Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 92 of 259
Found at i:30110588 original size:22 final size:21
Alignment explanation
Indices: 30110537--30110588 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
30110527 AAAGAAATAG
*
30110537 TTAATTTTTGCTTTGTTATACT
1 TTAA-TTTTGCTTTGTCATACT
30110559 TTAA-TTTGCATATTGTCATA-T
1 TTAATTTTGC-T-TTGTCATACT
30110580 TTAATTTTG
1 TTAATTTTG
30110589 TAACAACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 6 0.23
22 15 0.58
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.60
Consensus pattern (21 bp):
TTAATTTTGCTTTGTCATACT
Found at i:30112951 original size:45 final size:45
Alignment explanation
Indices: 30112863--30112977 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
30112853 TTGCTTGAAG
* *
30112863 GAAACAAATAAGACCACAGTTGAAAGACACTATGGCACTATACCA
1 GAAACAAATAAGACCATAGTTGAAAGAAACTATGGCACTATACCA
*
30112908 G-AACTAAATAAGACCATAGTTGAAAGAAACTATGGCA-TCATACCG
1 GAAAC-AAATAAGACCATAGTTGAAAGAAACTATGGCACT-ATACCA
* * *
30112953 GAAACGAGTAAGACCATAGCTGAAA
1 GAAACAAATAAGACCATAGTTGAAA
30112978 AAATGTTATG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 4 0.07
45 54 0.89
46 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.17
Consensus pattern (45 bp):
GAAACAAATAAGACCATAGTTGAAAGAAACTATGGCACTATACCA
Found at i:30130598 original size:47 final size:47
Alignment explanation
Indices: 30130544--30130925 Score: 532
Period size: 47 Copynumber: 8.1 Consensus size: 47
30130534 TTAGGATTTT
** * * *
30130544 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30130591 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* * *
30130642 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30130689 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30130736 ATGTGATGAATGTGAACATGC-TATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
30130782 ATGTGATGAATGTGAACATGCGTATGTGTGATATGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30130829 ATGTGATGAATGTGAACATGCATATATGAGATACGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
30130876 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30130923 ATG
1 ATG
30130926 CGAAACGTGT
Statistics
Matches: 310, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 46 0.15
47 217 0.70
49 11 0.04
51 36 0.12
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30130842 original size:187 final size:190
Alignment explanation
Indices: 30130544--30130925 Score: 536
Period size: 187 Copynumber: 2.0 Consensus size: 190
30130534 TTAGGATTTT
**
30130544 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
* * * *
30130609 TGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCGTATGTGTGAT
66 --TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGAT
* *
30130674 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
129 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
30130736 ATGTGATGAATGTGAACATG-CTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
* * * * * *
30130799 -ATGCGTATGTGTGATATGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAC
66 TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGATAA
* * *
30130863 GGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
131 GGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30130923 ATG
1 ATG
30130926 CGAAACGTGT
Statistics
Matches: 169, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
187 112 0.66
190 1 0.01
191 38 0.22
192 18 0.11
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (190 bp):
ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGATAA
GGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30130955 original size:46 final size:46
Alignment explanation
Indices: 30130899--30130989 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
30130889 GAACATGTAT
* * *
30130899 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
30130945 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
30130990 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:30130974 original size:140 final size:140
Alignment explanation
Indices: 30130544--30130925 Score: 568
Period size: 140 Copynumber: 2.7 Consensus size: 140
30130534 TTAGGATTTT
** * * *
30130544 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
30130609 TGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCGTATGTGTGAT
66 TG--TATATAT--GTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCGTATGTGTGAT
30130674 AAGGCCGAATGGCCA
126 AAGGCCGAATGGCCA
* * *
30130689 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
30130754 TG-CTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATATGG
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCGTATGTGTGATAAGG
30130818 CCGAATGGCCA
130 CCGAATGGCCA
*
30130829 ATGTGATGAATGTGAACATGCATATATGAGATACGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
30130894 TGTATATATGTGGTAAGGCCGAATGGCTAATG
66 TGTATATATGTGATAAGGCCGAATGGCCAATG
30130926 CGAAACGTGT
Statistics
Matches: 216, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
140 128 0.59
141 25 0.12
142 4 0.02
145 59 0.27
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGTATATATGTGATAAGGCCGAATGGCCAATGTGAGAATGTGAACATGCGTATGTGTGATAAGGC
CGAATGGCCA
Found at i:30130974 original size:187 final size:186
Alignment explanation
Indices: 30130617--30130974 Score: 479
Period size: 187 Copynumber: 1.9 Consensus size: 186
30130607 CCTGTATATA
* * *
30130617 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGA
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGATAAGGCCGA
* * * *
30130682 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGA-GAAC
* * *
30130747 GTGAACATGCTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
130 GTGAACATGATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCG
* * * *
30130804 TATGTGTGATATGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATACGGCCGA
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGATAAGGCCGA
* * *
30130869 ATGGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACG
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGAGAACG
* *
30130933 TGTATGAGATGGATATGTG-G-TAAAGCCAAATGGCTAATGTGA
131 TG-A--ACAT-GATATGTGTGATAAAGCCAAATGGCCAATGTGA
30130975 GATATGTATG
Statistics
Matches: 148, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
185 5 0.03
186 1 0.01
187 131 0.89
188 4 0.03
189 7 0.05
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (186 bp):
TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCATATATGAGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGAGAACG
TGAACATGATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:30131201 original size:37 final size:37
Alignment explanation
Indices: 30131171--30131281 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
30131161 GTGGTGACTA
30131171 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
30131208 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * *
30131245 TGTTCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
30131282 CATCTGAGCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:30135171 original size:16 final size:15
Alignment explanation
Indices: 30135144--30135177 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30135134 ATAACTAGTA
*
30135144 TATAATTATATTTAT
1 TATAATTATATTAAT
30135159 TATAATATATATTAAT
1 TATAAT-TATATTAAT
30135175 TAT
1 TAT
30135178 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:30140782 original size:46 final size:44
Alignment explanation
Indices: 30140678--30140854 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 44
30140668 TGGGTTATTG
* * * *
30140678 TGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCGG-TATTGAGA
1 TGAGCCAGTGTAAGA-CACGTCTGGGACAT-GCATCGGCTA-CGAGA
* *
30140724 CGAGAGCTAGTGTAAGACACG-CTTGGGACATGCATCGGCCT-CGAGA
1 --TGAGCCAGTGTAAGACACGTC-TGGGACATGCATCGG-CTACGAGA
* *
30140770 TGTAAGCCAGTGTAAGATATGTCTGGGACATGCATCGGCTACGAGA
1 TG--AGCCAGTGTAAGACACGTCTGGGACATGCATCGGCTACGAGA
* *
30140816 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 TGAGCCAGTGTAAGA-CACGTCTGGGACAT-GCATCGGC
30140855 ATCCTACCTC
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
44 14 0.13
45 14 0.13
46 56 0.51
47 12 0.11
48 14 0.13
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACACGTCTGGGACATGCATCGGCTACGAGA
Found at i:30147899 original size:22 final size:23
Alignment explanation
Indices: 30147874--30147918 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30147864 AAAATTGGGT
30147874 ATCGCGATA-CCCAAATTTTTGG
1 ATCGCGATATCCCAAATTTTTGG
* **
30147896 ATCGTGATATCCCATGTTTTTGG
1 ATCGCGATATCCCAAATTTTTGG
30147919 GCCATTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCGCGATATCCCAAATTTTTGG
Found at i:30151314 original size:40 final size:40
Alignment explanation
Indices: 30151270--30151346 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
30151260 AGATAACATA
*
30151270 AAATACACATT-TAGATTTTCAAACATCCATAGGCAAAATG
1 AAATACAC-TTCTAGATTTTCAAACATCCATAAGCAAAATG
30151310 AAATACACTTCTAGATTTTCAAACATCCATAAGCAAA
1 AAATACACTTCTAGATTTTCAAACATCCATAAGCAAA
30151347 TCAAGGAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (40 bp):
AAATACACTTCTAGATTTTCAAACATCCATAAGCAAAATG
Found at i:30154290 original size:202 final size:202
Alignment explanation
Indices: 30153944--30154340 Score: 695
Period size: 202 Copynumber: 2.0 Consensus size: 202
30153934 TGGAAGCTCA
30153944 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
1 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
* * *
30154009 AATGGCATATATAGGTGGACTCGTACTAATATTTAATTGAATGTTTTGTTGATGATTGGTATGTA
66 AATGGCATATATAGGTGCACTCGTAATAATATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
* *
30154074 TAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGTTAGATTGTGTCATTGTGGCAA
131 GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
30154139 TAACCTC
196 TAACCTC
*
30154146 TCGGAGATCTATCACACTATCCAACATATATATCAGTAGTTTTTGAATGTTTTGGCCAAGGTTAT
1 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
* * **
30154211 AATGGCATGTATAGGTGCACTTGTAATGGTATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
66 AATGGCATATATAGGTGCACTCGTAATAATATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
*
30154276 GAAGTTGTGTAAGTTAGTTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
131 GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
30154341 CATTATGTTA
Statistics
Matches: 184, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
202 184 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (202 bp):
TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
AATGGCATATATAGGTGCACTCGTAATAATATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
TAACCTC
Found at i:30158364 original size:27 final size:27
Alignment explanation
Indices: 30158322--30158385 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
30158312 TTAGGGGCAA
*
30158322 TTCAGTAATTTTACAGGTTGAAGGTAT
1 TTCAGTAATTGTACAGGTTGAAGGTAT
* *
30158349 TTCGGTAATTGTACAGGTTGAGGGTAT
1 TTCAGTAATTGTACAGGTTGAAGGTAT
30158376 TTCAGTAATT
1 TTCAGTAATT
30158386 TCACAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (27 bp):
TTCAGTAATTGTACAGGTTGAAGGTAT
Found at i:30158780 original size:29 final size:29
Alignment explanation
Indices: 30158709--30158810 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
30158699 AAGTCTACAT
* *
30158709 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
30158737 TCATTCAAATTGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30158766 ACATTTATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
30158795 ACATTCATATGGCCCA
1 ACATTCATATGGCCCA
30158811 GCTGGCCTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:30163127 original size:20 final size:20
Alignment explanation
Indices: 30163099--30163145 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
30163089 CGACAATGTT
30163099 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
30163119 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
30163139 TAAGTTG
1 TAAGTTG
30163146 CAAGTTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:30173641 original size:39 final size:40
Alignment explanation
Indices: 30173564--30173647 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
30173554 GTATGCATAG
*
30173564 TGTATCTGAGATGGGCTAAGGCCCTAATTCATATCTGAAAC
1 TGTATCTGAGATGGGCTAAGGCCCTAATTCA-ACCTGAAAC
* *
30173605 TGTATTTG-GATGGGCTAAGG-CCTAAATTGC-ACCTGAATC
1 TGTATCTGAGATGGGCTAAGGCCCT-AATT-CAACCTGAAAC
30173644 TGTA
1 TGTA
30173648 ATGGGCTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
39 14 0.37
40 16 0.42
41 8 0.21
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
TGTATCTGAGATGGGCTAAGGCCCTAATTCAACCTGAAAC
Found at i:30177017 original size:25 final size:25
Alignment explanation
Indices: 30176938--30177005 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
30176928 ACACACACCA
* *
30176938 CAGCTCTTATGAGCTTACCAATTTG
1 CAGCTCATATGAGCTTACCAATTTT
* *
30176963 CAGCTCATGA-GAGCTTACCGATTCT
1 CAGCTCAT-ATGAGCTTACCAATTTT
30176988 CAGCTCATATGAGCTTAC
1 CAGCTCATATGAGCTTAC
30177006 TTATTTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (25 bp):
CAGCTCATATGAGCTTACCAATTTT
Found at i:30186890 original size:30 final size:30
Alignment explanation
Indices: 30186851--30186912 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
30186841 TACATGAAAT
30186851 ACATGGAAAT-GA-TATTACATGATATATTGAA
1 ACATGGAAATGGATTA-TACATG-TATA-TGAA
30186882 ACAT-GAAATGGATTATACATGTATATGAA
1 ACATGGAAATGGATTATACATGTATATGAA
30186911 AC
1 AC
30186913 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 12 0.41
32 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (30 bp):
ACATGGAAATGGATTATACATGTATATGAA
Found at i:30191549 original size:27 final size:27
Alignment explanation
Indices: 30191494--30191555 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
30191484 GATCTATTTT
* *
30191494 AGGGATTTGAGATTTTTTTTGCATGAA
1 AGGGATTTCAGATTTTTTTTGCATAAA
*
30191521 AGGGATTTCA-ATTTTTTTTGGACTAAA
1 AGGGATTTCAGATTTTTTTTGCA-TAAA
30191548 AGGGATTT
1 AGGGATTT
30191556 AATGTGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (27 bp):
AGGGATTTCAGATTTTTTTTGCATAAA
Found at i:30191681 original size:143 final size:141
Alignment explanation
Indices: 30191416--30191680 Score: 340
Period size: 143 Copynumber: 1.9 Consensus size: 141
30191406 TTGAATGTTT
* * *
30191416 ATGTGAACGCCATGATGAAATTGATAAACTATACAAAGGAATTTGTAAATAATATGTAATATAAT
1 ATGTGAACGCCATGATGAAATTGATAAACGATACAAAGGAATTCGTAAATAATATGTAATAGAAT
* * *
30191481 TGAGATCTATTTTAGGGATTTGAGATTTTTTTTGCATGAAAGGGATTTCAATTTTTTTTGGACTA
66 TGAGATCTATTTTAGGGATTTGAGATTTTTTTTGAAGGAAAGGAATTTCAATTTTTTTTGGACTA
30191546 AAAGGGATTTA
131 AAAGGGATTTA
* * * * *
30191557 ATGTGAACTCCATGATCGAAATTTATGAAACGATACCAAGGAA-TCGATAAATGACT-TGTGATA
1 ATGTGAACGCCATGAT-GAAATTGAT-AAACGATACAAAGGAATTCG-TAAAT-AATATGTAATA
* * *
30191620 GAATTGAGATTTATTTTAGGGATTTGAG-TTTTTTTT-AAGGAAAGGAATTTGATTTTTTTTT
62 GAATTGAGATCTATTTTAGGGATTTGAGATTTTTTTTGAAGGAAAGGAATTTCAATTTTTTTT
30191681 TGGAGTAAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 35 0.33
142 18 0.17
143 51 0.48
144 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.39
Consensus pattern (141 bp):
ATGTGAACGCCATGATGAAATTGATAAACGATACAAAGGAATTCGTAAATAATATGTAATAGAAT
TGAGATCTATTTTAGGGATTTGAGATTTTTTTTGAAGGAAAGGAATTTCAATTTTTTTTGGACTA
AAAGGGATTTA
Found at i:30191746 original size:20 final size:20
Alignment explanation
Indices: 30191721--30191758 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30191711 TAATGATTTT
*
30191721 TTAAATTATTTAAAATGACA
1 TTAAATTATTGAAAATGACA
30191741 TTAAATTATTGAAAATGA
1 TTAAATTATTGAAAATGA
30191759 ATACAAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (20 bp):
TTAAATTATTGAAAATGACA
Found at i:30191909 original size:21 final size:21
Alignment explanation
Indices: 30191882--30191942 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
30191872 TTTGGAATAA
30191882 ATAAATAAAATATAATTTTTT
1 ATAAATAAAATATAATTTTTT
* * *
30191903 ATCAAT-AAATAAAATATATTT
1 ATAAATAAAATATAAT-TTTTT
30191924 ATAAATAAAATATAATTTT
1 ATAAATAAAATATAATTTT
30191943 AATAATGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAATAAAATATAATTTTTT
Found at i:30194635 original size:24 final size:26
Alignment explanation
Indices: 30194589--30194636 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30194579 AAGGGTTACA
*
30194589 AAGATAAAAAATGTGAAGTGTTAAGG
1 AAGATAAAAAATGTAAAGTGTTAAGG
*
30194615 AAGATGAAAAATG-AAAG-GTTAA
1 AAGATAAAAAATGTAAAGTGTTAA
30194637 TTATAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (26 bp):
AAGATAAAAAATGTAAAGTGTTAAGG
Found at i:30195968 original size:36 final size:36
Alignment explanation
Indices: 30195925--30195994 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
30195915 TTCACCATTT
*
30195925 GGAGAACTTCAAGATTC-GACAAACTCCAAGGTTTTG
1 GGAGAACTCCAAGATTCAG-CAAACTCCAAGGTTTTG
*
30195961 GGAGAACTCCAAGATTCAGCGAACTCCAAGGTTT
1 GGAGAACTCCAAGATTCAGCAAACTCCAAGGTTT
30195995 GTCGGACTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (36 bp):
GGAGAACTCCAAGATTCAGCAAACTCCAAGGTTTTG
Found at i:30197816 original size:37 final size:37
Alignment explanation
Indices: 30197766--30197844 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30197756 TTATTACGAA
* * *
30197766 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
30197803 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30197840 GTCTT
1 GTCTT
30197845 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30198113 original size:47 final size:47
Alignment explanation
Indices: 30197963--30198529 Score: 893
Period size: 47 Copynumber: 12.1 Consensus size: 47
30197953 CCCTTCGGGA
* * * * * * * *
30197963 CTTATCCCATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198010 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30198056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198103 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198150 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198197 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198244 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198291 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30198338 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30198385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30198432 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30198479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30198526 CTTA
1 CTTA
30198530 CTATCATTTC
Statistics
Matches: 489, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 40 0.08
47 449 0.92
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30198393 original size:22 final size:22
Alignment explanation
Indices: 30198366--30198440 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
30198356 TTTCACATTC
30198366 ATCACATCGGCCATTTGGCCTT
1 ATCACATCGGCCATTTGGCCTT
**** ** *
30198388 ATCACATATATACACTTTCACATT
1 ATCACAT-CGGCCA-TTTGGCCTT
30198412 CATCACATCGGCCATTTGGCCTT
1 -ATCACATCGGCCATTTGGCCTT
30198435 ATCACA
1 ATCACA
30198441 CATATACACT
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 13 0.36
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCCATTTGGCCTT
Found at i:30198487 original size:22 final size:22
Alignment explanation
Indices: 30198366--30198488 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
30198356 TTTCACATTC
*
30198366 ATCACATCGGCCATTTGGCCTT
1 ATCACATCGACCATTTGGCCTT
** * ** *
30198388 ATCACATATATACACTTTCACATT
1 ATCACATCGA-CCA-TTTGGCCTT
*
30198412 CATCACATCGGCCATTTGGCCTT
1 -ATCACATCGACCATTTGGCCTT
* * ** *
30198435 ATCACA-CATATACACTTTCACATT
1 ATCACATC-GA-CCA-TTTGGCCTT
30198459 CATCACATCGACCATTTGGCCTT
1 -ATCACATCGACCATTTGGCCTT
30198482 ATCACAT
1 ATCACAT
30198489 ATATACACTT
Statistics
Matches: 68, Mismatches: 25, Indels: 16
0.62 0.23 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.29
23 16 0.24
24 16 0.24
25 14 0.21
26 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (22 bp):
ATCACATCGACCATTTGGCCTT
Found at i:30201435 original size:24 final size:24
Alignment explanation
Indices: 30201399--30201460 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
30201389 CCAATGGATT
*
30201399 TAGCAAACTATGATCGCCT-GTGGA
1 TAGCAAACAATGATCG-CTAGTGGA
* *
30201423 TAGCGAGCAATGATCGCTAGTGGA
1 TAGCAAACAATGATCGCTAGTGGA
30201447 TAGCAAACAATGAT
1 TAGCAAACAATGAT
30201461 TGCCAGTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.06
24 30 0.94
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (24 bp):
TAGCAAACAATGATCGCTAGTGGA
Found at i:30210935 original size:7 final size:7
Alignment explanation
Indices: 30210912--30210959 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
30210902 ATAACGTTGA
30210912 TATAAAT
1 TATAAAT
30210919 TATAATAT
1 TATAA-AT
30210927 TATAAAT
1 TATAAAT
30210934 TATAAAT
1 TATAAAT
30210941 TATAAAT
1 TATAAAT
30210948 TAT-AAT
1 TATAAAT
30210954 TATAAA
1 TATAAA
30210960 ACATATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.15
7 26 0.67
8 7 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAAAT
Found at i:30210966 original size:29 final size:29
Alignment explanation
Indices: 30210912--30210970 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
30210902 ATAACGTTGA
*
30210912 TATAAATTATAATATTATAAATTATAAAT
1 TATAAATTATAATATTATAAAATATAAAT
30210941 TATAAATTAT-A-ATTATAAAACATATAAAT
1 TATAAATTATAATATTAT-AAA-ATATAAAT
30210970 T
1 T
30210971 GATGTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 5 0.19
28 4 0.15
29 18 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TATAAATTATAATATTATAAAATATAAAT
Found at i:30213069 original size:19 final size:20
Alignment explanation
Indices: 30213045--30213089 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
30213035 TTATGCATAT
*
30213045 TGTGTGGTAAGATACA-TTC
1 TGTGTGCTAAGATACACTTC
*
30213064 TGTGTGCTAGGATACACTTC
1 TGTGTGCTAAGATACACTTC
30213084 -GTGTGC
1 TGTGTGC
30213090 CAGGATGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.36
Consensus pattern (20 bp):
TGTGTGCTAAGATACACTTC
Found at i:30213094 original size:19 final size:19
Alignment explanation
Indices: 30213055--30213123 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
30213045 TGTGTGGTAA
*
30213055 GATACA-TTCTGTGTGCTAG
1 GATACACTTC-GTGTGCCAG
30213074 GATACACTTCGTGTGCCAG
1 GATACACTTCGTGTGCCAG
*** **
30213093 GATGTGCTTTATGTGCCAG
1 GATACACTTCGTGTGCCAG
*
30213112 GATTCACTTCGT
1 GATACACTTCGT
30213124 ACTCCAATAT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
19 35 0.92
20 3 0.08
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (19 bp):
GATACACTTCGTGTGCCAG
Found at i:30225911 original size:14 final size:16
Alignment explanation
Indices: 30225878--30225912 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30225868 TAAACTTCTG
30225878 ATATTTGTTACATAAA
1 ATATTTGTTACATAAA
30225894 ATATTTGTTA-AT-AA
1 ATATTTGTTACATAAA
30225908 ATATT
1 ATATT
30225913 GAATTGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 2 0.11
16 10 0.53
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
ATATTTGTTACATAAA
Found at i:30228195 original size:40 final size:40
Alignment explanation
Indices: 30228112--30228374 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30228102 TTGAATGCTG
* * * * * *
30228112 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30228152 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30228192 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30228232 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30228272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30228312 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30228351 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30228375 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30228394 original size:79 final size:80
Alignment explanation
Indices: 30228151--30228409 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30228141 AAGTGAATAT
* * * * * *
30228151 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30228215 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30228231 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30228296 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30228311 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30228375 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30228390 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30228410 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30234224 original size:40 final size:40
Alignment explanation
Indices: 30234141--30234362 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
30234131 TTGAATGCTG
* * * * * *
30234141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
30234181 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
30234221 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
30234261 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
30234301 TCCGGGTTATGT-CCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
30234339 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30234363 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 22 0.14
39 23 0.14
40 106 0.67
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:30234382 original size:78 final size:80
Alignment explanation
Indices: 30234216--30234397 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
30234206 GTGCGAGATA
* * *
30234216 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30234281 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
30234296 TTAAATCCGGGTTATGT-CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30234359 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30234374 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30234398 TACGTGATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
77 6 0.07
78 53 0.62
79 11 0.13
80 15 0.18
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30243232 original size:47 final size:46
Alignment explanation
Indices: 30243162--30243523 Score: 205
Period size: 47 Copynumber: 7.7 Consensus size: 46
30243152 GGTATAATGC
* **
30243162 CGATGCCATGTCCCAGATGTGGTCTTACACTAGCTCATTCATCAAGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCA-TCATCAAGT
* * * *
30243209 CGATGCCATGTCCCAAACATGGTCTTACACTAACT-ATCGAAATGGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATC---AT-CAAGT
*
30243258 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCA-CATATTTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATCA-A---GT
* * * * *
30243306 GCCGATTCCATGTCCTAGAA-ATGGTCTTACACT-GACACCTCTAT-ACGT
1 --CGATGCCATGTCCCA-AACATGGTCTTACACTAG-CTCATC-ATCAAGT
* * *
30243354 GCCGATGCCATGT-CCAAACATAGTCTTACACTGAG-ACATC-TCATAGC
1 --CGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCATCATCA-AGT
* * *
30243401 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACAT-TTCAAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGC-T-CATCATCAA-GT
*
30243447 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCA--TCAA-GT
* *
30243493 CGATGCCATGTCCTAGACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
30243524 GGCTTTCATA
Statistics
Matches: 252, Mismatches: 31, Indels: 63
0.73 0.09 0.18
Matches are distributed among these distances:
43 2 0.01
44 17 0.07
45 18 0.07
46 53 0.21
47 63 0.25
48 27 0.11
49 39 0.15
50 28 0.11
51 3 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATCAAGT
Found at i:30243456 original size:46 final size:47
Alignment explanation
Indices: 30243354--30243528 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 47
30243344 CTCTATACGT
30243354 GCCGATGCCATGT-CCAAACATAGTCTTACACTGAG---ACATCTCATA
1 GCCGATGCCATGTCCCAAACATAGTCTTACACTG-GCTTACATCTCA-A
*
30243399 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATTTCAA
1 GCCGATGCCATGTCCCAAACATAGTCTTACACTGGCTTACATCTCAA
* *
30243444 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAA
1 -GCCGATGCCATGTCCCAAACATAGTCTTACACTGGCT-TACATCTCAA
* * * *
30243490 TGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTT
1 -GCCGATGCCATGTCCCAAACATAGTCTTACACTGGCTT
30243529 TCATAATGTG
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.01
44 16 0.14
45 16 0.14
46 53 0.46
47 15 0.13
48 13 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATAGTCTTACACTGGCTTACATCTCAA
Found at i:30249781 original size:21 final size:20
Alignment explanation
Indices: 30249748--30249787 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30249738 CTTTGAAACA
*
30249748 GGGCACATGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
30249768 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
30249788 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:30256584 original size:24 final size:24
Alignment explanation
Indices: 30256557--30256629 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
30256547 GAAATAAAAA
30256557 TAAAAGTTGTGATAATTATACATT
1 TAAAAGTTGTGATAATTATACATT
*
30256581 TAAAAATAAT-TG-TAATT-TA-A--
1 TAAAAGT--TGTGATAATTATACATT
* *
30256601 TAGAAGTTGTGATAATTACACATT
1 TAAAAGTTGTGATAATTATACATT
30256625 TAAAA
1 TAAAA
30256630 ATAATTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 16
0.63 0.09 0.28
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 10 0.28
21 1 0.03
22 2 0.06
23 2 0.06
24 15 0.42
25 2 0.06
26 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (24 bp):
TAAAAGTTGTGATAATTATACATT
Found at i:30256608 original size:44 final size:44
Alignment explanation
Indices: 30256555--30256640 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
30256545 TTGAAATAAA
* *
30256555 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTGTAATTT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
*
30256599 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAAT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAAT
30256641 CTAAATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:30257311 original size:44 final size:44
Alignment explanation
Indices: 30257261--30257349 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
30257251 GTTGAAGTAA
* *
30257261 AATAGAAGGTGT-ACCAATTA-TACATTTAAAAATATTTATAATTT
1 AATAGAAAGTGTGA-CAATTACT-CATTTAAAAATAATTATAATTT
* *
30257305 AATAGAAATTGTGATAATTACTCATTTAAAAATAATTATAATTT
1 AATAGAAAGTGTGACAATTACTCATTTAAAAATAATTATAATTT
30257349 A
1 A
30257350 TATTTATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (44 bp):
AATAGAAAGTGTGACAATTACTCATTTAAAAATAATTATAATTT
Found at i:30257611 original size:13 final size:13
Alignment explanation
Indices: 30257581--30257618 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
30257571 TAATTATCAC
30257581 TTAATTAA-TATT
1 TTAATTAATTATT
**
30257593 AGAATTAATTATT
1 TTAATTAATTATT
30257606 TTAATTAATTATT
1 TTAATTAATTATT
30257619 GTTTCGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TTAATTAATTATT
Found at i:30258349 original size:55 final size:55
Alignment explanation
Indices: 30258265--30258374 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
30258255 GCATCCATTG
30258265 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
*
30258320 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
30258375 TCTATAATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
Found at i:30264945 original size:14 final size:14
Alignment explanation
Indices: 30264926--30264952 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30264916 TAGGAATGTC
30264926 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
30264940 ATAAGAAAATTTT
1 ATAAGAAAATTTT
30264953 ATCAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:30277809 original size:38 final size:39
Alignment explanation
Indices: 30277767--30277857 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 39
30277757 GTCCAATCCA
* * * *
30277767 ACACACCATG-TGGGGATAAAATCGACCCACCCAGCCTT
1 ACACACCAAGATGGGGATAAAATCAACCCACCCAACCCT
*
30277805 ACACACCAAGCATGGGGATAAAATCAACCCATCCAACCCT
1 ACACACCAAG-ATGGGGATAAAATCAACCCACCCAACCCT
30277845 ACACACCAA-ATGG
1 ACACACCAAGATGG
30277858 TACCGTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.28
40 33 0.72
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.13
Consensus pattern (39 bp):
ACACACCAAGATGGGGATAAAATCAACCCACCCAACCCT
Found at i:30277824 original size:40 final size:40
Alignment explanation
Indices: 30277777--30277853 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
30277767 ACACACCATG
* * *
30277777 TGGGGATAAAATCGACCCACCCAGCCTTACACACCAAGCA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGCA
*
30277817 TGGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAA
30277854 ATGGTACCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.35, G:0.14, T:0.13
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGCA
Found at i:30278392 original size:12 final size:12
Alignment explanation
Indices: 30278375--30278414 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
30278365 CAAGCCCGTC
30278375 CCTCGCACACGG
1 CCTCGCACACGG
30278387 CCTCGCACACGG
1 CCTCGCACACGG
* *
30278399 CCTCACACACTG
1 CCTCGCACACGG
30278411 CCTC
1 CCTC
30278415 ACGCGCACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.17, C:0.53, G:0.17, T:0.12
Consensus pattern (12 bp):
CCTCGCACACGG
Found at i:30278446 original size:21 final size:21
Alignment explanation
Indices: 30278420--30278487 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
30278410 GCCTCACGCG
*
30278420 CACGGCCTACTTTGTCGACCA
1 CACGGCCTACTTCGTCGACCA
30278441 CACGGCCTACTTCGTCGACCA
1 CACGGCCTACTTCGTCGACCA
*
30278462 CACAGCC-A-TGTC-TCG-CCA
1 CACGGCCTACT-TCGTCGACCA
30278480 CACGGCCT
1 CACGGCCT
30278488 CCACACGGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.21
19 4 0.10
20 3 0.07
21 26 0.62
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (21 bp):
CACGGCCTACTTCGTCGACCA
Found at i:30281560 original size:26 final size:26
Alignment explanation
Indices: 30281529--30281586 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
30281519 AAAGACATGT
*
30281529 ATTAAAGATGTC-TAAACTAGGACAT-
1 ATTAAA-ATGTCATAAACCAGGACATA
* *
30281554 ATTTAAATGTCATAAACCATGACATA
1 ATTAAAATGTCATAAACCAGGACATA
30281580 ATTAAAA
1 ATTAAAA
30281587 ATCCCTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.19
25 16 0.59
26 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (26 bp):
ATTAAAATGTCATAAACCAGGACATA
Found at i:30281651 original size:38 final size:38
Alignment explanation
Indices: 30281572--30281668 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 38
30281562 GTCATAAACC
* * * *
30281572 ATGACATAATTAAAAATCCCTTATTAAAGATGTTCAGATT
1 ATGACATAATT-AAAA-CTCATATTAAAGATGCTCAAATT
*
30281612 ATGACATAATTAAAACTCATATTAATGATGCTCAAATT
1 ATGACATAATTAAAACTCATATTAAAGATGCTCAAATT
* *
30281650 ATGACAAAATTAAGACTCA
1 ATGACATAATTAAAACTCA
30281669 AGCTAATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 35 0.70
39 4 0.08
40 11 0.22
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (38 bp):
ATGACATAATTAAAACTCATATTAAAGATGCTCAAATT
Found at i:30283911 original size:28 final size:28
Alignment explanation
Indices: 30283848--30283945 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
30283838 ATATTAAGTC
*
30283848 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30283875 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
30283903 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
30283932 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30283946 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30289278 original size:39 final size:40
Alignment explanation
Indices: 30289235--30289400 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
30289225 CGTTCAAGTC
* * * *
30289235 CCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AATG
1 CCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAATG
* *
30289274 CCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTATAAAACTCACACGAATG
* * * *
30289314 CCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAATG
* * *
30289354 CCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAATG
30289394 CCTTCGG
1 CCTTCGG
30289401 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 24 0.22
40 81 0.74
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTATAAAACTCACACGAATG
Found at i:30289373 original size:80 final size:80
Alignment explanation
Indices: 30289268--30289453 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
30289258 AGTAACTCAT
* * *
30289268 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
30289331 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
30289347 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
30289412 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
30289428 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
30289454 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:30289413 original size:40 final size:40
Alignment explanation
Indices: 30289270--30289453 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
30289260 TAACTCATAC
* *
30289270 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
30289310 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
30289350 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
30289390 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
30289431 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30289454 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:30295071 original size:28 final size:28
Alignment explanation
Indices: 30295008--30295105 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
30294998 ATATTAAGTC
*
30295008 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30295035 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
30295063 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
30295092 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30295106 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30298433 original size:21 final size:20
Alignment explanation
Indices: 30298403--30298442 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30298393 TTAGATTTTT
*
30298403 ATTATATTATTTTTAATATC
1 ATTATATTATTATTAATATC
30298423 ATTATCATTATTATTAATAT
1 ATTAT-ATTATTATTAATAT
30298443 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATATTATTATTAATATC
Found at i:30300318 original size:20 final size:20
Alignment explanation
Indices: 30300295--30300397 Score: 143
Period size: 20 Copynumber: 5.2 Consensus size: 20
30300285 TAGCGGCTTG
* * *
30300295 AAGCTATCAGTAGCGGCACA
1 AAGCCATCAATAGTGGCACA
30300315 AAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGTGGCACA
*
30300335 AAGCCATCACTAGTGGCACA
1 AAGCCATCAATAGTGGCACA
*
30300355 AAGCCATCAATAATGGCACA
1 AAGCCATCAATAGTGGCACA
* *
30300375 AAGCCATCAATAGCGGAACA
1 AAGCCATCAATAGTGGCACA
30300395 AAG
1 AAG
30300398 TCGTAAATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGCCATCAATAGTGGCACA
Found at i:30300935 original size:36 final size:36
Alignment explanation
Indices: 30300892--30300965 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
30300882 AACTAAATAG
30300892 CCTAATCTAGTAATTACCACGTACCATTGATTTTAT
1 CCTAATCTAGTAATTACCACGTACCATTGATTTTAT
30300928 CCTAATCTAGTAATTACCACGTACCATTGATTTTAT
1 CCTAATCTAGTAATTACCACGTACCATTGATTTTAT
30300964 CC
1 CC
30300966 ATGTGGAGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (36 bp):
CCTAATCTAGTAATTACCACGTACCATTGATTTTAT
Found at i:30303790 original size:23 final size:22
Alignment explanation
Indices: 30303738--30303790 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30303728 TCCACGTCTT
*
30303738 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30303760 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30303783 TTTCTTTT
1 TTTCTTTT
30303791 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30308105 original size:38 final size:38
Alignment explanation
Indices: 30308026--30308122 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
30308016 GTCATAAACC
* * *
30308026 ATGACATAATTAAAAATACCTTATTAAAGATGTTCAGATT
1 ATGACATAATTAAAACT--CATATTAAAGATGCTCAGATT
* *
30308066 ATGACATAATTAAAACTCATATTAATGATGCTCATATT
1 ATGACATAATTAAAACTCATATTAAAGATGCTCAGATT
*
30308104 ATGACATAATTAAGACTCA
1 ATGACATAATTAAAACTCA
30308123 AACTAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 35 0.69
40 16 0.31
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (38 bp):
ATGACATAATTAAAACTCATATTAAAGATGCTCAGATT
Found at i:30310534 original size:55 final size:55
Alignment explanation
Indices: 30310469--30310573 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
30310459 TATCCATTGG
* ** * *
30310469 ATGATAAATCATCACTTTTAATTTGAATAGTGGTTATGAATAATTAATTTACAAA
1 ATGATAAATCATCACTTTTAATTTAAATAGTAATCATAAATAATTAATTTACAAA
30310524 ATGATAAATCATCACTTTTAATTTAAATAGTAATCATAAATAATTAATTT
1 ATGATAAATCATCACTTTTAATTTAAATAGTAATCATAAATAATTAATTT
30310574 GCAATCTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (55 bp):
ATGATAAATCATCACTTTTAATTTAAATAGTAATCATAAATAATTAATTTACAAA
Found at i:30312776 original size:29 final size:30
Alignment explanation
Indices: 30312742--30312815 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
30312732 TTATTGTTAT
*
30312742 TTTAATGTAATAATTGTTTTAAT-TAT-TTA
1 TTTAATGTAAT-ATAGTTTTAATATATATTA
*
30312771 TTTAATTTAATATAGTTTTAATATATATTA
1 TTTAATGTAATATAGTTTTAATATATATTA
* *
30312801 TGTAATTTAAATATA
1 TTTAATGT-AATATA
30312816 ATACAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 10 0.26
29 13 0.33
30 10 0.26
31 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (30 bp):
TTTAATGTAATATAGTTTTAATATATATTA
Found at i:30312809 original size:30 final size:29
Alignment explanation
Indices: 30312757--30312815 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
30312747 TGTAATAATT
*
30312757 GTTTTAATTATTTATTTAATTT-AATATA
1 GTTTTAATTATTTATGTAATTTAAATATA
30312785 GTTTTAATATATATTATGTAATTTAAATATA
1 GTTTTAAT-TAT-TTATGTAATTTAAATATA
30312816 ATACAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.30
29 3 0.11
30 10 0.37
31 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (29 bp):
GTTTTAATTATTTATGTAATTTAAATATA
Found at i:30313008 original size:13 final size:14
Alignment explanation
Indices: 30312992--30313024 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30312982 AAAATTGTTG
30312992 TGAAAAAG-AATTT
1 TGAAAAAGCAATTT
*
30313005 TGAAAAAGCATTTT
1 TGAAAAAGCAATTT
30313019 TGAAAA
1 TGAAAA
30313025 GTTTGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (14 bp):
TGAAAAAGCAATTT
Found at i:30318407 original size:46 final size:46
Alignment explanation
Indices: 30318355--30318581 Score: 260
Period size: 46 Copynumber: 5.0 Consensus size: 46
30318345 GCTTTCTGAA
* *
30318355 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
30318401 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * ** *
30318447 -GGGAATAAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
30318492 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
30318538 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
30318582 TCAAAGATAA
Statistics
Matches: 153, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
45 37 0.24
46 116 0.76
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:30318520 original size:91 final size:91
Alignment explanation
Indices: 30318365--30318537 Score: 265
Period size: 91 Copynumber: 1.9 Consensus size: 91
30318355 ATGAAATGTG
* * ***
30318365 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
30318430 CACCATGGCAACATGACGGGAATAAA
66 CACCATGGCAACATGACGGGAATAAA
**
30318456 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
* *
30318521 TACCATGGCAACCTGAC
66 CACCATGGCAACATGAC
30318538 AGAAAATGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 73 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
CACCATGGCAACATGACGGGAATAAA
Found at i:30318599 original size:91 final size:90
Alignment explanation
Indices: 30318411--30318576 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 90
30318401 ATGAAATGTG
** * * *
30318411 TAAGACCATGGTTGAAAGACACCATGGCAACATGACGGGAATAAATAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGACACCATGGCAACATGACGAAAATAAATAAAACCATAGTTGAAAGAC
*
30318476 ACCATGGCAATGTAACATGAAATGAA
66 ACCATGGCAATGTAACATG-AATAAA
* * * * *
30318502 CAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAAACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATGAC-GAAAATAAATAAAACCATAGTTGAAAGA
*
30318567 CACTATGGCA
65 CACCATGGCA
30318577 TCATGTCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
91 33 0.52
92 30 0.48
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATGACGAAAATAAATAAAACCATAGTTGAAAGAC
ACCATGGCAATGTAACATGAATAAA
Found at i:30320684 original size:29 final size:28
Alignment explanation
Indices: 30320594--30320684 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
30320584 TTTAAGGACT
*
30320594 TCTTTGAGGCAAAACTCTAGAAAGGTAAG
1 TCTTTGTGGC-AAACTCTAGAAAGGTAAG
* * * * *
30320623 TTTTTGTGGTAAAC-GTATTAAAGG-ACAA
1 TCTTTGTGGCAAACTCTA-GAAAGGTA-AG
*
30320651 CCTTTGTGGCAGAACTCTAGAAAGGTAAG
1 TCTTTGTGGCA-AACTCTAGAAAGGTAAG
30320680 TCTTT
1 TCTTT
30320685 ATGACGAACC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
27 3 0.07
28 18 0.41
29 20 0.45
30 3 0.07
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (28 bp):
TCTTTGTGGCAAACTCTAGAAAGGTAAG
Found at i:30320751 original size:57 final size:57
Alignment explanation
Indices: 30320601--30320758 Score: 165
Period size: 57 Copynumber: 2.8 Consensus size: 57
30320591 ACTTCTTTGA
* * * * **
30320601 GGCAAAACTCTAGAAAGGTAAGTTTTTGTGGTAAACGTATTAAAGGACAACCTTTGT
1 GGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTAAAGGACAACCTTCAT
* ** * **
30320658 GGCAGAACTCTAGAAAGGTAAGTCTTTA-TGACGAACCTGTTAAAGGACTGCCTTCAT
1 GGCAAAACTCTAGAAAGGTAAG-CTTTAGTGGTGAACCTATTAAAGGACAACCTTCAT
* * *
30320715 GGTAAAACTCTAGAAAGGTAAGCCTTAGTGGTGAACCTCTTAAA
1 GGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTAAA
30320759 CAACGCCTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
56 4 0.05
57 74 0.91
58 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (57 bp):
GGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTAAAGGACAACCTTCAT
Found at i:30323196 original size:46 final size:46
Alignment explanation
Indices: 30323111--30323471 Score: 360
Period size: 46 Copynumber: 8.2 Consensus size: 46
30323101 TCCCATCCAC
* * * * * * * *
30323111 GGTCTTATTTATCTTC-GACATGATGCCATAGTGTTTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
30323156 GGTCTTACTCATTTTCTATCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
30323202 GGTCTTATTCATTTTCCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
30323248 GG------TC---TTGTG-C--GTTGCCATGGCATCTTTCAACAAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
30323282 TGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
30323327 GGTCTTATTC-TTTTCATGTCATGTTGCCATGATATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
30323373 GGTCTTATTC-TTTTCATGTCACGTTTCCATGGTATCTTACAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
** *
30323419 GGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
30323465 GGTCTTA
1 GGTCTTA
30323472 CACATTTCAT
Statistics
Matches: 264, Mismatches: 37, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
34 23 0.09
36 1 0.00
37 3 0.01
40 4 0.02
42 2 0.01
43 1 0.00
45 47 0.18
46 183 0.69
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:30323327 original size:79 final size:80
Alignment explanation
Indices: 30323178--30323332 Score: 267
Period size: 79 Copynumber: 1.9 Consensus size: 80
30323168 TTTCTATCAT
* * *
30323178 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCATGGTATCTTTCA
1 GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
30323243 ACCATGGTCTTGTGC
66 ACCATGGTCTTGTGC
*
30323258 GTTGCCATGGCATCTTTCAACAATTGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCA
1 GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
30323322 ACCATGGTCTT
66 ACCATGGTCTT
30323333 ATTCTTTTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
79 39 0.55
80 32 0.45
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (80 bp):
GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
ACCATGGTCTTGTGC
Found at i:30323342 original size:21 final size:21
Alignment explanation
Indices: 30323317--30323388 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
30323307 CCATGGTATC
30323317 TTTCAACCATGGTCTTATTCT
1 TTTCAACCATGGTCTTATTCT
** * *
30323338 TTTCATGTCATGTTGCCATGATATC-
1 TTTCA-ACCATG--GTC-TTAT-TCT
30323363 TTTCAACCATGGTCTTATTCT
1 TTTCAACCATGGTCTTATTCT
30323384 TTTCA
1 TTTCA
30323389 TGTCACGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 6 0.16
24 6 0.16
25 8 0.22
26 2 0.05
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.47
Consensus pattern (21 bp):
TTTCAACCATGGTCTTATTCT
Found at i:30325595 original size:11 final size:11
Alignment explanation
Indices: 30325579--30325626 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
30325569 CTTTATATAC
30325579 TAATAAAATAA
1 TAATAAAATAA
*
30325590 TAATAAAATATCT
1 TAATAAAATA--A
* *
30325603 TATTAAAATAT
1 TAATAAAATAA
30325614 TAATAAAATAA
1 TAATAAAATAA
30325625 TA
1 TA
30325627 TTAATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:30329423 original size:30 final size:30
Alignment explanation
Indices: 30329389--30329448 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30329379 ATTTAATACG
30329389 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
30329419 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
30329449 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:30332327 original size:28 final size:28
Alignment explanation
Indices: 30332256--30332329 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
30332246 ATAATAAGCC
* *
30332256 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
30332284 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30332312 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
30332330 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30339644 original size:46 final size:46
Alignment explanation
Indices: 30339577--30339748 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
30339567 AACCCGCCCC
*
30339577 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
30339623 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
30339671 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
30339716 TAGGTGAACTCGGACTCAACTCAATGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30339749 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:30339689 original size:93 final size:93
Alignment explanation
Indices: 30339582--30339752 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30339572 GCCCCTAAGT
* * *
30339582 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30339647 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
30339675 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30339740 TGAGTTCGGATGC
66 CGAGTTCGGATGC
30339753 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30340205 original size:30 final size:30
Alignment explanation
Indices: 30340171--30340230 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30340161 ATTTAATACG
30340171 AACTTTGGAAAAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
30340201 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
30340231 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:30347550 original size:36 final size:35
Alignment explanation
Indices: 30347475--30347564 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 35
30347465 CAAAATTATT
* *
30347475 ATTTTAGAATATTTTTAAAAATTTAAATTATATAT
1 ATTTTAGAATATTTTTAAAAATTAAAATTATATAA
*
30347510 ATTTTAGAATTTATTTTAAAAATATAAAATT-TGA-AA
1 ATTTTAGAATAT-TTTTAAAAAT-TAAAATTAT-ATAA
*
30347546 ATTTTATCAATATTTTTAA
1 ATTTTA-GAATATTTTTAA
30347565 TTTTAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 11 0.24
36 24 0.52
37 11 0.24
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (35 bp):
ATTTTAGAATATTTTTAAAAATTAAAATTATATAA
Found at i:30348209 original size:20 final size:18
Alignment explanation
Indices: 30348159--30348210 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
30348149 CTACAAGATA
30348159 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
30348176 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
30348196 AATATTAAATTAATA
1 AATATTAAATTAATA
30348211 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:30348587 original size:20 final size:20
Alignment explanation
Indices: 30348562--30348608 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30348552 CCGGTTCAAC
* *
30348562 CAATTTTTAGGTCTTGATCT
1 CAATTTTGAGGTCTTGAGCT
* *
30348582 CAATTTTGAGTTGTTGAGCT
1 CAATTTTGAGGTCTTGAGCT
30348602 CAATTTT
1 CAATTTT
30348609 CGATCTCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (20 bp):
CAATTTTGAGGTCTTGAGCT
Found at i:30349682 original size:17 final size:17
Alignment explanation
Indices: 30349660--30349696 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
30349650 CCCCAATTGG
30349660 AATTGTAGACGACAAAT
1 AATTGTAGACGACAAAT
30349677 AATTGTAGACGACAAAT
1 AATTGTAGACGACAAAT
30349694 AAT
1 AAT
30349697 CCTTCTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (17 bp):
AATTGTAGACGACAAAT
Found at i:30355452 original size:68 final size:67
Alignment explanation
Indices: 30355334--30355636 Score: 302
Period size: 68 Copynumber: 4.5 Consensus size: 67
30355324 AAAGAGGTAT
* ** * ** *
30355334 AAGGTGTAAGACCATAGCTCGGTTATGGTAACCAATCGAGTCCGCTAGGACATTAAACATAGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACAT-GGG-
30355399 TTA-
64 TTAC
* * * * * * * * *
30355402 AAGGTGAAAGGCCATAGTTAGGCTATGACAACCAATAGAATCCACAAGGACCTTACATATTGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACA-TGGGT
30355467 TAC
65 TAC
* * * * ** * *
30355470 AAAGTGTAAGACTAGAGCTCGACTACAACAACCAATAGAGTCTACTAGGAAATTAAACATGAGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATG-GGT
30355535 TAC
65 TAC
*
30355538 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAATGACATTAAACATGGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACAT-GGGT
30355603 TAC
65 TAC
* * *
30355606 AAGGTGTAAGACCATAGGTCAGTTATGACAA
1 AAGGTGTAAGACCATAGCTCGGCTATGACAA
30355637 AAAAAAAATT
Statistics
Matches: 188, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
67 5 0.03
68 181 0.96
69 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (67 bp):
AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATGGGTT
AC
Found at i:30355603 original size:136 final size:136
Alignment explanation
Indices: 30355363--30355617 Score: 334
Period size: 136 Copynumber: 1.9 Consensus size: 136
30355353 CGGTTATGGT
* * * * *
30355363 AACCAATCGAGTCCGCTAGGACATTAAACATAGGGTTTAAAGGTGAAAGGCCATAGTTAGGCTAT
1 AACCAATAGAGTCCACTAGGAAATTAAACATAGGGTTTAAAGGTGAAAGACCATAGCTAGGCTAT
* * * *
30355428 GACAACCAATAGAATCCACAAGGACCTTACATATTGGGTTACAAAGTGTAAGACTAGAGCTCGAC
66 GACAACCAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGACTAGAGCTCGAC
30355493 TACAAC
131 TACAAC
* * *
30355499 AACCAATAGAGTCTACTAGGAAATTAAACAT-GAGG-TTACAAGGTGTAAGACCATAGCTCGGCT
1 AACCAATAGAGTCCACTAGGAAATTAAACATAG-GGTTTA-AAGGTGAAAGACCATAGCTAGGCT
* * * *
30355562 ATGACAACCAATAGAGTCTACAATGACATTAAACATGGGGTTACAAGGTGTAAGAC
64 ATGACAACCAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGAC
30355618 CATAGGTCAG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
135 4 0.04
136 97 0.96
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (136 bp):
AACCAATAGAGTCCACTAGGAAATTAAACATAGGGTTTAAAGGTGAAAGACCATAGCTAGGCTAT
GACAACCAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGACTAGAGCTCGAC
TACAAC
Found at i:30366839 original size:25 final size:25
Alignment explanation
Indices: 30366805--30366854 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30366795 GGTGATTCAT
*
30366805 CCATGGAAAAATTAGAAAAGACTAA
1 CCATGGAAAAATTAAAAAAGACTAA
30366830 CCATGGAAAAATTAAAAAAGACTAA
1 CCATGGAAAAATTAAAAAAGACTAA
30366855 AGACTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (25 bp):
CCATGGAAAAATTAAAAAAGACTAA
Found at i:30368741 original size:27 final size:27
Alignment explanation
Indices: 30368710--30368887 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30368700 TAAATTGTAC
30368710 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30368737 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30368763 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30368791 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30368819 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30368846 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30368873 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30368888 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30368824 original size:82 final size:81
Alignment explanation
Indices: 30368711--30368866 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30368701 AAATTGTACA
* *
30368711 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30368775 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30368792 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30368857 TGCGAGTTGA
65 TGCGAATTGA
30368867 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30368878 original size:82 final size:81
Alignment explanation
Indices: 30368707--30368887 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30368697 GATTAAATTG
* *
30368707 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30368772 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30368788 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30368852 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30368870 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30368888 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30376818 original size:27 final size:27
Alignment explanation
Indices: 30376787--30376964 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30376777 TAAATTGTAC
30376787 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30376814 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30376840 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30376868 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30376896 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30376923 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30376950 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30376965 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30376901 original size:82 final size:81
Alignment explanation
Indices: 30376788--30376943 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30376778 AAATTGTACA
* *
30376788 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30376852 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30376869 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30376934 TGCGAGTTGA
65 TGCGAATTGA
30376944 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30376955 original size:82 final size:81
Alignment explanation
Indices: 30376784--30376964 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30376774 GATTAAATTG
* *
30376784 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30376849 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30376865 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30376929 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30376947 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30376965 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30379307 original size:24 final size:23
Alignment explanation
Indices: 30379247--30379307 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
30379237 GGCTTTTTAT
* *
30379247 GAGCTTCCCGATATTGCTCTCTT
1 GAGCTTCCCGATATTGCTATCTA
* *
30379270 GAACTTCCTGATATTGGCTATCTA
1 GAGCTTCCCGATATT-GCTATCTA
*
30379294 GAGCTTCCCAATAT
1 GAGCTTCCCGATAT
30379308 AGTTCTTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (23 bp):
GAGCTTCCCGATATTGCTATCTA
Found at i:30379321 original size:48 final size:47
Alignment explanation
Indices: 30379211--30379350 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 47
30379201 ATGATTAAAG
* * * *
30379211 GTTCTTTATGAACTTCCTGTTAAATTGGCTTTTTATGAGCTTCCCGATATT
1 GTTCTTT-TGAACTTCCTG--ATATTGGC-TATTATGAGCTTCCCAATATA
* *
30379262 GCTCTCTTGAACTTCCTGATATTGGCTATCTA-GAGCTTCCCAATATA
1 GTTCTTTTGAACTTCCTGATATTGGCTAT-TATGAGCTTCCCAATATA
*
30379309 GTTCTTTGTGAACTTCCTGAT-TATGGCTCTTATGAGCTTCCC
1 GTTCTTT-TGAACTTCCTGATAT-TGGCTATTATGAGCTTCCC
30379351 GTTATATAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
47 23 0.30
48 37 0.49
50 11 0.14
51 5 0.07
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (47 bp):
GTTCTTTTGAACTTCCTGATATTGGCTATTATGAGCTTCCCAATATA
Found at i:30382049 original size:12 final size:12
Alignment explanation
Indices: 30382032--30382056 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30382022 CATGATTAAT
30382032 ATCATAACTCAA
1 ATCATAACTCAA
30382044 ATCATAACTCAA
1 ATCATAACTCAA
30382056 A
1 A
30382057 AATTATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ATCATAACTCAA
Found at i:30382606 original size:43 final size:41
Alignment explanation
Indices: 30382554--30382675 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
30382544 TCACATATTA
*
30382554 ATGCCAATGTCCCAGACATGGTCTCACACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA-AT-ACG
* * * * *
30382597 ATGCTAATGTCCCAAACATAGTCTTACACATAATTGCAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AAAT-CAATACG
* * *
30382640 ATGCCAATTTCCCAGACATGGTTTTACACATAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA
30382676 CGACTCGTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 53 0.83
44 5 0.08
45 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAATACG
Found at i:30390072 original size:40 final size:40
Alignment explanation
Indices: 30390018--30390175 Score: 280
Period size: 40 Copynumber: 4.0 Consensus size: 40
30390008 CGGATGTAAC
* * *
30390018 AACCAGCACAAATGCCTTCGGGACTTAACCCGTTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
30390058 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
30390098 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
30390138 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
30390176 TTTTTTTCCA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:30396901 original size:68 final size:68
Alignment explanation
Indices: 30396711--30397203 Score: 449
Period size: 67 Copynumber: 7.3 Consensus size: 68
30396701 TAAAAAGAGG
* * *
30396711 TACAATGTTTAAGACCATAGCTTGACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATG
1 TACAAGGTGTAAGACCATAGCTTAACTATGAC-AACCAATAGAGTCCGCCAGGACATTAAACATG
30396776 GGGT
65 GGGT
* * ** * * * *
30396780 TAAAATGTGTAAGACCATATATCT-ACTA-GACAACCAATAGAGTCTGCTAGGACATTCAATATG
1 TACAAGGTGTAAGACCATAGCT-TAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATG
*
30396843 GGTT
65 GGGT
* * *
30396847 TACAAGGTATAAGACCATTGCTTAACTGTGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
1 TACAAGGTGTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
30396912 GGT
66 GGT
* * ** * * * *
30396915 TAAAATGTGTAAGACCATAAATCT-ACTA-GACAACCAATATAGTCCGCTAGGACATTCAATATG
1 TACAAGGTGTAAGACCATAGCT-TAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATG
*
30396978 GGTT
65 GGGT
* * ** *
30396982 TACAAGGTTTAAGACCATAGCTCAACTAT-AGCAACCAATAGAGTCCATCATGACATTAAACAT-
1 TACAAGGTGTAAGACCATAGCTTAACTATGA-CAACCAATAGAGTCCGCCAGGACATTAAACATG
30397045 GGGT
65 GGGT
* * * * ** * * * * * *
30397049 TACAAGATGTAAAACCATAGCTCAATTACAACAAGCAATAGAGTTCGTCAGGATATTAAATATAG
1 TACAAGGTGTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
30397114 GGT
66 GGT
* * ** ** * *
30397117 TATAAGGTGTAAGACCATAGCTTGACTACAACAACCAATAGAGTCTACTAGGATATTAAACATGG
1 TACAAGGTGTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
30397182 GGT
66 GGT
**
30397185 TACAAGGCATAAGACCATA
1 TACAAGGTGTAAGACCATA
30397204 AGTCGATTAT
Statistics
Matches: 340, Mismatches: 75, Indels: 19
0.78 0.17 0.04
Matches are distributed among these distances:
66 1 0.00
67 159 0.47
68 156 0.46
69 23 0.07
70 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (68 bp):
TACAAGGTGTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
GGT
Found at i:30396964 original size:135 final size:135
Alignment explanation
Indices: 30396711--30397204 Score: 575
Period size: 135 Copynumber: 3.7 Consensus size: 135
30396701 TAAAAAGAGG
* * *
30396711 TACAATGTTTAAGACCATAGCTTGACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATG
1 TACAAGGTTTAAGACCATAGCTTAACTATGAC-AACCAATAGAGTCCACCAGGACATTAAACATG
* *
30396776 GGGTTAAAATGTGTAAGACCATATATCTACTAGACAACCAATAGAGTCTGCTAGGACATTCAATA
65 GGGTTAAAATGTGTAAGACCATAAATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATA
30396841 TGGGTT
130 TGGGTT
* * * *
30396847 TACAAGGTATAAGACCATTGCTTAACTGTGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
1 TACAAGGTTTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCACCAGGACATTAAACATGG
*
30396912 GGTTAAAATGTGTAAGACCATAAATCTACTAGACAACCAATATAGTCCGCTAGGACATTCAATAT
66 GGTTAAAATGTGTAAGACCATAAATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATAT
30396977 GGGTT
131 GGGTT
* * *
30396982 TACAAGGTTTAAGACCATAGCTCAACTAT-AGCAACCAATAGAGTCCATCATGACATTAAACAT-
1 TACAAGGTTTAAGACCATAGCTTAACTATGA-CAACCAATAGAGTCCACCAGGACATTAAACATG
* * ** * * * * * * *
30397045 GGGTTACAA-GATGTAAAACCATAGCTCAATTACAACAAGCAATAGAGTTCG-TCAGGATATTAA
65 GGGTTAAAATG-TGTAAGACCATAAATCTACTA-GACAACCAATAGAGTCCGCT-AGGACATTCA
30397108 ATATAGGG-T
127 ATAT-GGGTT
* * * ** * * *
30397117 TATAAGGTGTAAGACCATAGCTTGACTACAACAACCAATAGAGTCTACTAGGATATTAAACATGG
1 TACAAGGTTTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCACCAGGACATTAAACATGG
* * **
30397182 GGTTACAAGGCATAAGACCATAA
66 GGTTAAAATGTGTAAGACCATAA
30397205 GTCGATTATG
Statistics
Matches: 309, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
133 1 0.00
134 26 0.08
135 232 0.75
136 49 0.16
137 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (135 bp):
TACAAGGTTTAAGACCATAGCTTAACTATGACAACCAATAGAGTCCACCAGGACATTAAACATGG
GGTTAAAATGTGTAAGACCATAAATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATAT
GGGTT
Found at i:30402440 original size:20 final size:20
Alignment explanation
Indices: 30402415--30402453 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30402405 AAAATTTCAA
30402415 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
30402435 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
30402454 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:30405110 original size:46 final size:45
Alignment explanation
Indices: 30404966--30405112 Score: 120
Period size: 46 Copynumber: 3.2 Consensus size: 45
30404956 ATGGTGAACT
* *
30404966 AGTGTAAGACATGTCTGGGACATGCATCGACCACATT-ACAAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AGC-C-TTGAGAAGAAGCC
* *** * *
30405012 AGTGTAAGGCCATGT-TCGGGACATGGCATCAGTAGTGAGACGAGAGCT
1 AGTGTAA-GACATGTCT-GGGACAT-GCATCAGCCTTGAGAAGA-AGCC
*
30405060 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGAAG-AAGCC
30405106 AGTGTAA
1 AGTGTAA
30405113 CACCCCAAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
45 1 0.01
46 34 0.43
47 28 0.35
48 16 0.20
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGAAGAAGCC
Found at i:30413695 original size:15 final size:17
Alignment explanation
Indices: 30413669--30413702 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30413659 TTTCTATTCT
30413669 AATATCAGCACTGG-AA
1 AATATCAGCACTGGTAA
30413685 AATAT-AGCACTGGTAA
1 AATATCAGCACTGGTAA
30413701 AA
1 AA
30413703 CCTGATGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (17 bp):
AATATCAGCACTGGTAA
Found at i:30420175 original size:21 final size:21
Alignment explanation
Indices: 30420150--30420191 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30420140 ACAACATTTA
30420150 AGATAAATTTTATATTTATAT
1 AGATAAATTTTATATTTATAT
30420171 AGATAAATTTTATATTTATAT
1 AGATAAATTTTATATTTATAT
30420192 TTTTCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
AGATAAATTTTATATTTATAT
Found at i:30431968 original size:47 final size:47
Alignment explanation
Indices: 30431917--30432093 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
30431907 TGGTTGAACA
*
30431917 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
30431964 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATAT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* *
30432011 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
30432057 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30432094 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.02
44 4 0.04
45 1 0.01
46 37 0.34
47 57 0.53
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:30436105 original size:4 final size:5
Alignment explanation
Indices: 30436081--30436156 Score: 77
Period size: 6 Copynumber: 14.6 Consensus size: 5
30436071 TTTTTAGTTA
30436081 TTTAT TCTTAT TCTTAT TTTA- TTTAT TTTAT TTTATT TTTATT TTTATT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTA-T
30436130 TTTAT TTCTAT TTTA- -TTAT TTTAT TTT
1 TTTAT TT-TAT TTTAT TTTAT TTTAT TTT
30436157 GAAAGACATA
Statistics
Matches: 65, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 25 0.38
6 33 0.51
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:30436106 original size:25 final size:25
Alignment explanation
Indices: 30436068--30436155 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
30436058 TGACTCCTCC
*
30436068 TATT-TTTTAGTTATTTATTCTTAT
1 TATTATTTTATTTATTTATTCTTAT
*
30436092 TCTTATTTTATTTATTTTATT-TTAT
1 TATTATTTTATTTA-TTTATTCTTAT
* *
30436117 TTTTATTTT-TATT-TTTATTTCTATTT
1 TATTATTTTAT-TTATTTA-TTCT-TAT
30436143 TATTATTTTATTT
1 TATTATTTTATTT
30436156 TGAAAGACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 23 0.44
26 18 0.35
27 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (25 bp):
TATTATTTTATTTATTTATTCTTAT
Found at i:30436123 original size:37 final size:37
Alignment explanation
Indices: 30436068--30436156 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
30436058 TGACTCCTCC
30436068 TATT-TTTTAGTTATTTATTCTTATTCTTATTT-TATTT
1 TATTATTTTA-TT-TTTATTCTTATTCTTATTTCTATTT
* * *
30436105 ATTTTATTTTATTTTTATTTTTATTTTTATTTCTATTT
1 -TATTATTTTATTTTTATTCTTATTCTTATTTCTATTT
30436143 TATTATTTTATTTT
1 TATTATTTTATTTT
30436157 GAAAGACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
37 30 0.67
38 10 0.22
39 5 0.11
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (37 bp):
TATTATTTTATTTTTATTCTTATTCTTATTTCTATTT
Found at i:30440654 original size:46 final size:44
Alignment explanation
Indices: 30440565--30440687 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
30440555 GCATATCTGT
*
30440565 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* * * *
30440611 GCCGATGCATGTCTCAGACATGTATTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
* *
30440657 GCCGATGTATGTCCCAGACGTGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
30440688 AGCAGTTGTC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.17
45 13 0.20
46 41 0.63
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:30451468 original size:28 final size:28
Alignment explanation
Indices: 30451405--30451642 Score: 397
Period size: 28 Copynumber: 8.5 Consensus size: 28
30451395 ATATTAAGTC
* *
30451405 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30451432 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
30451460 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
30451488 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
30451516 TGCACACTTAGTGCTACATAATTAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30451544 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30451572 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30451600 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
30451628 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30451643 GTACAATTTA
Statistics
Matches: 204, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
27 22 0.11
28 182 0.89
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:30454836 original size:46 final size:46
Alignment explanation
Indices: 30454725--30454941 Score: 160
Period size: 46 Copynumber: 4.7 Consensus size: 46
30454715 GCATGTCTGT
** *
30454725 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTTATGTATCG-AG
** ** *
30454771 ATCGATGCATGTCTTAGACATGTCTTACACTGACTTATGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTATGTATCGAG
* * * * *
30454817 GCAGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTTATGTATCGAG
* * *
30454863 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-T-ATGTATCGAG
30454911 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
30454942 AGCTCACACA
Statistics
Matches: 136, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 58 0.43
47 31 0.23
48 20 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTATGTATCGAG
Found at i:30454891 original size:94 final size:93
Alignment explanation
Indices: 30454674--30454944 Score: 256
Period size: 94 Copynumber: 2.9 Consensus size: 93
30454664 TGGGGTCAGG
* * * * *
30454674 TGCCGATGTCATGTCCCAGACATGGTCTTACAC-AAGTTCTAGCATGTCTGTGCCGATGCCATGT
1 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTAT-G--TATC-GGGCCGATG-CATGT
30454738 CCCAGACATGGTCTTACACT-GACACATCTCGTAA
61 CCCAGACAT-GTCTTACACTAG-CACATCTCGTAA
** * *
30454772 T--CGATG-CATGTCTTAGACAT-GTCTTACACTGACTTATGTTTCGAGGCAGATGCATGTCCCA
1 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTATGTATCG-GGCCGATGCATGTCCCA
30454833 GACATGTCTTACACTAGCAC-TCGTC-TCAA
65 GACATGTCTTACACTAGCACATC-TCGT-AA
* *
30454862 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AAT-GTGGCCGATGCATGTCC
1 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACT-T-ATGTATCG-GGCCGATGCATGTCC
30454925 CAGACATGTCTTACACTAGC
63 CAGACATGTCTTACACTAGC
30454945 TCACACAAGT
Statistics
Matches: 147, Mismatches: 15, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
89 3 0.02
90 18 0.12
91 16 0.11
92 14 0.10
93 12 0.08
94 58 0.39
95 18 0.12
96 7 0.05
98 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTATGTATCGGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACATCTCGTAA
Found at i:30458797 original size:18 final size:18
Alignment explanation
Indices: 30458762--30458794 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30458752 GAATGATGGT
30458762 TTTAACTATTATTTATAA
1 TTTAACTATTATTTATAA
30458780 TTTAA-TATT-TTTATA
1 TTTAACTATTATTTATA
30458795 TAACATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAACTATTATTTATAA
Found at i:30459474 original size:21 final size:21
Alignment explanation
Indices: 30459435--30459475 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30459425 GTTTAGGGGC
*
30459435 AGAGGTGATGGAGGGAGAGGG
1 AGAGGTGATGGAGGAAGAGGG
* *
30459456 AGAGGTGGTGGTGGAAGAGG
1 AGAGGTGATGGAGGAAGAGG
30459476 TGGCGATAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (21 bp):
AGAGGTGATGGAGGAAGAGGG
Found at i:30465936 original size:33 final size:33
Alignment explanation
Indices: 30465897--30465963 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
30465887 AATGATAATA
30465897 GTCCATATTCCTATTTTTCCCACAGAACCAAGT
1 GTCCATATTCCTATTTTTCCCACAGAACCAAGT
* *
30465930 GTCCATATTTCTATTTTTCCCAGAGAACCAAGT
1 GTCCATATTCCTATTTTTCCCACAGAACCAAGT
30465963 G
1 G
30465964 GAAACTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (33 bp):
GTCCATATTCCTATTTTTCCCACAGAACCAAGT
Found at i:30468750 original size:20 final size:20
Alignment explanation
Indices: 30468727--30468776 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30468717 AAATCCAAAT
30468727 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
30468747 TAAAATCCTGAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
30468767 TAAGAATACT
1 TAA-AATACT
30468777 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:30469104 original size:22 final size:22
Alignment explanation
Indices: 30469062--30469104 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30469052 TTTTTCTTTT
* *
30469062 CATTTATTAAAAGATTTTTCTG
1 CATTTATTAAAACATTGTTCTG
30469084 CATTTATTAAAACCA-TGTTCT
1 CATTTATTAAAA-CATTGTTCT
30469105 TACGTATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.47
Consensus pattern (22 bp):
CATTTATTAAAACATTGTTCTG
Found at i:30472615 original size:18 final size:19
Alignment explanation
Indices: 30472559--30472610 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
30472549 AAATTATAAA
30472559 AAAAATT-AAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
30472577 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
30472597 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
30472611 TTATATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Done.