Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 72 of 185
Found at i:22777446 original size:21 final size:21
Alignment explanation
Indices: 22777420--22777463 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22777410 TAAAATCAAC
*
22777420 TTCAGCTTGTAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
22777441 TTCAGCTTATAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
22777462 TT
1 TT
22777464 TGCTATTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (21 bp):
TTCAGCTTATAGAACATAAAA
Found at i:22782904 original size:41 final size:41
Alignment explanation
Indices: 22782842--22782944 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
22782832 AAATATAGTA
* * * * *
22782842 CACCGGCTTTTAGCCTACTAGACCTATAGTCCGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
* * *
22782883 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
*
22782924 CACCAGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
22782945 GCACATAGCC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
Found at i:22782958 original size:41 final size:41
Alignment explanation
Indices: 22782880--22782959 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
22782870 GTCCGAAATG
* ** *
22782880 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
22782921 TTTCACCAGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAAT
22782960 AACTGAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:22783597 original size:21 final size:21
Alignment explanation
Indices: 22783571--22783614 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22783561 TAAAATCAAC
*
22783571 TTCAGCTTGTAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
22783592 TTCAGCTTATAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
22783613 TT
1 TT
22783615 TGCTATTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (21 bp):
TTCAGCTTATAGAACATAAAA
Found at i:22791540 original size:44 final size:44
Alignment explanation
Indices: 22791477--22791567 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
22791467 ATCGCATCAA
*
22791477 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAG
1 ATTGAAGCTAGAAATCTTATCTCCCGGAGATTACAGCGGAGCAG
* * *
22791521 ATTGAAGCTAGTAATCTTATCTCGCGGAGATTACAGTGGAGCAG
1 ATTGAAGCTAGAAATCTTATCTCCCGGAGATTACAGCGGAGCAG
22791565 ATT
1 ATT
22791568 AAAATAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
ATTGAAGCTAGAAATCTTATCTCCCGGAGATTACAGCGGAGCAG
Found at i:22791599 original size:44 final size:44
Alignment explanation
Indices: 22791489--22791601 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
22791479 TGAAGCTAGA
* **
22791489 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
* *
22791533 AATCTTATCTCGCGGAGATTACAGTGGAGCAGATT-AAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT--AGT
*
22791577 AATCTTATCTCTCTGA-AGTTACAGT
1 AATCTTATCTCCCTGAGA-TTACAGT
22791602 AGAGTTGATC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.07
44 53 0.90
45 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
Found at i:22791748 original size:50 final size:50
Alignment explanation
Indices: 22791694--22791978 Score: 204
Period size: 50 Copynumber: 5.6 Consensus size: 50
22791684 GCAGTGGAGC
*
22791694 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
22791744 AGATTAAAGCTACAAT-AGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCAC-ATCGGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * * * *
22791794 AGATTAAAGCCAGATCGGTGAAT-TTCGCCTCTCCGACATTGCAGCTAAAA
1 AGATTAAAGCCACATCGGTGAATCTT-ACTTCCCCGACATTGCAGTTAAAA
* * *
22791844 GGATTAAAGCCATATCGGTGAATCTCACTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * * **
22791894 GGATTAAAGCTGCCAGAAAGGGGAATCTTACTT-CCCTAGCGGTGCAGTTAAAA
1 AGATTAAA---GCCACATCGGTGAATCTTACTTCCCCGA-CATTGCAGTTAAAA
* * *
22791947 AGATTGAAGCTACAAT-GGCGAATCTTACTTCC
1 AGATTAAAGCCAC-ATCGGTGAATCTTACTTCC
22791979 TAAAAGTTGC
Statistics
Matches: 181, Mismatches: 40, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
49 10 0.06
50 122 0.67
51 10 0.06
52 4 0.02
53 35 0.19
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:22791867 original size:100 final size:100
Alignment explanation
Indices: 22791683--22791877 Score: 252
Period size: 100 Copynumber: 1.9 Consensus size: 100
22791673 TCCCAAGCAG
* * *
22791683 TGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGCTAAAAAGAT
*
22791748 TAAAGCTACAATAGCGAATCTTAC-TCCCCAGGCGA
66 TAAAGC-ACAATAGCGAATCTCACTTCCCCAGGCGA
* * *
22791783 TGCAGTGGAACAGATTAAAGCCAGATCGGTGAAT-TTCGCCTCTCCGACATTGCAGCTAAAAGGA
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTT-GCCTCCCCGACATTGCAGCTAAAAAGA
* *
22791847 TTAAAGC-CATATCGGTGAATCTCACTTCCCC
65 TTAAAGCACA-AT-AGCGAATCTCACTTCCCC
22791878 GACATTGCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
98 2 0.02
99 4 0.05
100 71 0.87
101 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGCTAAAAAGAT
TAAAGCACAATAGCGAATCTCACTTCCCCAGGCGA
Found at i:22791899 original size:100 final size:99
Alignment explanation
Indices: 22791683--22791903 Score: 227
Period size: 100 Copynumber: 2.2 Consensus size: 99
22791673 TCCCAAGCAG
** * *
22791683 TGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGCTAAAAAGAT
* *
22791748 TAAAGCTACAATAGCGAATCTTACTCCCCAGGCGA
66 TAAAGC-ACAATAGCGAATCTCACTCCCCAGACGA
* * * *
22791783 TGCAGTGGAACAGATTAAAGCCAGATCGGTGAAT-TTCGCCTCTCCGACATTGCAGCTAAAAGGA
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTT-GCCTCCCCGACATTGCAGCTAAAAAGA
* *
22791847 TTAAAGC-CATATCGGTGAATCTCACTTCCCC-GAC-A
65 TTAAAGCACA-AT-AGCGAATCTCAC-TCCCCAGACGA
*
22791882 TTGCAGT-TAAAAGGATTAAAGC
1 -TGCAGTGGAAAA-GATTAAAGC
22791904 TGCCAGAAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
98 2 0.02
99 8 0.08
100 88 0.85
101 5 0.05
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (99 bp):
TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGCTAAAAAGAT
TAAAGCACAATAGCGAATCTCACTCCCCAGACGA
Found at i:22793814 original size:19 final size:20
Alignment explanation
Indices: 22793786--22793825 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22793776 TTCTAAATTA
*
22793786 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
22793805 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
22793825 T
1 T
22793826 CTTTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:22794137 original size:26 final size:27
Alignment explanation
Indices: 22794107--22794157 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22794097 TAGAATTTGT
22794107 TTGTTATTC-ATCAT-TTGCTTTGTATA
1 TTGTTATTCAATCATATTG-TTTGTATA
22794133 TTGTTATTCAATCATATTGTTTGTA
1 TTGTTATTCAATCATATTGTTTGTA
22794158 AGAATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 11 0.48
28 3 0.13
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (27 bp):
TTGTTATTCAATCATATTGTTTGTATA
Found at i:22804730 original size:51 final size:51
Alignment explanation
Indices: 22804654--22804868 Score: 376
Period size: 51 Copynumber: 4.2 Consensus size: 51
22804644 CTAATCAATG
22804654 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
*
22804705 ACAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
* *
22804756 ACAAGTGATTAGTGGTTGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
* * *
22804807 ACAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
22804858 ACAAGTGATAA
1 ACAAGTGATAA
22804869 ATGTGATCCG
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 154 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
Found at i:22805779 original size:155 final size:156
Alignment explanation
Indices: 22805496--22805808 Score: 556
Period size: 155 Copynumber: 2.0 Consensus size: 156
22805486 CTATTCCGGT
22805496 GTTGGATACGGATAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
1 GTTGGATACGGATAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
* *
22805561 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAATCCTGATAATGCTCTGTAACCCT
66 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTATAACCCT
*
22805626 GTTTTGGTAACAGACACGGGTTAGGG
131 GTTTCGGTAACAGACACGGGTTAGGG
*
22805652 GTTGGATACGGGTAAGGGGTGTTACAATATATGA-TTTTTATAAGTTTTATTATGAATATTGATA
1 GTTGGATACGGATAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
*
22805716 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCTGTAAACCCTGATAATGCTCTATAACCCT
66 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTATAACCCT
* *
22805781 GTTTCGGTAACATATACGGGTTAGGG
131 GTTTCGGTAACAGACACGGGTTAGGG
22805807 GT
1 GT
22805809 GTTACAGGGA
Statistics
Matches: 150, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
155 117 0.78
156 33 0.22
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (156 bp):
GTTGGATACGGATAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTATAACCCT
GTTTCGGTAACAGACACGGGTTAGGG
Found at i:22806774 original size:20 final size:20
Alignment explanation
Indices: 22806743--22806854 Score: 68
Period size: 20 Copynumber: 5.6 Consensus size: 20
22806733 AGTACCGAAT
*
22806743 TACAAACAGGGGCACATATG
1 TACAATCAGGGGCACATATG
* *
22806763 TGCAATCAGGGGTATCGA-A-G
1 TACAATCAGGGGCA-C-ATATG
* *
22806783 TACAAACAGGGGCACGTATG
1 TACAATCAGGGGCACATATG
* * *
22806803 TACAATAAGGGGTA-TTGATG
1 TACAATCAGGGGCACAT-ATG
* * *
22806823 TACAAACAGGGGCACGTATA
1 TACAATCAGGGGCACATATG
*
22806843 TGCAATCAGGGG
1 TACAATCAGGGG
22806855 TACCGAAGTA
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
19 3 0.04
20 61 0.90
21 3 0.04
22 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (20 bp):
TACAATCAGGGGCACATATG
Found at i:22806796 original size:40 final size:40
Alignment explanation
Indices: 22806707--22806970 Score: 350
Period size: 40 Copynumber: 6.6 Consensus size: 40
22806697 GTCGAGGTAT
* * * * *
22806707 AAACAGGGGCACGAAAGTGCATTCA-GAGTACCGAATTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
* *
22806746 AAACAGGGGCACATATGTGCAATCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
* * ** *
22806786 AAACAGGGGCACGTATGTACAATAAGGGGTATTGATGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
*
22806826 AAACAGGGGCACGTATATGCAATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
* * *
22806866 AAACAGGGGCATGTATGTGTAATTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
* * *
22806906 AAACAAGGTCACGTATGTGCAATCAGGGGTACCGGAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
22806946 AAACAGGGGCACGTATGTGCAATCA
1 AAACAGGGGCACGTATGTGCAATCA
22806971 TACAATAATT
Statistics
Matches: 194, Mismatches: 30, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
39 21 0.11
40 173 0.89
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC
Found at i:22808237 original size:25 final size:25
Alignment explanation
Indices: 22808203--22808255 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
22808193 AAATAATTTC
22808203 TAAAATTAAATATAACAATTAATAA
1 TAAAATTAAATATAACAATTAATAA
* *
22808228 TAAATTTAAATATAATAATTAATAA
1 TAAAATTAAATATAACAATTAATAA
22808253 TAA
1 TAA
22808256 GTTTTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAATTAAATATAACAATTAATAA
Found at i:22808251 original size:12 final size:12
Alignment explanation
Indices: 22808203--22808249 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
22808193 AAATAATTTC
22808203 TAAAATTAAATA
1 TAAAATTAAATA
22808215 TAACAATT-AATAA
1 TAA-AATTAAAT-A
*
22808228 TAAATTTAAATA
1 TAAAATTAAATA
22808240 TAATAATTAA
1 TAA-AATTAA
22808250 TAATAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:22814047 original size:21 final size:21
Alignment explanation
Indices: 22814021--22814061 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22814011 AGACGAGCAA
* *
22814021 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
22814042 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
22814062 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:22824411 original size:18 final size:19
Alignment explanation
Indices: 22824384--22824439 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
22824374 TTTTTTTTCA
*
22824384 AAAAAATTAAAATAATTT-T
1 AAAAATTTAAAAT-ATTTAT
22824403 -AAAATTTAAAATATTTAT
1 AAAAATTTAAAATATTTAT
*
22824421 AAAAATTTTAAA-ATTTAT
1 AAAAATTTAAAATATTTAT
22824439 A
1 A
22824440 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 4 0.12
18 19 0.58
19 10 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:22824434 original size:27 final size:24
Alignment explanation
Indices: 22824390--22824467 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 24
22824380 TTCAAAAAAA
22824390 TTAAAATAATTTTAAAATTTAAAATAT
1 TTAAAA-AATTTTAAAATTT-AAAT-T
*
22824417 TTATAAAAATTTTAAAATTTATATT
1 TTA-AAAAATTTTAAAATTTAAATT
22824442 TTAAAAAATTTTTAAAAATTGTAAAT
1 TTAAAAAA-TTTT-AAAATT-TAAAT
22824468 AATATATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
24 5 0.11
25 8 0.18
26 9 0.20
27 20 0.44
28 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
TTAAAAAATTTTAAAATTTAAATT
Found at i:22824474 original size:34 final size:34
Alignment explanation
Indices: 22824407--22824475 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
22824397 AATTTTAAAA
* * *
22824407 TTTAAAATATTTATAAAAATTTTAAAATTTATAT
1 TTTAAAAAATTTATAAAAATTGTAAAATATATAT
*
22824441 TTTAAAAAATTTTTAAAAATTGTAAATAATATATA
1 TTTAAAAAATTTATAAAAATTGT-AA-AATATATA
22824476 AAAAAAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 20 0.69
35 2 0.07
36 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (34 bp):
TTTAAAAAATTTATAAAAATTGTAAAATATATAT
Found at i:22825397 original size:31 final size:31
Alignment explanation
Indices: 22825360--22825423 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
22825350 TTGTAAAATG
* *
22825360 GTCACTGAACTATTCAAAAG-TTTTCATTTAA
1 GTCACTGAACTATACAAAAGCTCTT-ATTTAA
*
22825391 GTCACTGAATTATACAAAAGCTCTTATTTAA
1 GTCACTGAACTATACAAAAGCTCTTATTTAA
22825422 GT
1 GT
22825424 AGTTGGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
GTCACTGAACTATACAAAAGCTCTTATTTAA
Found at i:22828018 original size:13 final size:15
Alignment explanation
Indices: 22827992--22828023 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
22827982 ATGTAATTTT
22827992 TTTTCTTTATTTTCC
1 TTTTCTTTATTTTCC
22828007 TTTTC-TTA-TTTCC
1 TTTTCTTTATTTTCC
22828020 TTTT
1 TTTT
22828024 GTTTTAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTATTTTCC
Found at i:22829158 original size:9 final size:9
Alignment explanation
Indices: 22829141--22829171 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22829131 TCGAGTTGAT
22829141 TCGAATAAC
1 TCGAATAAC
*
22829150 TCGATTAAC
1 TCGAATAAC
22829159 TCGAATAAC
1 TCGAATAAC
22829168 TCGA
1 TCGA
22829172 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:22832286 original size:4 final size:4
Alignment explanation
Indices: 22832277--22832321 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
22832267 AATTAAAACT
22832277 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
22832322 CTTGGGAGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:22834301 original size:182 final size:179
Alignment explanation
Indices: 22834106--22834453 Score: 493
Period size: 181 Copynumber: 1.9 Consensus size: 179
22834096 AAAAAATTCA
* * *
22834106 AATTTGAATATTCGAATCAATCGATTCAAACTCAAATTCGATCTCATCCAATTTGATCATTAAAA
1 AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTC-ACCCCATCCAATTTGATCATTAAAA
** * *
22834171 AACTCAAACCACCTGACCTTAAA-TCCAAATTGAATTAAATTTGGATTAACTTGAACATAAAGTG
65 AACTCAAACCACCCAACCCTAAACT-CAAATTGAATTAAATTT-GAATAACTTGAACATAAAGTG
*
22834235 AGTAAAACTTGAACTGATTCGAACTTC-TTAATGACCCAATTTGGAAATATCTG
128 AGTAAAACCTGAACTGATTCGAAC--CATTAATGACCCAATTTGGAAATATCTG
* * *
22834288 AATTTGAATATTCGAATCGATCAATTCAAACTCCAATTCACCCCATCCTATTTGATCATTAAAAA
1 AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTCACCCCATCCAATTTGATCATTAAAAA
* * * * *
22834353 TCTCAAACCACCCAACCCTAAACTCAAATTGAATTGAATTTGAATAACTTGAACGTGAAGTGATT
66 ACTCAAACCACCCAACCCTAAACTCAAATTGAATTAAATTTGAATAACTTGAACATAAAGTGAGT
22834418 AAAACCTGAACTGATTCGAACCATTAATGACCCAAT
131 AAAACCTGAACTGATTCGAACCATTAATGACCCAAT
22834454 CCAAAAAAAC
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
178 1 0.01
179 13 0.09
180 40 0.27
181 57 0.39
182 37 0.25
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (179 bp):
AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTCACCCCATCCAATTTGATCATTAAAAA
ACTCAAACCACCCAACCCTAAACTCAAATTGAATTAAATTTGAATAACTTGAACATAAAGTGAGT
AAAACCTGAACTGATTCGAACCATTAATGACCCAATTTGGAAATATCTG
Found at i:22840046 original size:30 final size:32
Alignment explanation
Indices: 22839975--22840050 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 32
22839965 GTAGCACTAA
22839975 ACATCTTTAAATTATAATTTTTATTCTAAATT
1 ACATCTTTAAATTATAATTTTTATTCTAAATT
** *
22840007 -GGTCTTTAAATT-TAATTTTTTTTCT-AATT
1 ACATCTTTAAATTATAATTTTTATTCTAAATT
*
22840036 ACATCATTAAATTAT
1 ACATCTTTAAATTAT
22840051 CGATGTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
29 4 0.11
30 21 0.58
31 11 0.31
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (32 bp):
ACATCTTTAAATTATAATTTTTATTCTAAATT
Found at i:22841036 original size:41 final size:41
Alignment explanation
Indices: 22840979--22841133 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 41
22840969 GAGTTTTTGG
* *
22840979 GGTCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATTCTCA
1 GGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
22841020 GGTCTTTAGCAGCGTTTTTTAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
22841061 GGTCTTTAGCGGCGTTTTTTAATAAGCGCTGCTAATGCTC-
1 GGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
22841101 -GTACCTTTAGCGGCGTTTTTGAGGAAGCGCCGC
1 GGT--CTTTAGCGGCGTTTTTGAAGAAGCGCCGC
22841134 AAAAACATTT
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
41 99 0.98
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:22841278 original size:26 final size:26
Alignment explanation
Indices: 22841230--22841280 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22841220 AAAATGGATA
** * *
22841230 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
22841256 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
22841281 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:22841726 original size:20 final size:21
Alignment explanation
Indices: 22841692--22841730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22841682 TAAATAATAT
22841692 TTAGGGGTTAGGGATTTAGTG
1 TTAGGGGTTAGGGATTTAGTG
*
22841713 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTAGGGATTTAG
22841731 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTTAGTG
Found at i:22841817 original size:89 final size:89
Alignment explanation
Indices: 22841712--22842049 Score: 608
Period size: 89 Copynumber: 3.8 Consensus size: 89
22841702 GGGATTTAGT
22841712 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
22841777 TAGGGGTTAGTGATTCGGGGTCGA
66 TAGGGGTTAGTGATTCGGGGTCGA
22841801 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
22841866 TAGGGGTTAGTGATTCGGGGTCGA
66 TAGGGGTTAGTGATTCGGGGTCGA
*
22841890 GTTAGGGTTTAGGATTTAGATT-ATTAGTATTTTTTAATTTATATATT-AATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
*
22841953 TAGGGGTTAGTGATTCGGGGTTGA
66 TAGGGGTTAGTGATTCGGGGTCGA
* * *
22841977 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTTAATTTATATATTAAATAATGTTTAAGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGT-GTTTTTTAATTTATATATTAAATAATGTTTAGGGG
22842042 TTAGGGGT
65 TTAGGGGT
22842050 AGGGGTTTAG
Statistics
Matches: 241, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
87 61 0.25
88 30 0.12
89 129 0.54
90 21 0.09
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (89 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTCGGGGTCGA
Found at i:22841963 original size:176 final size:179
Alignment explanation
Indices: 22841712--22842049 Score: 610
Period size: 176 Copynumber: 1.9 Consensus size: 179
22841702 GGGATTTAGT
*
22841712 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTTTAGGGGT
22841777 TAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGT-GTTTTTTAATT
66 TAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTAGTTTTTTAATT
*
22841841 TATATATTAAATAATGTTTAGGGGTTAGGGGTTAGTGATTCGGGGTCGA
131 TATATATTAAATAATGTTTAAGGGTTAGGGGTTAGTGATTCGGGGTCGA
22841890 GTTAGGGTTTAGGATTTAGATT-ATTAGTATTTTTTAATTTATATATT-AATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTTTAGGGGT
* *
22841953 TAGGGGTTAGTGATTCGGGGTTGAGTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTTAATT
66 TAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTAGTTTTTTAATT
*
22842018 TATATATTAAATAATGTTTAAGGTTTAGGGGT
131 TATATATTAAATAATGTTTAAGGGTTAGGGGT
22842050 AGGGGTTTAG
Statistics
Matches: 154, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
176 68 0.44
177 64 0.42
178 22 0.14
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (179 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTAGTTTTTTAATT
TATATATTAAATAATGTTTAAGGGTTAGGGGTTAGTGATTCGGGGTCGA
Found at i:22842094 original size:15 final size:14
Alignment explanation
Indices: 22842061--22842107 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
22842051 GGGGTTTAGA
22842061 GTTTAG-GATTAAG
1 GTTTAGAGATTAAG
*
22842074 AG-TTAGTGATTTAAG
1 -GTTTAGAGA-TTAAG
22842089 GTTTAGAGATTAAG
1 GTTTAGAGATTAAG
22842103 GTTTA
1 GTTTA
22842108 AGCTCAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 14 0.48
15 11 0.38
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (14 bp):
GTTTAGAGATTAAG
Found at i:22842764 original size:21 final size:20
Alignment explanation
Indices: 22842725--22842768 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
22842715 GGACAAGACC
22842725 AAAATATAAGAAAAAATAAA
1 AAAATATAAGAAAAAATAAA
22842745 AAAATATAA-AAAGGAAATAAA
1 AAAATATAAGAAA--AAATAAA
22842766 AAA
1 AAA
22842769 GTAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAATATAAGAAAAAATAAA
Found at i:22842799 original size:21 final size:21
Alignment explanation
Indices: 22842775--22842841 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
22842765 AAAAGTAAAA
22842775 TTTATAATTTTA-TCAAAAACT
1 TTTATAATTTTACT-AAAAACT
* *
22842796 TTTA-AATATTACTTAAAACT
1 TTTATAATTTTACTAAAAACT
*
22842816 TTAATAATTATTTACTAAAAA-T
1 TTTATAA-T-TTTACTAAAAACT
22842838 TTTA
1 TTTA
22842842 ATGAAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 15 0.42
21 7 0.19
22 5 0.14
23 9 0.25
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATAATTTTACTAAAAACT
Found at i:22842836 original size:23 final size:22
Alignment explanation
Indices: 22842789--22842859 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
22842779 TAATTTTATC
22842789 AAAAACTTT--TAAATATTACT
1 AAAAACTTTAATAAATATTACT
* *
22842809 TAAAACTTTAATAATTATTTACT
1 AAAAACTTTAATAAATA-TTACT
* *
22842832 AAAAATTTTAATGAAA-ATTA-G
1 AAAAACTTTAAT-AAATATTACT
22842853 AAAAACT
1 AAAAACT
22842860 ATATATACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 8 0.20
21 6 0.15
22 8 0.20
23 16 0.40
24 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (22 bp):
AAAAACTTTAATAAATATTACT
Found at i:22845523 original size:185 final size:185
Alignment explanation
Indices: 22845211--22845574 Score: 710
Period size: 185 Copynumber: 2.0 Consensus size: 185
22845201 CAAATAGCAT
22845211 TAACTTCAATTGAAATTAAACAAAATATAGTTCATACGAACTTACTAGGCTAAATTGCGAAAATA
1 TAACTTCAATTGAAATTAAACAAAATATAGTTCATACGAACTTACTAGGCTAAATTGCGAAAATA
22845276 CCAAAATTTAGGAACATTTTAGAAATTTTCTATTTTTCTCGAATTTCCACCCAATCTTGATCTAA
66 CCAAAATTTAGGAACATTTTAGAAATTTTCTATTTTTCTCGAATTTCCACCCAATCTTGATCTAA
*
22845341 ATTAATATTTTATTCAATTTACTAATTTAAATAATAAAACAATTCATTTTATACA
131 ATTAATATTTTATTCAATTTACTAATTTAAATAATAAAAAAATTCATTTTATACA
22845396 TAACTTCAATTGAAATTAAACAAAATATAGTTCATACGAACTTACTAGGCTAAATTGCGAAAATA
1 TAACTTCAATTGAAATTAAACAAAATATAGTTCATACGAACTTACTAGGCTAAATTGCGAAAATA
22845461 CCAAAATTTAGGAACATTTTAGAAATTTTCTATTTTTCTCGAATTTCCACCCAATCTTGATCTAA
66 CCAAAATTTAGGAACATTTTAGAAATTTTCTATTTTTCTCGAATTTCCACCCAATCTTGATCTAA
*
22845526 ATTAATATTTTATTCAATTTACTACTTTAAATAATAAAAAAATTCATTT
131 ATTAATATTTTATTCAATTTACTAATTTAAATAATAAAAAAATTCATTT
22845575 AATGCAATTT
Statistics
Matches: 177, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 177 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.38
Consensus pattern (185 bp):
TAACTTCAATTGAAATTAAACAAAATATAGTTCATACGAACTTACTAGGCTAAATTGCGAAAATA
CCAAAATTTAGGAACATTTTAGAAATTTTCTATTTTTCTCGAATTTCCACCCAATCTTGATCTAA
ATTAATATTTTATTCAATTTACTAATTTAAATAATAAAAAAATTCATTTTATACA
Found at i:22848461 original size:35 final size:35
Alignment explanation
Indices: 22848421--22848489 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
22848411 TTCAATTTTC
22848421 GAAAGTGATAATTTATCAGTCAATAGATACATTTA
1 GAAAGTGATAATTTATCAGTCAATAGATACATTTA
* *
22848456 GAAAGTGATAATTTATCATTCAATGGATACATTT
1 GAAAGTGATAATTTATCAGTCAATAGATACATTT
22848490 TCATGGGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (35 bp):
GAAAGTGATAATTTATCAGTCAATAGATACATTTA
Found at i:22856915 original size:20 final size:20
Alignment explanation
Indices: 22856892--22856944 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22856882 ATATCCATAC
22856892 ATATTTTTATATACATATGT
1 ATATTTTTATATACATATGT
* * * *
22856912 ATATATGTATGTACTTATGT
1 ATATTTTTATATACATATGT
22856932 ATATTTTCTATAT
1 ATATTTT-TATAT
22856945 TTTATAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (20 bp):
ATATTTTTATATACATATGT
Found at i:22857134 original size:33 final size:33
Alignment explanation
Indices: 22857035--22857140 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 33
22857025 ACCTATTCTA
* * *
22857035 TACTATCTCGGCGGACTTACTCTTTTTCGTGTT
1 TACTATCCCGACGGACTTACTCTGTTTCGTGTT
* ** *
22857068 TACTGTCCCGATAGACTTACTCTGTTTCATGTT
1 TACTATCCCGACGGACTTACTCTGTTTCGTGTT
22857101 TACTATCCCGACGGACTTACTCTG-TTCTGTGTT
1 TACTATCCCGACGGACTTACTCTGTTTC-GTGTT
*
22857134 TATTATC
1 TACTATC
22857141 TTGGTAGATT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 3 0.05
33 57 0.95
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (33 bp):
TACTATCCCGACGGACTTACTCTGTTTCGTGTT
Found at i:22861854 original size:33 final size:29
Alignment explanation
Indices: 22861809--22861869 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
22861799 TCAGCTTACC
*
22861809 GTTACACCGTTAACGGCTTAGTGACTAAAAT
1 GTTACACCGTTAAC-G-TAAGTGACTAAAAT
22861840 GTTACAACACGTTAACGTAAGTGACTAAAA
1 GTTAC-AC-CGTTAACGTAAGTGACTAAAA
22861870 CATAACACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 17 0.63
32 3 0.11
33 7 0.26
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (29 bp):
GTTACACCGTTAACGTAAGTGACTAAAAT
Found at i:22867673 original size:15 final size:15
Alignment explanation
Indices: 22867653--22867682 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22867643 GAGATATGTT
22867653 GAAGCAGCAGCTTGG
1 GAAGCAGCAGCTTGG
*
22867668 GAAGCAGCGGCTTGG
1 GAAGCAGCAGCTTGG
22867683 ATTTCCTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.43, T:0.13
Consensus pattern (15 bp):
GAAGCAGCAGCTTGG
Found at i:22869563 original size:31 final size:32
Alignment explanation
Indices: 22869528--22869596 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
22869518 TTAAGAGCCA
* *
22869528 AATGACTT-AAATAAAAATTTTCGAATAATTC
1 AATGACTTGAAATAAAAACTTTCAAATAATTC
* *
22869559 AATGA-TTGAAATAAAAACTTTCAAATAGTTT
1 AATGACTTGAAATAAAAACTTTCAAATAATTC
22869590 AATGACT
1 AATGACT
22869597 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (32 bp):
AATGACTTGAAATAAAAACTTTCAAATAATTC
Found at i:22873553 original size:44 final size:44
Alignment explanation
Indices: 22873466--22873579 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
22873456 CCAGTATGGG
*** * *
22873466 AAGACAAGATCTGCTTATTTTTTATCTACTTCATGCCAGTACATA
1 AAGACAAGATCTGCTT-TTTCCGATCTACTTCACGCCAATACATA
* *
22873511 AAGACAAGATCTG-TTTTCTCCGATCTACTTCACGTCAATACATG
1 AAGACAAGATCTGCTTTT-TCCGATCTACTTCACGCCAATACATA
22873555 AAGACAAGATCTGCTTTTTCCGATC
1 AAGACAAGATCTGCTTTTTCCGATC
22873580 GATTCCACTG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 2 0.03
44 41 0.68
45 17 0.28
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (44 bp):
AAGACAAGATCTGCTTTTTCCGATCTACTTCACGCCAATACATA
Found at i:22873875 original size:45 final size:45
Alignment explanation
Indices: 22873788--22873970 Score: 156
Period size: 45 Copynumber: 4.1 Consensus size: 45
22873778 GGACCTACTA
** * ** *
22873788 TCTTTGATCTGTTTCA-CACCGGTACATGAAAACAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * *
22873832 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * * *
22873877 TCTTCGATCTACTCCACCACCTGTACGGGGAGACAAGATCTGGTA
1 TCTTTGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * **
22873922 TCTATGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTG-TT
1 TCTTTGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
22873965 ATCTTT
1 -TCTTT
22873971 CAACCTGCAC
Statistics
Matches: 109, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
43 1 0.01
44 38 0.35
45 70 0.64
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTTTGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
Found at i:22892930 original size:68 final size:68
Alignment explanation
Indices: 22892561--22892922 Score: 715
Period size: 68 Copynumber: 5.3 Consensus size: 68
22892551 TTTTAATAGT
22892561 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
22892626 ATC
66 ATC
22892629 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
22892694 ATC
66 ATC
22892697 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
22892762 ATC
66 ATC
22892765 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
22892830 ATC
66 ATC
22892833 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
22892898 ATC
66 ATC
*
22892901 TTAATATTAAATTTAATTTAAT
1 TTAATATTAAATTTAAGTTAAT
22892923 GTTTATCTTG
Statistics
Matches: 293, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 293 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATTTAAGTTAATACTTATCTAAATATTATTTTATTAATTTAATATTAAAGTGATT
ATC
Found at i:22893939 original size:24 final size:25
Alignment explanation
Indices: 22893890--22893945 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
22893880 CCTATCTCAT
* * * *
22893890 TATATATATTTTTATAATTTTTATA
1 TATATATAATATTATAATTGTGATA
22893915 T-TATATAATATTATAATTGTGATA
1 TATATATAATATTATAATTGTGATA
22893939 TATATAT
1 TATATAT
22893946 GAGATGATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATAATATTATAATTGTGATA
Found at i:22895252 original size:23 final size:23
Alignment explanation
Indices: 22895222--22895297 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
22895212 AGTGTTACTA
22895222 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
**
22895245 ATCAGTGGTAGCTAAGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22895268 ATCAGTGGTAGCTTCGACTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
22895291 ATCAGTG
1 ATCAGTG
22895298 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22899082 original size:17 final size:17
Alignment explanation
Indices: 22899062--22899096 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22899052 TGGTCGTATG
22899062 TCACACACGCCCGTGTC
1 TCACACACGCCCGTGTC
* *
22899079 TCACACATGCTCGTGTC
1 TCACACACGCCCGTGTC
22899096 T
1 T
22899097 TAAGCCGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.40, G:0.17, T:0.26
Consensus pattern (17 bp):
TCACACACGCCCGTGTC
Found at i:22899831 original size:38 final size:38
Alignment explanation
Indices: 22899768--22899962 Score: 266
Period size: 38 Copynumber: 5.2 Consensus size: 38
22899758 AAATTTTAAT
* *
22899768 ACACTGGCAC-AAGCCTGCTAAGCACAGAGCCCGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
*
22899805 ACACTTGCACAAAGCCTGCTAGGCACATAGCCCGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
*
22899843 ACACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
* * *
22899881 TCACTGGCACAAAGCTTGCTAGGCATATAGCCCGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
* *** *
22899919 TCACCAACACAAAGCCTGCTAGGCACATATCCCGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
*
22899957 TCACTG
1 ACACTG
22899963 CATTTCTATT
Statistics
Matches: 140, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
37 9 0.06
38 131 0.94
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (38 bp):
ACACTGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
Found at i:22901968 original size:15 final size:15
Alignment explanation
Indices: 22901948--22901977 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22901938 AGTGATAACA
22901948 TACAAATATTTTATT
1 TACAAATATTTTATT
22901963 TACAAATATTTTATT
1 TACAAATATTTTATT
22901978 GAGATTAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TACAAATATTTTATT
Found at i:22908630 original size:24 final size:25
Alignment explanation
Indices: 22908603--22908671 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
22908593 TGCTCATACG
22908603 AGCTGTA-AACGGGAAGCTCCTCCA
1 AGCTGTATAACGGGAAGCTCCTCCA
* * * *
22908627 AGCTGAATAACGGGAAACTCGTGCA
1 AGCTGTATAACGGGAAGCTCCTCCA
* *
22908652 AGTTGTATAATGGGAAGCTC
1 AGCTGTATAACGGGAAGCTC
22908672 ATGCGAGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
AGCTGTATAACGGGAAGCTCCTCCA
Found at i:22911858 original size:30 final size:31
Alignment explanation
Indices: 22911813--22911896 Score: 122
Period size: 30 Copynumber: 2.8 Consensus size: 31
22911803 TAACTCCTGT
*
22911813 ACTTTTC-AAATTTTACATTTTGACCCC-AA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
22911842 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
*
22911873 AC-TTTCTAAAA-TTACATTTCGACC
1 ACTTTTCTAAAATTTACATTTTGACC
22911897 ATTAAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 19 0.37
30 28 0.55
31 4 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (31 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAAA
Found at i:22912533 original size:24 final size:24
Alignment explanation
Indices: 22912501--22912593 Score: 93
Period size: 24 Copynumber: 3.8 Consensus size: 24
22912491 GTGCGGCCCG
22912501 AAGAAGAAGAAAGAAGAAAGAAAA
1 AAGAAGAAGAAAGAAGAAAGAAAA
22912525 AAGAAGAAGAAA-AAGGGAGAAGAAAA
1 AAGAAGAAGAAAGAA--GA-AAGAAAA
*
22912551 GGAGAA-AAGAAAGAGAGAAAG-AAA
1 -AAGAAGAAGAAAGA-AGAAAGAAAA
* *
22912575 AAGAAAAAGAAAAAAGAAA
1 AAGAAGAAGAAAGAAGAAA
22912594 AAATTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
23 11 0.19
24 22 0.37
25 5 0.08
26 15 0.25
27 5 0.08
28 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
AAGAAGAAGAAAGAAGAAAGAAAA
Found at i:22912593 original size:7 final size:7
Alignment explanation
Indices: 22912504--22912596 Score: 53
Period size: 7 Copynumber: 12.3 Consensus size: 7
22912494 CGGCCCGAAG
*
22912504 AAGAAGA
1 AAGAAAA
*
22912511 AAGAAGA
1 AAGAAAA
22912518 AAGAAAA
1 AAGAAAA
*
22912525 AAG-AAG
1 AAGAAAA
22912531 AAGAAAA
1 AAGAAAA
22912538 AGGGAGAAGAA
1 A---AGAA-AA
*
22912549 AAGGAGAA
1 AA-GAAAA
22912557 AAGAAAGA
1 AAGAAA-A
*
22912565 GAGAAAGA
1 AAGAAA-A
*
22912573 AAAAGAAA
1 AAGA-AAA
22912581 AAGAAAA
1 AAGAAAA
22912588 AAGAAAA
1 AAGAAAA
22912595 AA
1 AA
22912597 TTTAAAAGTC
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
6 5 0.07
7 34 0.49
8 19 0.28
9 4 0.06
10 4 0.06
11 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:22912593 original size:13 final size:13
Alignment explanation
Indices: 22912504--22912595 Score: 73
Period size: 13 Copynumber: 7.2 Consensus size: 13
22912494 CGGCCCGAAG
*
22912504 AAGAAGAAAGAAGA
1 AAGAAAAAAGAA-A
*
22912518 AAGAAAAAAGAAG
1 AAGAAAAAAGAAA
* * *
22912531 AAGAAAAAGGGAG
1 AAGAAAAAAGAAA
*
22912544 AAG-AAAAGGAGAA
1 AAGAAAAAAGA-AA
* *
22912557 AAG-AAAGAGAGA
1 AAGAAAAAAGAAA
22912569 AAG-AAAAAGAAA
1 AAGAAAAAAGAAA
22912581 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
22912594 AA
1 AA
22912596 ATTTAAAAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
12 20 0.31
13 34 0.52
14 11 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:22913002 original size:15 final size:16
Alignment explanation
Indices: 22912984--22913013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22912974 TAATTTAGTT
22912984 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
22912999 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
22913014 TTAATTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:22913524 original size:17 final size:17
Alignment explanation
Indices: 22913504--22913553 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
22913494 AAAAAAATTA
*
22913504 TGTTTTCAAAACTTTCG
1 TGTTTTCAAAATTTTCG
*
22913521 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAATTTTCG
22913538 TGTTTTCAAAATTTTC
1 TGTTTTCAAAATTTTC
22913554 ATGTGTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:22913589 original size:21 final size:20
Alignment explanation
Indices: 22913563--22913630 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
22913553 CATGTGTTCG
22913563 TGTTTTCAAAAAAAATTCTCA
1 TGTTTTCAAAAAAAATT-TCA
**
22913584 TGTTTTTTAAAAAAATTTCA
1 TGTTTTCAAAAAAAATTTCA
22913604 TG-TTT-AAAAAAAA--TCA
1 TGTTTTCAAAAAAAATTTCA
22913620 TGTTTTCAAAA
1 TGTTTTCAAAA
22913631 TTTTCTTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 11 0.26
19 3 0.07
20 5 0.12
21 15 0.36
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (20 bp):
TGTTTTCAAAAAAAATTTCA
Found at i:22913615 original size:20 final size:21
Alignment explanation
Indices: 22913570--22913616 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
22913560 TCGTGTTTTC
**
22913570 AAAAAAAATTCTCATGTTTTT
1 AAAAAAAATTCTCATGTTTAA
*
22913591 TAAAAAAATT-TCATGTTTAA
1 AAAAAAAATTCTCATGTTTAA
22913611 AAAAAA
1 AAAAAA
22913617 TCATGTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAAAAAATTCTCATGTTTAA
Found at i:22913630 original size:17 final size:18
Alignment explanation
Indices: 22913563--22913630 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 18
22913553 CATGTGTTCG
22913563 TGTTTTCAAAAAAAATTCTCA
1 TGTTTT-AAAAAAAA-T-TCA
*
22913584 TGTTTTTTAAAAAAATTTCA
1 TG--TTTTAAAAAAAATTCA
22913604 TG-TTTAAAAAAAA-TCA
1 TGTTTTAAAAAAAATTCA
22913620 TGTTTTCAAAA
1 TGTTTT-AAAA
22913631 TTTTCTTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 5 0.12
17 13 0.32
18 4 0.10
20 5 0.12
21 3 0.07
22 7 0.17
23 4 0.10
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (18 bp):
TGTTTTAAAAAAAATTCA
Found at i:22913722 original size:20 final size:21
Alignment explanation
Indices: 22913682--22913721 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22913672 TCTATCGAAA
*
22913682 ATTTCCGTGTTTTCAAAAAAT
1 ATTTCCGCGTTTTCAAAAAAT
*
22913703 ATTTCCGCGTTTCCAAAAA
1 ATTTCCGCGTTTTCAAAAA
22913722 TTCAGGTGAT
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:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTTCCGCGTTTTCAAAAAAT
Found at i:22913756 original size:18 final size:17
Alignment explanation
Indices: 22913735--22913829 Score: 66
Period size: 18 Copynumber: 5.4 Consensus size: 17
22913725 AGGTGATTTA
22913735 AAAAATCGTCGTGTTTTC
1 AAAAATC-TCGTGTTTTC
**
22913753 AAAAA-CTCCAGTTTTC
1 AAAAATCTCGTGTTTTC
* * *
22913769 AAAATTTTCATGTTTTTC
1 AAAAATCTCGTG-TTTTC
*
22913787 AAAAAATTCTCGTGTTTTA
1 -AAAAA-TCTCGTGTTTTC
* *
22913806 AAAAATTTTCGTGTTCTC
1 AAAAA-TCTCGTGTTTTC
22913824 AAAAAT
1 AAAAAT
22913830 AAAAAATGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
16 12 0.20
17 5 0.08
18 30 0.50
19 8 0.13
20 5 0.08
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAAATCTCGTGTTTTC
Found at i:22913794 original size:20 final size:19
Alignment explanation
Indices: 22913769--22913820 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
22913759 TCCAGTTTTC
*
22913769 AAAATTTTCATGTTTTTCAA
1 AAAATTTTCGTGTTTTT-AA
*
22913789 AAAATTCTCGTG-TTTTAA
1 AAAATTTTCGTGTTTTTAA
22913807 AAAATTTTCGTGTT
1 AAAATTTTCGTGTT
22913821 CTCAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
19 5 0.18
20 10 0.36
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTTAA
Found at i:22919205 original size:11 final size:11
Alignment explanation
Indices: 22919191--22919230 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
22919181 AAAAGAGAGA
22919191 AAAAAAACAAC
1 AAAAAAACAAC
*
22919202 AAAAAAATAAC
1 AAAAAAACAAC
**
22919213 AAAAAAGGAAC
1 AAAAAAACAAC
22919224 AAAAAAA
1 AAAAAAA
22919231 ACAAAGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:22919251 original size:34 final size:34
Alignment explanation
Indices: 22919175--22919251 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
22919165 TATTATACCT
*
22919175 GAAAAAAAAAGAGAGAAAAAAAACAACAAAAAAA
1 GAAAAAAAAAGAGACAAAAAAAACAACAAAAAAA
* *
22919209 TAACAAAAAAG-GAACAAAAAAAACAA-AGCAAAAAA
1 GAAAAAAAAAGAG-ACAAAAAAAACAACA--AAAAAA
22919244 GAAAAAAA
1 GAAAAAAA
22919252 CAAAGAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.06
34 21 0.60
35 12 0.34
ACGTcount: A:0.81, C:0.08, G:0.10, T:0.01
Consensus pattern (34 bp):
GAAAAAAAAAGAGACAAAAAAAACAACAAAAAAA
Found at i:22919261 original size:25 final size:24
Alignment explanation
Indices: 22919193--22919272 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 24
22919183 AAGAGAGAAA
*
22919193 AAAAACAACAAAAAAATAACAAAAAAGG
1 AAAAA-AAC-AAAAAA-AGCAAAAAA-G
*
22919221 AACAAAAA-AAACAAAGCAAAAAAG
1 AA-AAAAACAAAAAAAGCAAAAAAG
22919245 AAAAAAACAAAGAAAAG--AAAAAG
1 AAAAAAACAAA-AAAAGCAAAAAAG
22919268 AAAAA
1 AAAAA
22919273 TCAAGATGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 16 0.35
24 6 0.13
25 12 0.26
26 5 0.11
28 4 0.09
29 3 0.07
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.01
Consensus pattern (24 bp):
AAAAAAACAAAAAAAGCAAAAAAG
Found at i:22919271 original size:20 final size:20
Alignment explanation
Indices: 22919204--22919263 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
22919194 AAAACAACAA
*
22919204 AAAAATAACAAA-AAAGGAAC
1 AAAAA-AACAAAGAAAAGAAC
*
22919224 AAAAAAAACAAAGCAAAA-AAG
1 -AAAAAAACAAAG-AAAAGAAC
22919245 AAAAAAACAAAGAAAAGAA
1 AAAAAAACAAAGAAAAGAA
22919264 AAAGAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 20 0.59
21 7 0.21
22 3 0.09
ACGTcount: A:0.80, C:0.08, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAAAACAAAGAAAAGAAC
Found at i:22920390 original size:78 final size:77
Alignment explanation
Indices: 22920133--22921049 Score: 1126
Period size: 77 Copynumber: 11.8 Consensus size: 77
22920123 TCAAGAAATA
* *
22920133 TTTTTAAAATTCTGTTTTTTTTCAAAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGT
1 TTTTTAAATTTCTG-TTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
22920198 CACGCTGAGGTATT
64 CACGCTGAGGTATT
*
22920212 TTTTTAATTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TTTTT-A---AATTTCTGTTTTTT-TAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
22920277 GGTCACGCTGAGGTA-T
61 GGTCACGCTGAGGTATT
* * *
22920293 TTTTTATATTTCTGCTTTTTTTAAAAAAGCAACTCATAATACAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTTAAATTTCTG-TTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* *
22920358 ACGTTGAGGTGTT
65 ACGCTGAGGTATT
*
22920371 TTTTTTAATTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTGTTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
22920436 ACGCTGAGGTATT
65 ACGCTGAGGTATT
*
22920449 TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTG-TTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
22920514 ACGCTGAGGTATT
65 ACGCTGAGGTATT
* * *
22920527 TTTTTTAATTTCTTTCTGATTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGTCTCGG
1 TTTTTAAATTTCTGT-T--TTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
*
22920592 GTCACACTGAGGTATT
62 GTCACGCTGAGGTATT
*
22920608 TTTTT-AATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTG-TTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* *
22920672 ATGCCGAGGTATT
65 ACGCTGAGGTATT
* *
22920685 TCTTTTAAATTTCCG--TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 T-TTTTAAATTTCTGTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* *
22920748 ATGCCGAGGTATT
65 ACGCTGAGGTATT
* *
22920761 TCTTTTAAATTTCCG--TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 T-TTTTAAATTTCTGTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* * *
22920824 ATGCCGAGTTATT
65 ACGCTGAGGTATT
* * * * * **
22920837 TCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGAC
1 T-TTTTAAATTTCTGTTTTTTTAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT
* *
22920900 CATGCCGAGGTATT
64 CACGCTGAGGTATT
* * *
22920914 TCTTTTAAATTTC--TATTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
1 T-TTTTAAATTTCTGTTTTTTTAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT
*
22920977 CACGCCGAGGTA--
64 CACGCTGAGGTATT
* * * **
22920989 TTTTTCAA-TTCATG--TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG
1 TTTTTAAATTTC-TGTTTTTTTAAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTCGGG
22921050 GCACATGTCG
Statistics
Matches: 765, Mismatches: 50, Indels: 51
0.88 0.06 0.06
Matches are distributed among these distances:
73 3 0.00
74 49 0.06
75 1 0.00
76 171 0.22
77 216 0.28
78 161 0.21
79 18 0.02
80 14 0.02
81 66 0.09
82 59 0.08
83 7 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (77 bp):
TTTTTAAATTTCTGTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
CGCTGAGGTATT
Found at i:22921147 original size:75 final size:74
Alignment explanation
Indices: 22920546--22921161 Score: 469
Period size: 76 Copynumber: 8.1 Consensus size: 74
22920536 TTCTTTCTGA
* * * *
22920546 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGTCTCGGGT-CACACTGAGGTATTT
1 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA--T
** *
22920609 TTTTAATTTCTG
63 TTTCGATTTATG
* *
22920621 CTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT-CATGCCGAGGTAT
1 --TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA-
** **
22920684 TTCTTTTAAATTTCCG
62 ---TTTTCGATTTATG
* *
22920700 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT-CATGCCGAGGTATTTC
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA----
** **
22920763 TTTTAAATTTCCG
62 TTTTCGATTTATG
* * *
22920776 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT-CATGCCGAGTTATTTC
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA----
** *
22920839 TTTTAAATTTCTG
62 TTTTCGATTTATG
* * * * *
22920852 TTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT-TGGACCATGCCGAGGTATTTC
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA----
** * *
22920916 TTTTAAATTTCTA
62 TTTTCGATTTATG
22920929 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCCGAGGTATTTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA-TTT
* *
22920993 TCAATTCATG
65 TCGATTTATG
* * * * *
22921003 TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGAGGTATTT
*
22921068 TCGATTTTTG
65 TCGATTTATG
* * * * * * * *
22921078 TTTTTCGAAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTCGCACGCCGAGCTGTTC
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGAGGTATTT
*
22921143 TCGATTTCTG
65 TCGATTTATG
*
22921153 CTTTTCAAA
1 TTTTTCAAA
22921162 TAAAGAGGAA
Statistics
Matches: 481, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
74 54 0.11
75 77 0.16
76 179 0.37
77 157 0.33
78 2 0.00
79 12 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (74 bp):
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTATTTT
CGATTTATG
Found at i:22921380 original size:30 final size:31
Alignment explanation
Indices: 22921335--22921419 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 31
22921325 TAACCCTTTT
*
22921335 ACTTTTC-AAATTTTACATTTTGACCCC-AA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
22921364 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
*
22921395 AC-TTTCTAAAA-TTACATTTTAACCC
1 ACTTTTCTAAAATTTACATTTTGACCC
22921420 TTAGACTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
29 20 0.38
30 28 0.54
31 4 0.08
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.40
Consensus pattern (31 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAAA
Found at i:22921428 original size:60 final size:59
Alignment explanation
Indices: 22921347--22921474 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 59
22921337 TTTTCAAATT
* * *
22921347 TTACATTTTGACCCCAAACTTT-TCTAAAATTTACATTTTGACCCCAAAACT-TTCTA-AAA
1 TTACATTTTAACCCCAAACTTTCTC-AAAA-TTACACTTTGACCCCAAAACTCTT-AAGAAA
* * * *
22921406 TTACATTTTAACCCTTAGACTTTCTCAAAATTGCACTTTGACCCCTAAACTCTTAAGAAA
1 TTACATTTTAACCC-CAAACTTTCTCAAAATTACACTTTGACCCCAAAACTCTTAAGAAA
22921466 TTACATTTT
1 TTACATTTT
22921475 GGCCCATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
59 32 0.55
60 24 0.41
61 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (59 bp):
TTACATTTTAACCCCAAACTTTCTCAAAATTACACTTTGACCCCAAAACTCTTAAGAAA
Found at i:22921436 original size:30 final size:29
Alignment explanation
Indices: 22921320--22921474 Score: 107
Period size: 30 Copynumber: 5.2 Consensus size: 29
22921310 ATTTTTTTTG
** *
22921320 CATTTTAACCCTTTTACTTTTCAAATTTTA
1 CATTTTAACCCTTAAACTTTTCAAA-ATTA
* *
22921350 CATTTTGACCC-CAAACTTTTCTAAAATTTA
1 CATTTTAACCCTTAAACTTTTC-AAAA-TTA
* **
22921380 CATTTTGACCCCAAAAC-TTTCTAAAATTA
1 CATTTTAACCCTTAAACTTTTC-AAAATTA
* *
22921409 CATTTTAACCCTTAGACTTTCTCAAAATTG
1 CATTTTAACCCTTAAACTTT-TCAAAATTA
* * * * *
22921439 CACTTTGACCCCTAAACTCTTAAGAAATTA
1 CATTTTAACCCTTAAACTTTTCA-AAATTA
22921469 CATTTT
1 CATTTT
22921475 GGCCCATATT
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
29 25 0.25
30 69 0.69
31 6 0.06
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (29 bp):
CATTTTAACCCTTAAACTTTTCAAAATTA
Found at i:22922056 original size:13 final size:13
Alignment explanation
Indices: 22922023--22922111 Score: 78
Period size: 13 Copynumber: 6.9 Consensus size: 13
22922013 GTGCAGCCCA
*
22922023 AAGAAGAAGAAAG
1 AAGAAGAAAAAAG
22922036 AAGAAAGAAAAAAG
1 AAG-AAGAAAAAAG
*
22922050 AAGAAGAAAAAGG
1 AAGAAGAAAAAAG
* *
22922063 GAGAAGAAAAGGAG
1 AAGAAGAAAA-AAG
22922077 AA-AAG-AAAAAG
1 AAGAAGAAAAAAG
22922088 -AGAA-AGAAAAAG
1 AAGAAGA-AAAAAG
*
22922100 AAAAAGAAAAAA
1 AAGAAGAAAAAA
22922112 AATTAAAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 1 0.02
11 4 0.07
12 9 0.15
13 32 0.52
14 15 0.25
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAAAAG
Found at i:22922086 original size:38 final size:37
Alignment explanation
Indices: 22922027--22922099 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
22922017 AGCCCAAAGA
22922027 AGAAGAAAGAAGAAAGAAAAAAGA-AGAAGAAAAAGGG
1 AGAAGAAAGAAGAAAGAAAAAAGAGA-AAGAAAAAGGG
*
22922064 AGAAGAAAAGGAGAAA-AGAAAAAGAGAAAGAAAAAG
1 AGAAG-AAAGAAGAAAGA-AAAAAGAGAAAGAAAAAG
22922100 AAAAAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 6 0.19
38 25 0.78
39 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (37 bp):
AGAAGAAAGAAGAAAGAAAAAAGAGAAAGAAAAAGGG
Found at i:22922088 original size:6 final size:6
Alignment explanation
Indices: 22922022--22922110 Score: 81
Period size: 6 Copynumber: 14.5 Consensus size: 6
22922012 GGTGCAGCCC
* * * * *
22922022 AAAGAA GAAGAA AGAAGAA AGA-AA AAAGAA GAAGAA AAAGGGA GAAGAA
1 AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AAAGAA
* *
22922071 AAGGAGA AAAGAA AAAGAG AAAGAA AAAGAA AAAGAA AAA
1 AAAGA-A AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
22922111 AAATTAAAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
5 4 0.06
6 46 0.71
7 15 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:22922447 original size:11 final size:12
Alignment explanation
Indices: 22922429--22922458 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
22922419 CATCCAGCAG
22922429 AGAAAAGAAAAA
1 AGAAAAGAAAAA
22922441 A-AAAAGAAAAA
1 AGAAAAGAAAAA
22922452 AGAAAAG
1 AGAAAAG
22922459 GGCCCACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAA
Found at i:22922531 original size:15 final size:16
Alignment explanation
Indices: 22922511--22922540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22922501 TTAATTAGTT
22922511 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
22922526 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
22922541 TTAATTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:22923075 original size:17 final size:17
Alignment explanation
Indices: 22923030--22923075 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
22923020 AACAAAATTA
*
22923030 TGTTTTCAAAACTTTCG
1 TGTTTTCAAAATTTTCG
*
22923047 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAATTTTCG
22923064 TGTTTTCAAAAT
1 TGTTTTCAAAAT
22923076 ATTCATGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:22923157 original size:18 final size:19
Alignment explanation
Indices: 22923089--22923157 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 19
22923079 CATGTGTTCG
22923089 TGTTTTCAAAAAAATTCTCA
1 TGTTTTCAAAAAAATT-TCA
* *
22923109 TGTTTTTTAAAAAAATTTCG
1 TG-TTTTCAAAAAAATTTCA
* *
22923129 TG-TTTAAAAAAAAATTCA
1 TGTTTTCAAAAAAATTTCA
22923147 TGTTTTCAAAA
1 TGTTTTCAAAA
22923158 TTTTCTTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 15 0.37
19 7 0.17
20 6 0.15
21 13 0.32
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (19 bp):
TGTTTTCAAAAAAATTTCA
Found at i:22923230 original size:21 final size:21
Alignment explanation
Indices: 22923206--22923248 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22923196 TCATCTATCG
* *
22923206 AAAATTTCCGTGTTTTCAAAA
1 AAAATTTCCGCGTTTCCAAAA
22923227 AAAATTTCCGCGTTTCCAAAA
1 AAAATTTCCGCGTTTCCAAAA
22923248 A
1 A
22923249 TTCAGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAATTTCCGCGTTTCCAAAA
Found at i:22923283 original size:18 final size:17
Alignment explanation
Indices: 22923262--22923356 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 17
22923252 AGGTGATTTA
22923262 AAAAATCGTCGTGTTTTC
1 AAAAATC-TCGTGTTTTC
22923280 AAAAA-CTCCG-GTTTTC
1 AAAAATCT-CGTGTTTTC
* * *
22923296 AAAATTTTCATGTTTTTC
1 AAAAATCTCGTG-TTTTC
*
22923314 AAAAAATTCTCGTGTTTTA
1 -AAAAA-TCTCGTGTTTTC
* *
22923333 AAAAATTTTCGTGTTCTC
1 AAAAA-TCTCGTGTTTTC
22923351 AAAAAT
1 AAAAAT
22923357 AAAAAATGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.20
17 6 0.10
18 30 0.49
19 8 0.13
20 5 0.08
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAAATCTCGTGTTTTC
Found at i:22923321 original size:20 final size:19
Alignment explanation
Indices: 22923296--22923347 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
22923286 TCCGGTTTTC
*
22923296 AAAATTTTCATGTTTTTCAA
1 AAAATTTTCGTGTTTTT-AA
*
22923316 AAAATTCTCGTG-TTTTAA
1 AAAATTTTCGTGTTTTTAA
22923334 AAAATTTTCGTGTT
1 AAAATTTTCGTGTT
22923348 CTCAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
19 5 0.18
20 10 0.36
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTTAA
Found at i:22927151 original size:38 final size:38
Alignment explanation
Indices: 22927093--22927548 Score: 572
Period size: 38 Copynumber: 12.0 Consensus size: 38
22927083 ATTTTCAAAA
* * * *
22927093 CACCGGCAC-AAGCCTACTAGGCACAGAGCCCGGATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
22927130 CACCGGTACAAAGCCTGCTAGGCACATAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
22927168 CACCGGTACAAAGCCTACTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
22927206 CACCGGCATAAAGCCTGCTAGGCACATAACCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
22927244 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * *
22927282 CACCGTCACAAAGCCTGCTAGGCACAGAGCTCAAATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
22927320 CATCGGTACAAAGCCTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * *
22927358 CACTGGTACAAAGCCTGCTAGGCATATATCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
22927396 CACTGGCACAAAGCCTGCTAAGCACATATCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * *
22927434 GACCAGCACAAATCCTGCTAGGCACAAAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
22927472 CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* ** *
22927510 CATCGATACAAAGCCTGCTAGGCACATAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
22927548 C
1 C
22927549 GCCACATTTC
Statistics
Matches: 361, Mismatches: 57, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
37 8 0.02
38 353 0.98
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
Found at i:22934096 original size:21 final size:20
Alignment explanation
Indices: 22934072--22934118 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
22934062 TAACACAATA
* *
22934072 TCAATTATTTTTAATTTTTTT
1 TCAATTA-TCTTAATTTTGTT
22934093 TCAATTATCTTAATTTTGTT
1 TCAATTATCTTAATTTTGTT
22934113 T-AATTA
1 TCAATTA
22934119 AGTTATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 7 0.29
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (20 bp):
TCAATTATCTTAATTTTGTT
Found at i:22936709 original size:20 final size:20
Alignment explanation
Indices: 22936625--22936711 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
22936615 TAGTATTTTT
*
22936625 TTAATTTAATATTAAAGTGA
1 TTAATTTAATATTAAATTGA
*
22936645 TT-ATCTTAATATCAAA-T--
1 TTAAT-TTAATATTAAATTGA
* * *
22936662 TTAATCTAATATATATCATTATA
1 TTAATTTAATAT-TA-AATT-GA
22936685 TTAATTTAATATTAAATTGA
1 TTAATTTAATATTAAATTGA
22936705 TTAATTT
1 TTAATTT
22936712 TAATCATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
17 8 0.15
18 3 0.06
19 4 0.08
20 21 0.40
21 3 0.06
22 2 0.04
23 11 0.21
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAATTTAATATTAAATTGA
Found at i:22944192 original size:14 final size:14
Alignment explanation
Indices: 22944173--22944347 Score: 74
Period size: 14 Copynumber: 12.3 Consensus size: 14
22944163 TATCACTATA
*
22944173 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
22944187 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
22944201 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
*
22944215 GTTTAGAAGTTACTAT-
1 GTTTAG-GGTT--TATG
*
22944231 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
22944244 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* * *
22944259 GGTTATGATTTATG
1 GTTTAGGGTTTATG
* *
22944273 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
22944288 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
*
22944301 GTTTAGAGGGTATAT-
1 GTTT--AGGGTTTATG
*
22944316 G-TTAGGAGTTTAGG
1 GTTTAGG-GTTTATG
22944330 GTTTTAGGGTTTA-G
1 G-TTTAGGGTTTATG
22944344 GTTT
1 GTTT
22944348 TAAGGTTTAG
Statistics
Matches: 122, Mismatches: 25, Indels: 29
0.69 0.14 0.16
Matches are distributed among these distances:
12 6 0.05
13 11 0.09
14 64 0.52
15 28 0.23
16 11 0.09
17 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:22944277 original size:7 final size:7
Alignment explanation
Indices: 22944231--22944284 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
22944221 AAGTTACTAT
*
22944231 TTTAAGG
1 TTTATGG
22944238 TTTATGG
1 TTTATGG
*
22944245 ATTATGGG
1 TTTAT-GG
*
22944253 TTTAGGG
1 TTTATGG
* *
22944260 GTTATGA
1 TTTATGG
22944267 TTTATGG
1 TTTATGG
22944274 TTTATGG
1 TTTATGG
22944281 TTTA
1 TTTA
22944285 AAGGTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:22944348 original size:14 final size:14
Alignment explanation
Indices: 22944317--22944362 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
22944307 AGGGTATATG
22944317 TTAGGAGTTTAGGGTT
1 TTAGG-GTTTA-GGTT
22944333 TTAGGGTTTAGGTT
1 TTAGGGTTTAGGTT
*
22944347 TTAAGGTTTAGAGTT
1 TTAGGGTTTAG-GTT
22944362 T
1 T
22944363 AAAAGGTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 14 0.50
15 9 0.32
16 5 0.18
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTAGGTT
Found at i:22944363 original size:14 final size:14
Alignment explanation
Indices: 22944323--22944385 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
22944313 TATGTTAGGA
*
22944323 GTTTAGGGTTTTAGG
1 GTTTA-GGTTTTAAG
22944338 GTTTAGGTTTTAAG
1 GTTTAGGTTTTAAG
*
22944352 GTTTAGAGTTTAAAAG
1 GTTTAG-GTTT-TAAG
* *
22944368 G-TCAGGGTTTAAG
1 GTTTAGGTTTTAAG
22944381 GTTTA
1 GTTTA
22944386 AAGGTTATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
13 4 0.10
14 19 0.49
15 12 0.31
16 4 0.10
ACGTcount: A:0.24, C:0.02, G:0.32, T:0.43
Consensus pattern (14 bp):
GTTTAGGTTTTAAG
Found at i:22944399 original size:80 final size:79
Alignment explanation
Indices: 22944253--22944439 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 79
22944243 GGATTATGGG
* * * ** *
22944253 TTTAGGGGTTATGATTTATGGTTTATG-GTTTAAAGGTTGGGGTTTAAGGTTTAGAGGGTATATG
1 TTTAGGGTTTAAGATTTAAGGTTTA-GAGTTTAAAGGTCAGGGTTTAAGGTTTAAAGGGTATATG
*
22944317 TT-AGGAGTTTAGGGT
65 TTAAGGA-TTTAGGAT
* * * *
22944332 TTTAGGGTTTAGGTTTTAAGGTTTAGAGTTTAAAAGGTCAGGGTTTAAGGTTTAAAGGTTATGTG
1 TTTAGGGTTTAAGATTTAAGGTTTAGAGTTT-AAAGGTCAGGGTTTAAGGTTTAAAGGGTATATG
22944397 TTAAGGATTTAGGAT
65 TTAAGGATTTAGGAT
*
22944412 TTTAGGGTTTTAAGATTTAGGGTTTAGA
1 TTTAGGG-TTTAAGATTTAAGGTTTAGA
22944440 TTAACTAGTG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 25 0.27
80 44 0.48
81 21 0.23
ACGTcount: A:0.25, C:0.01, G:0.32, T:0.43
Consensus pattern (79 bp):
TTTAGGGTTTAAGATTTAAGGTTTAGAGTTTAAAGGTCAGGGTTTAAGGTTTAAAGGGTATATGT
TAAGGATTTAGGAT
Found at i:22947291 original size:464 final size:464
Alignment explanation
Indices: 22946423--22947352 Score: 1860
Period size: 464 Copynumber: 2.0 Consensus size: 464
22946413 TCTCAGCATC
22946423 AAGAATTACTGAAATGTTAACCTTAATCTCCTCAAAACCACATTCCTTAGCAAGCTTCATAACTA
1 AAGAATTACTGAAATGTTAACCTTAATCTCCTCAAAACCACATTCCTTAGCAAGCTTCATAACTA
22946488 GCTTAACGACACACTAATCTCTTAAAAGCAAAGAATTTAATTGAAGTTCATATTTTTGCAAGTTA
66 GCTTAACGACACACTAATCTCTTAAAAGCAAAGAATTTAATTGAAGTTCATATTTTTGCAAGTTA
22946553 AATTTAGTAGAGTCTGTCGTCATTCATTGTGTGGTTATTTGTGTTTTTCGGCCACTGTATGTTGT
131 AATTTAGTAGAGTCTGTCGTCATTCATTGTGTGGTTATTTGTGTTTTTCGGCCACTGTATGTTGT
22946618 TTTTGCTTTTTCCTTTTTCGTTCTTTGATACATGAAAGCACAAGTCACTAATCTAATAATATTGT
196 TTTTGCTTTTTCCTTTTTCGTTCTTTGATACATGAAAGCACAAGTCACTAATCTAATAATATTGT
22946683 TTAGGATCATGTTATTTGGACTCAGGTGTAAGTATTAGATACAGAGTCTGTGTTGATACAAAATA
261 TTAGGATCATGTTATTTGGACTCAGGTGTAAGTATTAGATACAGAGTCTGTGTTGATACAAAATA
22946748 ATGTAAATAATATTACATTTTATACTTTTTCATAATATATAATAATTATTTAATTATATTTGTAT
326 ATGTAAATAATATTACATTTTATACTTTTTCATAATATATAATAATTATTTAATTATATTTGTAT
22946813 TTAATTATATGTGTTTAAGTATCAAATTGATAGAATTTGTAAAAGTAGAGGATTAAATCTATTAA
391 TTAATTATATGTGTTTAAGTATCAAATTGATAGAATTTGTAAAAGTAGAGGATTAAATCTATTAA
22946878 ATTATTTAT
456 ATTATTTAT
22946887 AAGAATTACTGAAATGTTAACCTTAATCTCCTCAAAACCACATTCCTTAGCAAGCTTCATAACTA
1 AAGAATTACTGAAATGTTAACCTTAATCTCCTCAAAACCACATTCCTTAGCAAGCTTCATAACTA
22946952 GCTTAACGACACACTAATCTCTTAAAAGCAAAGAATTTAATTGAAGTTCATATTTTTGCAAGTTA
66 GCTTAACGACACACTAATCTCTTAAAAGCAAAGAATTTAATTGAAGTTCATATTTTTGCAAGTTA
22947017 AATTTAGTAGAGTCTGTCGTCATTCATTGTGTGGTTATTTGTGTTTTTCGGCCACTGTATGTTGT
131 AATTTAGTAGAGTCTGTCGTCATTCATTGTGTGGTTATTTGTGTTTTTCGGCCACTGTATGTTGT
22947082 TTTTGCTTTTTCCTTTTTCGTTCTTTGATACATGAAAGCACAAGTCACTAATCTAATAATATTGT
196 TTTTGCTTTTTCCTTTTTCGTTCTTTGATACATGAAAGCACAAGTCACTAATCTAATAATATTGT
22947147 TTAGGATCATGTTATTTGGACTCAGGTGTAAGTATTAGATACAGAGTCTGTGTTGATACAAAATA
261 TTAGGATCATGTTATTTGGACTCAGGTGTAAGTATTAGATACAGAGTCTGTGTTGATACAAAATA
22947212 ATGTAAATAATATTACATTTTATACTTTTTCATAATATATAATAATTATTTAATTATATTTGTAT
326 ATGTAAATAATATTACATTTTATACTTTTTCATAATATATAATAATTATTTAATTATATTTGTAT
22947277 TTAATTATATGTGTTTAAGTATCAAATTGATAGAATTTGTAAAAGTAGAGGATTAAATCTATTAA
391 TTAATTATATGTGTTTAAGTATCAAATTGATAGAATTTGTAAAAGTAGAGGATTAAATCTATTAA
22947342 ATTATTTAT
456 ATTATTTAT
22947351 AA
1 AA
22947353 TTAGGAACAA
Statistics
Matches: 466, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
464 466 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (464 bp):
AAGAATTACTGAAATGTTAACCTTAATCTCCTCAAAACCACATTCCTTAGCAAGCTTCATAACTA
GCTTAACGACACACTAATCTCTTAAAAGCAAAGAATTTAATTGAAGTTCATATTTTTGCAAGTTA
AATTTAGTAGAGTCTGTCGTCATTCATTGTGTGGTTATTTGTGTTTTTCGGCCACTGTATGTTGT
TTTTGCTTTTTCCTTTTTCGTTCTTTGATACATGAAAGCACAAGTCACTAATCTAATAATATTGT
TTAGGATCATGTTATTTGGACTCAGGTGTAAGTATTAGATACAGAGTCTGTGTTGATACAAAATA
ATGTAAATAATATTACATTTTATACTTTTTCATAATATATAATAATTATTTAATTATATTTGTAT
TTAATTATATGTGTTTAAGTATCAAATTGATAGAATTTGTAAAAGTAGAGGATTAAATCTATTAA
ATTATTTAT
Found at i:22949036 original size:21 final size:21
Alignment explanation
Indices: 22949010--22949052 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22949000 AGGACTCGGG
22949010 TCTTTAAAGTTCCTCAATCAT
1 TCTTTAAAGTTCCTCAATCAT
22949031 TCTTTAAAGTTCCTCAATCAT
1 TCTTTAAAGTTCCTCAATCAT
22949052 T
1 T
22949053 TTCTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (21 bp):
TCTTTAAAGTTCCTCAATCAT
Found at i:22949435 original size:43 final size:43
Alignment explanation
Indices: 22949350--22949440 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
22949340 CTTTGAGTTC
* * * * *
22949350 ATTA-CAAGATTTTCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
* *
22949392 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
22949435 ATTACC
1 ATTACC
22949441 TTGCATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
Found at i:22950074 original size:71 final size:71
Alignment explanation
Indices: 22949955--22950097 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
22949945 CACTCTACCT
* * *
22949955 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCGATAATGGTAATATAGAATAATAACAGA
1 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
22950020 ACAGAA
66 ACAGAA
* *
22950026 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATTGTAATATTGAACAATAACAAA
1 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
22950091 ACAGAA
66 ACAGAA
22950097 A
1 A
22950098 GAAAAGAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (71 bp):
ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
ACAGAA
Found at i:22951149 original size:16 final size:16
Alignment explanation
Indices: 22951128--22951159 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22951118 AAAAATATTT
22951128 TTAAAAAATAAAAAAA
1 TTAAAAAATAAAAAAA
*
22951144 TTAAAAATTAAAAAAA
1 TTAAAAAATAAAAAAA
22951160 AATTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TTAAAAAATAAAAAAA
Found at i:22951158 original size:18 final size:20
Alignment explanation
Indices: 22951137--22951179 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22951127 TTTAAAAAAT
22951137 AAAAAAA-T-TAAAAATTAA
1 AAAAAAATTATAAAAATTAA
*
22951155 AAAAAAATTATAAAAATTCA
1 AAAAAAATTATAAAAATTAA
22951175 AAAAA
1 AAAAA
22951180 CTAGCACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAAATTATAAAAATTAA
Found at i:22951160 original size:20 final size:22
Alignment explanation
Indices: 22951132--22951179 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
22951122 ATATTTTTAA
22951132 AAAATAAAAAAAT-TAAAAATT-
1 AAAA-AAAAAAATATAAAAATTC
*
22951153 -AAAAAAAAATTATAAAAATTC
1 AAAAAAAAAAATATAAAAATTC
22951174 AAAAAA
1 AAAAAA
22951180 CTAGCACGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 11 0.48
22 5 0.22
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAAAAAATATAAAAATTC
Found at i:22952765 original size:20 final size:19
Alignment explanation
Indices: 22952712--22952772 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
22952702 CCGAATTATA
22952712 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
* * *
22952730 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATA-TTTT
22952752 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
22952771 TA
1 TA
22952773 GACTTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 12 0.36
20 11 0.33
21 6 0.18
22 4 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:22952805 original size:41 final size:39
Alignment explanation
Indices: 22952703--22952822 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 39
22952693 TGGCCCGGCC
*
22952703 CGAATTATATATT-AA-ATATATATTTTT-ATTTTTAAT
1 CGAATTATATATTAAATATATATATTTTTAACTTTTAAT
* *
22952739 CAAATATACTTTTTATTAAATATATATATTTTTAGACTTTTAAT
1 CGAAT-TA---TATATTAAATATATATATTTTTA-ACTTTTAAT
*
22952783 ACGAATTATATATTAAATATATATATTTTT-ATTTTTAAT
1 -CGAATTATATATTAAATATATATATTTTTAACTTTTAAT
22952822 C
1 C
22952823 AAATATGGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
36 4 0.06
37 2 0.03
38 1 0.01
39 8 0.12
40 5 0.07
41 23 0.33
42 12 0.17
44 10 0.14
45 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (39 bp):
CGAATTATATATTAAATATATATATTTTTAACTTTTAAT
Found at i:22954020 original size:56 final size:56
Alignment explanation
Indices: 22953956--22954942 Score: 700
Period size: 55 Copynumber: 17.7 Consensus size: 56
22953946 ACTGGTATAC
* * *
22953956 AAAAAAATTTGGGGTGCTGGCCTGTTAATGGTCGGCACCACCAGTACGAAAACAAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * * *
22954012 AAAAAAA-TTTGGATGTTGGCCTGTCAATGG-C--CAGCACCAGTATGAAAATGAAAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAA--CAAA
* * * * * **
22954066 AAATAAAATTTTTTTCGGCGCCGGCTTGTCAATGGCCGG---CACCAGTATG-AAACCGA
1 AAA-AAAA---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * ** **
22954122 AAAAAAATTTTGGGTGCTAGCCTGTCAATGGCTGACACCACCAGTATAAAAACGGA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
*
22954178 AAAAAAATTTCT--GTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAAC--G
1 AAAAAAATTT-TGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * * *
22954231 AAAAAAATTTTAGGTGCTGGCCTGTAAATGGCTGACACCACCAGTACAAAAACAAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * * *
22954287 AAAAAAATTTTGGGTGATGCCCTGTCAATGGTCGGCACCACCAATACGAAAA-AGGA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACA-AA
* * * **
22954343 AAAAAAATTTTGGGTGCTAGCCTGTAAATAG-TTG-A-CACCAGTACGAAAACAGAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACA-AA
* * * * * *
22954397 AAAAAAA-TTTGGGTGCTAGCTTATCAATGGCTGGCACCATCAGTACGAAAAC-GA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * * * *
22954451 AAAAATATTTTAGGTACTAGCCTGTCAATGGCCGGCACCACTAGTAGGAAAAC-AA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * * * * **
22954506 AAAAAAA-TTTGGGTGCTGGCCTGTAAATGGTCGACACCATCAGTACAAAAATGAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * **
22954561 AAAAAAA--TTGGGTGAC-GTCCTGTCAATGGCCGACACCACCAGTACGAAAA-AGGG
1 AAAAAAATTTTGGGTG-CTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACA-AA
* * * * *
22954615 AAAAAAATTTTGGGTGCTGACATATAAATGGCC-G-A-CACCAGTACGAAAAC-GA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
** * * * * * *
22954667 AAAAAAATTTTGCCTGCTTGCCTGTTAATGGCTGACATCACCAGTACGAAAACGGAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAAC-AAA
* * ** * *
22954724 AAAAAAATTTTGGGTGTTGGCTTGTTGGCTTATCAATGGTTGGCACCATCAGTACGAAAACGAA
1 AAAAAAATTTT-GG-G-T-GC----TGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* * ** *
22954788 AAAAATATTTTAGGTATTGGCCTGTCAATGGCCGGCACTACCAGTACGAAAACGAAA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAAC-AAA
* * * ** * * *
22954845 AAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCAACACCATCAGTATGAAAATAAA
1 AAAAA-A--ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
* *
22954904 AAAAAAA-ATTGGGTGCTAGCCTGTCAATGGCCGGCACCA
1 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCA
22954943 AATTTATCAA
Statistics
Matches: 736, Mismatches: 146, Indels: 99
0.75 0.15 0.10
Matches are distributed among these distances:
52 63 0.09
53 56 0.08
54 142 0.19
55 170 0.23
56 159 0.22
57 20 0.03
58 5 0.01
59 35 0.05
60 40 0.05
61 3 0.00
62 1 0.00
63 1 0.00
64 13 0.02
65 28 0.04
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (56 bp):
AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAA
Found at i:22954264 original size:109 final size:110
Alignment explanation
Indices: 22953956--22954934 Score: 752
Period size: 109 Copynumber: 8.8 Consensus size: 110
22953946 ACTGGTATAC
* * * *
22953956 AAAAAAATTTGGGGTGCTGGCCTGTTAATGGTCGGCACCACCAGTACGAAAACAAAAAAAAAATT
1 AAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTT
* * * *
22954021 T-GGATGTTGGCCTGTCAATGGC---CAGCACCAGTATGAAAATGAAAA
65 TAGG-TGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACG--AA
* * * * * *
22954066 AAATAAAATTTTTTTCGGCGCCGGCTTGTCAATGGCCGG---CACCAGTATGAAACCGAAAAAAA
1 AAA-AAAA----TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAA
* * ** *
22954128 ATTTTGGGTGCTAGCCTGTCAATGGCTGACACCACCAGTATAAAAACGGA
61 ATTTTAGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACGAA
**
22954178 AAAAAAATTTCTGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACG-AAAAAAATTTT
1 AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTTT
* * *
22954242 AGGTGCTGGCCTGTAAATGGCTGACACCACCAGTACAAAAACAAA
66 AGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACGAA
* * * * *
22954287 AAAAAAATTTTGGGTGATGCCCTGTCAATGGTCGGCACCACCAATACGAAAAAGGAAAAAAAATT
1 AAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACG-AAAACGAAAAAAAATT
* * * * *
22954352 TTGGGTGCTAGCCTGTAAATAGTTG--A-CACCAGTACGAAAACAGAA
64 TTAGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAAC-GAA
* * * * * *
22954397 AAAAAAATTTGGGTGCTAGCTTATCAATGGCTGGCACCATCAGTACGAAAACGAAAAAATATTTT
1 AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTTT
* * * * * *
22954462 AGGTACTAGCCTGTCAATGGCCGGCACCACTAGTAGGAAAAC-AA
66 AGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACGAA
* * * * * * *
22954506 AAAAAAATTTGGGTGCTGGCCTGTAAATGGTCGACACCATCAGTACAAAAATGAAAAAAAA-ATT
1 AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTTT
* * * * *
22954570 GGGTGAC-GTCCTGTCAATGGCCGACACCACCAGTACGAAAAAGGGA
66 AGGTG-CTGGCCTGTCAATGGCTGACACCACCAGTACG-AAAACGAA
* * * * *
22954616 AAAAAATTTTGGGTGCTGACATATAAATGGCC-G-A-CACCAGTACGAAAACGAAAAAAAATTTT
1 AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTTT
* * * *
22954678 -GCCTGCTTGCCTGTTAATGGCTGACATCACCAGTACGAAAACGGAA
66 AG-GTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAAC-GAA
* * ** *
22954724 AAAAAAATTTTGGGTGTTGGCTTGTTGGCTTATCAATGGTTGGCACCATCAGTACGAAAACGAAA
1 AAAAAAA-TTT-GG-G-T-GC----TGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAA
** * * *
22954789 AAAATATTTTAGGTATTGGCCTGTCAATGGCCGGCACTACCAGTACGAAAACGAA
57 AAAA-ATTTTAGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACGAA
* * ** * * **
22954844 AAAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCAACACCATCAGTATGAAAATAAAAAAAA
1 AAAAAA-A----TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAA
** * *
22954909 AAATTGGGTGCTAGCCTGTCAATGGC
61 ATTTTAGGTGCTGGCCTGTCAATGGC
22954935 CGGCACCAAA
Statistics
Matches: 694, Mismatches: 131, Indels: 83
0.76 0.14 0.09
Matches are distributed among these distances:
107 50 0.07
108 101 0.15
109 163 0.23
110 92 0.13
111 67 0.10
112 37 0.05
113 2 0.00
114 34 0.05
115 23 0.03
116 35 0.05
117 11 0.02
118 1 0.00
119 1 0.00
120 32 0.05
121 38 0.05
122 2 0.00
123 1 0.00
124 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (110 bp):
AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACGAAAAAAAATTTT
AGGTGCTGGCCTGTCAATGGCTGACACCACCAGTACGAAAACGAA
Found at i:22956608 original size:21 final size:22
Alignment explanation
Indices: 22956584--22956624 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22956574 AAGTTAAATT
*
22956584 TAAATTCA-AAAATAATATAAA
1 TAAATTCAGAAAAAAATATAAA
*
22956605 TAAATTGAGAAAAAAATATA
1 TAAATTCAGAAAAAAATATA
22956625 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
TAAATTCAGAAAAAAATATAAA
Found at i:22956710 original size:11 final size:11
Alignment explanation
Indices: 22956631--22956710 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
22956621 TATATTTTTT
22956631 AAATGAAATGA
1 AAATGAAATGA
** *
22956642 AAGGGAAATGG
1 AAATGAAATGA
* *
22956653 TAATGGTAATGA
1 AAAT-GAAATGA
*
22956665 AAATGAAATTA
1 AAATGAAATGA
*
22956676 GAATGAAATGA
1 AAATGAAATGA
*
22956687 AACA-AAAAT-A
1 AA-ATGAAATGA
22956697 AAATGAAATGA
1 AAATGAAATGA
22956708 AAA
1 AAA
22956711 AAAGAAGTTC
Statistics
Matches: 49, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
9 1 0.02
10 7 0.14
11 32 0.65
12 9 0.18
ACGTcount: A:0.60, C:0.01, G:0.20, T:0.19
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:22956710 original size:16 final size:16
Alignment explanation
Indices: 22956664--22956711 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22956654 AATGGTAATG
* *
22956664 AAAATGAAATTAGAAT
1 AAAATGAAATAAAAAT
* *
22956680 GAAATGAAACAAAAAT
1 AAAATGAAATAAAAAT
22956696 AAAATGAAATGAAAAA
1 AAAATGAAAT-AAAAA
22956712 AAGAAGTTCG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (16 bp):
AAAATGAAATAAAAAT
Found at i:22961106 original size:108 final size:105
Alignment explanation
Indices: 22960882--22961135 Score: 275
Period size: 108 Copynumber: 2.4 Consensus size: 105
22960872 AAACTCAGCA
* * * *
22960882 CCAAATTTTTTTTTTCGTTTTCATACTGGTGGTGCCGACCATTGACAGGCCAGCACAAAAAAAAA
1 CCAAATTTTTTTTCT-GTTTTCGTACTGGTAGTGCCGACCATTGACAAGCCAGCACAAAAAAAAA
* *
22960947 TTTGTTTCCGTACTGGTGTCGGCCATTGATAGCCCAGCACC
65 TTTGTTTCCGTACTGGTGTCGGCCATTGACAGACCAGCACC
* * * * ****
22960988 CAAAAATTTTTTTCTGTTTTCGTACTGGTAGTGCCGGCCATTGACAAGCGAGCACCCAAAATTTT
1 CCAAATTTTTTTTCTGTTTTCGTACTGGTAGTGCCGACCATTGACAAGCCAGCA--CAAAAAAAA
* *
22961053 TTTTCGTTTTCGTACTGGTGTTC-GCCATTGACAGACCAGCACC
64 ATTT-GTTTCCGTACTGGTG-TCGGCCATTGACAGACCAGCACC
*
22961096 CCAAATTTTTTTTC-GTTTTCGTGCT-G--GTGCCGACCATTGA
1 CCAAATTTTTTTTCTGTTTTCGTACTGGTAGTGCCGACCATTGA
22961136 TAGGCTAGTA
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
104 13 0.10
105 34 0.27
106 13 0.10
107 18 0.15
108 44 0.35
109 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (105 bp):
CCAAATTTTTTTTCTGTTTTCGTACTGGTAGTGCCGACCATTGACAAGCCAGCACAAAAAAAAAT
TTGTTTCCGTACTGGTGTCGGCCATTGACAGACCAGCACC
Found at i:22961161 original size:52 final size:52
Alignment explanation
Indices: 22960890--22961153 Score: 230
Period size: 52 Copynumber: 5.0 Consensus size: 52
22960880 CACCAAATTT
*
22960890 TTTTTTTCGTTTTCATACTGGTGGTGCCGACCATTGACAGGCCAGCA--CAAAAA
1 TTTTTTTCGTTTTCGTAC---TGGTGCCGACCATTGACAGGCCAGCACCCAAAAA
**** * * * * *
22960943 AAAATTT-GTTTCCGTACTGGTGTCGGCCATTGATAGCCCAGCACCCAAAAA
1 TTTTTTTCGTTTTCGTACTGGTGCCGACCATTGACAGGCCAGCACCCAAAAA
* * * *
22960994 TTTTTTTCTGTTTTCGTACTGGTAGTGCCGGCCATTGACAAGCGAGCACCCAAAAT
1 TTTTTTTC-GTTTTCGTACT-G--GTGCCGACCATTGACAGGCCAGCACCCAAAAA
* * * *
22961050 TTTTTTTCGTTTTCGTACTGGTGTTCG-CCATTGACAGACCAGCACCCCAAAT
1 TTTTTTTCGTTTTCGTACTGGTG-CCGACCATTGACAGGCCAGCACCCAAAAA
* * * *
22961102 TTTTTTTCGTTTTCGTGCTGGTGCCGACCATTGATAGGCTAGTACCCAAAAA
1 TTTTTTTCGTTTTCGTACTGGTGCCGACCATTGACAGGCCAGCACCCAAAAA
22961154 AAATTTTCAT
Statistics
Matches: 168, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
49 22 0.13
51 11 0.07
52 73 0.43
53 15 0.09
54 2 0.01
55 11 0.07
56 34 0.20
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (52 bp):
TTTTTTTCGTTTTCGTACTGGTGCCGACCATTGACAGGCCAGCACCCAAAAA
Found at i:22961354 original size:52 final size:53
Alignment explanation
Indices: 22961262--22961406 Score: 143
Period size: 53 Copynumber: 2.8 Consensus size: 53
22961252 GTTTTAGTGT
* * * * * * **
22961262 TGGTGCCAGCTATTGACAGGCCAGCGCTCAAATTTTTTTTTTGTTTTCAAAAG
1 TGGTGCCACCCATTGACAGACAAGCACCCAAATTTTTTTTTCATTTTCAAAAG
** *
22961315 TGGTGCCGA-CCATTGACACGACAA-CACCCAAATTTTTTTTTCATTTTCCTAGG
1 TGGTGCC-ACCCATTGACA-GACAAGCACCCAAATTTTTTTTTCATTTTCAAAAG
*
22961368 TGGTGCCACCCATTGACAGGCAAGCACCC-AATTTTTTTT
1 TGGTGCCACCCATTGACAGACAAGCACCCAAATTTTTTTT
22961407 ATTTTTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
52 15 0.19
53 58 0.75
54 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (53 bp):
TGGTGCCACCCATTGACAGACAAGCACCCAAATTTTTTTTTCATTTTCAAAAG
Found at i:22967535 original size:20 final size:18
Alignment explanation
Indices: 22967502--22967552 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 18
22967492 TCACACCAAT
*
22967502 AAATAATTTAAAAACTATAA
1 AAATATTTTAAAAA--ATAA
22967522 AAATATTTTTAAAAAATAA
1 AAATA-TTTTAAAAAATAA
22967541 AAA-ATTTTAAAA
1 AAATATTTTAAAA
22967553 TTAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.28
18 1 0.03
19 7 0.24
20 5 0.17
21 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATTTTAAAAAATAA
Found at i:22969651 original size:3 final size:3
Alignment explanation
Indices: 22969643--22969675 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22969633 GTCCCCTCTA
22969643 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22969676 AAAAACTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22976153 original size:37 final size:37
Alignment explanation
Indices: 22976096--22976247 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
22976086 TATGATCACT
*
22976096 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
22976131 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
22976168 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAG-C----C-A-C-C
*
22976213 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
22976248 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 53 0.53
38 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 31 0.31
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:22976231 original size:46 final size:44
Alignment explanation
Indices: 22976164--22976534 Score: 279
Period size: 46 Copynumber: 8.6 Consensus size: 44
22976154 TAAGTGTAGC
*
22976164 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-C-AAGCTAT
* *
22976210 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-C-AAGCTAT
22976256 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAG-C-AAGCTAT
*
22976308 CACTTATCACTTTGTCACTTGATCAGATAA--GT----A--TAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCAAGCTAT
* * *
22976344 CACTTATCACTTTTTCACATGATCAGATAA--GT----A--TAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCAAGCTAT
* * *
22976380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGATAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG--CAAGCTAT
*
22976426 CACTTATCACTTTGTCTCTTGATCAGA-AGAGTGT----AG----
1 CACTTATCACTTTGTCACTTGATCAGATA-AGTGTAGCAAGCTAT
*
22976462 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC--AAGCTAT
* **
22976508 CACTTATCACTTTATCTTTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
22976535 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 15, Indels: 56
0.80 0.04 0.16
Matches are distributed among these distances:
36 96 0.34
37 1 0.00
38 3 0.01
40 2 0.01
42 2 0.01
44 3 0.01
45 1 0.00
46 129 0.46
49 2 0.01
52 43 0.15
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCAAGCTAT
Found at i:22976287 original size:52 final size:52
Alignment explanation
Indices: 22976207--22976328 Score: 199
Period size: 52 Copynumber: 2.3 Consensus size: 52
22976197 TAGCCAAAGC
* *
22976207 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
22976260 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
22976312 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
22976329 ATCAGATAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 46 0.71
53 19 0.29
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:22976329 original size:98 final size:99
Alignment explanation
Indices: 22976164--22976344 Score: 319
Period size: 98 Copynumber: 1.8 Consensus size: 99
22976154 TAAGTGTAGC
* *
22976164 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
22976229 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
22976263 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
22976327 TGATCAGATAAGTATAGC
66 TGATCAGATAAGTATAGC
22976345 ACTTATCACT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 69 0.88
99 9 0.12
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (99 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:22976350 original size:36 final size:36
Alignment explanation
Indices: 22976308--22976498 Score: 222
Period size: 36 Copynumber: 5.0 Consensus size: 36
22976298 CCGAAGCTAT
22976308 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
22976344 CACTTATCACTTTTTCACATGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
22976380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGATAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT--AT--AG
* *
22976422 CTACCACTTATCACTTTGTCTCTTGATCAGA-AGAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATA-AGTATAG
*
22976462 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
22976498 C
1 C
22976499 TAAAGCTACC
Statistics
Matches: 136, Mismatches: 7, Indels: 24
0.81 0.04 0.14
Matches are distributed among these distances:
36 97 0.71
37 1 0.01
38 2 0.01
40 4 0.03
42 3 0.02
44 2 0.01
45 1 0.01
46 26 0.19
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:22976485 original size:118 final size:117
Alignment explanation
Indices: 22976263--22976498 Score: 348
Period size: 118 Copynumber: 2.0 Consensus size: 117
22976253 TATCACTTAT
* * * *
22976263 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTATCACTTGTCACTTGATCAGATAAGTGTAGACAAAGCTACCACTTATCACTTTGTCACTT
*
22976328 GATCAGATAAGTATAGCACTTATCACTTTTTCACATGATCAGATAAGTATAG
66 GATCAGATAAGTATAGCACTTATCACTTTGTCACATGATCAGATAAGTATAG
* * *
22976380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGATAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCAC-TTGTCACTTGATCAGATAAGTGTAGACAAAGCTACCACTTATCACTTTGTCACT
* * *
22976445 TGATCAGA-AGAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
65 TGATCAGATA-AGTATAGCACTTATCACTTTGTCACATGATCAGATAAGTATAG
22976498 C
1 C
22976499 TAAAGCTACC
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
117 10 0.09
118 96 0.91
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (117 bp):
CACTTATCACTTGTCACTTGATCAGATAAGTGTAGACAAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCACTTATCACTTTGTCACATGATCAGATAAGTATAG
Found at i:22976530 original size:82 final size:82
Alignment explanation
Indices: 22976344--22976536 Score: 298
Period size: 82 Copynumber: 2.4 Consensus size: 82
22976334 ATAAGTATAG
* * * *
22976344 CACTTATCACTTTTTCACATGATCAGATA-AGTATAGCACTTATCACTTTTTCACTTGATCAGAT
1 CACTTATCACTTTATCTCTTGATCAGA-AGAGTATAGCACTTATCACTTTGTCACTTGATCAGAT
22976408 AAGTGTAGATAAAGCTAC
65 AAGTGTAGATAAAGCTAC
* *
22976426 CACTTATCACTTTGTCTCTTGATCAGAAGAGTGTAGCACTTATCACTTTGTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGAAGAGTATAGCACTTATCACTTTGTCACTTGATCAGATA
*
22976491 AGTGTAGCTAAAGCTAC
66 AGTGTAGATAAAGCTAC
*
22976508 CACTTATCACTTTATCTTTTGATCAGAAG
1 CACTTATCACTTTATCTCTTGATCAGAAG
22976537 TACTCAAATC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 1 0.01
82 101 0.99
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGAAGAGTATAGCACTTATCACTTTGTCACTTGATCAGATA
AGTGTAGATAAAGCTAC
Found at i:22980975 original size:23 final size:22
Alignment explanation
Indices: 22980944--22980986 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
22980934 CTTAATTCCT
*
22980944 TCAAAAATGATCAAATTATAAA
1 TCAAAAATGATAAAATTATAAA
22980966 TCAATAAATGATAAAATTATA
1 TCAA-AAATGATAAAATTATA
22980987 TTTTGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
TCAAAAATGATAAAATTATAAA
Found at i:22982530 original size:31 final size:29
Alignment explanation
Indices: 22982496--22982597 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 29
22982486 TAAATATACT
*
22982496 AATTTGGTACTTATGTTTGGTTTCAATGTTT
1 AATTTGGTACTTA-GTTT-GTTTCAATGTTC
* *
22982527 AATTTAGTACTTAAGTTT-TTT--TTGTCTC
1 AATTTGGTACTT-AGTTTGTTTCAATGT-TC
*
22982555 AATTTGGTACTTGAGTTTAGCTTCAATGTTC
1 AATTTGGTACTT-AGTTT-GTTTCAATGTTC
22982586 AATTTGGTACTT
1 AATTTGGTACTT
22982598 GAATTTTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.05
28 17 0.29
29 3 0.05
30 2 0.03
31 29 0.50
32 4 0.07
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.52
Consensus pattern (29 bp):
AATTTGGTACTTAGTTTGTTTCAATGTTC
Found at i:22983512 original size:35 final size:33
Alignment explanation
Indices: 22983456--22983521 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
22983446 TCTAAATATG
*
22983456 TTACGATTAGTAATCTGATTATGCTTTATAATACA
1 TTACAATTAGTAATCTGATTATG-TTTA-AATACA
*
22983491 TTACAATTATTAATCTGATTATGTTTAAATA
1 TTACAATTAGTAATCTGATTATGTTTAAATA
22983522 TCTATTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.14
34 4 0.14
35 21 0.72
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (33 bp):
TTACAATTAGTAATCTGATTATGTTTAAATACA
Done.