Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 111 of 126
Found at i:34035548 original size:36 final size:36
Alignment explanation
Indices: 34035507--34035582 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
34035497 ATAGTGATTC
* *
34035507 AATTCGGTTAATTCGGGTAATTTGGTTAATTCAGG-T
1 AATTCGATTAATTCGGGTAATTAGGTTAATTC-GGTT
34035543 AATTCGATTAATTCGGGTAATTAGGTTAATTCGGTT
1 AATTCGATTAATTCGGGTAATTAGGTTAATTCGGTT
34035579 AATT
1 AATT
34035583 TTTAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (36 bp):
AATTCGATTAATTCGGGTAATTAGGTTAATTCGGTT
Found at i:34036698 original size:22 final size:22
Alignment explanation
Indices: 34036667--34036741 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
34036657 TTTACGGTGC
34036667 TCTCATACGTCCCCCAAGGGGA
1 TCTCATACGTCCCCCAAGGGGA
* ** *
34036689 TCTCAAACGTCCCATAAAGGGA
1 TCTCATACGTCCCCCAAGGGGA
* *
34036711 TCTTATACGTCCCACACAAGGGGC
1 TCTCATACGTCCC-C-CAAGGGGA
34036735 TCTCATA
1 TCTCATA
34036742 TACAGGTGCA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 29 0.73
24 11 0.28
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (22 bp):
TCTCATACGTCCCCCAAGGGGA
Found at i:34038776 original size:14 final size:14
Alignment explanation
Indices: 34038757--34038796 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34038747 TTGATTGGCA
34038757 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34038771 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34038785 GGAAAATGTTTT
1 GTAAAATGTTTT
34038797 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34038809 original size:34 final size:35
Alignment explanation
Indices: 34038765--34038831 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
34038755 CAGTAAAATG
* *
34038765 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
34038799 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
34038832 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:34038818 original size:20 final size:20
Alignment explanation
Indices: 34038780--34038819 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34038770 CGTAAAATGA
**
34038780 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
34038800 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
34038820 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:34040208 original size:27 final size:27
Alignment explanation
Indices: 34040178--34040243 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
34040168 TAATCAATTT
*
34040178 AATATCCAACAATGTTAAAACATA-ATC
1 AATATCCAACAAT-TCAAAACATATATC
* *
34040205 AATATCTAACAAATTCAAGACATATATC
1 AATATCCAAC-AATTCAAAACATATATC
*
34040233 AAAATCCAACA
1 AATATCCAACA
34040244 GTCTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.24
Consensus pattern (27 bp):
AATATCCAACAATTCAAAACATATATC
Found at i:34045059 original size:18 final size:19
Alignment explanation
Indices: 34045030--34045066 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34045020 TTCTCTCCAT
34045030 TTTTTAATATTTTATTTTA
1 TTTTTAATATTTTATTTTA
*
34045049 TTTTTAA-ATTTTTTTTTA
1 TTTTTAATATTTTATTTTA
34045067 AATTAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTAATATTTTATTTTA
Found at i:34045441 original size:31 final size:31
Alignment explanation
Indices: 34045406--34045464 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34045396 TACTCTTTCT
** *
34045406 AAAGGTTAATGGTCAAATTCGATTTTTTTTA
1 AAAGGTTAATAATCAAATTCGACTTTTTTTA
34045437 AAAGGTTAATAATCAAATTCGACTTTTT
1 AAAGGTTAATAATCAAATTCGACTTTTT
34045465 AAAATTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (31 bp):
AAAGGTTAATAATCAAATTCGACTTTTTTTA
Found at i:34048927 original size:22 final size:20
Alignment explanation
Indices: 34048902--34048944 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
34048892 ATAAAATTAT
34048902 TAAATATTAAAATAATATAATA
1 TAAATATTAAAA-AA-ATAATA
* *
34048924 TAAATTTTTAAAAAATAATA
1 TAAATATTAAAAAAATAATA
34048944 T
1 T
34048945 GGACAGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATATTAAAAAAATAATA
Found at i:34053780 original size:69 final size:69
Alignment explanation
Indices: 34053689--34053960 Score: 312
Period size: 69 Copynumber: 3.9 Consensus size: 69
34053679 AGCAACATTC
* * ** * *
34053689 AGACAACATTTAACCAACATTCGAACGGCATTTAACCATCATTCGGACAACATTAGTATGCTCAA
1 AGACAGCATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAA
*
34053754 TTAA
66 TTAT
* * * *
34053758 AGACAGCATTTTAA-CAATATTCGGACAACATTTAACTAACATTCAGACAGCATTAGTATGCTTA
1 AGACAGCA-TTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCA
*
34053822 ACTAT
65 ATTAT
* * * * * * * *
34053827 GGAAAGCTTTTAAACAATATTCGGATAACATTTAACCAACATTTGGACAGCATTAGTATGCTTAA
1 AGACAGCATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAA
34053892 TTAT
66 TTAT
* * * *
34053896 GGACAGCATTTAACCAACATTCGGATAGCATTTAACCAACATTCGGACAGCATTAGTTTGCTCAA
1 AGACAGCATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAA
34053961 ATATGAACTA
Statistics
Matches: 173, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
68 5 0.03
69 163 0.94
70 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (69 bp):
AGACAGCATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAA
TTAT
Found at i:34053928 original size:22 final size:22
Alignment explanation
Indices: 34053667--34053949 Score: 137
Period size: 22 Copynumber: 12.5 Consensus size: 22
34053657 AGCATTAAAT
*
34053667 GGACAGCATTTAAGCAACATTC
1 GGACAGCATTTAACCAACATTC
* *
34053689 AGACAACATTTAACCAACATTC
1 GGACAGCATTTAACCAACATTC
* * *
34053711 GAACGGCATTTAACCATCATTC
1 GGACAGCATTTAACCAACATTC
* * *
34053733 GGACAACATTAGTATGCTC-A-ATTAA
1 GGACAGCATT--TA-AC-CAACATT-C
* *
34053758 AGACAGCATTTTAA-CAATATTC
1 GGACAGCA-TTTAACCAACATTC
* *
34053780 GGACAACATTTAACTAACATTC
1 GGACAGCATTTAACCAACATTC
* * *
34053802 AGACAGCATTAGTATGCTTAAC-TAT-
1 GGACAGCATT--TA-AC-CAACAT-TC
* * * *
34053827 GGAAAGCTTTTAAACAATATTC
1 GGACAGCATTTAACCAACATTC
* * *
34053849 GGATAACATTTAACCAACATTT
1 GGACAGCATTTAACCAACATTC
* ** *
34053871 GGACAGCATTAGTATGCTTA-ATTAT
1 GGACAGCATT--TA-ACCAACATT-C
34053896 GGACAGCATTTAACCAACATTC
1 GGACAGCATTTAACCAACATTC
*
34053918 GGATAGCATTTAACCAACATTC
1 GGACAGCATTTAACCAACATTC
34053940 GGACAGCATT
1 GGACAGCATT
34053950 AGTTTGCTCA
Statistics
Matches: 191, Mismatches: 49, Indels: 42
0.68 0.17 0.15
Matches are distributed among these distances:
21 9 0.05
22 121 0.63
23 10 0.05
24 14 0.07
25 29 0.15
26 8 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (22 bp):
GGACAGCATTTAACCAACATTC
Found at i:34053975 original size:69 final size:69
Alignment explanation
Indices: 34053695--34053991 Score: 305
Period size: 69 Copynumber: 4.3 Consensus size: 69
34053685 ATTCAGACAA
* ** * * *
34053695 CATTTAACCAACATTCGAACGGCATTTAACCATCATTCGGACAACATTAGTATGCTCAATTA-AA
1 CATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAATTATGA
34053759 GACAG
66 -ACAG
* * * * *
34053764 CATTTTAA-CAATATTCGGACAACATTTAACTAACATTCAGACAGCATTAGTATGCTTAACTATG
1 CA-TTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAATTAT-
34053828 GAA-AG
64 GAACAG
* * * * * * *
34053833 CTTTTAAACAATATTCGGATAACATTTAACCAACATTTGGACAGCATTAGTATGCTTAATTATGG
1 CATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAATTATGA
34053898 ACAG
66 ACAG
* * * *
34053902 CATTTAACCAACATTCGGATAGCATTTAACCAACATTCGGACAGCATTAGTTTGCTCAAATATGA
1 CATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAATTATGA
34053967 ACTA-
66 AC-AG
** *
34053971 CATTTAAATAACATTTGGACA
1 CATTTAACCAACATTCGGACA
34053992 GCACCTCGCC
Statistics
Matches: 191, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
68 7 0.04
69 176 0.92
70 7 0.04
71 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (69 bp):
CATTTAACCAACATTCGGACAACATTTAACCAACATTCGGACAGCATTAGTATGCTCAATTATGA
ACAG
Found at i:34053978 original size:138 final size:138
Alignment explanation
Indices: 34053717--34053965 Score: 347
Period size: 138 Copynumber: 1.8 Consensus size: 138
34053707 ATTCGAACGG
* *
34053717 CATTTAACCATCATTCGGACAACATTAGTATGCTCAATTAAAGACAGCATTTTAACAATATTCGG
1 CATTTAACCAACATTCGGACAACATTAGTATGCTCAATTAAAGACAGCATTTTAACAACATTCGG
* * * *
34053782 ACAACATTTAACTAACATTCAGACAGCATTAGTATGCTTAACTATGGAAAGCTTTTAAACAATAT
66 ACAACATTTAACCAACATTCAGACAGCATTAGTATGCTCAAATATGGAAAGCATTTAAACAATAT
34053847 TCGGATAA
131 TCGGATAA
* * * **
34053855 CATTTAACCAACATTTGGACAGCATTAGTATGCTTAATTATGGACAGCA-TTTAACCAACATTCG
1 CATTTAACCAACATTCGGACAACATTAGTATGCTCAATTAAAGACAGCATTTTAA-CAACATTCG
* * * *
34053919 GATAGCATTTAACCAACATTCGGACAGCATTAGTTTGCTCAAATATG
65 GACAACATTTAACCAACATTCAGACAGCATTAGTATGCTCAAATATG
34053966 AACTACATTT
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 5 0.05
138 91 0.95
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (138 bp):
CATTTAACCAACATTCGGACAACATTAGTATGCTCAATTAAAGACAGCATTTTAACAACATTCGG
ACAACATTTAACCAACATTCAGACAGCATTAGTATGCTCAAATATGGAAAGCATTTAAACAATAT
TCGGATAA
Found at i:34054668 original size:43 final size:43
Alignment explanation
Indices: 34054593--34054723 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 43
34054583 AAACACATAT
* * * * * *
34054593 ATCACATA-CAATGC-CATATCCCATATATGGTCTTACATGTT
1 ATCACATATCAATGCTCATGTCCCAGACAGGGTCTTACACGTA
*
34054634 ATCACATATCGATGC-CACTGTCCCAGACAGGGTCTTACACGTA
1 ATCACATATCAATGCTCA-TGTCCCAGACAGGGTCTTACACGTA
* * * *
34054677 ATCTCATATCAATGCTGATGTCCCAGACATGGTCTTACACGAA
1 ATCACATATCAATGCTCATGTCCCAGACAGGGTCTTACACGTA
34054720 ATCA
1 ATCA
34054724 TTCCTCAGAA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
41 8 0.11
42 7 0.09
43 58 0.78
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
ATCACATATCAATGCTCATGTCCCAGACAGGGTCTTACACGTA
Found at i:34055688 original size:14 final size:14
Alignment explanation
Indices: 34055669--34055698 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34055659 TTAAATACTT
34055669 TAAAAATTACACAA
1 TAAAAATTACACAA
34055683 TAAAAATTACACAA
1 TAAAAATTACACAA
34055697 TA
1 TA
34055699 TGCCAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAAATTACACAA
Found at i:34066111 original size:74 final size:74
Alignment explanation
Indices: 34065983--34066721 Score: 1064
Period size: 74 Copynumber: 10.1 Consensus size: 74
34065973 TACTCTATTA
* * **
34065983 TATGTTGTGTGTTTAGATAGTGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGGATTCTAGTA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
34066048 CGTGGAATT-
66 CGTGG-ATTG
* * * * * * *
34066057 TTTGTTTTGTGTTTAGGTAGCGCGATAAGGTTGTTAGCATGTAAAGAAGTTGATG-A----AACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
* *
34066117 TGTGGGTTG
66 CGTGGATTG
* *
34066126 CATGTTGTGTGTTTAGATAGCAAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
34066191 CGTGGATTG
66 CGTGGATTG
* *
34066200 TATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAACAGTTGATGGATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
34066264 CGTGGATTG
66 CGTGGATTG
* * * * *
34066273 TATGTTGTGTGTTTAGATAGCGCGCTAAGGTTGTTAGCCTGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066338 CATGGATTG
66 CGTGGATTG
* * * *
34066347 TATGTTGTGTGTTTAGATAGCAAGTTATGATTGCTAGCATGTTAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066412 -GTGGGTTG
66 CGTGGATTG
* *
34066420 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
34066485 CGTGGATTG
66 CGTGGATTG
*
34066494 TATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066558 TGTGGATTG
66 CGTGGATTG
* *
34066567 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066632 CGTGGGTTG
66 CGTGGATTG
* *
34066641 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066706 CGTGGGTTG
66 CGTGGATTG
34066715 TATGTTG
1 TATGTTG
34066722 ATTGTTAGCT
Statistics
Matches: 594, Mismatches: 62, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
68 2 0.00
69 52 0.09
70 1 0.00
73 205 0.35
74 334 0.56
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.37
Consensus pattern (74 bp):
TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
CGTGGATTG
Found at i:34066334 original size:147 final size:148
Alignment explanation
Indices: 34065983--34066721 Score: 1075
Period size: 147 Copynumber: 5.0 Consensus size: 148
34065973 TACTCTATTA
* * * * **
34065983 TATGTTGTGTGTTTAGATAGTGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGGATTCTAGTA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
* * * * * * *
34066048 CGTGGAATT-TTTGTTTTGTGTTTAGGTAGCGCGATAAGGTTGTTAGCATGTAAAGAAGTTGAT-
66 CGTGG-ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATG
*
34066111 GA----AACATGTGGGTTG
130 GATTCTAACACGTGGGTTG
* ** *
34066126 CATGTTGTGTGTTTAGATAGCAAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
34066191 CGTGGATTGTATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAACAGTTGATGG
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGG
*
34066255 ATTCTAACACGTGGATTG
131 ATTCTAACACGTGGGTTG
* * *
34066273 TATGTTGTGTGTTTAGATAGCGCGCTAAGGTTGTTAGCCTGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
* * * * * *
34066338 CATGGATTGTATGTTGTGTGTTTAGATAGCAAGTTATGATTGCTAGCATGTTAAGCAGTTGATGA
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGG
34066403 ATTCTAACA-GTGGGTTG
131 ATTCTAACACGTGGGTTG
34066420 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
34066485 CGTGGATTGTATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGAT-G
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGG
* *
34066548 ATTTCTAACATGTGGATTG
131 A-TTCTAACACGTGGGTTG
34066567 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
* * * *
34066632 CGTGGGTTGTATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGA
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGG
34066697 ATTCTAACACGTGGGTTG
131 ATTCTAACACGTGGGTTG
34066715 TATGTTG
1 TATGTTG
34066722 ATTGTTAGCT
Statistics
Matches: 538, Mismatches: 47, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
142 41 0.08
143 73 0.14
145 1 0.00
146 48 0.09
147 261 0.49
148 113 0.21
149 1 0.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.37
Consensus pattern (148 bp):
TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGG
ATTCTAACACGTGGGTTG
Found at i:34066508 original size:294 final size:292
Alignment explanation
Indices: 34065983--34066989 Score: 1404
Period size: 294 Copynumber: 3.5 Consensus size: 292
34065973 TACTCTATTA
* * **
34065983 TATGTTGTGTGTTTAGATAGTGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGGA-TTCTAGT
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGAT-GATTTCTAAC
* * * * * * *
34066047 ACGTGGAATT-TTTGTTTTGTGTTTAGGTAGCGCGATAAGGTTGTTAGCATGTAAAGAAGTTGAT
65 ACGTGG-ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGAT
* *
34066111 G-A----AACATGTGGGTTGCATGTTGTGTGTTTAGATAGCAAGTTAAGATTGTTAGCATGTAAA
129 GAATTCTAACACGTGGGTTGTATGTTGTGTGTTTAGATAGC--GTTAAG-TTGTTAGCATGTAAA
34066171 GCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCGAGTTAAGATTGTTAG
191 GCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCGAGTTAAGATTGTTAG
* *
34066236 CATGTAAAACAGTTGATGGA-TTCTAACACGTGGATTG
256 CATGTAAAGCAGTTGAT-GATTTCTAACATGTGGATTG
* * *
34066273 TATGTTGTGTGTTTAGATAGCGCGCTAAGGTTGTTAGCCTGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
* * * * *
34066338 CATGGATTGTATGTTGTGTGTTTAGATAGCAAGTTATGATTGCTAGCATGTTAAGCAGTTGATGA
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGA
34066403 ATTCTAACA-GTGGGTTGTATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGC
131 ATTCTAACACGTGGGTTGTATGTTGTGTGTTTAGATA--GCGTTAA-GTTGTTAGCATGTAAAGC
34066467 AGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCGAGTTAAGATTGTTAGCA
193 AGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCGAGTTAAGATTGTTAGCA
34066532 TGTAAAGCAGTTGATGATTTCTAACATGTGGATTG
258 TGTAAAGCAGTTGATGATTTCTAACATGTGGATTG
* *
34066567 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
* * *
34066632 CGTGGGTTGTATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGA
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGA
*
34066697 ATTCTAACACGTGGGTTGTA-------TG--T---T---G---A-TTGTTAGCTTGTAAAGCAGT
131 ATTCTAACACGTGGGTTGTATGTTGTGTGTTTAGATAGCGTTAAGTTGTTAGCATGTAAAGCAGT
*
34066743 TGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGCGTGTTAAGATTGTTAGCATG
196 TGATGAATTCTAACACGTGGATTGTATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATG
*
34066808 CAAAGCAGTTGATGATTTCTAACATGTGGATTG
260 TAAAGCAGTTGATGATTTCTAACATGTGGATTG
* *
34066841 TATGTTGTGTGTTTAGATAGCGTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
*
34066906 TGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGA
66 CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGA
* *
34066971 ATTCTAACACATGGATTGT
131 ATTCTAACACGTGGGTTGT
34066990 TGCCTTTGTT
Statistics
Matches: 658, Mismatches: 46, Indels: 42
0.88 0.06 0.06
Matches are distributed among these distances:
273 52 0.08
274 201 0.31
275 1 0.00
278 1 0.00
283 1 0.00
286 1 0.00
288 2 0.00
289 5 0.01
290 103 0.16
291 1 0.00
293 2 0.00
294 271 0.41
295 15 0.02
296 2 0.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.37
Consensus pattern (292 bp):
TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
CGTGGATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGA
ATTCTAACACGTGGGTTGTATGTTGTGTGTTTAGATAGCGTTAAGTTGTTAGCATGTAAAGCAGT
TGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCGAGTTAAGATTGTTAGCATGT
AAAGCAGTTGATGATTTCTAACATGTGGATTG
Found at i:34066749 original size:52 final size:52
Alignment explanation
Indices: 34066671--34066773 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
34066661 CGCGTTAAGG
*
34066671 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGTATGTTGA
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGA
*
34066723 TTGTTAGCTTGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTG
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTG
34066774 TGTGTTTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (52 bp):
TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGA
Found at i:34066822 original size:126 final size:126
Alignment explanation
Indices: 34066597--34066847 Score: 430
Period size: 126 Copynumber: 2.0 Consensus size: 126
34066587 CGCGTTAAGG
*
34066597 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGTATGTTGTGTGTTTAGATAGC
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGC
* * *
34066662 GCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGTATGTTGA
66 GCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGA
*
34066723 TTGTTAGCTTGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGC
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGC
* * *
34066788 GTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTG
66 GCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTG
34066848 TGTGTTTAGA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.38
Consensus pattern (126 bp):
TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGC
GCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGA
Found at i:34066842 original size:74 final size:74
Alignment explanation
Indices: 34066721--34066989 Score: 457
Period size: 74 Copynumber: 3.6 Consensus size: 74
34066711 GTTGTATGTT
* *
34066721 GATTGTTAGCTTGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
1 GATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
34066786 GCGTGTTAA
66 GCGTGTTAA
* *
34066795 GATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTTTAGATA
1 GATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
34066860 GCGTGTTAA
66 GCGTGTTAA
* *
34066869 GATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTTTAGATA
1 GATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
*
34066934 GCGAGTTAA
66 GCGTGTTAA
* *
34066943 GATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACATGGATTGT
1 GATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGT
34066990 TGCCTTTGTT
Statistics
Matches: 186, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 186 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (74 bp):
GATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
GCGTGTTAA
Found at i:34066877 original size:200 final size:200
Alignment explanation
Indices: 34066521--34066921 Score: 667
Period size: 200 Copynumber: 2.0 Consensus size: 200
34066511 AGCGAGTTAA
* *
34066521 GATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTTTAGATA
1 GATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
* * *
34066586 GCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGTATGTTGTGT
66 GCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGT
* * *
34066651 GTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGT
131 GTTTAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGT
34066716 ATGTT
196 ATGTT
*
34066721 GATTGTTAGCTTGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
1 GATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
* * *
34066786 GCGTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGT
66 GCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGT
* * *
34066851 GTTTAGATAGCGTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGT
131 GTTTAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGT
34066916 ATGTT
196 ATGTT
34066921 G
1 G
34066922 TGTGTTTAGA
Statistics
Matches: 186, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 186 1.00
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (200 bp):
GATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATA
GCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGT
GTTTAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGT
ATGTT
Found at i:34066980 original size:274 final size:273
Alignment explanation
Indices: 34066450--34066989 Score: 954
Period size: 274 Copynumber: 2.0 Consensus size: 273
34066440 CGCGTTAAGG
34066450 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCG
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCG
*
34066515 AGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTT
66 AGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTT
* * *
34066580 TAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGGTTGTATG
131 TAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATG
* * *
34066645 TTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTG
196 TTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACATG
*
34066710 GGTTGTATGTTGA
261 GATTGTATGTTGA
*
34066723 TTGTTAGCTTGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGTGTTTAGATAGC
1 TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTG-GTTTAGATAGC
*
34066788 GTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGT
65 GAGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGT
* * *
34066853 TTAGATAGCGTGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTAT
130 TTAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTAT
34066918 GTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACAT
195 GTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACAT
34066983 GGATTGT
260 GGATTGT
34066990 TGCCTTTGTT
Statistics
Matches: 253, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
273 52 0.21
274 201 0.79
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (273 bp):
TTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACGTGGATTGTATGTTGTGGTTTAGATAGCG
AGTTAAGATTGTTAGCATGCAAAGCAGTTGATGATTTCTAACATGTGGATTGTATGTTGTGTGTT
TAGATAGCGCGTTAAGATTGTTAGCATGCAAAGCAGTTGATGAATTCTAACACGTGGATTGTATG
TTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACACATG
GATTGTATGTTGA
Found at i:34074233 original size:94 final size:94
Alignment explanation
Indices: 34074124--34074310 Score: 275
Period size: 94 Copynumber: 2.0 Consensus size: 94
34074114 ATAGTTGAGT
* * **
34074124 TATGGTCTTACACATGTAACCACATGTTCAATGTTCTAGCGGACTACCCTGTGTTTAATGTCTCG
1 TATGGTCTTACACATGTAACCACACGTTCAATGTTCTAGCAGACTACCCCATGTTTAATGTCTCG
** *
34074189 GTAGACTCTCTATGTTGTTATAACCGAGC
66 ACAGACTCTCTATGTTGCTATAACCGAGC
* *
34074218 TATGGTCTTACACATGTAACCCCACGTTTAATGTTCTAGCAGACTACCCCATGTTTAATGTCTCG
1 TATGGTCTTACACATGTAACCACACGTTCAATGTTCTAGCAGACTACCCCATGTTTAATGTCTCG
* *
34074283 ACAGACTCTTTATGTTGCTATAGCCGAG
66 ACAGACTCTCTATGTTGCTATAACCGAG
34074311 TCAAATAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (94 bp):
TATGGTCTTACACATGTAACCACACGTTCAATGTTCTAGCAGACTACCCCATGTTTAATGTCTCG
ACAGACTCTCTATGTTGCTATAACCGAGC
Found at i:34074287 original size:27 final size:27
Alignment explanation
Indices: 34074236--34074289 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34074226 TACACATGTA
*
34074236 ACCCCACGTTTAATGTTCTAGCAGACT
1 ACCCCACGTTTAATGTTCGAGCAGACT
*
34074263 ACCCCATGTTTAATGTCTCGA-CAGACT
1 ACCCCACGTTTAATGT-TCGAGCAGACT
34074290 CTTTATGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
ACCCCACGTTTAATGTTCGAGCAGACT
Found at i:34074386 original size:13 final size:14
Alignment explanation
Indices: 34074363--34074391 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34074353 ATCAAATATT
34074363 GAAACAATAAAGAA
1 GAAACAATAAAGAA
34074377 GAAA-AATAAAGAA
1 GAAACAATAAAGAA
34074390 GA
1 GA
34074392 TAGATGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (14 bp):
GAAACAATAAAGAA
Found at i:34074839 original size:8 final size:8
Alignment explanation
Indices: 34074826--34074855 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34074816 AAATTTGGAA
34074826 TAATAAAT
1 TAATAAAT
34074834 TAATAAAT
1 TAATAAAT
*
34074842 TAATAAAA
1 TAATAAAT
34074850 TAATAA
1 TAATAA
34074856 TAGCTGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAATAAAT
Found at i:34078941 original size:39 final size:39
Alignment explanation
Indices: 34078889--34078967 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
34078879 ATTGGACAGG
34078889 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
1 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
* *
34078928 TGTTGTGTTTATTCTTTGTTAAAGGTTACTTCAGTTGGT
1 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
34078967 T
1 T
34078968 ATGATTTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.16, C:0.09, G:0.22, T:0.53
Consensus pattern (39 bp):
TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
Found at i:34080624 original size:20 final size:20
Alignment explanation
Indices: 34080599--34080639 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34080589 CTAAGTATTG
*
34080599 ATTAAGGTTAAGTTAGTTAA
1 ATTAAGGTTAAGTTAATTAA
* *
34080619 ATTAAGTTTATGTTAATTAA
1 ATTAAGGTTAAGTTAATTAA
34080639 A
1 A
34080640 CCAATTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTAAGGTTAAGTTAATTAA
Found at i:34081824 original size:51 final size:51
Alignment explanation
Indices: 34081745--34081852 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
34081735 ATTTTCAGTT
* ** * * * *
34081745 CATTTTCATTTTAGATAAAACCTTATTCATTTTCAAATGATTTCATTTTTC
1 CATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
* *
34081796 CATTTTCATTTTGGAGAAAATCACATTCATTTTAAAATAATTCCATTTCTC
1 CATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
34081847 CATTTT
1 CATTTT
34081853 GTTTTTCATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (51 bp):
CATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
Found at i:34085762 original size:4 final size:4
Alignment explanation
Indices: 34085742--34085781 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
34085732 GAAAATAGAT
34085742 TAAA TAGAA TAAAA TAAA TAAA T-AA TAAA TAAA TAAA TAA
1 TAAA TA-AA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
34085782 CGAGAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 6 0.18
6 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:34085773 original size:15 final size:15
Alignment explanation
Indices: 34085753--34085781 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34085743 AAATAGAATA
34085753 AAATAAATAAATAAT
1 AAATAAATAAATAAT
34085768 AAATAAATAAATAA
1 AAATAAATAAATAA
34085782 CGAGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:34087598 original size:43 final size:43
Alignment explanation
Indices: 34087537--34087648 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
34087527 CTAACACTAT
* * *
34087537 GTGTGCGAGTATAATTGCTTCGATTTG-TCCGATGATACACCTC
1 GTGTGCCAATATAATTGCTTCGACTTGCT-CGATGATACACCTC
* * *
34087580 GTGTGCCAATATAATTGCTTCGGCTTGCTCGATGGTACACCTT
1 GTGTGCCAATATAATTGCTTCGACTTGCTCGATGATACACCTC
34087623 GTGTGCCAATATAATTGCTTCGACTT
1 GTGTGCCAATATAATTGCTTCGACTT
34087649 ACTCAATAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 60 0.98
44 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (43 bp):
GTGTGCCAATATAATTGCTTCGACTTGCTCGATGATACACCTC
Found at i:34088308 original size:5 final size:5
Alignment explanation
Indices: 34088300--34088331 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
34088290 TAAGATAAGT
34088300 ATTTA ATTTA ATTTA ATTTA ATTTA ATATTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA A
34088332 AATATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:34088330 original size:39 final size:39
Alignment explanation
Indices: 34088241--34088331 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 39
34088231 CATTACATTA
34088241 AATTTAATATTAAGATAATCATTTTAATATTAAATTAAT
1 AATTTAATATTAAGATAATCATTTTAATATTAAATTAAT
** * *
34088280 AAAATACTATTAAGATAAGT-A-TTTAAT-TTAATTTAATTT
1 AATTTAATATTAAGATAA-TCATTTTAATATTAAATTAA--T
34088319 AATTTAATATTAA
1 AATTTAATATTAA
34088332 AATATTATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
37 8 0.19
38 6 0.14
39 27 0.64
40 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (39 bp):
AATTTAATATTAAGATAATCATTTTAATATTAAATTAAT
Found at i:34088760 original size:10 final size:10
Alignment explanation
Indices: 34088745--34088773 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
34088735 GAAAAGTATA
34088745 TTATTAATTT
1 TTATTAATTT
34088755 TTATTAA-TT
1 TTATTAATTT
34088764 TTATTAATTT
1 TTATTAATTT
34088774 AATTTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTAATTT
Found at i:34093113 original size:21 final size:20
Alignment explanation
Indices: 34093075--34093123 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
34093065 ACTTAAAGAG
34093075 TTTATTTTCAAGCGTTTTAAA
1 TTTATTTTCAAGCGTTTT-AA
* *
34093096 TTTATTTTCATAG-TTTTTTA
1 TTTATTTTCA-AGCGTTTTAA
34093116 TTTATTTT
1 TTTATTTT
34093124 AGTTCTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 14 0.56
22 2 0.08
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTATTTTCAAGCGTTTTAA
Found at i:34093187 original size:154 final size:155
Alignment explanation
Indices: 34092906--34093215 Score: 523
Period size: 154 Copynumber: 2.0 Consensus size: 155
34092896 AGGCTCTCCA
* *
34092906 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCGTAGTTTTTGCTTTATTTTA
1 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGATTTATTTTA
* *
34092971 GTTCTTTTATTTTAATAAGTATTTAATCATTTTGTACTTATTTTGAGATCCAAATTAGCCAAATG
66 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
34093036 CACCATTTGGAACCTAATGATCGAT
131 CACCATTTGGAACCTAATGATCGAT
* * ** *
34093061 TTACACTTAAAGAGTTTATTTTCAAGCGTTTTAAATTTA-TTTTCATAGTTTTTTATTTATTTTA
1 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGATTTATTTTA
34093125 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
66 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
*
34093190 CACCATTTGGAAGCTAATGATCGAT
131 CACCATTTGGAACCTAATGATCGAT
34093215 T
1 T
34093216 AATTGTTGTA
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
154 110 0.76
155 35 0.24
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (155 bp):
TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGATTTATTTTA
GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
CACCATTTGGAACCTAATGATCGAT
Found at i:34096693 original size:15 final size:15
Alignment explanation
Indices: 34096670--34096704 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
34096660 ATGGTAACAC
34096670 TTTTTTA-TTTTATT
1 TTTTTTATTTTTATT
34096684 TTTTTGTATTTTTATT
1 TTTTT-TATTTTTATT
34096700 TTTTT
1 TTTTT
34096705 AGTTATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 2 0.11
16 12 0.63
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTATTTTTATT
Found at i:34101735 original size:16 final size:16
Alignment explanation
Indices: 34101714--34101745 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34101704 GTAAAAGCTG
34101714 AAAACAATTAAATAAA
1 AAAACAATTAAATAAA
*
34101730 AAAACAGTTAAATAAA
1 AAAACAATTAAATAAA
34101746 TCTGAAGGAA
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:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAACAATTAAATAAA
Found at i:34105153 original size:22 final size:22
Alignment explanation
Indices: 34105128--34105171 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34105118 CATCTAGTAG
34105128 CTTTGATTTCATGAATGAGCAT
1 CTTTGATTTCATGAATGAGCAT
*
34105150 CTTTGATTTCATGAATTAGCAT
1 CTTTGATTTCATGAATGAGCAT
34105172 ACAAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (22 bp):
CTTTGATTTCATGAATGAGCAT
Found at i:34106614 original size:45 final size:44
Alignment explanation
Indices: 34106547--34106631 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
34106537 TCCCCAACTT
* * *
34106547 AAAAAAAAAAAAACAAGTGGGGGGGGGGGGTTGAGAGTCTTTTA
1 AAAAAAAAAAAAAAAAGGGGGGGGGGGGGGTTCAGAGTCTTTTA
34106591 AAAAAAAAAAAAAAAAGGGGGGGGGGGGGGGTTCAGAGTCT
1 AAAAAAAAAAAAAAAA-GGGGGGGGGGGGGGTTCAGAGTCT
34106632 ATCCTTCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.42, C:0.05, G:0.39, T:0.14
Consensus pattern (44 bp):
AAAAAAAAAAAAAAAAGGGGGGGGGGGGGGTTCAGAGTCTTTTA
Found at i:34112413 original size:19 final size:19
Alignment explanation
Indices: 34112391--34112434 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
34112381 TAAGTAATGT
34112391 TAAAAAAT-TCAATTAGAAA
1 TAAAAAATAT-AATTAGAAA
*
34112410 TAAAAAATATAATTAGTAA
1 TAAAAAATATAATTAGAAA
34112429 TAAAAA
1 TAAAAA
34112435 CATTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAAAAATATAATTAGAAA
Found at i:34120980 original size:39 final size:39
Alignment explanation
Indices: 34120864--34120981 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
34120854 AGATGTTTTA
* * *
34120864 GAGTATTGTGGTATATGCTTGAATGTTATGTGATTTTAC
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* * * * * * *
34120903 AAGTATTATGAAATATGCTTAAACGTCATGAGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* * *
34120942 GAGTATGGTGATATATGCTTGTATGTTATGTGACTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
34120981 G
1 G
34120982 TTAAATATGA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (39 bp):
GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
Found at i:34134947 original size:44 final size:44
Alignment explanation
Indices: 34134854--34136383 Score: 1198
Period size: 44 Copynumber: 34.5 Consensus size: 44
34134844 GACTGGATAT
* * * * * * **
34134854 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGAAGGTAA
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
**
34134899 GATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGTTAT-CTTCGATCTACTTCACACCAATACATGAAGACAA
* * * * * ***
34134943 GATCTATTTTCTTCGATCTATTTCGCCACCAGTATGGGAAGACAA
1 GATCTGTTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * * * *
34134988 GATCTGCTATCTTTGATCTATTTCACGCTAATATATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* *
34135032 GATCTGTCATCTTCGATCTACTTCACACCAATACGTGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * * *
34135076 GATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * *** *
34135120 GATCTGCTT-TTTTCGATCTACTTCGCCACCAATATGGGGAGACAA
1 GATCTG-TTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * * *
34135165 GATCTG-CATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* ** *
34135208 GTTCTCCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * ***
34135252 GATCTGCTT-TCTTCGATCTATTTTGC-CACTAGTATGGGAAGACAA
1 GATCTG-TTATCTTCGATCTA-CTT-CACACCAATACATGAAGACAA
* * * * *
34135297 GATCTG-CATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* *
34135340 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * ***
34135384 GATTTACTT-TCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCT-GTTATCTTCGATCTACTTCA-CACCAATACATGAAGACAA
* * * * * *
34135429 GATCTG-CATCTTCGATCCACTTC-CTACCAACATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* * * *
34135472 GATCTGCTATCTTCGATCTAACTTCGCCACCAGTATGA-GAAGACAA
1 GATCTGTTATCTTCGATCT-ACTTC-ACACCAATA-CATGAAGACAA
*
34135518 TATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
** * *
34135562 GATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * ***
34135606 GATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTG-TTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * *
34135651 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * ** *
34135695 GATCTGCTACCTTTGATCTACTTCATGCCGATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * ***
34135739 GATCTACTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCT-GTTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * * * *
34135784 GATCTGCTATCTTTGATCTATTTCACGCTAATATATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* *
34135828 GATCTGTCATCTTCGATCTACTTCACACCAATACGTGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * * *
34135872 GATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * *** *
34135916 GATCTGCTT-TTTTCGATCTACTTCGCCACCAATATGGGGAGACAA
1 GATCTG-TTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * * *
34135961 GATCTG-CATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* * * *
34136004 GATCTGCTATCTTCGATCTAACTTCGCCACCAGTATGA-GAAGACAA
1 GATCTGTTATCTTCGATCT-ACTTC-ACACCAATA-CATGAAGACAA
* *
34136050 TATCTGTTATCTTCGATCTACTTCACACCAATACGTGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * * *
34136094 GATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * *** *
34136138 GATCTGCTT-TTTTCGATCTACTTCGCCACCAATATGGGGAGACAA
1 GATCTG-TTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * * * *
34136183 GATCTG-CATCTTCGATCCACTTC-CTACCAACATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* * * *
34136226 GATCTGCTATCTTCGATCTAACTTCGCCACCAGTATGA-GAAGACAA
1 GATCTGTTATCTTCGATCT-ACTTC-ACACCAATA-CATGAAGACAA
*
34136272 TATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
** * *
34136316 GATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
34136360 GATCTGCTT-TCTTCGATCTACTTC
1 GATCTG-TTATCTTCGATCTACTTC
34136384 GCCACCAGTA
Statistics
Matches: 1179, Mismatches: 253, Indels: 107
0.77 0.16 0.07
Matches are distributed among these distances:
42 6 0.01
43 107 0.09
44 715 0.61
45 254 0.22
46 91 0.08
47 6 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
GATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAA
Found at i:34135589 original size:222 final size:219
Alignment explanation
Indices: 34134854--34136451 Score: 1562
Period size: 222 Copynumber: 7.2 Consensus size: 219
34134844 GACTGGATAT
* * * * * ** * *
34134854 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGAAGGTAAGATCTGTTATCCTTGATCTA
1 GATCTGC-ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTA
* * * * *
34134919 CTTCATGCCAATACATGAAGACAAGATCTATTTTCTTCGATCTATTTCGCCACCAGTATGGGAAG
64 CTTCACGCCAATACATGAAGACAAGATCT-CTTTCTTCGATCTACTTCACCACCAATATGGGAAG
* *
34134984 ACAAGATCTGCTATCTTTGATCTA-TTTCACGCTAATATATGAAGACAAGATCTG-TCATCTTCG
128 ACAAGATCTGCTATCTTTGATCTACTTCCAC-C-AATATATGAAGACAAGATCTGCT-TTCTTCG
* * *
34135047 ATCTACTTC-ACACCAATACGTGAAGACAA
190 ATCTACTTCGCCACCAATATGGGAAGACAA
* * * * * * *
34135076 GATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAAGATCTGCT-TTTTTCGATCTA
1 GATCTGC-ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTT-GATCTA
* * *** * * * * *
34135140 CTTCGCCACCAATATGGGGAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
64 CTTC-ACGCCAATACATGAAGACAAGATCT-CTTTCTTCGATCTACTTCACCACCAATATGGGAA
* * * * * *
34135203 GACAGGTTCTCCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA
127 GACAAGATCTGCTATCTTTGATCTACTTC-CACCAATATATGAAGACAAGATCTGCTTTCTTCGA
* * * *
34135268 TCTATTTTGCCACTAGTATGGGAAGACAA
191 TCTACTTCGCCACCAATATGGGAAGACAA
* * *
34135297 GATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
1 GATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACT
* *
34135362 TCACGCCAATACATGAAGACAAGATTTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
66 TCACGCCAATACATGAAGACAAGATCT-CTTTCTTCGATCTACTTCACCACCAATATGGGAAGAC
* * * * * *
34135427 AAGATCTGC-ATCTTCGATCCACTTCCTACCAACATAGGAAGACAGGATCTGCTATCTTCGATCT
130 AAGATCTGCTATCTTTGATCTACTTCC-ACCAATATATGAAGACAAGATCTGCTTTCTTCGATCT
* *
34135491 AACTTCGCCACCAGTATGAGAAGACAA
194 -ACTTCGCCACCAATATGGGAAGACAA
* * * * *
34135518 TATCTGTTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTG-CATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTA
* *
34135582 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
64 CTTCACGCCAATACATGAAGACAAGATCT-CTTTCTTCGATCTACTTCACCACCAATATGGGAAG
* * * * ** *
34135647 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTACCTTTGAT
128 ACAAGATCTGCTATCTTTGATCTACTTC-CACCAATATATGAAGACAAGATCTGCTTTCTTCGAT
*** * ***
34135712 CTACTTC-ATGCCGATACATGAAGACAA
192 CTACTTCGCCACCAATATGGGAAGACAA
* * * * *
34135739 GATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGC-ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTA
* * * * * * *
34135804 TTTCACGCTAATATATGAAGACAAGATCTGTCATCTTCGATCTACTTCA-CACCAATACGTGAAG
64 CTTCACGCCAATACATGAAGACAAGATCTCT-TTCTTCGATCTACTTCACCACCAATATGGGAAG
* * * * *
34135868 ACAAGATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAAGATCTGCTTTTTTCGAT
128 ACAAGATCTGCTATCTTTGATCTACTTC-CACCAATATATGAAGACAAGATCTGCTTTCTTCGAT
*
34135933 CTACTTCGCCACCAATATGGGGAGACAA
192 CTACTTCGCCACCAATATGGGAAGACAA
* * *
34135961 GATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTAAC
1 GATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCT-AC
* * * * * * * *
34136026 TTCGCCACCAGTATGA-GAAGACAATATCTGTTATCTTCGATCTACTTCA-CACCAATACGTGAA
65 TTC-ACGCCAATA-CATGAAGACAAGATCTCTT-TCTTCGATCTACTTCACCACCAATATGGGAA
* * * * *
34136089 GACAAGATCTGCTACCTTTGATCTACTTCATACCGATACATGAAGACAAGATCTGCTTTTTTCGA
127 GACAAGATCTGCTATCTTTGATCTACTTC-CACCAATATATGAAGACAAGATCTGCTTTCTTCGA
*
34136154 TCTACTTCGCCACCAATATGGGGAGACAA
191 TCTACTTCGCCACCAATATGGGAAGACAA
* * * *
34136183 GATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAGGATCTGCTATCTTCGATCTAAC
1 GATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCT-AC
* * * * * * ***
34136248 TTCGCCACCAGTATGA-GAAGACAATATCTGTTATCTTCGATCTACTTCA-CACCAATACATGAA
65 TTC-ACGCCAATA-CATGAAGACAAGATCTCTT-TCTTCGATCTACTTCACCACCAATATGGGAA
* * *
34136311 GACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA
127 GACAAGATCTGCTATCTTTGATCTACTTC-CACCAATATATGAAGACAAGATCTGCTTTCTTCGA
*
34136376 TCTACTTCGCCACCAGTATGGGAAGACAA
191 TCTACTTCGCCACCAATATGGGAAGACAA
* *
34136405 GA--T-C-T-TT-GATCCACTTCCTACCAATATAGGAAGACATGATCTGCTAT
1 GATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTAT
34136452 TTTCAACCTA
Statistics
Matches: 1181, Mismatches: 172, Indels: 52
0.84 0.12 0.04
Matches are distributed among these distances:
216 38 0.03
217 2 0.00
218 1 0.00
219 21 0.02
220 210 0.18
221 245 0.21
222 617 0.52
223 46 0.04
224 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (219 bp):
GATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACT
TCACGCCAATACATGAAGACAAGATCTCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACA
AGATCTGCTATCTTTGATCTACTTCCACCAATATATGAAGACAAGATCTGCTTTCTTCGATCTAC
TTCGCCACCAATATGGGAAGACAA
Found at i:34136437 original size:37 final size:38
Alignment explanation
Indices: 34136369--34136446 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
34136359 AGATCTGCTT
* * *
34136369 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
1 TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* * *
34136407 TCTTTGATCCACTTC-CTACCAATATAGGAAGACATGA
1 TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
34136444 TCT
1 TCT
34136447 GCTATTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 21 0.62
38 13 0.38
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (38 bp):
TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
Found at i:34136839 original size:26 final size:25
Alignment explanation
Indices: 34136805--34136853 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
34136795 GTGTCTTGAA
*
34136805 AAGAAAAAG-ATATTCAAGAACAATG
1 AAGAAAAAGCAT-TACAAGAACAATG
34136830 AAGAATAAAGCATTACAAGAACAA
1 AAGAA-AAAGCATTACAAGAACAA
34136854 AAAAATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 14 0.67
27 2 0.10
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.14
Consensus pattern (25 bp):
AAGAAAAAGCATTACAAGAACAATG
Found at i:34146608 original size:35 final size:35
Alignment explanation
Indices: 34146562--34146632 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
34146552 ATGTCGAAAC
34146562 CATTTTCATTTTTGAAAAAAACAAAAATTAGTTGT
1 CATTTTCATTTTTGAAAAAAACAAAAATTAGTTGT
34146597 CATTTTCATTTTTGAAAAAAACAAAAATTAGTTGT
1 CATTTTCATTTTTGAAAAAAACAAAAATTAGTTGT
34146632 C
1 C
34146633 GATGAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (35 bp):
CATTTTCATTTTTGAAAAAAACAAAAATTAGTTGT
Found at i:34149154 original size:42 final size:42
Alignment explanation
Indices: 34149102--34149192 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
34149092 TCATTATGTT
*
34149102 TGAGTCATAAATTAGACGTGATGTTTCATTATGTTTGTTATA
1 TGAGTCATAAATTAGACGTGATGTTTCACTATGTTTGTTATA
* * *
34149144 TGAGTTATAAATTAGATGTGATGTTTCACTATGTTTTTTATA
1 TGAGTCATAAATTAGACGTGATGTTTCACTATGTTTGTTATA
*
34149186 TTAGTCA
1 TGAGTCA
34149193 AGAAAGTAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (42 bp):
TGAGTCATAAATTAGACGTGATGTTTCACTATGTTTGTTATA
Found at i:34158185 original size:16 final size:17
Alignment explanation
Indices: 34158164--34158199 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34158154 TCCTTCTTTC
34158164 TCTTTTTC-TTTTTCTT
1 TCTTTTTCGTTTTTCTT
*
34158180 TCTTTTTCGTTTTTGTT
1 TCTTTTTCGTTTTTCTT
34158197 TCT
1 TCT
34158200 CTGTTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (17 bp):
TCTTTTTCGTTTTTCTT
Found at i:34158259 original size:5 final size:5
Alignment explanation
Indices: 34158246--34158276 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
34158236 TTTATTTGTT
*
34158246 TATAA TATAG TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA T
34158277 TACTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:34159378 original size:50 final size:50
Alignment explanation
Indices: 34159310--34159408 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
34159300 TTAATTGTCC
*
34159310 TAACAACCTTAACGAAAAAGTGAGGT-AGAACATTAATTCAAGGGTTAATG
1 TAACAACCTTAACGAAAAAGTGAGGTGAG-ACATTAATTCAAAGGTTAATG
*
34159360 TAACAACCTTAATGAAAAAGTGAGGTGAGACATTAATTCAAAGGTTAAT
1 TAACAACCTTAACGAAAAAGTGAGGTGAGACATTAATTCAAAGGTTAAT
34159409 ATCCAATTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (50 bp):
TAACAACCTTAACGAAAAAGTGAGGTGAGACATTAATTCAAAGGTTAATG
Found at i:34161829 original size:4 final size:4
Alignment explanation
Indices: 34161809--34161875 Score: 116
Period size: 4 Copynumber: 16.8 Consensus size: 4
34161799 GTCCTTGAGG
* *
34161809 TATC TATC CATC CATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
34161857 TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TAT
34161876 GTCTAATGCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (4 bp):
TATC
Found at i:34166957 original size:29 final size:29
Alignment explanation
Indices: 34166915--34166979 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
34166905 TGGTTTAGCC
34166915 TGAGCAACCCTGATCACTGTCAACTTGTG
1 TGAGCAACCCTGATCACTGTCAACTTGTG
*
34166944 TGAGCAACCCTGATCACTGTCAGCTTGTG
1 TGAGCAACCCTGATCACTGTCAACTTGTG
34166973 TGAGCAA
1 TGAGCAA
34166980 TATAGTCTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (29 bp):
TGAGCAACCCTGATCACTGTCAACTTGTG
Found at i:34173005 original size:62 final size:57
Alignment explanation
Indices: 34172907--34173030 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 57
34172897 AATATTTAAT
* * * * *
34172907 TAATATAATATTTATCAAGATAAATATTATATTAAATTTAATATTAAATCTTATTAAAA
1 TAATAGAATATTTATCAAGATAAACAGTAAATTAAATTTAATACTAAA-C-TATTAAAA
34172966 TAATAGAATATTTATCTATAAGATAAACAGTAAATTAAATTTAATACTAAACTATTAAAA
1 TAATAGAATATTTATC---AAGATAAACAGTAAATTAAATTTAATACTAAACTATTAAAA
34173026 TAATA
1 TAATA
34173031 TTATTTTTGG
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
59 15 0.26
60 13 0.23
61 1 0.02
62 28 0.49
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (57 bp):
TAATAGAATATTTATCAAGATAAACAGTAAATTAAATTTAATACTAAACTATTAAAA
Found at i:34177028 original size:19 final size:19
Alignment explanation
Indices: 34176991--34177028 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34176981 CTAATTAATT
*
34176991 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
34177010 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
34177029 GAAAAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:34178155 original size:23 final size:23
Alignment explanation
Indices: 34178124--34178213 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
34178114 GGCTTTGCCA
*
34178124 ATCATGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
34178147 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* ****
34178170 TTCAGGCACCCCGTGTGTC--AT
1 ATCAGGCACTTTATGTGTCGTAT
*
34178191 TTCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
34178213 A
1 A
34178214 CTGATCAGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.11
21 11 0.20
22 2 0.04
23 36 0.65
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:34181589 original size:24 final size:24
Alignment explanation
Indices: 34181540--34181589 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
34181530 ACCCTCGTAC
*
34181540 TCATCTTCATCTCCACCGTCGTCT
1 TCATCTTCATCTCCACCGTCGGCT
*
34181564 TCATCTTCATCTCTACTC-TCGGCT
1 TCATCTTCATCTCCAC-CGTCGGCT
34181588 TC
1 TC
34181590 GTCTCTATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.40, G:0.08, T:0.40
Consensus pattern (24 bp):
TCATCTTCATCTCCACCGTCGGCT
Found at i:34183534 original size:10 final size:10
Alignment explanation
Indices: 34183521--34183561 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
34183511 TTTAATAAAA
34183521 TAAAATATTT
1 TAAAATATTT
34183531 TAAAATATTT
1 TAAAATATTT
34183541 TAAAA-A--T
1 TAAAATATTT
*
34183548 TAAAAAATTT
1 TAAAATATTT
34183558 TAAA
1 TAAA
34183562 TTTAACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.21
8 1 0.04
9 1 0.04
10 20 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAATATTT
Found at i:34188193 original size:56 final size:56
Alignment explanation
Indices: 34188118--34188230 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
34188108 GCAAGACATT
34188118 TATTCATTAAACAGATAAAACGGATGACAAAGAAATCCATGAAATTGCAATAAGAG
1 TATTCATTAAACAGATAAAACGGATGACAAAGAAATCCATGAAATTGCAATAAGAG
34188174 TATTCATTAAACAGATAAAACGGATGACAAAGAAATCCATGAAATTGCAATAAGAG
1 TATTCATTAAACAGATAAAACGGATGACAAAGAAATCCATGAAATTGCAATAAGAG
34188230 T
1 T
34188231 TGGAAAATCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (56 bp):
TATTCATTAAACAGATAAAACGGATGACAAAGAAATCCATGAAATTGCAATAAGAG
Found at i:34195986 original size:17 final size:18
Alignment explanation
Indices: 34195961--34196000 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
34195951 ATTTTAAACG
* *
34195961 TAAATTTTTAAATTATA-
1 TAAAATTTTAAAATATAT
34195978 TAAAATTTTAAAATATAT
1 TAAAATTTTAAAATATAT
34195996 TAAAA
1 TAAAA
34196001 ATAGTGGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTTTAAAATATAT
Found at i:34199046 original size:70 final size:70
Alignment explanation
Indices: 34198946--34199100 Score: 240
Period size: 70 Copynumber: 2.2 Consensus size: 70
34198936 TCATGATGTG
* * *
34198946 CCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCTGCTGTAATTTCAAGGCTCGTTGATTTCATAT
1 CCTCTAAATAGTTAGCAAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGTTGATTTCATAT
34199011 CGCGA
66 CGCGA
*
34199016 CCTCTAAATAGTTAGCAAGA-TTCAAAAGCTCCCAGCTGTAATTTTAAGGCTCGTTGATTTCATA
1 CCTCTAAATAGTTAGCAAGAGTT-AAAAGCTCCCAGCTGTAATTTCAAGGCTCGTTGATTTCATA
*
34199080 TCGCGG
65 TCGCGA
*
34199086 CCTCTAAACAGTTAG
1 CCTCTAAATAGTTAG
34199101 TGTAACGGCC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
69 2 0.03
70 76 0.97
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (70 bp):
CCTCTAAATAGTTAGCAAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGTTGATTTCATAT
CGCGA
Found at i:34201872 original size:70 final size:70
Alignment explanation
Indices: 34201686--34202304 Score: 600
Period size: 70 Copynumber: 8.8 Consensus size: 70
34201676 TAGGGGTGTT
** * *
34201686 ACAGTTAGCGAGAGTTAAAAGCTCGTAGTTGTAATTTCAAGGCTCGCT-AGTTTCATATTGCAAC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGA-TTTCATATCGCAAC
*
34201750 CTCCAA
65 CTCTAA
* * * * * *
34201756 ACAAACGGTAAGTGATAGTTAAAAGCTCCTAACTATAATTTCAAGGCTCGCTGATTTCATATCGC
1 AC--A--GTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGC
**
34201821 GGCCTCTAA
62 AACCTCTAA
* * * * *
34201830 ATAGTTAGCTAGAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
*
34201895 TCCAA
66 TCTAA
** * * * * **
34201900 ACAGTTAGC-A-AGTTAAAAGCTCTTAACTGTAATTTCAAGGCTTGTTGATTTCATATTGCGGCC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
*
34201963 TCCAA
66 TCTAA
* *
34201968 ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAACC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
34202033 T-TCAA
66 TCT-AA
* * * *** *
34202038 ACAGTTAGCAAGAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGTGGCT
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
*
34202103 TCCAA
66 TCTAA
* * * * * * *
34202108 ACAATTAGTGAGAGCTAAATGCTCTCAGCTGTAATTTCAAGACTCGCTGATTTCATATTGCAACC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
34202173 T-TCAA
66 TCT-AA
* * * * * * * **
34202178 ACAGTTAGCAATAGTTAAAAACTCCCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTGTAGTC
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
*
34202243 TTTAA
66 TCTAA
* * * * *
34202248 ACTGTTAGCGAGACTTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATA
1 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATA
34202305 ACGCTAGAAT
Statistics
Matches: 448, Mismatches: 90, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
68 58 0.13
69 2 0.00
70 329 0.73
71 1 0.00
72 2 0.00
74 55 0.12
75 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (70 bp):
ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
TCTAA
Found at i:34202132 original size:140 final size:140
Alignment explanation
Indices: 34201686--34202304 Score: 681
Period size: 140 Copynumber: 4.4 Consensus size: 140
34201676 TAGGGGTGTT
* * *
34201686 ACAGTTAGCGAGAGTTAAAAGCTCGT-AGTTGTAATTTCAAGGCTCGCT-AGTTTCATATTGCAA
1 ACAGTTAGTGAGAGTTAAAAGCTC-TCAGCTGTAATTTCAAGGCTCGCTGA-TTTCATATCGCAA
* ** * *
34201749 CCTCCAAACAAACGGTAAGTGATAGTTAAAAGCTCCTAACTATAATTTCAAGGCTCGCTGATTTC
64 CCTCCAAAC--A--GTTAGCAATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTC
*
34201814 ATATCGCGGCCTCTAA
125 ATATCGCGGCCTCCAA
* * * * *
34201830 ATAGTTAGCT-AGAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGAC
1 ACAGTTAG-TGAGAGTTAAAAGCTCTCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAAC
** * * *
34201894 CTCCAAACAGTTAGC-A-AGTTAAAAGCTCTTAACTGTAATTTCAAGGCTTGTTGATTTCATATT
65 CTCCAAACAGTTAGCAATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATC
34201957 GCGGCCTCCAA
130 GCGGCCTCCAA
* *
34201968 ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAACC
1 ACAGTTAGTGAGAGTTAAAAGCTCTCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
* * ** *
34202033 TTCAAACAGTTAGCAAGAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCG
66 TCCAAACAGTTAGCAATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCG
* *
34202098 TGGCTTCCAA
131 CGGCCTCCAA
* * * * *
34202108 ACAATTAGTGAGAGCTAAATGCTCTCAGCTGTAATTTCAAGACTCGCTGATTTCATATTGCAACC
1 ACAGTTAGTGAGAGTTAAAAGCTCTCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
* * ** * *
34202173 TTCAAACAGTTAGCAATAGTTAAAAACTCCCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTG
66 TCCAAACAGTTAGCAATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCG
** * **
34202238 TAGTCTTTAA
131 CGGCCTCCAA
* * * * * * *
34202248 ACTGTTAGCGAGACTTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATA
1 ACAGTTAGTGAGAGTTAAAAGCTCTCAGCTGTAATTTCAAGGCTCGCTGATTTCATA
34202305 ACGCTAGAAT
Statistics
Matches: 410, Mismatches: 59, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
138 122 0.30
139 2 0.00
140 221 0.54
142 1 0.00
144 63 0.15
145 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (140 bp):
ACAGTTAGTGAGAGTTAAAAGCTCTCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACC
TCCAAACAGTTAGCAATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCG
CGGCCTCCAA
Found at i:34202268 original size:210 final size:208
Alignment explanation
Indices: 34201715--34202304 Score: 716
Period size: 210 Copynumber: 2.8 Consensus size: 208
34201705 AGCTCGTAGT
* *
34201715 TGTAATTTCAAGGCTCGCT-AGTTTCATATTGCAACCTCCAAACAAACGGTAAGTGATAGTTAAA
1 TGTAATTTCAAGGCTCGCTGA-TTTCATATTGCAACCTCCAAAC--A--GTTAGCGATAGTTAAA
* * * * *
34201779 AGCTCCTAACTATAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAA-TAGTTAGCTAGA
61 AGCTCCCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTTAAACT-GTTAGCAAGA
*
34201843 GTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAGTTAG
125 GTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAG
* *
34201908 CAAGTTAAAAGCTCTTAAC
190 CAAGCTAAAAGCTCTCAAC
* * ** *
34201927 TGTAATTTCAAGGCTTGTTGATTTCATATTGCGGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTC
1 TGTAATTTCAAGGCTCGCTGATTTCATATTGCAACCTCCAAACAGTTAGCGATAGTTAAAAGCTC
* * * *
34201992 TCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAACCTTCAAACAGTTAGCAAGAGTTAAA
66 CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTTAAACTGTTAGCAAGAGTTAAA
* * * *
34202057 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGTGGCTTCCAAACAATTAGTGAGAG
131 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAG-CA-AG
* *
34202122 CTAAATGCTCTCAGC
194 CTAAAAGCTCTCAAC
* * * *
34202137 TGTAATTTCAAGACTCGCTGATTTCATATTGCAACCTTCAAACAGTTAGCAATAGTTAAAAACTC
1 TGTAATTTCAAGGCTCGCTGATTTCATATTGCAACCTCCAAACAGTTAGCGATAGTTAAAAGCTC
* * * * * * * *
34202202 CCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTGTAGTCTTTAAACTGTTAGCGAGACTTAAA
66 CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTTAAACTGTTAGCAAGAGTTAAA
** * * *
34202267 AGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATA
131 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATA
34202305 ACGCTAGAAT
Statistics
Matches: 323, Mismatches: 51, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
208 128 0.40
209 1 0.00
210 156 0.48
212 37 0.11
213 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (208 bp):
TGTAATTTCAAGGCTCGCTGATTTCATATTGCAACCTCCAAACAGTTAGCGATAGTTAAAAGCTC
CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTTAAACTGTTAGCAAGAGTTAAA
AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAGCAAGCT
AAAAGCTCTCAAC
Found at i:34202463 original size:58 final size:58
Alignment explanation
Indices: 34202381--34202666 Score: 322
Period size: 58 Copynumber: 4.9 Consensus size: 58
34202371 TAACTTGTGA
* * * * * *
34202381 ATTTATATTCTCAACTGATTATTTTAGAAAATATGTTTAAGTTCAGAACAACTTGCAG
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * * *
34202439 ATTTATATTCCCAGTTGATGATTTTGGAAAATTTGTTTAAGCTCAGAACAGCTCGC-G
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * * * *
34202496 AATTTATATTCCCAGCTAATGATTTTTTGAATATTTGTTAAAGTTTAAAACAGCTCGCAG
1 -ATTTATATTCCCAGCTGATTA-TTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * *
34202556 ATTTATATTCCCAACTGATTATTTTAGAAAATATGCTTAAGTTCAAAATAGCTCGCAG
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * *
34202614 ATTTATATTCCTAGCTGATTATTTTGGAAAATTTGCTTAAGTTCAAAATAGCT
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCT
34202667 TGCGGACTCA
Statistics
Matches: 194, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.01
58 145 0.75
59 47 0.24
60 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (58 bp):
ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
Found at i:34202790 original size:13 final size:14
Alignment explanation
Indices: 34202756--34202790 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34202746 ATGATAAGCT
*
34202756 TGTAAAAACTATAA
1 TGTAATAACTATAA
34202770 TGTAATAACTATAA
1 TGTAATAACTATAA
34202784 T-TAATAA
1 TGTAATAA
34202791 AGGCAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (14 bp):
TGTAATAACTATAA
Found at i:34216309 original size:17 final size:17
Alignment explanation
Indices: 34216283--34216324 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
34216273 AAGAAATTAG
34216283 AATTAGATTGAAAATTTT
1 AATTA-ATTGAAAATTTT
*
34216301 ATTTAATTGAAAATTTT
1 AATTAATTGAAAATTTT
34216318 AATTAAT
1 AATTAAT
34216325 AAATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (17 bp):
AATTAATTGAAAATTTT
Found at i:34217686 original size:18 final size:18
Alignment explanation
Indices: 34217663--34217704 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
34217653 TGCAGCACAT
34217663 TGCATG-GTTCGCATGAAA
1 TGCATGTGTT-GCATGAAA
*
34217681 TGCATGTGTTGCATGGAA
1 TGCATGTGTTGCATGAAA
34217699 TGCATG
1 TGCATG
34217705 AAATGCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (18 bp):
TGCATGTGTTGCATGAAA
Found at i:34217693 original size:27 final size:27
Alignment explanation
Indices: 34217673--34217730 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
34217663 TGCATGGTTC
*
34217673 GCATGAAATGCATGTGTTGCATGGAAT
1 GCATGAAATGCATATGTTGCATGGAAT
* *
34217700 GCATGAAATGCATATTTTGCATGGAAC
1 GCATGAAATGCATATGTTGCATGGAAT
34217727 GCAT
1 GCAT
34217731 AGTGTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
GCATGAAATGCATATGTTGCATGGAAT
Found at i:34225104 original size:20 final size:22
Alignment explanation
Indices: 34225064--34225106 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
34225054 TGTTAAAATT
34225064 TTTTGAAGTTTTCATTGATGAA
1 TTTTGAAGTTTTCATTGATGAA
*
34225086 TTTTGAA-TTTTTA-TGATGAA
1 TTTTGAAGTTTTCATTGATGAA
34225106 T
1 T
34225107 ACCATGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (22 bp):
TTTTGAAGTTTTCATTGATGAA
Found at i:34225849 original size:35 final size:36
Alignment explanation
Indices: 34225803--34225884 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
34225793 TACTCTCTGT
*
34225803 TTGGCGTGTTTCGGTTGGACTAGCTTTTATGAGC-A
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCAA
* *
34225838 TTGGCGTGTTTCGGTTGGATTAGCTCTTGTGAGCAA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCAA
*
34225874 TTGGTGTGTTT
1 TTGGCGTGTTT
34225885 TGAAGGGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 31 0.74
36 11 0.26
ACGTcount: A:0.12, C:0.12, G:0.33, T:0.43
Consensus pattern (36 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCAA
Found at i:34232330 original size:15 final size:15
Alignment explanation
Indices: 34232310--34232352 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
34232300 TCGACAATAA
34232310 ATTAAAAAATTAAGT
1 ATTAAAAAATTAAGT
*
34232325 ATTAAAGAAA-TGAGT
1 ATTAAA-AAATTAAGT
34232340 ATTGAAAAAATTA
1 ATT-AAAAAATTA
34232353 GTTTGGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (15 bp):
ATTAAAAAATTAAGT
Found at i:34233913 original size:27 final size:27
Alignment explanation
Indices: 34233883--34233937 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34233873 TATTTATCAA
34233883 GTTAGTTTAGTAATGAATTAGATCTTG
1 GTTAGTTTAGTAATGAATTAGATCTTG
34233910 GTTAGTTTAGTAATGAATTAGATCTTG
1 GTTAGTTTAGTAATGAATTAGATCTTG
34233937 G
1 G
34233938 CTAAGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.44
Consensus pattern (27 bp):
GTTAGTTTAGTAATGAATTAGATCTTG
Found at i:34234135 original size:3 final size:3
Alignment explanation
Indices: 34234127--34234181 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
34234117 TATATGTTAT
34234127 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34234175 ATA ATA A
1 ATA ATA A
34234182 CAAAAGAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34238981 original size:14 final size:15
Alignment explanation
Indices: 34238964--34238997 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34238954 AATAAATATC
34238964 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
34238978 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
34238993 TAAAA
1 TAAAA
34238998 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:34239224 original size:22 final size:22
Alignment explanation
Indices: 34239194--34239235 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34239184 ATTTGGAGAT
*
34239194 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
34239216 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
34239236 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:34239243 original size:30 final size:30
Alignment explanation
Indices: 34239207--34239265 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
34239197 TTGAAGGAAA
* *
34239207 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGAATTTGAGAGT
34239237 TTGAGAGAATTTTGAAAGGAATTTGAGAG
1 TTGAGAGAATTTTGAAAGGAATTTGAGAG
34239266 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGAATTTGAGAGT
Found at i:34239280 original size:23 final size:23
Alignment explanation
Indices: 34239236--34239297 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
34239226 AATTTGAGAG
34239236 TTTGAGAGAA-TTTTGAAAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
*
34239258 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
34239281 -TTGAGAGAATTTTTGAA
1 TTTGAGAGAATTTTTGAA
34239298 GGATATTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 27 0.71
23 11 0.29
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (23 bp):
TTTGAGAGAATTTTTGAAAGGAA
Found at i:34239294 original size:22 final size:21
Alignment explanation
Indices: 34239237--34239306 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 21
34239227 ATTTGAGAGT
34239237 TTGAGAGAA-TTTTGAAAGGAA
1 TTGAGAGAATTTTTG-AAGGAA
34239258 TTTGAGAGAATTTTTGAACGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
34239281 TTGAGAGAATTTTTGAAGGATA
1 TTGAGAGAATTTTTGAAGGA-A
34239303 TTGA
1 TTGA
34239307 TATTGATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.07
22 33 0.73
23 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.34
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:34246487 original size:10 final size:9
Alignment explanation
Indices: 34246448--34246553 Score: 65
Period size: 9 Copynumber: 11.4 Consensus size: 9
34246438 ACATGTAGCA
34246448 AAAAATTAT
1 AAAAATTAT
34246457 AAAAA--AT
1 AAAAATTAT
*
34246464 AAAAATCAAT
1 AAAAAT-TAT
*
34246474 AAAAGTTAT
1 AAAAATTAT
34246483 AAAAATTATT
1 AAAAATTA-T
**
34246493 AAATTTTAAT
1 AAAAATT-AT
34246503 AAAAA-TAT
1 AAAAATTAT
*
34246511 AAAAAATATTT
1 -AAAAAT-TAT
**
34246522 AAATTTTATT
1 AAAAATTA-T
*
34246532 AAAAATTAA
1 AAAAATTAT
34246541 AAAAATTAT
1 AAAAATTAT
34246550 AAAA
1 AAAA
34246554 TACATCAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
7 7 0.10
8 2 0.03
9 33 0.45
10 28 0.38
11 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:34246552 original size:28 final size:28
Alignment explanation
Indices: 34246471--34246552 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
34246461 AATAAAAATC
* *
34246471 AATAAAAGTTATAAAAATTATTAAATTTT
1 AATAAAAATTAAAAAAATTA-TAAATTTT
34246500 AATAAAAATATAAAAAATATT-TAAATTTT
1 AATAAAAAT-TAAAAAA-ATTATAAATTTT
*
34246529 ATTAAAAATTAAAAAAATTATAAA
1 AATAAAAATTAAAAAAATTATAAA
34246553 ATACATCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 3 0.06
28 11 0.23
29 24 0.51
30 6 0.13
31 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
AATAAAAATTAAAAAAATTATAAATTTT
Found at i:34246944 original size:24 final size:24
Alignment explanation
Indices: 34246917--34246967 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
34246907 TATTTTTTAT
*
34246917 AATTTTTATAAAAGATGATTATTA
1 AATTTCTATAAAAGATGATTATTA
34246941 AATTTCTATAAAAGATGATTATTA
1 AATTTCTATAAAAGATGATTATTA
34246965 AAT
1 AAT
34246968 AGCTTCGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (24 bp):
AATTTCTATAAAAGATGATTATTA
Found at i:34257362 original size:16 final size:16
Alignment explanation
Indices: 34257331--34257367 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
34257321 ATGTGAAGAA
34257331 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
34257347 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
34257363 TATTA
1 TATTA
34257368 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:34257401 original size:24 final size:24
Alignment explanation
Indices: 34257374--34257419 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
34257364 ATTAAAATAA
34257374 AATTGA-AATATTAAATAATTTATT
1 AATTGATAATATT-AATAATTTATT
* *
34257398 AATTTATTATATTAATAATTTA
1 AATTGATAATATTAATAATTTA
34257420 GTATATGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTGATAATATTAATAATTTATT
Found at i:34262475 original size:38 final size:39
Alignment explanation
Indices: 34262422--34262503 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
34262412 TAATGGTGTC
* *
34262422 AATTATATGAATAAATAATGATATTATGAACAAGAAT-A
1 AATTATATGAATAAATAATGACACTATGAACAAGAATCA
** *
34262460 AATTATATGGCTAAATAATGACACTATGCACAAGAATCA
1 AATTATATGAATAAATAATGACACTATGAACAAGAATCA
34262499 AATTA
1 AATTA
34262504 GGTCAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (39 bp):
AATTATATGAATAAATAATGACACTATGAACAAGAATCA
Found at i:34265767 original size:24 final size:24
Alignment explanation
Indices: 34265687--34265987 Score: 221
Period size: 24 Copynumber: 12.5 Consensus size: 24
34265677 CAAGCTATGT
* *
34265687 AGCAAAAAATTATGCTAGTTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * * *
34265711 AGC-GAAAAATTATGCAAACTCTAC
1 AGCAG-AAAATTATGCTAGCTGTGC
* *
34265735 AACAAAAAATTATGCTAGCTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * * **
34265759 AGTAGAAAATTATGCGAACTGTAT
1 AGCAGAAAATTATGCTAGCTGTGC
* *
34265783 AGCAGAAAGTTATGCTAGCTGTGG
1 AGCAGAAAATTATGCTAGCTGTGC
* * *
34265807 AGTAGAAGATTATGCTAGCTCTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * **
34265831 AACA-AAAAATATG-TGAATTGTGC
1 AGCAGAAAATTATGCT-AGCTGTGC
*
34265854 AACAGAAAATTATGCTAGCTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * *
34265878 AGCAGAAAATTATGCAAGCTATAC
1 AGCAGAAAATTATGCTAGCTGTGC
* * **
34265902 AACAGAAAATTATGCTAGCTATAT
1 AGCAGAAAATTATGCTAGCTGTGC
* * * * *
34265926 AGAAAAAAATTTATGCGAGCTATAC
1 AGCAGAAAA-TTATGCTAGCTGTGC
34265951 AGCAGAAAATTATGCTAGCTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* *
34265975 AGTAGAAATTTAT
1 AGCAGAAAATTAT
34265988 ACGAACTGTA
Statistics
Matches: 212, Mismatches: 59, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
22 1 0.00
23 16 0.08
24 174 0.82
25 21 0.10
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (24 bp):
AGCAGAAAATTATGCTAGCTGTGC
Found at i:34265868 original size:47 final size:48
Alignment explanation
Indices: 34265810--34265975 Score: 142
Period size: 49 Copynumber: 3.5 Consensus size: 48
34265800 GCTGTGGAGT
* * * * *
34265810 AGAAGATTATGCTAGCTCTGCAACA-AAAAATATGTGAA-TTGTGCAAC
1 AGAAAATTATGCTAGCTCTGCAACAGAAAAATATG-CAAGCTATACAAC
* * *
34265857 AGAAAATTATGCTAGCTGTGCAGCAGAAAATTATGCAAGCTATACAAC
1 AGAAAATTATGCTAGCTCTGCAACAGAAAAATATGCAAGCTATACAAC
* * * * *
34265905 AGAAAATTATGCTAGCTAT--ATAGAAAAAAATTTATGCGAGCTATACAGC
1 AGAAAATTATGCTAGCTCTGCA-ACAGAAAAA--TATGCAAGCTATACAAC
*
34265954 AGAAAATTATGCTAGCTGTGCA
1 AGAAAATTATGCTAGCTCTGCA
34265976 GTAGAAATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 29 0.30
48 32 0.33
49 33 0.34
51 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (48 bp):
AGAAAATTATGCTAGCTCTGCAACAGAAAAATATGCAAGCTATACAAC
Found at i:34265917 original size:48 final size:48
Alignment explanation
Indices: 34265853--34266013 Score: 189
Period size: 48 Copynumber: 3.3 Consensus size: 48
34265843 GTGAATTGTG
*
34265853 CAACAGAAAATTATGCTAGCTGTGCAGCAGAAAATTATGCAAGCTATA
1 CAACAGAAAATTATGCTAGCTGTGCAGAAGAAAATTATGCAAGCTATA
* ** * *
34265901 CAACAGAAAATTATGCTAGCTATATAGAAAAAAATTTATGCGAGCTATA
1 CAACAGAAAATTATGCTAGCTGTGCAGAAGAAAA-TTATGCAAGCTATA
* * * * *
34265950 CAGCAGAAAATTATGCTAGCTGTGCAGTAGAAATTTATACGAA-CTGTA
1 CAACAGAAAATTATGCTAGCTGTGCAGAAGAAAATTATGC-AAGCTATA
*
34265998 CAACAAAAAATTATGC
1 CAACAGAAAATTATGC
34266014 GAACTGGTGA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
48 52 0.56
49 41 0.44
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (48 bp):
CAACAGAAAATTATGCTAGCTGTGCAGAAGAAAATTATGCAAGCTATA
Found at i:34265959 original size:49 final size:48
Alignment explanation
Indices: 34265853--34265970 Score: 164
Period size: 49 Copynumber: 2.4 Consensus size: 48
34265843 GTGAATTGTG
* * * *
34265853 CAACAGAAAATTATGCTAGCTGTGCAGCAGAAAATTATGCAAGCTATA
1 CAACAGAAAATTATGCTAGCTATACAGAAAAAAATTATGCAAGCTATA
* *
34265901 CAACAGAAAATTATGCTAGCTATATAGAAAAAAATTTATGCGAGCTATA
1 CAACAGAAAATTATGCTAGCTATACAGAAAAAAA-TTATGCAAGCTATA
*
34265950 CAGCAGAAAATTATGCTAGCT
1 CAACAGAAAATTATGCTAGCT
34265971 GTGCAGTAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 29 0.47
49 33 0.53
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (48 bp):
CAACAGAAAATTATGCTAGCTATACAGAAAAAAATTATGCAAGCTATA
Found at i:34266414 original size:54 final size:54
Alignment explanation
Indices: 34266327--34266545 Score: 251
Period size: 54 Copynumber: 4.1 Consensus size: 54
34266317 TGTAAGCGGT
* * * * ** **
34266327 AGGTTGCGATTGTAAATCGATAAACTGTAAGATTCTGAAAATCTTGTAAGTAGG
1 AGGTTGCGATCGTAAATCAACAAACCGCGAGATTCTGAAAATCTCATAAGTAGG
* * * *
34266381 AGGTTGCAATCGTAAATCAACAAACCACGAGATTTTGAAAATCTCATAAGTAAG
1 AGGTTGCGATCGTAAATCAACAAACCGCGAGATTCTGAAAATCTCATAAGTAGG
* * *
34266435 AGGTTGCGATCGTAAATCAGCAAATCGTGAGATTCTGAAAATCTCATAAGTAGG
1 AGGTTGCGATCGTAAATCAACAAACCGCGAGATTCTGAAAATCTCATAAGTAGG
* * * * *
34266489 AGTTTGCGATCGTAAATC-ACAAATCGCGATATTCCGAAAATCTCATAAGTAAG
1 AGGTTGCGATCGTAAATCAACAAACCGCGAGATTCTGAAAATCTCATAAGTAGG
34266542 AGGT
1 AGGT
34266546 CATGATCATA
Statistics
Matches: 139, Mismatches: 26, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
53 33 0.24
54 106 0.76
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (54 bp):
AGGTTGCGATCGTAAATCAACAAACCGCGAGATTCTGAAAATCTCATAAGTAGG
Found at i:34266535 original size:53 final size:53
Alignment explanation
Indices: 34266356--34266545 Score: 254
Period size: 54 Copynumber: 3.5 Consensus size: 53
34266346 ATAAACTGTA
** * * *
34266356 AGATTCTGAAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAACAAACCACG
1 AGATTCTGAAAATCTCATAAGTAGGAGGTTGCGATCGTAAATC-ACAAATCGCG
* * *
34266410 AGATTTTGAAAATCTCATAAGTAAGAGGTTGCGATCGTAAATCAGCAAATCGTG
1 AGATTCTGAAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCA-CAAATCGCG
*
34266464 AGATTCTGAAAATCTCATAAGTAGGAGTTTGCGATCGTAAATCACAAATCGCG
1 AGATTCTGAAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCACAAATCGCG
* * *
34266517 ATATTCCGAAAATCTCATAAGTAAGAGGT
1 AGATTCTGAAAATCTCATAAGTAGGAGGT
34266546 CATGATCATA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 34 0.29
54 85 0.71
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (53 bp):
AGATTCTGAAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCACAAATCGCG
Found at i:34266603 original size:107 final size:109
Alignment explanation
Indices: 34266339--34266613 Score: 317
Period size: 107 Copynumber: 2.6 Consensus size: 109
34266329 GTTGCGATTG
* * *
34266339 TAAATCGATAAACTGTAAGATTCTGAAAATCTTGTA-AGTAGGAGGTTGCAATCGTAAATCAACA
1 TAAATCGGTAAACCGTAAGATTCTGAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACA
** ** *
34266403 AACCACGAGATTTTGAAAATCTCATAAGTAAGAGGTTGCGATCG
66 AACCACGAGATTCCGAAAATCTCATAAGTAAGAGGTCACGATCA
* * * * ** *
34266447 TAAATCAGCAAATCGTGAGATTCTGAAAATCTCATA-AGTAGGAGTTTGCGATCGTAAATC-ACA
1 TAAATCGGTAAACCGTAAGATTCTGAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACA
* * * *
34266510 AATCGCGATATTCCGAAAATCTCATAAGTAAGAGGTCATGATCA
66 AACCACGAGATTCCGAAAATCTCATAAGTAAGAGGTCACGATCA
* *
34266554 TAAATCGGTGAACCGTAAAATTCTGAAAATCTTGTATA-T-GAGAGGTTGCGATCGTAAATC
1 TAAATCGGTAAACCGTAAGATTCTGAAAATCTTGTATAGTAG-GAGGTTGCGATCGTAAATC
34266614 CGTGAATCCA
Statistics
Matches: 137, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
106 1 0.01
107 85 0.62
108 51 0.37
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (109 bp):
TAAATCGGTAAACCGTAAGATTCTGAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACA
AACCACGAGATTCCGAAAATCTCATAAGTAAGAGGTCACGATCA
Found at i:34269260 original size:21 final size:21
Alignment explanation
Indices: 34269207--34269260 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
34269197 AAAGTGATTA
* * *
34269207 AAATATTTAATTTTAAAAATT
1 AAATAATTAAATTAAAAAATT
* *
34269228 AAATTATAAAATTAAAAAATT
1 AAATAATTAAATTAAAAAATT
34269249 AAATAATTAAAT
1 AAATAATTAAAT
34269261 GTCTAAAGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATAATTAAATTAAAAAATT
Found at i:34269479 original size:9 final size:9
Alignment explanation
Indices: 34269458--34269495 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
34269448 TATTATGAAA
34269458 ATTTTTAAT
1 ATTTTTAAT
34269467 -TTTTTAAT
1 ATTTTTAAT
34269475 ATTTTTTAAT
1 A-TTTTTAAT
*
34269485 ATTATTAAT
1 ATTTTTAAT
34269494 AT
1 AT
34269496 ATAATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:34269492 original size:19 final size:18
Alignment explanation
Indices: 34269459--34269495 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
34269449 ATTATGAAAA
*
34269459 TTTTTAATTTTTTAATAT
1 TTTTTAATTTATTAATAT
34269477 TTTTTAATATTATTAATAT
1 TTTTTAAT-TTATTAATAT
34269496 ATAATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTATTAATAT
Found at i:34279393 original size:16 final size:16
Alignment explanation
Indices: 34279372--34279422 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
34279362 TAATCACATT
34279372 AATATTAAATTAATAA
1 AATATTAAATTAATAA
* *
34279388 AATATT--ATCAAGATA
1 AATATTAAATTAATA-A
34279403 AATATTAAATTAATAA
1 AATATTAAATTAATAA
34279419 AATA
1 AATA
34279423 CTATCTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 11 0.39
17 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:34279410 original size:31 final size:31
Alignment explanation
Indices: 34279372--34279446 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
34279362 TAATCACATT
*
34279372 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
*
34279403 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
34279434 AATATTAAATTAA
1 AATATTAAATTAA
34279447 ATTTAATATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (31 bp):
AATATTAAATTAATAAAATACTATCAAGATA
Found at i:34290902 original size:14 final size:14
Alignment explanation
Indices: 34290883--34290910 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34290873 GGTTTTTGAT
34290883 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
34290897 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
34290911 CCGTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:34291396 original size:44 final size:45
Alignment explanation
Indices: 34291299--34291398 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
34291289 TAACCTGCGC
* ** *
34291299 CACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
1 CACTGCAACTTCAGAAAGATAAGACTTGCCATCTTCAGTCTGCCT
* *
34291344 CACTGCAACTTCAGAAAGATAAGACTTG-CTTACTT-AGTCTGCTT
1 CACTGCAACTTCAGAAAGATAAGACTTGCCAT-CTTCAGTCTGCCT
34291388 CACTGCAACTT
1 CACTGCAACTT
34291399 TAAGGAGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 21 0.44
45 27 0.56
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (45 bp):
CACTGCAACTTCAGAAAGATAAGACTTGCCATCTTCAGTCTGCCT
Found at i:34291516 original size:44 final size:43
Alignment explanation
Indices: 34291204--34291973 Score: 345
Period size: 44 Copynumber: 17.8 Consensus size: 43
34291194 AAGACTTGCG
* * * * ** *
34291204 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTA
* * *
34291247 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTA
* * * *
34291291 ACCTGCGCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-TC-T-A
* ** *
34291336 GTCTGC-CTCACTGCAACTTCAGAAAGATAAGACT-T-GCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGAGATAAGATTATGGC-T-C-TA
* * * * * ** *
34291380 GTCTGCTTCACTGCAACTTTAAGGAGATAATACCAAAT-G--C-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATGGCTCTA
* * * * * * * *
34291421 ATCTGCT-CTCTGTAACTTTAGAGAGATAAGATCCAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTA
* *
34291464 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTA
* * *
34291508 ATTTGCTCCACTGCAACTTCAGGAAGATAAGATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-TC-T-A
* * *
34291553 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCT-TA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATGGCTCTA
* * * * *
34291597 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTA--GATGC-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCT-CTA
* * * * *
34291638 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTGATTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG-GCTCTA
** * *
34291680 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTA
* *
34291724 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-TC-T-A
* * *
34291769 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCT-TA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATGGCTCTA
* * * * *
34291813 GTCTGCTCCACTGCAAATTCAGGGAGATAAGACTA--GATGC-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCT-CTA
* * * * * *
34291854 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTGATTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG-GCTCTA
** * * *
34291896 ATCCACTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTCCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTA
*
34291940 ATCTGCCCCACTGCAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
34291974 TGCTGGCTAC
Statistics
Matches: 550, Mismatches: 121, Indels: 111
0.70 0.15 0.14
Matches are distributed among these distances:
39 3 0.01
40 65 0.12
41 18 0.03
42 22 0.04
43 67 0.12
44 270 0.49
45 93 0.17
46 4 0.01
47 4 0.01
48 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTCTA
Found at i:34291791 original size:216 final size:216
Alignment explanation
Indices: 34291171--34291976 Score: 1251
Period size: 216 Copynumber: 3.7 Consensus size: 216
34291161 CTTCAATCTA
* *
34291171 CTCCTCTGCAACTTCAGGGTGATAAGACT---TGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*** * ** * *
34291233 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCG
66 GATCTGTGA-TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCT
* * *
34291298 CCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAAGA
130 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
*
34291363 TAAGACTTGCTTACTTAGTCTG
195 TAAGACTTGCTTGCTTAGTCTG
* * * * * * * *
34291385 CTTCACTGCAACTTTAAGGAGATAATACCAAATGCGATCTGCTCTCTGTAACTTTAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * * *
34291450 GATCCAAG-GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATTTGC
66 GAT-C-TGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGC
*
34291514 TCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
129 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
34291579 ATAAGACTTGCTTGCTTAGTCTG
194 ATAAGACTTGCTTGCTTAGTCTG
*
34291602 CTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
34291667 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
66 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
*
34291732 CACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
131 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
34291797 AAGACTTGCTTGCTTAGTCTG
196 AAGACTTGCTTGCTTAGTCTG
* *
34291818 CTCCACTGCAAATTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
34291883 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTCCAATCTGCCC
66 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
34291948 CACTGCAACTTCAGGGAGATAAGATTTGC
131 CACTGCAACTTCAGGGAGATAAGATTTGC
34291977 TGGCTACCGA
Statistics
Matches: 545, Mismatches: 41, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
214 22 0.04
215 1 0.00
216 292 0.54
217 228 0.42
218 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (216 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGCTTGCTTAGTCTG
Found at i:34305732 original size:19 final size:19
Alignment explanation
Indices: 34305710--34305747 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34305700 TCAATCATCC
34305710 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
34305729 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
34305748 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:34323760 original size:23 final size:23
Alignment explanation
Indices: 34323734--34323806 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
34323724 AGTGCCACAT
34323734 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
34323757 TGATATGTAGCTGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
34323780 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
34323803 TGAT
1 TGAT
34323807 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:34324584 original size:83 final size:83
Alignment explanation
Indices: 34324445--34324609 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
34324435 CATCTTTCAC
34324445 AATTTAGTCCTTTTTCAACATTTTCATTGAAATTCATCTAGTAAAACTTGTAATTAACACTTCAA
1 AATTTAGTCCTTTTTCAACATTTTCATTGAAATTCATCTAGTAAAACTTGTAATTAACACTTCAA
34324510 AAATTCATTATCTAACAT
66 AAATTCATTATCTAACAT
34324528 AATTTAGTCCTTTTTCAACATTTTCATTGAAATTCATCTAGTAAAACTTGTAATTAACACTTCAA
1 AATTTAGTCCTTTTTCAACATTTTCATTGAAATTCATCTAGTAAAACTTGTAATTAACACTTCAA
*
34324593 ACATTCATTATCTAACA
66 AAATTCATTATCTAACA
34324610 CACTAATCAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.41
Consensus pattern (83 bp):
AATTTAGTCCTTTTTCAACATTTTCATTGAAATTCATCTAGTAAAACTTGTAATTAACACTTCAA
AAATTCATTATCTAACAT
Found at i:34331188 original size:23 final size:23
Alignment explanation
Indices: 34331159--34331257 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
34331149 ATAAGTGCCA
34331159 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34331182 CATTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
34331205 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34331228 CACTGAAATGTAGCCGAAGCTGC
1 CACTGATATGTAGCCGAAGCTAC
34331251 CACTGAT
1 CACTGAT
34331258 CAATAACATT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
22 1 0.01
23 67 0.97
24 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34334726 original size:20 final size:17
Alignment explanation
Indices: 34334685--34334727 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
34334675 CCGATTTCAT
34334685 ATTATTATATATTTTTA
1 ATTATTATATATTTTTA
*
34334702 CTTATTACTATATTTATGTA
1 ATTATTA-TATATTT-T-TA
34334722 ATTATT
1 ATTATT
34334728 TTCTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 1 0.05
20 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTATTATATATTTTTA
Found at i:34337300 original size:32 final size:33
Alignment explanation
Indices: 34337233--34337304 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
34337223 TAGAAAAGTT
* *
34337233 AATATTTTCTGGTGTTTGGACAAATTTGTGTAA
1 AATATTTTCTAGTGTTTGGACAAATTTCTGTAA
*
34337266 AATATTTTCTATTGTTTGG-CAAATTTCT-TAAA
1 AATATTTTCTAGTGTTTGGACAAATTTCTGT-AA
34337298 AATATTT
1 AATATTT
34337305 AATAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 17 0.49
33 17 0.49
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (33 bp):
AATATTTTCTAGTGTTTGGACAAATTTCTGTAA
Found at i:34337965 original size:56 final size:56
Alignment explanation
Indices: 34337903--34338015 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
34337893 AATAAGTAAA
34337903 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAAACACAACATAT
1 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAAACACAACATAT
*
34337959 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCATGTAGCAAAACACAACATAT
1 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAAACACAACATAT
34338015 G
1 G
34338016 TAATATAATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (56 bp):
GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAAACACAACATAT
Found at i:34339601 original size:7 final size:6
Alignment explanation
Indices: 34339554--34339597 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
34339544 GGCAAAGAAG
*
34339554 GGGAAA GGAGAAA GAGGGAA GGGAAA GGGAAA GGGAAA GGGAAA
1 GGGAAA GG-GAAA G-GGAAA GGGAAA GGGAAA GGGAAA GGGAAA
34339598 AGGGGGATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.71
7 9 0.26
8 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:34340613 original size:7 final size:7
Alignment explanation
Indices: 34340601--34340633 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
34340591 AACAAAAATA
34340601 ATTTTTT
1 ATTTTTT
34340608 ATTTTTT
1 ATTTTTT
34340615 ATTTTTT
1 ATTTTTT
*
34340622 ATTTTTC
1 ATTTTTT
34340629 ATTTT
1 ATTTT
34340634 CATTTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:34340620 original size:14 final size:14
Alignment explanation
Indices: 34340601--34340645 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
34340591 AACAAAAATA
*
34340601 ATTTTTTATTTTTT
1 ATTTTTTATTTTTC
34340615 ATTTTTTATTTTTC
1 ATTTTTTATTTTTC
*
34340629 A-TTTTCA-TTTTC
1 ATTTTTTATTTTTC
34340641 ATTTT
1 ATTTT
34340646 CATTTTCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 8 0.29
14 14 0.50
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTTATTTTTC
Found at i:34340667 original size:6 final size:6
Alignment explanation
Indices: 34340624--34340654 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
34340614 TATTTTTTAT
34340624 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA T
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA T
34340655 GTATTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:34350187 original size:2 final size:2
Alignment explanation
Indices: 34350182--34350994 Score: 1626
Period size: 2 Copynumber: 406.5 Consensus size: 2
34350172 TATATATACG
34350182 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350224 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350266 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350308 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350350 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350392 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350434 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350476 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350518 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350560 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350602 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350644 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350686 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350728 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350770 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350812 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350854 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350896 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350938 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34350980 GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
34350995 TGTGTGTGTG
Statistics
Matches: 811, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 811 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34350999 original size:2 final size:2
Alignment explanation
Indices: 34350994--34351036 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
34350984 GAGAGAGAGA
34350994 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
34351036 G
1 G
34351037 GTGACTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:34355822 original size:10 final size:10
Alignment explanation
Indices: 34355800--34355862 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
34355790 TCTCTCTTTA
34355800 TTTTATAACAT
1 TTTTA-AACAT
*
34355811 TTTTAAATAT
1 TTTTAAACAT
*
34355821 TTTT---CTT
1 TTTTAAACAT
34355828 TTTTTAAAC-T
1 -TTTTAAACAT
34355838 TTTTATAACAT
1 TTTTA-AACAT
34355849 TTTTAAACAT
1 TTTTAAACAT
34355859 TTTT
1 TTTT
34355863 TTAAATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 5 0.12
10 21 0.49
11 12 0.28
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAACAT
Found at i:34355894 original size:19 final size:19
Alignment explanation
Indices: 34355870--34355912 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
34355860 TTTTTAAATA
34355870 TTATTCTCTCCATCTCTCT
1 TTATTCTCTCCATCTCTCT
34355889 TTATTCTCTCCATCTCTCT
1 TTATTCTCTCCATCTCTCT
34355908 TTATT
1 TTATT
34355913 TTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTCTCTCCATCTCTCT
Found at i:34358431 original size:15 final size:15
Alignment explanation
Indices: 34358411--34358439 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34358401 CAACCAAAAC
34358411 GGATGGAAACCACCA
1 GGATGGAAACCACCA
34358426 GGATGGAAACCACC
1 GGATGGAAACCACC
34358440 CGGCATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.28, T:0.07
Consensus pattern (15 bp):
GGATGGAAACCACCA
Found at i:34371012 original size:22 final size:23
Alignment explanation
Indices: 34370987--34371029 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
34370977 GAGGATGATG
*
34370987 AAAAATGAAA-ATTAAAAATGAA
1 AAAAATGAAAGAGTAAAAATGAA
34371009 AAAAATGAAAGAGTAAAAATG
1 AAAAATGAAAGAGTAAAAATG
34371030 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (23 bp):
AAAAATGAAAGAGTAAAAATGAA
Done.