T:0.19
Consensus pattern (33 bp):
CACTCCCACACCGCACATGGCAAATATCGCGTA
Found at i:22892079 original size:31 final size:31
Alignment explanation
Indices: 22892044--22892150 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
22892034 ATATCGCGTA
*
22892044 CACTCCCACACCACATCATCATTGGCATGTG
1 CACTCCCACACCACATCATCAATGGCATGTG
* * ** *
22892075 CACTCCCATACCGCA-CATGGCAAATATCATGTA
1 CACTCCCACACCACATCAT--C-AATGGCATGTG
* *
22892108 CACTCCCACTCCACATCATCACTGGCATGTG
1 CACTCCCACACCACATCATCAATGGCATGTG
22892139 CACTCCCACACC
1 CACTCCCACACC
22892151 GCACACCACC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
30 3 0.05
31 31 0.53
32 2 0.03
33 19 0.33
34 3 0.05
ACGTcount: A:0.27, C:0.41, G:0.11, T:0.21
Consensus pattern (31 bp):
CACTCCCACACCACATCATCAATGGCATGTG
Found at i:22892081 original size:64 final size:64
Alignment explanation
Indices: 22892005--22892155 Score: 257
Period size: 64 Copynumber: 2.4 Consensus size: 64
22891995 CTGATATCCT
* *
22892005 CATGTGCACTCCCACACCGCACATGGCAAATATCGCGTACACTCCCACACCACATCATCATTGG
1 CATGTGCACTCCCACACCGCACATGGCAAATATCACGTACACTCCCACACCACATCATCACTGG
* * *
22892069 CATGTGCACTCCCATACCGCACATGGCAAATATCATGTACACTCCCACTCCACATCATCACTGG
1 CATGTGCACTCCCACACCGCACATGGCAAATATCACGTACACTCCCACACCACATCATCACTGG
22892133 CATGTGCACTCCCACACCGCACA
1 CATGTGCACTCCCACACCGCACA
22892156 CCACCGGTAC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.28, C:0.40, G:0.13, T:0.19
Consensus pattern (64 bp):
CATGTGCACTCCCACACCGCACATGGCAAATATCACGTACACTCCCACACCACATCATCACTGG
Found at i:22895530 original size:51 final size:48
Alignment explanation
Indices: 22895405--22895544 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 48
22895395 GTTTCCTATC
** *
22895405 AAAAAGCAAGAATCTTTCGTGGATTGTGTGGGTTACCACTTGATCTCAT
1 AAAAAGCAAGAATCTTT-GTGGATTGTAAGGGTTATCACTTGATCTCAT
* * * * **
22895454 AAAAAACAAGAGTTTTTTTGTGGATTGTAAGGGTTATCGCTTGATCTTGT
1 AAAAAGCAAGA--ATCTTTGTGGATTGTAAGGGTTATCACTTGATCTCAT
22895504 GAAAAAGCAAGAATCTCATTGTGGATTATGTAAGGGTTATC
1 -AAAAAGCAAGAATCT--TTGTGGA-T-TGTAAGGGTTATC
22895545 TCCTCCTGTT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
49 12 0.17
50 25 0.35
51 21 0.29
52 1 0.01
53 13 0.18
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (48 bp):
AAAAAGCAAGAATCTTTGTGGATTGTAAGGGTTATCACTTGATCTCAT
Found at i:22898113 original size:20 final size:20
Alignment explanation
Indices: 22898084--22898129 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
22898074 TATTCTACTT
*
22898084 TTTCAATTTTTGTTTTACAA
1 TTTCACTTTTTGTTTTACAA
22898104 TTTCACTTTTTGTTTTACAA
1 TTTCACTTTTTGTTTTACAA
22898124 TTTCAC
1 TTTCAC
22898130 AATTTTACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTCACTTTTTGTTTTACAA
Found at i:22900493 original size:42 final size:42
Alignment explanation
Indices: 22900427--22900551 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 42
22900417 TGTTGATGTG
* *
22900427 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
22900469 GACCTGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGTT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
22900511 GACCCGGCTATGTGCGAGTGTGG-GTGCGCATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGTG-GGAGTGCACATAAGCCGTTGC
22900552 ATATGAGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 73 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.36, T:0.24
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:22900603 original size:2 final size:2
Alignment explanation
Indices: 22900596--22900629 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22900586 TGATTGATAC
22900596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22900630 NGTAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22900759 original size:42 final size:42
Alignment explanation
Indices: 22900700--22900811 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
22900690 GTAATGATAT
*
22900700 TGACCCGGCTATGTGCGAGTGGGAGTGCGTATAAGCCAATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
** * * *
22900742 TGACCCGGCTATGTGCGAGTAAGAGTGTGCATAAGCCGATGT
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
* * * * *
22900784 TGACCAGACCATATGCTAGTGGGAGTGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGC
22900812 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
Found at i:22900901 original size:2 final size:2
Alignment explanation
Indices: 22900852--22900893 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
22900842 ATGATGATGG
*
22900852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22900894 GGTATATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22918843 original size:2 final size:2
Alignment explanation
Indices: 22918836--22918880 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
22918826 TATTACATAA
*
22918836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22918878 AT A
1 AT A
22918881 CAAACACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22919135 original size:2 final size:2
Alignment explanation
Indices: 22919128--22919153 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22919118 GATACACAAC
22919128 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22919154 CAGCATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22920568 original size:20 final size:21
Alignment explanation
Indices: 22920540--22920584 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
22920530 TATTACTTGT
*
22920540 TTATGTGTTTACAT-AG-GTGA
1 TTATATGTTTA-ATGAGTGTGA
22920560 TTATATGTTTAATGAGTGTGA
1 TTATATGTTTAATGAGTGTGA
22920581 TTAT
1 TTAT
22920585 GTCATGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
TTATATGTTTAATGAGTGTGA
Found at i:22923853 original size:50 final size:50
Alignment explanation
Indices: 22923711--22923882 Score: 188
Period size: 50 Copynumber: 3.4 Consensus size: 50
22923701 TATCTCTTCA
* * *
22923711 TCCTGTTAAAAA-CTAAGAATCCCTTTGTGGATTGTGTAAGGGTTATCACTT
1 TCCTATTAAAAAGC-AAGAATTCCTTTGTGGATTGTGTAAGGGTTATC-GTT
* * * *
22923762 GATCCTGTTAAAAAGCAAGAA-TCCCTTGTGGACTATGTAAGGGTTATCGTT
1 --TCCTATTAAAAAGCAAGAATTCCTTTGTGGATTGTGTAAGGGTTATCGTT
* * *
22923813 TCCTATTAGAGAGCAAGAATTCCTTTGTGGATTGGGTAAGGGTTATCGCTT
1 TCCTATTAAAAAGCAAGAATTCCTTTGTGGATTGTGTAAGGGTTATCG-TT
22923864 TCCTA-TAAAAAGCAAGAAT
1 TCCTATTAAAAAGCAAGAAT
22923883 CTTTGATAGT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
49 16 0.16
50 36 0.35
51 9 0.09
52 23 0.23
53 17 0.17
54 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (50 bp):
TCCTATTAAAAAGCAAGAATTCCTTTGTGGATTGTGTAAGGGTTATCGTT
Found at i:22926829 original size:21 final size:21
Alignment explanation
Indices: 22926805--22926850 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
22926795 AAGTCTTGAC
* *
22926805 ACATTTTTCAAAGGTATCGAG
1 ACATTTCTCAAAAGTATCGAG
22926826 ACATTTCTCAAAAGTATCGAG
1 ACATTTCTCAAAAGTATCGAG
22926847 ACAT
1 ACAT
22926851 CACCTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATTTCTCAAAAGTATCGAG
Found at i:22927129 original size:71 final size:71
Alignment explanation
Indices: 22926983--22927137 Score: 163
Period size: 71 Copynumber: 2.2 Consensus size: 71
22926973 TGTCTTCAAG
* * * * * *
22926983 GTATTGAGACATCATCTCCATACTTCAATTTTTATACAGCAAATCCAAATGTATCAAGATCTAAG
1 GTATCGAGACATCATCACCAGACTTCAATTTCTAGACAGCAAATCCAAATGTATCAAGACCTAAG
22927048 TGACAA
66 TGACAA
* * * *
22927054 GTATCGAGACATCATCACCAGACTTCAATTTCTAGAGAGTAACA-CTAAATGTATCAGGACCT-A
1 GTATCGAGACATCATCACCAGACTTCAATTTCTAGACAGCAA-ATCCAAATGTATCAAGACCTAA
22927117 GCT-ACAA
65 G-TGACAA
*
22927124 TGTATCAAGACATC
1 -GTATCGAGACATC
22927138 TTTTAGTCCG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
70 6 0.09
71 63 0.90
72 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (71 bp):
GTATCGAGACATCATCACCAGACTTCAATTTCTAGACAGCAAATCCAAATGTATCAAGACCTAAG
TGACAA
Found at i:22935231 original size:37 final size:37
Alignment explanation
Indices: 22935176--22935297 Score: 181
Period size: 37 Copynumber: 3.3 Consensus size: 37
22935166 TAATGTTGTG
* * *
22935176 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACAAA
1 TGATGATGATAAAGTGTGCGAGTAGGGAGTGCACACA
* *
22935213 TGATGATGATAAAATGTGCGAGTAAGGAGTGCACACA
1 TGATGATGATAAAGTGTGCGAGTAGGGAGTGCACACA
* *
22935250 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAAAGTGTGCGAGTAGGGAGTGCACACA
22935287 TGATGATGATA
1 TGATGATGATA
22935298 TTGCATTGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.34, T:0.25
Consensus pattern (37 bp):
TGATGATGATAAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:22937745 original size:28 final size:27
Alignment explanation
Indices: 22937713--22937771 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
22937703 ATAAAAAAAG
** *
22937713 AACATGGTGTGTAACAACTTTTTTTTTC
1 AACATGGCATGTAACAA-TATTTTTTTC
*
22937741 AACATGGCATGTAATAATATTTTTTTC
1 AACATGGCATGTAACAATATTTTTTTC
22937768 AACA
1 AACA
22937772 CATGCACTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (27 bp):
AACATGGCATGTAACAATATTTTTTTC
Found at i:22939602 original size:37 final size:37
Alignment explanation
Indices: 22939561--22939706 Score: 233
Period size: 37 Copynumber: 3.9 Consensus size: 37
22939551 TAATGTTGTG
*
22939561 TGATGTTGTTGAAGTGTGCGAGTAAGG-AGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGT-AGGAAGTGCACACA
*
22939598 TGATGATGTTGAAGTGTGCAAGTAGGAAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGAAGTGCACACA
22939635 TGATGATGTT-AGAGTGTGCGAGTAGGAAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGAAGTGCACACA
*
22939672 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACA
1 TGATGATGTTGAAGTGTGCGAGTAGGAAGTGCACA
22939707 TAACGATGAA
Statistics
Matches: 102, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
36 4 0.04
37 97 0.95
38 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.36, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGAAGTGCACACA
Found at i:22951980 original size:35 final size:35
Alignment explanation
Indices: 22951879--22951983 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 35
22951869 ACTATTAGCT
* * *
22951879 TGCCTTTTCAATAGGGTCAGGCATAATCTTTACGACA
1 TGCCTTTT--ATAGGATCAGGCATAATCTCTACAACA
* * ** *
22951916 TGCCTTTTGTAGGATCAAGTGTAACCTCTACAACA
1 TGCCTTTTATAGGATCAGGCATAATCTCTACAACA
* *
22951951 TGGCTTTTATAGGATTAGGCATAATCTCTACAA
1 TGCCTTTTATAGGATCAGGCATAATCTCTACAA
22951984 AAGTACTACT
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
35 45 0.85
37 8 0.15
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (35 bp):
TGCCTTTTATAGGATCAGGCATAATCTCTACAACA
Found at i:22954376 original size:20 final size:20
Alignment explanation
Indices: 22954348--22954415 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
22954338 AAGTAATTTA
*
22954348 AAACAAAATAACATAAAATT
1 AAACTAAATAACATAAAATT
* *
22954368 AAACTAAATTAA-ATTAAATC
1 AAACTAAA-TAACATAAAATT
*
22954388 AAACT-AATCAACATATAATCT
1 AAACTAAAT-AACATAAAAT-T
22954409 -AACTAAA
1 AAACTAAA
22954416 CTAAGAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 27 0.73
21 5 0.14
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (20 bp):
AAACTAAATAACATAAAATT
Found at i:22957940 original size:71 final size:72
Alignment explanation
Indices: 22957807--22957940 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 72
22957797 CATGAAGGTC
* *
22957807 GACTAAGGCTTCTCAAATCTTTGATTCTTGCATGTACTCTATCTCAAGGTCGACTATAGCTTCGT
1 GACTAAGGCTTCTCAAATCTTTGATTCATGCATGTAATCTATCTCAAGGTCGACTATAGCTTCGT
22957872 TAAAGTA
66 TAAAGTA
* * * *
22957879 GACTATGGCTTCTTAAATC-TTGAATT-ATGCATGTAATCTATCT-TAGAGTCGACTATGGCTTC
1 GACTAAGGCTTCTCAAATCTTTG-ATTCATGCATGTAATCTATCTCAAG-GTCGACTATAGCTTC
22957941 ATATAGTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
70 2 0.04
71 32 0.59
72 20 0.37
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (72 bp):
GACTAAGGCTTCTCAAATCTTTGATTCATGCATGTAATCTATCTCAAGGTCGACTATAGCTTCGT
TAAAGTA
Found at i:22964420 original size:34 final size:34
Alignment explanation
Indices: 22964368--22964434 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
22964358 CTTTCTTTGT
22964368 TTTTTTTACTGGCGAGATCAAACAATTTTTTTCC
1 TTTTTTTACTGGCGAGATCAAACAATTTTTTTCC
* **
22964402 TTTTTTTATTGGTTAGATCAAACAATTTTTTTC
1 TTTTTTTACTGGCGAGATCAAACAATTTTTTTC
22964435 TCCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.24, C:0.13, G:0.10, T:0.52
Consensus pattern (34 bp):
TTTTTTTACTGGCGAGATCAAACAATTTTTTTCC
Found at i:22968732 original size:33 final size:34
Alignment explanation
Indices: 22968665--22968735 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
22968655 GAAAAGTTAG
*
22968665 TGTATGGGTTATGATTGCTCCCGGTAAAAAGCAT
1 TGTATGGGTTATGATTGCTCCCAGTAAAAAGCAT
* * * *
22968699 TGTATGGGTTGTGCTTGCT-CTAGTAAAAGGCAT
1 TGTATGGGTTATGATTGCTCCCAGTAAAAAGCAT
22968732 TGTA
1 TGTA
22968736 AAGGTTATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.47
34 17 0.53
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (34 bp):
TGTATGGGTTATGATTGCTCCCAGTAAAAAGCAT
Found at i:22968832 original size:36 final size:35
Alignment explanation
Indices: 22968736--22968838 Score: 91
Period size: 35 Copynumber: 2.9 Consensus size: 35
22968726 AGGCATTGTA
* * ** *
22968736 AAGG-TTATTGCTTGATCCCATGAAAAAACAAGTGT
1 AAGGATTATCGCTTAATCCCAT-AAAAAGTAAGTAT
* * *
22968771 AAGGATTATTGCTTGATCCCATAAAACGTAAGTAT
1 AAGGATTATCGCTTAATCCCATAAAAAGTAAGTAT
* *
22968806 AAGGGTTATCGCTTAATCTCATTAAAAAGTAAG
1 AAGGATTATCGCTTAATCCCA-TAAAAAGTAAG
22968839 AATCCTTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 30 0.53
36 27 0.47
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (35 bp):
AAGGATTATCGCTTAATCCCATAAAAAGTAAGTAT
Found at i:22970214 original size:35 final size:36
Alignment explanation
Indices: 22970124--22970250 Score: 148
Period size: 36 Copynumber: 3.6 Consensus size: 36
22970114 TGATATTCAT
* * ** * *
22970124 ATGTACGGGTAAGAATACCACACAAATATGGCCCAA
1 ATGTAGGGGTAAGAATACCATATGAATATAGCCCAG
** * *
22970160 ATGCGGGGGTAAGAATACCATGTGAATATAGCCTAG
1 ATGTAGGGGTAAGAATACCATATGAATATAGCCCAG
*
22970196 ATGT-GGTGTAAGAATACCATATGAATATAGCCCAG
1 ATGTAGGGGTAAGAATACCATATGAATATAGCCCAG
22970231 ATGTAGGGGTAAGAATACCA
1 ATGTAGGGGTAAGAATACCA
22970251 CACGTGTTTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 32 0.43
36 43 0.57
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (36 bp):
ATGTAGGGGTAAGAATACCATATGAATATAGCCCAG
Found at i:22971770 original size:38 final size:40
Alignment explanation
Indices: 22971717--22971819 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
22971707 ATAGTGCCCG
* *
22971717 TGTGCACGATATGGGGGGGTGTACACGAT-G-G-CA-CTGA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGCCAGC-GA
* *
22971754 TTGTGCACGATGTGGGGGGATGCACATGATGGCGCCAGCGA
1 -TGTGCACGATGTGGGGGGATGTACACGATGGCGCCAGCGA
22971795 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
22971820 TGAGCTAGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
38 25 0.45
39 1 0.02
40 25 0.45
41 4 0.07
42 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.42, T:0.21
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCGCCAGCGA
Found at i:22985572 original size:30 final size:29
Alignment explanation
Indices: 22985538--22985594 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
22985528 AGTGTTATAA
*
22985538 AGGTTATGCTTGATCCATTAAAAAGTAGAG
1 AGGTTATGCTTGATCCA-CAAAAAGTAGAG
*
22985568 AGGTTATGCTTGATGCACAAAAAGTAG
1 AGGTTATGCTTGATCCACAAAAAGTAG
22985595 GGTTTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (29 bp):
AGGTTATGCTTGATCCACAAAAAGTAGAG
Found at i:22992327 original size:18 final size:19
Alignment explanation
Indices: 22992291--22992329 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22992281 GTTGCAAGAA
* *
22992291 AAAAATAAAAAATTTGGAG
1 AAAAAGAAAAAATTGGGAG
22992310 AAAAAGAAAAAA-TGGGAG
1 AAAAAGAAAAAATTGGGAG
22992328 AA
1 AA
22992330 TTGAATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (19 bp):
AAAAAGAAAAAATTGGGAG
Found at i:22992522 original size:147 final size:148
Alignment explanation
Indices: 22992351--22992645 Score: 470
Period size: 147 Copynumber: 2.0 Consensus size: 148
22992341 TGGAGTGGGC
*
22992351 AAAAGCAAATTTGAATTTTTAACTTGGCTCCCAAAGTGCAAGAAGAATCAACTTCTAGAGGAGCA
1 AAAAGCAAATTTGAATTTTGAACTTGGCTCCCAAAGTGCAAGAAGAATCAACTTCTAGAGGAGCA
22992416 AAAGATCAATTATC-AAAATCTAGGATGAAGAA-GAATCAATGTCTTAAGAATACAAAGATTGAT
66 AAAGATCAATTATCAAAAATCTAGGATGAA-AAGGAATCAATGTCTTAAGAATACAAAGATTGAT
22992479 TCCCA-AGAAACATAATGCT
130 TCCCACA-AAACATAATGCT
* * ** *
22992498 AAAAGCAAATTTGAATTTTGAACTTGGTTCCTAAAGTGCAAGAAGAATTGACTTCTGGAGGAGCA
1 AAAAGCAAATTTGAATTTTGAACTTGGCTCCCAAAGTGCAAGAAGAATCAACTTCTAGAGGAGCA
* *
22992563 AAAGATCAATTCTCAAAAATCTAGGATGAAAAGGAATCAATGTCTTAAGAATGCAAAGATTGATT
66 AAAGATCAATTATCAAAAATCTAGGATGAAAAGGAATCAATGTCTTAAGAATACAAAGATTGATT
*
22992628 CCCACAAAATATAATGCT
131 CCCACAAAACATAATGCT
22992646 CTAAAGACAA
Statistics
Matches: 136, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
147 74 0.54
148 61 0.45
149 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (148 bp):
AAAAGCAAATTTGAATTTTGAACTTGGCTCCCAAAGTGCAAGAAGAATCAACTTCTAGAGGAGCA
AAAGATCAATTATCAAAAATCTAGGATGAAAAGGAATCAATGTCTTAAGAATACAAAGATTGATT
CCCACAAAACATAATGCT
Found at i:22998128 original size:11 final size:11
Alignment explanation
Indices: 22998094--22998129 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
22998084 CACCTAGAGT
22998094 TTTGTTCTTCC
1 TTTGTTCTTCC
22998105 TTT-TTCTTCC
1 TTTGTTCTTCC
*
22998115 TTTGTTCTTGC
1 TTTGTTCTTCC
22998126 TTTG
1 TTTG
22998130 GCAGACCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.00, C:0.22, G:0.11, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:23000102 original size:60 final size:61
Alignment explanation
Indices: 22999935--23000138 Score: 284
Period size: 60 Copynumber: 3.3 Consensus size: 61
22999925 TAATTGATGT
* * ** *
22999935 AACCGTGCATGTGCAGAGTGGGCAGTGCACATGCCTGTTAAATGACAATGTCGTGATAATTAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCC-GGT-AATGATGATGTCGTGATATTTAC
* *
22999998 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCTGGTAATGATGGTGTCGTGATATTTAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATATTTAC
* *
23000059 AACCGTGCATGTGC-GAGTGGGCAGTGCACATGCCGGTAATGATGTTGTCGTGATGTTTAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATATTTAC
**
23000119 AGTCGTGCATGTGCGGAGTG
1 AACCGTGCATGTGCGGAGTG
23000139 CTCAGTGGAC
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
60 55 0.43
61 38 0.30
62 2 0.02
63 33 0.26
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.27
Consensus pattern (61 bp):
AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATATTTAC
Found at i:23004049 original size:42 final size:42
Alignment explanation
Indices: 23004003--23004128 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 42
23003993 GTAATGATAT
* **
23004003 TGACCCGGCTATATGCGAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATATGCGAGTGGGAGTGCACATAAGCCGATGC
* *
23004045 TGACCCGGCTATGTGCGAGTGGGAGTGCACATAAGTCGATGC
1 TGACCCGGCTATATGCGAGTGGGAGTGCACATAAGCCGATGC
* *
23004087 TGACCCGGCTATATGGGAGTGGGAGTGCATATAAGCCGATGC
1 TGACCCGGCTATATGCGAGTGGGAGTGCACATAAGCCGATGC
23004129 ATATGAGCTG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATATGCGAGTGGGAGTGCACATAAGCCGATGC
Found at i:23005282 original size:2 final size:2
Alignment explanation
Indices: 23005270--23005301 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23005260 ATCATATACC
*
23005270 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23005302 CAATCATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23005390 original size:42 final size:42
Alignment explanation
Indices: 23005343--23005466 Score: 194
Period size: 42 Copynumber: 3.0 Consensus size: 42
23005333 ATCTCATATG
* * *
23005343 CAACGGCTTATGCGCATTCCCACTCGCACATAGCCAGGTCAA
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
* *
23005385 CAACGGCTTATGTGCACTCCCACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
*
23005427 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTC
23005467 CACATCAACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
Found at i:23008203 original size:29 final size:29
Alignment explanation
Indices: 23008134--23008203 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
23008124 GCTAATTATA
23008134 ATGGATATTCAATATATCTTGCTTAGCTACT
1 ATGGATATT--ATATATCTTGCTTAGCTACT
* * * *
23008165 ATGGACATTATATATTTTGTTTAGCTATT
1 ATGGATATTATATATCTTGCTTAGCTACT
*
23008194 GTGGATATTA
1 ATGGATATTA
23008204 AAAATAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 25 0.76
31 8 0.24
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (29 bp):
ATGGATATTATATATCTTGCTTAGCTACT
Found at i:23009511 original size:66 final size:67
Alignment explanation
Indices: 23009390--23009524 Score: 184
Period size: 66 Copynumber: 2.0 Consensus size: 67
23009380 AAAAGTTAGT
* * *
23009390 TTTGGGTTTTCGTTGATCTCAGGAAAAAACTATTGTTAAAGGTTATGGCTAAGCCTGTGAAAAGC
1 TTTGGGTTTTCGTTGATCTCAGGAAAAAACCATTGTTAAAAGTTATGGCTAAGCCTATGAAAAGC
23009455 CA
66 CA
* * * *
23009457 TTTGGGTTTTGGTTGATC-CCGTG-AAAAACCATTGTTAAAAGTTGTGGCTGAGCCTATGAAAAG
1 TTTGGGTTTTCGTTGATCTCAG-GAAAAAACCATTGTTAAAAGTTATGGCTAAGCCTATGAAAAG
23009520 CCA
65 CCA
23009523 TT
1 TT
23009525 GTAAAAGCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
66 42 0.70
67 18 0.30
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (67 bp):
TTTGGGTTTTCGTTGATCTCAGGAAAAAACCATTGTTAAAAGTTATGGCTAAGCCTATGAAAAGC
CA
Found at i:23017479 original size:21 final size:20
Alignment explanation
Indices: 23017446--23017489 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23017436 TCAAATTAAG
*
23017446 TTATTTTAATTTAATTTTACT
1 TTATTTTAATTTAA-TGTACT
**
23017467 TTATTTTGCTTTAATGTACT
1 TTATTTTAATTTAATGTACT
23017487 TTA
1 TTA
23017490 AAAGGAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (20 bp):
TTATTTTAATTTAATGTACT
Found at i:23028129 original size:33 final size:32
Alignment explanation
Indices: 23028087--23028159 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
23028077 ATTTATTCTT
* *
23028087 TTATAGAAAAATATTTTGTGCTTAAGTGATTTA
1 TTATTGAAAAA-ATTGTGTGCTTAAGTGATTTA
23028120 TTATTG--AAAATTGTGTGCTTAAGTGATTTA
1 TTATTGAAAAAATTGTGTGCTTAAGTGATTTA
*
23028150 TTGTTGAAAA
1 TTATTGAAAA
23028160 TTGTGTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 25 0.71
31 3 0.09
32 2 0.06
33 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (32 bp):
TTATTGAAAAAATTGTGTGCTTAAGTGATTTA
Found at i:23028151 original size:30 final size:30
Alignment explanation
Indices: 23028103--23028165 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
23028093 AAAAATATTT
23028103 TGTGCTTAAGTGATTTATTATTGAAAATTG
1 TGTGCTTAAGTGATTTATTATTGAAAATTG
*
23028133 TGTGCTTAAGTGATTTATTGTTGAAAATTG
1 TGTGCTTAAGTGATTTATTATTGAAAATTG
23028163 TGT
1 TGT
23028166 TTGATGCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (30 bp):
TGTGCTTAAGTGATTTATTATTGAAAATTG
Found at i:23028951 original size:16 final size:17
Alignment explanation
Indices: 23028919--23028951 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23028909 AAGTCACATG
23028919 CTTACATGACGTTTAAT
1 CTTACATGACGTTTAAT
*
23028936 CTTACTTGAC-TTTAAT
1 CTTACATGACGTTTAAT
23028952 GATTGAAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (17 bp):
CTTACATGACGTTTAAT
Found at i:23029712 original size:10 final size:11
Alignment explanation
Indices: 23029685--23029719 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23029675 TATGGCCTGC
*
23029685 CAAAGTAAGAA
1 CAAAGGAAGAA
23029696 CAAAGGAAGAA
1 CAAAGGAAGAA
23029707 -AAAGGAAGAA
1 CAAAGGAAGAA
23029717 CAA
1 CAA
23029720 GAACCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.09, G:0.23, T:0.03
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:23036603 original size:49 final size:49
Alignment explanation
Indices: 23036449--23036610 Score: 137
Period size: 49 Copynumber: 3.3 Consensus size: 49
23036439 ATGGTTTCGG
* * *
23036449 ACAATGATATGATGTGAGATATGTATGTTCTGTCCACAAATGATTCAGG
1 ACAATGATATAATGTGAGATATGTATGTTCTGTCCACAGATGATTCAGA
* * * * **** *
23036498 ACGATAATATAGTGTGAGATATGTATGTTCCGTCTGTGGATGGTTCTA-A
1 ACAATGATATAATGTGAGATATGTATGTTCTGTCCACAGATGATTC-AGA
** * * * *
23036547 AGGATGATATAATGTGAGATATGTATATTTTGTCCACCGATGATTCCGA
1 ACAATGATATAATGTGAGATATGTATGTTCTGTCCACAGATGATTCAGA
*
23036596 ACAATGATATGATGT
1 ACAATGATATAATGT
23036611 TCATTATGCA
Statistics
Matches: 84, Mismatches: 27, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
49 83 0.99
50 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (49 bp):
ACAATGATATAATGTGAGATATGTATGTTCTGTCCACAGATGATTCAGA
Found at i:23040195 original size:32 final size:33
Alignment explanation
Indices: 23040126--23040198 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
23040116 GTAATAGTGG
23040126 AAAATATTTTCCATAATATAATCTAAACAACAA
1 AAAATATTTTCCATAATATAATCTAAACAACAA
* * ** *
23040159 AAAATATTTTCGATAAT-TTATCTAAATTACAT
1 AAAATATTTTCCATAATATAATCTAAACAACAA
23040191 AAAATATT
1 AAAATATT
23040199 AATTTTCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (33 bp):
AAAATATTTTCCATAATATAATCTAAACAACAA
Found at i:23043557 original size:43 final size:43
Alignment explanation
Indices: 23043509--23043678 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
23043499 TGTGATAATA
*
23043509 ATGACCCAGTTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
23043552 ATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * * * *
23043595 ATGACCCTGCTATGTGAGGTGTGGGAGTACACATGAACTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
*
23043638 ATGACCC-GACTATATGC--TAGTAGGGAGTGCACATGAGCTGA
1 ATGACCCAG-CTATGTGCGGT-GTA-GGAGTGCACATGAGCTGA
23043679 ATGTGGCAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 107 0.96
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:23046671 original size:20 final size:21
Alignment explanation
Indices: 23046642--23046687 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
23046632 TATTTCTATT
* *
23046642 TAAACTTATAA-TATTAAATA
1 TAAACCTATAAGTATAAAATA
23046662 TAAACCTATAATGTATAAAATA
1 TAAACCTATAA-GTATAAAATA
23046684 TAAA
1 TAAA
23046688 TAGTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAACCTATAAGTATAAAATA
Found at i:23050372 original size:108 final size:108
Alignment explanation
Indices: 23050247--23050452 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 108
23050237 TAAAATGACT
* * * *
23050247 AAATATGTTGATTTAGTTATAACCTTCACAATTTACGAATATACATTCTTTTAAAATTATTCAAC
1 AAATATGTTGATTTAGTTACAACCTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
*
23050312 TCCTACCCAATTAATCTTTTATTTAAATTTACTCAAATTAGCA
66 TCCTACCCAATTAATCATTTATTTAAATTTACTCAAATTAGCA
** * *
23050355 AAATATGTTGATTTAGTTACAATTTTCACAATTTACAAATACATATTCTTCTAAAATTATTCAGC
1 AAATATGTTGATTTAGTTACAACCTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
* * *
23050420 TCTTACCTAATTTATCATTTATTTAAATTTACT
66 TCCTACCCAATTAATCATTTATTTAAATTTACT
23050453 TAAAATTTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 86 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (108 bp):
AAATATGTTGATTTAGTTACAACCTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
TCCTACCCAATTAATCATTTATTTAAATTTACTCAAATTAGCA
Found at i:23051159 original size:15 final size:16
Alignment explanation
Indices: 23051135--23051164 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23051125 ATATTTTTCA
23051135 ACACTATAAATATTTT
1 ACACTATAAATATTTT
23051151 ACACT-TAAATATTT
1 ACACTATAAATATTT
23051165 GACTTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
ACACTATAAATATTTT
Found at i:23051399 original size:33 final size:33
Alignment explanation
Indices: 23051357--23051472 Score: 171
Period size: 33 Copynumber: 3.5 Consensus size: 33
23051347 GCACTAACAT
* *
23051357 GTCAACATGTCAGTGCCATGTCAACATAGACAC
1 GTCAGCATGTCAGTGCCATGTCAACATTGACAC
*
23051390 GTCAGCATGTCAGTGCTATGTCAACATTGACAC
1 GTCAGCATGTCAGTGCCATGTCAACATTGACAC
*
23051423 GTCAGCATGTCAGTGCCATGTCAACATTGACCC
1 GTCAGCATGTCAGTGCCATGTCAACATTGACAC
* *
23051456 GTCATCATCT-AGTGCCA
1 GTCAGCATGTCAGTGCCA
23051473 CGTGGTATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
32 7 0.09
33 69 0.91
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (33 bp):
GTCAGCATGTCAGTGCCATGTCAACATTGACAC
Found at i:23053362 original size:2 final size:2
Alignment explanation
Indices: 23053355--23053394 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23053345 GTTGCAAGAA
23053355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23053395 GACATTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23053449 original size:13 final size:13
Alignment explanation
Indices: 23053427--23053479 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
23053417 NNNTGCAAAA
23053427 ATAT-ATATATAT
1 ATATGATATATAT
23053439 ATATGATATATAT
1 ATATGATATATAT
* *
23053452 AAATGA-CT-TAT
1 ATATGATATATAT
23053463 ATATGCATATAT-T
1 ATATG-ATATATAT
23053476 ATAT
1 ATAT
23053480 CTCGATGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 7 0.21
12 6 0.18
13 19 0.58
14 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (13 bp):
ATATGATATATAT
Found at i:23060460 original size:2 final size:2
Alignment explanation
Indices: 23060421--23060446 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23060411 AAGATGGTAT
23060421 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
23060447 GATCCTAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23067346 original size:21 final size:20
Alignment explanation
Indices: 23067305--23067349 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
23067295 GTAAAAATTG
**
23067305 ATTATTAATTAATTACTAGA
1 ATTATTAATTAATTAAAAGA
*
23067325 ATTATTAATCTTATTAAAAGA
1 ATTATTAAT-TAATTAAAAGA
23067346 ATTA
1 ATTA
23067350 GTCACATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (20 bp):
ATTATTAATTAATTAAAAGA
Found at i:23067648 original size:17 final size:16
Alignment explanation
Indices: 23067617--23067650 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23067607 CAAAAGTTTC
*
23067617 AAGTTTATCATTATAT
1 AAGTTTATAATTATAT
23067633 AAGTTATATAATTATAT
1 AAGTT-TATAATTATAT
23067650 A
1 A
23067651 TATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
AAGTTTATAATTATAT
Found at i:23067660 original size:153 final size:150
Alignment explanation
Indices: 23067381--23067660 Score: 370
Period size: 153 Copynumber: 1.8 Consensus size: 150
23067371 CATACATATA
23067381 ATTTTTGTTACTGCAAATCAATAAAAATTATGCATATATAATACATCAAATTTATCATTAATATT
1 ATTTTTGTTACTGCAAATCAATAAAAATTATGCATATATAATACATCAAATTTATCATTAATATT
*
23067446 TTTTTTTAAAATTTCAAATTTATCATTATATATAATTTATAACCTTATGTATAATCCATTTTTTA
66 TTTTTTTAAAATTTCAAATTTATCATTATATATAATTTATAA-CTTATATATAAT-CATTTTTTA
23067511 ATAATAATTTTTTCCATTCATT
129 ATAATAATTTTTTCCATTCATT
* * * * * *
23067533 ATTTTTGTTACTGTACAA-CAATAAAAAATTTTGTATATATAGTACATTAAATTTATCATTATTA
1 ATTTTTGTTACTGCA-AATCAAT-AAAAATTATGCATATATAATACATCAAATTTATCATTAATA
* *
23067597 TTTTTTTTTGCAAAAGTTTCAAGTTTATCATTATATA-AGTTATATAA-TTATATATATAT-ATT
64 TTTTTTTTT--AAAA-TTTCAAATTTATCATTATATATAATT-TATAACTTATATATA-ATCATT
23067659 TT
124 TT
23067661 GTTATTGTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
152 18 0.16
153 52 0.46
154 8 0.07
155 9 0.08
156 25 0.22
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (150 bp):
ATTTTTGTTACTGCAAATCAATAAAAATTATGCATATATAATACATCAAATTTATCATTAATATT
TTTTTTTAAAATTTCAAATTTATCATTATATATAATTTATAACTTATATATAATCATTTTTTAAT
AATAATTTTTTCCATTCATT
Found at i:23077335 original size:42 final size:42
Alignment explanation
Indices: 23077289--23077381 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
23077279 TTTCACAGAG
**
23077289 TCTTGATACTTAGATTCAAAGTCTTGATACC-AGGTTTCAAAA
1 TCTTGATACTTAGATTCAAAGTCTTGATACCTA-ACTTCAAAA
* * * *
23077331 TCTTGATACTTGGTTTCAAAGTTTTGATGCCTAACTTCAAAA
1 TCTTGATACTTAGATTCAAAGTCTTGATACCTAACTTCAAAA
23077373 TCTTGATAC
1 TCTTGATAC
23077382 CTAGCACAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (42 bp):
TCTTGATACTTAGATTCAAAGTCTTGATACCTAACTTCAAAA
Found at i:23077384 original size:21 final size:22
Alignment explanation
Indices: 23077289--23077385 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 22
23077279 TTTCACAGAG
* *
23077289 TCTTGATACTTAGA-TTCAAAG
1 TCTTGATACCTAGATTTCAAAA
*
23077310 TCTTGATACC-AGGTTTCAAAA
1 TCTTGATACCTAGATTTCAAAA
* * *
23077331 TCTTGATA-CTTGGTTTCAAAG
1 TCTTGATACCTAGATTTCAAAA
* * *
23077352 TTTTGATGCCTA-ACTTCAAAA
1 TCTTGATACCTAGATTTCAAAA
23077373 TCTTGATACCTAG
1 TCTTGATACCTAG
23077386 CACAATGTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.05
21 54 0.92
22 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTGATACCTAGATTTCAAAA
Found at i:23077607 original size:19 final size:19
Alignment explanation
Indices: 23077566--23077607 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23077556 CAACAGCTAT
* *
23077566 AAAGCTTCTCCAACTCTAC
1 AAAGCTTCTCCAACTATAA
*
23077585 AAAGCTTCTCCAGCTATAA
1 AAAGCTTCTCCAACTATAA
23077604 AAAG
1 AAAG
23077608 GACTTCTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAGCTTCTCCAACTATAA
Found at i:23077969 original size:28 final size:28
Alignment explanation
Indices: 23077931--23077994 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
23077921 TAATGATGTA
23077931 AAGGTTTTGTTTGAT-CTTTGAAAAAGG-T
1 AAGGTTTTGTTTGATCCTTT--AAAAGGCT
23077959 AAGGTTTTGTTTGATCCTTTAAAAGGCT
1 AAGGTTTTGTTTGATCCTTTAAAAGGCT
23077987 AAGGTTTT
1 AAGGTTTT
23077995 ACCTTATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.18
28 24 0.71
29 4 0.12
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (28 bp):
AAGGTTTTGTTTGATCCTTTAAAAGGCT
Found at i:23078077 original size:34 final size:33
Alignment explanation
Indices: 23078039--23078149 Score: 109
Period size: 34 Copynumber: 3.2 Consensus size: 33
23078029 CCTGCTCCCA
*
23078039 TGAAAAGGTAGTGTATGGGTTGTGCTTGATCTT
1 TGAAAAGGTAGTGTATGGGTTATGCTTGATCTT
*
23078072 GTGAAAAGGGAGTG--TGAGGTTATGCTTGATCTT
1 -TGAAAAGGTAGTGTATG-GGTTATGCTTGATCTT
** *
23078105 ATCGAAAAGGTAATGTGTAAAGGTTATGCTTGATCCT
1 -T-GAAAAGGT-A-GTGTATGGGTTATGCTTGATCTT
23078142 TGAAAAGG
1 TGAAAAGG
23078150 CAGTTTTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
32 2 0.03
33 16 0.25
34 19 0.30
35 8 0.12
36 4 0.06
37 15 0.23
ACGTcount: A:0.28, C:0.07, G:0.32, T:0.33
Consensus pattern (33 bp):
TGAAAAGGTAGTGTATGGGTTATGCTTGATCTT
Found at i:23078112 original size:68 final size:68
Alignment explanation
Indices: 23078003--23078149 Score: 165
Period size: 70 Copynumber: 2.1 Consensus size: 68
23077993 TTACCTTATT
* ** *
23078003 CTTGAAAAGGCAGAGTGTGGGTTATGCCTGCTCCCATGAAAAGGT-A-GTGTATGGGTTGTGCTT
1 CTTGAAAAGG-AGAGTGTGGGTTATGCCTGATCCCATGAAAAGGTAATGTGTAAAGGTTATGCTT
23078066 GATC
65 GATC
* * **
23078070 TTGTGAAAAGG-GAGTGTGAGGTTATGCTTGATCTTATCGAAAAGGTAATGTGTAAAGGTTATGC
1 CT-TGAAAAGGAGAGTGTG-GGTTATGCCTGATCCCAT-GAAAAGGTAATGTGTAAAGGTTATGC
23078134 TTGATC
63 TTGATC
23078140 CTTGAAAAGG
1 CTTGAAAAGG
23078150 CAGTTTTCAT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
66 7 0.11
67 15 0.23
68 16 0.24
69 9 0.14
70 19 0.29
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.31
Consensus pattern (68 bp):
CTTGAAAAGGAGAGTGTGGGTTATGCCTGATCCCATGAAAAGGTAATGTGTAAAGGTTATGCTTG
ATC
Found at i:23080004 original size:36 final size:36
Alignment explanation
Indices: 23079950--23080020 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
23079940 TCAACTTGCC
* *
23079950 TTTTCAATAAGATCAGGCGTAACTTTTACAACATGT
1 TTTTCAATAAGATCAGGCGTAACCTTCACAACATGT
* * *
23079986 TTTTCAGTAGGATTAGGCGTAACCTTCACAACATG
1 TTTTCAATAAGATCAGGCGTAACCTTCACAACATG
23080021 CCTTGTCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (36 bp):
TTTTCAATAAGATCAGGCGTAACCTTCACAACATGT
Found at i:23084814 original size:73 final size:73
Alignment explanation
Indices: 23084726--23084928 Score: 289
Period size: 73 Copynumber: 2.8 Consensus size: 73
23084716 GAAGATGGCT
* * * * * *
23084726 GGTTAAGAAACAGAGACAACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTTACTACT
1 GGTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTACC
23084791 AGAAACTA
66 AGAAACTA
* * *
23084799 GGTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGATTAAGAGCTCATTGCC
1 GGTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTACC
* *
23084864 AGAAATTG
66 AGAAACTA
* *
23084872 GGTTCAGAGACAAAGACGACTTAATAGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 GGTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
23084929 ATTCTGTTTG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 116 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (73 bp):
GGTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTACC
AGAAACTA
Found at i:23087088 original size:37 final size:37
Alignment explanation
Indices: 23087018--23087090 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
23087008 TACCACCATA
** * *
23087018 TGTGCACTCCCTACTCGCACATTTTAATGTCATCATG
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* *
23087055 TGTGTACTCCCTACTCGCACACCTCATTATCATCAT
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCAT
23087091 ACAACATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.34
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
Found at i:23087704 original size:2 final size:2
Alignment explanation
Indices: 23087697--23087727 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23087687 ATGTGGAAAG
*
23087697 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23087728 AGAATGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:23089074 original size:21 final size:22
Alignment explanation
Indices: 23089041--23089085 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
23089031 GAGATTAAGG
* *
23089041 AAAAGGAAGAAGAAGACAAGAA
1 AAAAGCAAGAAGAAAACAAGAA
*
23089063 AAAAGCAA-AAGAAAAGAAGAA
1 AAAAGCAAGAAGAAAACAAGAA
23089084 AA
1 AA
23089086 CATTACCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.73, C:0.04, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAGCAAGAAGAAAACAAGAA
Found at i:23096931 original size:2 final size:2
Alignment explanation
Indices: 23096924--23096951 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23096914 ATCATATTAT
23096924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23096952 CATTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23098303 original size:15 final size:16
Alignment explanation
Indices: 23098286--23098340 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
23098276 TTCTTCTTCT
23098286 TTTTTATTATTTATT-
1 TTTTTATTATTTATTA
*
23098301 TTTATTA-GATTTATTCA
1 TTT-TTATTATTTATT-A
*
23098318 TTTTTATT-TTTGTTA
1 TTTTTATTATTTATTA
23098333 TTTTTATT
1 TTTTTATT
23098341 TTGGGTGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 19 0.58
16 11 0.33
17 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTTATTATTTATTA
Found at i:23098626 original size:80 final size:78
Alignment explanation
Indices: 23098486--23098654 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 78
23098476 TTTTAAAATA
* * * * * **
23098486 TACCCAGAGGTTTTAAAAAAAAAGGGTCGTTCCTCATCTTAGAATGAGGTTACATAACTTTGTAG
1 TACCCGGAGGTCTTAAAAAAAAAGGGTCGTTCCTCATATCACAATGAGACTACATAAC-TT-T-G
*
23098551 AAATCTTGAAATTAAT
63 AAATCTTGAAACTAAT
* * *
23098567 TACCCGGAGGTCTTAAAAGAAAA-GGTTGTTCCTCATATCACAATGAGACTACGTAACTTTGAAA
1 TACCCGGAGGTCTTAAAAAAAAAGGGTCGTTCCTCATATCACAATGAGACTACATAACTTTGAAA
23098631 TCTTGAAACTAAT
66 TCTTGAAACTAAT
* *
23098644 TGCCCGAAGGT
1 TACCCGGAGGT
23098655 TTTGAAGATG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 25 0.33
78 1 0.01
79 2 0.03
80 27 0.36
81 20 0.27
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (78 bp):
TACCCGGAGGTCTTAAAAAAAAAGGGTCGTTCCTCATATCACAATGAGACTACATAACTTTGAAA
TCTTGAAACTAAT
Found at i:23098736 original size:98 final size:98
Alignment explanation
Indices: 23098567--23099275 Score: 940
Period size: 98 Copynumber: 7.2 Consensus size: 98
23098557 TGAAATTAAT
* *
23098567 TACCCGGAGGTCTTAAAAGAAAAGGTTGTTCCTCATATCACAATGAGACTACGTAACTTTGAAAT
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
*
23098632 CTTGAAACTAATTGCCCGAAGGTTTTGAAGATG
66 CTTGAAACTAATTACCCGAAGGTTTTGAAGATG
*
23098665 TACCCGGAGGTTTTAAAAGAAAAGGTTATTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
**
23098730 CTTGAAACTAATTA-CTTAGAGGTTTTGAAGATG
66 CTTGAAACTAATTACCCGA-AGGTTTTGAAGATG
** * * ** *
23098763 TACCCGGAGGTTTTAAAAGAAAAGGTCATTCCTCATCTTAGAATGAGGTTACATAACTTTGTAGA
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAAC-TT-T-GA
** *
23098828 AATCTTGAAACTAATTACCTAAAGGTTTT-AAAATG
63 AATCTTGAAACTAATTACCCGAAGGTTTTGAAGATG
* * * * *
23098863 TACTCGGAGGTTGTAAAAGAAAAGATTGTTCCTTATATCAGAATGAGACTACATAACTTTGAAAT
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
23098928 CTTGAAACTAATTACCCGAAGGTTTTGAAGATG
66 CTTGAAACTAATTACCCGAAGGTTTTGAAGATG
* *
23098961 TACCCGAAGGTTTTAAAAGAAAAAGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAA
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTG-AAA
*
23099026 TCTTGAAACTAATTACCCGGAGGTTTTGAAGATG
65 TCTTGAAACTAATTACCCGAAGGTTTTGAAGATG
** * * * * * *
23099060 TACTTGGAGGTTTTAAAAGAAAAGATCGTTCCTCATCTCAAAATGAGGCTACGTAACTTTAAAAT
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
* *
23099125 CTTGAAACTAATTACCCGAAAGTTTTGAAAATG
66 CTTGAAACTAATTACCCGAAGGTTTTGAAGATG
** * * * *
23099158 TACTTGGAGGTTTTAAAAGAAAAGGTCGTTCCTCATCTCCA-AATGAGGCTACGTAACTTTAAAA
1 TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATAT-CAGAATGAGACTACGTAACTTTGAAA
* *
23099222 TCTTGAAACTAATTACCCGGAGGTTTT-AGGAATG
65 TCTTGAAACTAATTACCCGAAGGTTTTGAAG-ATG
*
23099256 TACCCGGAGGTTTTGAAAGA
1 TACCCGGAGGTTTTAAAAGA
23099276 TGTACTTGGA
Statistics
Matches: 546, Mismatches: 56, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
97 32 0.06
98 339 0.62
99 93 0.17
100 53 0.10
101 26 0.05
102 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (98 bp):
TACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTACGTAACTTTGAAAT
CTTGAAACTAATTACCCGAAGGTTTTGAAGATG
Found at i:23099437 original size:143 final size:141
Alignment explanation
Indices: 23099165--23099433 Score: 369
Period size: 143 Copynumber: 1.9 Consensus size: 141
23099155 ATGTACTTGG
* * * *
23099165 AGGTTTTAAAAGAAAAGGTCGTTCCTCATCTCCAAATGAGGCTACGTAACTTTAAAATCTTGAAA
1 AGGTTTTAAAAGAAAAGGTCGTTCCTCATCTCAAAATGAAGCTACATAACTTTAAAATCTTAAAA
* * * * **
23099230 CTAATTACCCGGAGGTTTTAGGAATGTACCCGGAGGTTTTGAAAGATGTACTTGGAGGTTTTGAA
66 CTAATTACCCGGAGGTTTTAAGAATGTACCAGGAAGTTTTGAAAGATATACCCGGAGGTTTTGAA
23099295 GATTTACCCAA
131 GATTTACCCAA
* * * *
23099306 AGGTTTTAAGAGAAAAGGTTGTTCCTCATCTTAAAATGAAGCTGCATAACTTTAAAAAATCTTAA
1 AGGTTTTAAAAGAAAAGGTCGTTCCTCATCTCAAAATGAAGCTACATAACTTT--AAAATCTTAA
**
23099371 AACTAATTACTTGGAGGTTTTAAGAATGTACCAGGAAGTTTTG-AAGATATACCCGGAGGTTTT
64 AACTAATTACCCGGAGGTTTTAAGAATGTACCAGGAAGTTTTGAAAGATATACCCGGAGGTTTT
23099434 TGAATAAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
141 46 0.42
142 17 0.15
143 47 0.43
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (141 bp):
AGGTTTTAAAAGAAAAGGTCGTTCCTCATCTCAAAATGAAGCTACATAACTTTAAAATCTTAAAA
CTAATTACCCGGAGGTTTTAAGAATGTACCAGGAAGTTTTGAAAGATATACCCGGAGGTTTTGAA
GATTTACCCAA
Found at i:23099532 original size:21 final size:21
Alignment explanation
Indices: 23099507--23099598 Score: 114
Period size: 21 Copynumber: 4.3 Consensus size: 21
23099497 AATTACCCGA
* *
23099507 AGGTTTTGAAGATGTACTCGG
1 AGGTTTTGAAGATGTACCCAG
*
23099528 AGGTTTTAGAAGATGTACCTAG
1 AGGTTTT-GAAGATGTACCCAG
* *
23099550 ATGTTTTGAGGATGTACCCAG
1 AGGTTTTGAAGATGTACCCAG
23099571 AGGTTTTGAAGATGTACCC-G
1 AGGTTTTGAAGATGTACCCAG
23099591 AAGGTTTT
1 -AGGTTTT
23099599 TGAATAAAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.02
21 43 0.70
22 17 0.28
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (21 bp):
AGGTTTTGAAGATGTACCCAG
Found at i:23099557 original size:122 final size:122
Alignment explanation
Indices: 23099256--23099558 Score: 364
Period size: 122 Copynumber: 2.5 Consensus size: 122
23099246 TTTAGGAATG
* * *
23099256 TACCCGGAGGTTTTGAAAGATGTACTTGGAGGTTTTGAAGATTTACCCAAAGGTTTT-AAGAGAA
1 TACCCGGAGGTTTTG-AAGATGTACTCGGAGGTTTTGAAGATATACCCAGAGGTTTTGAAGAGAA
* *
23099320 AAGGTTGTTCCTCATCTTAAAATGAAGCTGCATAACTTTAAAAAATCTTAAAACTAAT
65 AAGATTGTTCCTCATCTTAAAATGAAGCTACATAACTTTAAAAAATCTTAAAACTAAT
** * * *
23099378 TACTTGGAGGTTTT-AAGAATGTAC-CAGGAAGTTTTGAAGATATACCCGGAGGTTTTTGAATA-
1 TACCCGGAGGTTTTGAAG-ATGTACTC-GGAGGTTTTGAAGATATACCCAGAGG-TTTTGAAGAG
* * *
23099440 AAAA-ATTGTTCCTCATCTTAAAATGAGGTTACATAACTTTAAAGAAATCTTGAAACTAAT
63 AAAAGATTGTTCCTCATCTTAAAATGAAGCTACATAACTTTAAA-AAATCTTAAAACTAAT
* * * *
23099500 TACCCGAAGGTTTTGAAGATGTACTCGGAGGTTTTAGAAGATGTACCTAGATGTTTTGA
1 TACCCGGAGGTTTTGAAGATGTACTCGGAGGTTTT-GAAGATATACCCAGAGGTTTTGA
23099559 GGATGTACCC
Statistics
Matches: 152, Mismatches: 21, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
120 3 0.02
121 63 0.41
122 66 0.43
123 20 0.13
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (122 bp):
TACCCGGAGGTTTTGAAGATGTACTCGGAGGTTTTGAAGATATACCCAGAGGTTTTGAAGAGAAA
AGATTGTTCCTCATCTTAAAATGAAGCTACATAACTTTAAAAAATCTTAAAACTAAT
Found at i:23099583 original size:165 final size:165
Alignment explanation
Indices: 23099384--23099742 Score: 524
Period size: 165 Copynumber: 2.2 Consensus size: 165
23099374 TAATTACTTG
* * * * *
23099384 GAGGTTTTAAGAATGTA-CCAGGAAGTTTTGAAGATATACCCGGAGGTTTTTGAATAAAAAATTG
1 GAGGTTTTGAGGATGTACCCA-GAGGTTTTGAAGATATACCCGAAGGTTTTTGAATAAAAAATTA
* *
23099448 TTCCTCATCTTAAAATGAGGTTACATAACTTTAAAGAAATCTTGAAACTAATTACCCGAAGGTTT
65 TTCCTCATCTCAAAATGAGGTTACATAACTTTAAAGAAATCTTAAAACTAATTACCCGAAGGTTT
** *
23099513 TGAAGATGTA-CTCGGAGGTTTTAGAAGATGTACCTA
130 TGAAGATGTACCT-AAAGGTTTTAGAAGATGTACCCA
* * *
23099549 GATGTTTTGAGGATGTACCCAGAGGTTTTGAAGATGTACCCGAAGGTTTTTGAATAAAACATTAT
1 GAGGTTTTGAGGATGTACCCAGAGGTTTTGAAGATATACCCGAAGGTTTTTGAATAAAAAATTAT
* * *
23099614 TTCTCATCTCAAAATGAGGTTACGTAACTTTAAAGAAATCTTAAAAGTAATTACCCGAAGGTTTT
66 TCCTCATCTCAAAATGAGGTTACATAACTTTAAAGAAATCTTAAAACTAATTACCCGAAGGTTTT
*
23099679 GAAGATGTACCTAAAGGTTTTAGAATATGTACCCA
131 GAAGATGTACCTAAAGGTTTTAGAAGATGTACCCA
*
23099714 GAGGTTTTGAGGATGTACCCGGAGGTTTT
1 GAGGTTTTGAGGATGTACCCAGAGGTTTT
23099743 AAAAGAAAAA
Statistics
Matches: 173, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
165 168 0.97
166 5 0.03
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (165 bp):
GAGGTTTTGAGGATGTACCCAGAGGTTTTGAAGATATACCCGAAGGTTTTTGAATAAAAAATTAT
TCCTCATCTCAAAATGAGGTTACATAACTTTAAAGAAATCTTAAAACTAATTACCCGAAGGTTTT
GAAGATGTACCTAAAGGTTTTAGAAGATGTACCCA
Found at i:23099600 original size:43 final size:44
Alignment explanation
Indices: 23099500--23099602 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
23099490 TGAAACTAAT
* *
23099500 TACCCGAAGG-TTTTGAAGATGTACTCGGAGGTTTTAGAAGATG
1 TACCCGAAGGTTTTTGAAGATGTACCCAGAGGTTTTAGAAGATG
* * *
23099543 TA-CC-TAGATGTTTTGAGGATGTACCCAGAGGTTTT-GAAGATG
1 TACCCGAAGGT-TTTTGAAGATGTACCCAGAGGTTTTAGAAGATG
23099585 TACCCGAAGGTTTTTGAA
1 TACCCGAAGGTTTTTGAA
23099603 TAAAACATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.04
42 11 0.23
43 32 0.67
44 3 0.06
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (44 bp):
TACCCGAAGGTTTTTGAAGATGTACCCAGAGGTTTTAGAAGATG
Found at i:23099711 original size:22 final size:21
Alignment explanation
Indices: 23099665--23099742 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
23099655 TAAAAGTAAT
*
23099665 TACCCGAAGGTTTTGAAGATG
1 TACCCAAAGGTTTTGAAGATG
* *
23099686 TACCTAAAGGTTTTAGAATATG
1 TACCCAAAGGTTTT-GAAGATG
* *
23099708 TACCCAGAGGTTTTGAGGATG
1 TACCCAAAGGTTTTGAAGATG
**
23099729 TACCCGGAGGTTTT
1 TACCCAAAGGTTTT
23099743 AAAAGAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 30 0.62
22 18 0.38
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (21 bp):
TACCCAAAGGTTTTGAAGATG
Found at i:23099720 original size:144 final size:144
Alignment explanation
Indices: 23099528--23099787 Score: 389
Period size: 144 Copynumber: 1.8 Consensus size: 144
23099518 ATGTACTCGG
* * *
23099528 AGGTTTTAGAAGATGTACCTAGATGTTTTGAGGATGTACCCAGAGGTTTTGAAGATGTACCCGAA
1 AGGTTTTAGAAGATGTACCTAAAGGTTTTGAAGATGTACCCAGAGGTTTTGAAGATGTACCCGAA
** * *
23099593 GGTTTTTGAATAAAACA-TTATTTCTCATCTCAAAATGAGGTTACGTAACTTTAAAGAAATCTTA
66 GGTTTTAAAAGAAAA-AGTTATTTCTCATCTCAAAATGAGGCTACGTAACTTTAAAGAAATCTTA
23099657 AAAGTAATTACCCGA
130 AAAGTAATTACCCGA
* * *
23099672 AGGTTTT-GAAGATGTACCTAAAGGTTTTAGAATATGTACCCAGAGGTTTTGAGGATGTACCCGG
1 AGGTTTTAGAAGATGTACCTAAAGGTTTT-GAAGATGTACCCAGAGGTTTTGAAGATGTACCCGA
*
23099736 AGGTTTTAAAAGAAAAAGTTATTTCTCATCTCAAAATGAGGCTACTTAACTT
65 AGGTTTTAAAAGAAAAAGTTATTTCTCATCTCAAAATGAGGCTACGTAACTT
23099788 AAATTCTCTC
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
143 20 0.19
144 83 0.81
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (144 bp):
AGGTTTTAGAAGATGTACCTAAAGGTTTTGAAGATGTACCCAGAGGTTTTGAAGATGTACCCGAA
GGTTTTAAAAGAAAAAGTTATTTCTCATCTCAAAATGAGGCTACGTAACTTTAAAGAAATCTTAA
AAGTAATTACCCGA
Found at i:23101853 original size:4 final size:4
Alignment explanation
Indices: 23101840--23101880 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
23101830 CACTTTCTTA
* *
23101840 TTTC -TTC TTTC TTTC TTT- TTTC TTTC TTTG TTTT TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
23101881 TCTTCACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:23101864 original size:15 final size:16
Alignment explanation
Indices: 23101844--23101880 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
23101834 TTCTTATTTC
23101844 TTCTTTCTTT-CTTTT
1 TTCTTTCTTTGCTTTT
*
23101859 TTCTTTCTTTGTTTTT
1 TTCTTTCTTTGCTTTT
23101875 TTCTTT
1 TTCTTT
23101881 TCTTCACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (16 bp):
TTCTTTCTTTGCTTTT
Found at i:23101868 original size:11 final size:11
Alignment explanation
Indices: 23101840--23101881 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
23101830 CACTTTCTTA
*
23101840 TTTCTTCTTTC
1 TTTCTTTTTTC
23101851 TTTCTTTTTTC
1 TTTCTTTTTTC
*
23101862 TTTCTTTGTTTT
1 TTTCTTT-TTTC
23101874 TTTCTTTT
1 TTTCTTTT
23101882 CTTCACAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:23106418 original size:17 final size:18
Alignment explanation
Indices: 23106379--23106421 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23106369 TATGTAAATT
*
23106379 TATTATTTTTTATATATA
1 TATTATTTTTTATACATA
23106397 TATTATTTTTTA-ACA-A
1 TATTATTTTTTATACATA
23106413 TGATTATTT
1 T-ATTATTT
23106422 GACTTAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 9 0.39
18 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTATTTTTTATACATA
Found at i:23106897 original size:2 final size:2
Alignment explanation
Indices: 23106886--23106923 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
23106876 ATAAACATTC
*
23106886 AT AT -T AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23106924 ACTTTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23107628 original size:9 final size:8
Alignment explanation
Indices: 23107613--23107639 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23107603 TTTTCCTGTA
23107613 ATTTTTTT
1 ATTTTTTT
23107621 ATTTTTTT
1 ATTTTTTT
23107629 ATTTTTTT
1 ATTTTTTT
23107637 ATT
1 ATT
23107640 GTGGATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:23108813 original size:73 final size:73
Alignment explanation
Indices: 23108648--23108843 Score: 277
Period size: 73 Copynumber: 2.7 Consensus size: 73
23108638 AAGATGGCTA
* * * * * *
23108648 GTTCAGAAACAGAGACAACTTAATCGACTAAAAAGCATTGTTAGTCAACT-AGAGCTTACTGCAA
1 GTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGCAA
23108712 AAAACTGG
66 AAAACTGG
* * * *
23108720 ATTTAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGCTA
1 GTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGCAA
*
23108785 GAAACTGG
66 AAAACTGG
*
23108793 GTTCAGAGACAGAGATGACTTAATCGACTAAGAAGCATAGTTAGTCGACTA
1 GTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTA
23108844 CAAGTATTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 42 0.39
73 66 0.61
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (73 bp):
GTTCAGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGCAA
AAAACTGG
Found at i:23113834 original size:68 final size:67
Alignment explanation
Indices: 23113677--23113837 Score: 178
Period size: 68 Copynumber: 2.4 Consensus size: 67
23113667 GCCCACTCAT
* * **
23113677 CCCTAAGGTATTCTTACCTCCACACCCGGACTCATAAGAAAGAGAAAAGTGGTATGATCTTAACT
1 CCCTATGGTATTCTTACC-CCACACCCGGACTCATAAGAAAGAGAAAAGTGGTAAGATCCCAACT
23113742 TAA
65 TAA
* * * *** * * *
23113745 CCTTGTGATATTCTTAGCCCCACATTGGGACTCATAAGGAAGGGAAAAGTGGTAAGGTGCCCAAC
1 CCCTATGGTATTCTTA-CCCCACACCCGGACTCATAAGAAAGAGAAAAGTGGTAAGAT-CCCAAC
23113810 TTAA
64 TTAA
23113814 CCCTATGGTATTCTTACCCCACAC
1 CCCTATGGTATTCTTACCCCACAC
23113838 TGAGACCAGA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
68 51 0.69
69 23 0.31
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (67 bp):
CCCTATGGTATTCTTACCCCACACCCGGACTCATAAGAAAGAGAAAAGTGGTAAGATCCCAACTT
AA
Found at i:23116006 original size:21 final size:21
Alignment explanation
Indices: 23115980--23116053 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
23115970 CTTCAAATCA
23115980 ATCGATAGATGTTCGTCATCT
1 ATCGATAGATGTTCGTCATCT
23116001 ATCGATAGATGTTCGTCATCT
1 ATCGATAGATGTTCGTCATCT
* * *
23116022 ATCGATAGATGTCCATCATTT
1 ATCGATAGATGTTCGTCATCT
*
23116043 ATTGATAGATG
1 ATCGATAGATG
23116054 AATTCTAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (21 bp):
ATCGATAGATGTTCGTCATCT
Found at i:23116649 original size:2 final size:2
Alignment explanation
Indices: 23116642--23116695 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
23116632 GCACTCATAG
23116642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23116684 AT AT AT AT AT AT
1 AT AT AT AT AT AT
23116696 TTATCAAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23123198 original size:22 final size:24
Alignment explanation
Indices: 23123173--23123217 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
23123163 TGCATTTGGA
23123173 TTTGGGATT-TTGTGT-TTGTGAG
1 TTTGGGATTGTTGTGTGTTGTGAG
23123195 TTTGGGATTGGTTGTGTGTTGTG
1 TTTGGGATT-GTTGTGTGTTGTG
23123218 TTAAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.07, C:0.00, G:0.40, T:0.53
Consensus pattern (24 bp):
TTTGGGATTGTTGTGTGTTGTGAG
Found at i:23127581 original size:2 final size:2
Alignment explanation
Indices: 23127574--23127604 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23127564 GCAGAAATGA
23127574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23127605 GTGTGGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23129866 original size:33 final size:34
Alignment explanation
Indices: 23129800--23129866 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
23129790 TTTCAAAGGC
* *
23129800 TCAACCACAACCTACAACAACAATTTTTACTAGGA
1 TCAACCAAAACC-ACAACAACAACTTTTACTAGGA
23129835 TCAACCAAAACC-CAACAATCAACTTTT-CTAGG
1 TCAACCAAAACCACAACAA-CAACTTTTACTAGG
23129867 CTAAGTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 11 0.38
34 7 0.24
35 11 0.38
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.22
Consensus pattern (34 bp):
TCAACCAAAACCACAACAACAACTTTTACTAGGA
Found at i:23132973 original size:52 final size:52
Alignment explanation
Indices: 23132895--23133084 Score: 260
Period size: 52 Copynumber: 3.6 Consensus size: 52
23132885 AAAGGATAAT
* * * *
23132895 TAAAA-ATATATAATAAATAAAAATTTTTAAAATTTTTGTAAAAATCATTAA
1 TAAAATATATATAAAAAATAAATATTTTTAAAATTTTTATAAAAATTATTAA
23132946 TAAAATATATATAAAAAATAAATATTTTTAAAATTTTTATAAAAATTATTAA
1 TAAAATATATATAAAAAATAAATATTTTTAAAATTTTTATAAAAATTATTAA
* *
23132998 TAAAATATATATATAATATAAATATTTTTTAAAAAAATTTTTATAAAAATTATTAA
1 TAAAATATATATAAAAAATAAATA-TTTTT---AAAATTTTTATAAAAATTATTAA
*
23133054 TAAAATATATAT--AATATAAATATTTTTAAAA
1 TAAAATATATATAAAAAATAAATATTTTTAAAA
23133085 ATCGTGGCCC
Statistics
Matches: 128, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
50 4 0.03
51 5 0.04
52 64 0.50
53 10 0.08
54 10 0.08
56 35 0.27
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (52 bp):
TAAAATATATATAAAAAATAAATATTTTTAAAATTTTTATAAAAATTATTAA
Found at i:23132992 original size:12 final size:13
Alignment explanation
Indices: 23132975--23133058 Score: 64
Period size: 13 Copynumber: 6.2 Consensus size: 13
23132965 AAATATTTTT
23132975 AAAATT-TTTATA
1 AAAATTATTTATA
*
23132987 AAAATTATTAATA
1 AAAATTATTTATA
23133000 AAATATATATATAATATA
1 AAA-AT-TAT-T--TATA
* * *
23133018 AATATTTTTTAAA
1 AAAATTATTTATA
23133031 AAAATT-TTTATA
1 AAAATTATTTATA
*
23133043 AAAATTATTAATA
1 AAAATTATTTATA
23133056 AAA
1 AAA
23133059 TATATATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
12 17 0.30
13 24 0.42
14 2 0.04
15 4 0.07
16 3 0.05
17 2 0.04
18 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATTATTTATA
Found at i:23134576 original size:3 final size:3
Alignment explanation
Indices: 23134568--23134592 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23134558 CAAAATACAA
23134568 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
23134593 CAGAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23134648 original size:25 final size:25
Alignment explanation
Indices: 23134595--23134655 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
23134585 TAATAATACA
23134595 GAAAAAT--AAAAAATAAAAAAAGT
1 GAAAAATGAAAAAAATAAAAAAAGT
*
23134618 GAAAAATGAAAAAAATATATAAAA-T
1 GAAAAATGAAAAAAATA-AAAAAAGT
*
23134643 GGAAAATGAAAAA
1 GAAAAATGAAAAA
23134656 GAGATAGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 7 0.21
25 21 0.64
26 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAAAATGAAAAAAATAAAAAAAGT
Found at i:23136318 original size:36 final size:37
Alignment explanation
Indices: 23136239--23136318 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
23136229 ACTATCAACT
* * * *
23136239 TGCCTTTTTAACAGGGTCAGATGTAACCTTTACAATA
1 TGCCTTTTTAACAAGATCAGACGTAACCTCTACAATA
23136276 TG-CTTTTT-ACAAGATCAGACGTAACCTCTACAA-A
1 TGCCTTTTTAACAAGATCAGACGTAACCTCTACAATA
23136310 GTGCCTTTT
1 -TGCCTTTT
23136319 GCATGATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.03
35 23 0.62
36 11 0.30
37 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (37 bp):
TGCCTTTTTAACAAGATCAGACGTAACCTCTACAATA
Found at i:23136327 original size:35 final size:35
Alignment explanation
Indices: 23136255--23136328 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
23136245 TTTAACAGGG
* * *
23136255 TCAGATGTAACCTTTACAATATGCTTTTTACAAGA
1 TCAGACGTAACCTCTACAATATGCCTTTTACAAGA
* *
23136290 TCAGACGTAACCTCTACAA-AGTGCCTTTTGCATGA
1 TCAGACGTAACCTCTACAATA-TGCCTTTTACAAGA
23136325 TCAG
1 TCAG
23136329 GCTTAACTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (35 bp):
TCAGACGTAACCTCTACAATATGCCTTTTACAAGA
Found at i:23141727 original size:15 final size:16
Alignment explanation
Indices: 23141703--23141746 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23141693 AACAAGAAGA
* *
23141703 AAAAGGAATATAAA-G
1 AAAAGAAATAAAAATG
23141718 AAAAGAAATAAAAATG
1 AAAAGAAATAAAAATG
*
23141734 AAAGGAAATAAAA
1 AAAAGAAATAAAA
23141747 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (16 bp):
AAAAGAAATAAAAATG
Done.