Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 73
Found at i:8966106 original size:21 final size:21
Alignment explanation
Indices: 8966080--8966129 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8966070 TGCGATTCAA
*
8966080 TTGCTTTAGATTCATAAACTC
1 TTGCTTCAGATTCATAAACTC
8966101 TTGCTTCAGATTCATAAACTC
1 TTGCTTCAGATTCATAAACTC
8966122 TTGCTTCA
1 TTGCTTCA
8966130 TCTTTCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (21 bp):
TTGCTTCAGATTCATAAACTC
Found at i:8967430 original size:20 final size:19
Alignment explanation
Indices: 8967405--8967473 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 19
8967395 ATTTATCTTG
*
8967405 ATGGACCACTTTGTCCCGAA
1 ATGGACCACTATGTCCCG-A
8967425 ATGGACCACTATGTCCCGA
1 ATGGACCACTATGTCCCGA
* *
8967444 AT-GACCACTATATCTCGA
1 ATGGACCACTATGTCCCGA
8967462 A-GGACCACTATG
1 ATGGACCACTATG
8967474 AACCCTTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 24 0.55
19 3 0.07
20 17 0.39
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (19 bp):
ATGGACCACTATGTCCCGA
Found at i:8968216 original size:20 final size:18
Alignment explanation
Indices: 8968190--8968239 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
8968180 CTACTATACT
8968190 ATGGTATCGATACCTCCAC
1 ATGGTATCGATACCTCC-C
8968209 ATTGGTATCGATA-CTCCC
1 A-TGGTATCGATACCTCCC
*
8968227 ATAGTATCGATAC
1 ATGGTATCGATAC
8968240 TACACTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 5 0.18
20 11 0.39
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (18 bp):
ATGGTATCGATACCTCCC
Found at i:8968235 original size:17 final size:19
Alignment explanation
Indices: 8968193--8968240 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
8968183 CTATACTATG
*
8968193 GTATCGATACCTCCACATTG
1 GTATCGATA-CTCCACATTA
8968213 GTATCGATACTCC-CA-TA
1 GTATCGATACTCCACATTA
8968230 GTATCGATACT
1 GTATCGATACT
8968241 ACACTTCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.44
18 2 0.07
19 4 0.15
20 9 0.33
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (19 bp):
GTATCGATACTCCACATTA
Found at i:8975790 original size:103 final size:102
Alignment explanation
Indices: 8975609--8976004 Score: 481
Period size: 103 Copynumber: 3.9 Consensus size: 102
8975599 TTGATACAAT
* * * * *
8975609 CAATTTCGTCTTTCTTGAGACAACTTCTCTTGAAGCGCAAAATTTGAAATTGTTTCACTCGAAAC
1 CAATTTTGTCTCTCTTGAGACAACTTCTCTTGAAACACAAAATTTGGAATTGTTTCACTCGAAAC
* *
8975674 GAAGTTTTGATCTCACTTAAGATTGTTTTTCTTAAAA
66 GAAGTTTTGATCTCACTTGAGATTGCTTTTCTTAAAA
** * * *
8975711 CACATTTCATCTCACTTGAGACAACTGCTTTTGAAACACAAAATTTGGAATTGTTTCACTCGAAA
1 CA-ATTTTGTCTCTCTTGAGACAACTTCTCTTGAAACACAAAATTTGGAATTGTTTCACTCGAAA
8975776 CGAAGTTTTGATCTCACTTGAGATTGCTTTTCTTAAAA
65 CGAAGTTTTGATCTCACTTGAGATTGCTTTTCTTAAAA
* * * * * *
8975814 TCATTTTTGTCTTTCTTGAGGCAACTTCTCTTGAAGCGCAAAATTTGGAATTGTTTCACTCAAAA
1 -CAATTTTGTCTCTCTTGAGACAACTTCTCTTGAAACACAAAATTTGGAATTGTTTCACTCGAAA
** * *
8975879 ATAAGTTTTGATTTCACTTGAGATTGGTTTTCTTAAAA
65 CGAAGTTTTGATCTCACTTGAGATTGCTTTTCTTAAAA
* * * *
8975917 CAAATTTTGTCTCTCTTGAGACACATTTC-CTTAAAACACAAAATCTAGAATTGTTTCACTCGAA
1 C-AATTTTGTCTCTCTTGAGACA-ACTTCTCTTGAAACACAAAATTTGGAATTGTTTCACTCGAA
* * *
8975981 ACAAAATTTT-ATCTCACATGAGAT
64 ACGAAGTTTTGATCTCACTTGAGAT
8976005 AACTTCTTTT
Statistics
Matches: 250, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
102 15 0.06
103 229 0.92
104 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (102 bp):
CAATTTTGTCTCTCTTGAGACAACTTCTCTTGAAACACAAAATTTGGAATTGTTTCACTCGAAAC
GAAGTTTTGATCTCACTTGAGATTGCTTTTCTTAAAA
Found at i:8975970 original size:206 final size:205
Alignment explanation
Indices: 8975606--8976004 Score: 566
Period size: 206 Copynumber: 1.9 Consensus size: 205
8975596 CATTTGATAC
*
8975606 AATCAATTTCGTCTTTCTTGAGACAACTTCTCTTGAAGCGCAAAATTTGAAATTGTTTCACTCGA
1 AATCAATTTCGTCTTTCTTGAGACAACTTCTCTTGAAGCGCAAAATTTGAAATTGTTTCACTCAA
* * *
8975671 AACGAAGTTTTGATCTCACTTAAGATTGTTTTTCTTAAAACACATTTCATCTCACTTGAGACAAC
66 AAAGAAGTTTTGATCTCACTTAAGATTGGTTTTCTTAAAACAAATTTCATCTCACTTGAGACAAC
* * * * * * *
8975736 TGCTTTTGAAACACAAAATTTGGAATTGTTTCACTCGAAACGAAGTTTTGATCTCACTTGAGATT
131 TGCTCTTAAAACACAAAATCTAGAATTGTTTCACTCGAAACAAAATTTT-ATCTCACATGAGATT
8975801 GCTTTTCTTAA
195 GCTTTTCTTAA
* * * *
8975812 AATCATTTTTGTCTTTCTTGAGGCAACTTCTCTTGAAGCGCAAAATTTGGAATTGTTTCACTCAA
1 AATCAATTTCGTCTTTCTTGAGACAACTTCTCTTGAAGCGCAAAATTTGAAATTGTTTCACTCAA
* * * ** *
8975877 AAATAAGTTTTGATTTCACTTGAGATTGGTTTTCTTAAAACAAATTTTGTCTCTCTTGAGACACA
66 AAAGAAGTTTTGATCTCACTTAAGATTGGTTTTCTTAAAACAAATTTCATCTCACTTGAGACA-A
* *
8975942 TTTC-CTTAAAACACAAAATCTAGAATTGTTTCACTCGAAACAAAATTTTATCTCACATGAGAT
130 CTGCTCTTAAAACACAAAATCTAGAATTGTTTCACTCGAAACAAAATTTTATCTCACATGAGAT
8976005 AACTTCTTTT
Statistics
Matches: 169, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
205 13 0.08
206 153 0.91
207 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (205 bp):
AATCAATTTCGTCTTTCTTGAGACAACTTCTCTTGAAGCGCAAAATTTGAAATTGTTTCACTCAA
AAAGAAGTTTTGATCTCACTTAAGATTGGTTTTCTTAAAACAAATTTCATCTCACTTGAGACAAC
TGCTCTTAAAACACAAAATCTAGAATTGTTTCACTCGAAACAAAATTTTATCTCACATGAGATTG
CTTTTCTTAA
Found at i:8976550 original size:42 final size:43
Alignment explanation
Indices: 8976488--8976576 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 43
8976478 TTACTCGGTC
*
8976488 CTTCACAGAAAAAGTGGGATCAGT-AACAACCTTTCACTTGATT
1 CTTCACAGAAAAAGTGGGATCAGTGAA-AACCGTTCACTTGATT
* * * *
8976531 CTTCA-AGAAATAGTTGGATCAGTGAAAACCGTTCGCTTGGTT
1 CTTCACAGAAAAAGTGGGATCAGTGAAAACCGTTCACTTGATT
8976573 CTTC
1 CTTC
8976577 GTAGAAGGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
42 33 0.82
43 7 0.17
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCACAGAAAAAGTGGGATCAGTGAAAACCGTTCACTTGATT
Found at i:8980712 original size:3 final size:3
Alignment explanation
Indices: 8980704--8980730 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8980694 ATTTATTAAG
8980704 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8980731 TTACGTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8986583 original size:16 final size:16
Alignment explanation
Indices: 8986562--8986592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8986552 TATTTACCTT
*
8986562 TACCATATCCATTTCA
1 TACCATAACCATTTCA
8986578 TACCATAACCATTTC
1 TACCATAACCATTTC
8986593 TTTTAGCCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (16 bp):
TACCATAACCATTTCA
Found at i:8986955 original size:17 final size:17
Alignment explanation
Indices: 8986933--8986965 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8986923 ATCTTACCTT
*
8986933 TACCATATCCATTTCTA
1 TACCATAACCATTTCTA
8986950 TACCATAACCATTTCT
1 TACCATAACCATTTCT
8986966 TTTAGCCGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:8991688 original size:19 final size:19
Alignment explanation
Indices: 8991656--8991695 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8991646 GCACACTCAC
*
8991656 ATTATCATGTTTTGGTTCA
1 ATTATCATGGTTTGGTTCA
*
8991675 ATTATTATGGTTTGGTTCA
1 ATTATCATGGTTTGGTTCA
8991694 AT
1 AT
8991696 ATGCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (19 bp):
ATTATCATGGTTTGGTTCA
Found at i:8991900 original size:20 final size:22
Alignment explanation
Indices: 8991857--8991902 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
8991847 TACAATAAGT
* *
8991857 ATATATGTTTAAATTTTTACTC
1 ATATATGTTTAAATATCTACTC
8991879 ATATAT-TTTAAATATCTA-TC
1 ATATATGTTTAAATATCTACTC
8991899 ATAT
1 ATAT
8991903 TAGATTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 10 0.45
22 6 0.27
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATGTTTAAATATCTACTC
Found at i:9011801 original size:15 final size:15
Alignment explanation
Indices: 9011777--9011819 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
9011767 TGAGTGTTTG
9011777 TTTG-TTTATTTTTA
1 TTTGTTTTATTTTTA
9011791 TTTGTTTTATTTTT-
1 TTTGTTTTATTTTTA
* *
9011805 TTAGTTTTAATTTTA
1 TTTGTTTTATTTTTA
9011820 ATATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTGTTTTATTTTTA
Found at i:9019217 original size:3 final size:3
Alignment explanation
Indices: 9019211--9019235 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9019201 ATAATTCTCA
9019211 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
9019236 GGTTTTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:9028063 original size:59 final size:59
Alignment explanation
Indices: 9027964--9028100 Score: 179
Period size: 59 Copynumber: 2.3 Consensus size: 59
9027954 TAGCAGGCTG
** *
9027964 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGCG-CACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAAATGGTG-GACACGACCTTATGTGT
* ** *
9028023 CATATTCGGGACTGTACTTAAGGATACCTAGTACAAATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAAATGGTGGACACGACCTTATGTGT
9028082 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
9028101 CGATGCTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 2 0.03
59 63 0.97
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAAATGGTGGACACGACCTTATGTGT
Found at i:9028295 original size:47 final size:45
Alignment explanation
Indices: 9028201--9028326 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
9028191 GTAAGCATAT
* * *
9028201 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
* *
9028245 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTAGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGAGTA
9028292 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
9028327 GGATTTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
Found at i:9035922 original size:47 final size:45
Alignment explanation
Indices: 9035828--9035953 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
9035818 GTAAGAATAT
* * * *
9035828 AAATAGGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
* *
9035872 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTAGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGAGTA
9035919 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
9035954 GGATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
Found at i:9047419 original size:2 final size:2
Alignment explanation
Indices: 9047412--9047440 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9047402 ATGACATGAG
9047412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9047441 GAAGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9047977 original size:23 final size:22
Alignment explanation
Indices: 9047947--9048042 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 22
9047937 GTCGAGGGTT
9047947 CTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
*
9047969 CCTATGTGGTCATTCGGGACAAAA
1 -CTATGTGGTCCTTCGGGAC-AAA
* * *
9047993 CTATCTAGTCCTTCAGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
9048015 -TATGTGG-CACTTCGGTG-CAAA
1 CTATGTGGTC-CTTCGG-GACAAA
*
9048036 TTATGTG
1 CTATGTG
9048043 AACAGTGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.02
21 14 0.23
22 10 0.16
23 33 0.54
24 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:9050381 original size:23 final size:23
Alignment explanation
Indices: 9050351--9050420 Score: 131
Period size: 23 Copynumber: 3.0 Consensus size: 23
9050341 AGCGATAAAA
9050351 TACCTTACTTTAGTTTATATATG
1 TACCTTACTTTAGTTTATATATG
9050374 TACCTTACTTTAGTTTATATATG
1 TACCTTACTTTAGTTTATATATG
*
9050397 TACCTTACTTTATTTTATATATG
1 TACCTTACTTTAGTTTATATATG
9050420 T
1 T
9050421 GCCTCATTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (23 bp):
TACCTTACTTTAGTTTATATATG
Found at i:9051774 original size:16 final size:17
Alignment explanation
Indices: 9051743--9051775 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9051733 TGTGAGTTTA
*
9051743 ACAAGGTAAGTTGATTT
1 ACAACGTAAGTTGATTT
9051760 ACAACGTAA-TTGATTT
1 ACAACGTAAGTTGATTT
9051776 CCAATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (17 bp):
ACAACGTAAGTTGATTT
Found at i:9055836 original size:2 final size:2
Alignment explanation
Indices: 9055829--9055888 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
9055819 GATTTGGCAT
9055829 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9055870 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
9055889 GAGAAATGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9057868 original size:16 final size:15
Alignment explanation
Indices: 9057847--9057889 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
9057837 ATTTCTATTT
9057847 TCAAATAATTGTTCAA
1 TCAAATAATT-TTCAA
9057863 TCAAATAATTTTCAA
1 TCAAATAATTTTCAA
9057878 --AAATATATTTTC
1 TCAAATA-ATTTTC
9057890 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 5 0.19
16 10 0.38
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (15 bp):
TCAAATAATTTTCAA
Found at i:9058362 original size:29 final size:29
Alignment explanation
Indices: 9058300--9058356 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9058290 TAATTATTTT
* * **
9058300 ATTTTAGTTCTTTAATTTCTTGCATTTAC
1 ATTTTAGTCCTTTAAATTCTCACATTTAC
9058329 ATTTTAGTCCTTTAAATTCTCACATTTA
1 ATTTTAGTCCTTTAAATTCTCACATTTA
9058357 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (29 bp):
ATTTTAGTCCTTTAAATTCTCACATTTAC
Found at i:9060079 original size:225 final size:221
Alignment explanation
Indices: 9059689--9060134 Score: 696
Period size: 225 Copynumber: 2.0 Consensus size: 221
9059679 ACTTGGATAC
* *
9059689 TGTTGAGTTAATCGATCGATGGAATTGGCCAAGAGGGGGGTAAATTGGTAATAAAAATTTTGGTG
1 TGTTGAGTTAATCGATCGACGGAATTGGCCAAGAGGGGGGTAAATTGGCAATAAAAATTTTGGTG
** *
9059754 GAAGCTTTTGCAGAAAATTGAAAAGTTTTGCACAGCAATTTAGAGTGGTTCGAGTTTCTCAACAA
66 GAAGCTTTTGCAGAAAATTGAAAAGAATTGCACAGCAATTTAGAGTGGTTCGACTTTCTCAACAA
*
9059819 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTATAACAAATTCACTAATTTGTTC
131 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTT-CAACAAATTCACTAATTTG-TC
*
9059884 TTTCTTTTGAGGCCAAAGAGATAACCTTA
194 TTTCTTTTGAGGACAAAGAG-TAACCTTA
* *
9059913 TGTTGAGTTAATCGATTGACGGAATTGGCCAAGAGGGGGGGTGAATTGGCAATAAAAATTTTGGT
1 TGTTGAGTTAATCGATCGACGGAATTGGCCAAGA-GGGGGGTAAATTGGCAATAAAAATTTTGGT
*
9059978 GGAAGCTTTTGCAGAAAATTG-AAAGAAATTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAAC
65 GGAAGCTTTTGCAGAAAATTGAAAAG-AATTGCACAGCAATTTAGAGTGGTTCGACTTTCTCAAC
* * * * *
9060042 CAAAGTCTATGTCTACTACCTTAGCTATCCACACTAAGTATTTTCCACAAATTCACTAATTTGTC
129 AAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCAACAAATTCACTAATTTGTC
*
9060107 TTTCTTTTGAGGACATAGAGTAACCTTA
194 TTTCTTTTGAGGACAAAGAGTAACCTTA
9060135 CAAACCCTCA
Statistics
Matches: 204, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
222 8 0.04
223 20 0.10
224 53 0.26
225 123 0.60
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (221 bp):
TGTTGAGTTAATCGATCGACGGAATTGGCCAAGAGGGGGGTAAATTGGCAATAAAAATTTTGGTG
GAAGCTTTTGCAGAAAATTGAAAAGAATTGCACAGCAATTTAGAGTGGTTCGACTTTCTCAACAA
AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCAACAAATTCACTAATTTGTCTT
TCTTTTGAGGACAAAGAGTAACCTTA
Found at i:9061358 original size:15 final size:15
Alignment explanation
Indices: 9061332--9061379 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
9061322 TTCAAACATC
*
9061332 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
9061348 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
9061365 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
9061380 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:9061704 original size:12 final size:12
Alignment explanation
Indices: 9061687--9061712 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9061677 TTGTTGTGCT
9061687 TGCTCCTCGGGC
1 TGCTCCTCGGGC
9061699 TGCTCCTCGGGC
1 TGCTCCTCGGGC
9061711 TG
1 TG
9061713 TTCAGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:9063417 original size:20 final size:20
Alignment explanation
Indices: 9063388--9063425 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9063378 CCTCTTCAAA
*
9063388 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
9063408 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
9063426 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:9070177 original size:65 final size:65
Alignment explanation
Indices: 9070044--9070203 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 65
9070034 TACACTAAGA
* * *
9070044 GTGCATCGATACATGAAATGCATTCGATG-TTTCAAAATAGCCATAGTGCGTCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATAGCTG
*
9070108 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTC-TGAGTGCATCGATGCATAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAT-AGTGCATCGATGCATAG
*
9070170 -TAT
63 CT-G
*
9070173 GTGCATCGGTGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
9070204 CAATTTATTC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
64 30 0.36
65 51 0.61
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATAGCTG
Found at i:9070727 original size:2 final size:2
Alignment explanation
Indices: 9070720--9070802 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
9070710 AATTGATTAA
9070720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9070762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9070803 GCTTAAGCTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9072522 original size:13 final size:13
Alignment explanation
Indices: 9072504--9072528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9072494 AATCAAAAAC
9072504 ATCAAATTTAGAA
1 ATCAAATTTAGAA
9072517 ATCAAATTTAGA
1 ATCAAATTTAGA
9072529 TTTTTGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:9072969 original size:23 final size:22
Alignment explanation
Indices: 9072942--9073020 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
9072932 GCATGGCCTT
9072942 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
9072964 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
9072986 GTGTATCGATGCACTTTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
*
9073009 GATGCATTGATG
1 G-TGCATCGATG
9073021 TACTGTTAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
21 15 0.34
22 2 0.05
23 19 0.43
24 8 0.18
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:9072998 original size:21 final size:22
Alignment explanation
Indices: 9072942--9073004 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
9072932 GCATGGCCTT
9072942 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTC-AGGC
* * *
9072965 GTGCATCGGTGCACCTTCATG-
1 GTGCATCGATGCACATTCAGGC
* *
9072986 GTGTATCGATGCACTTTCA
1 GTGCATCGATGCACATTCA
9073005 AAGGGATGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 16 0.47
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGC
Found at i:9073039 original size:20 final size:20
Alignment explanation
Indices: 9073014--9073062 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
9073004 AAAGGGATGC
*
9073014 ATTGATGTACTGTTAAGTGT
1 ATTGATGCACTGTTAAGTGT
9073034 ATTGATGCACTGTTAAGTGT
1 ATTGATGCACTGTTAAGTGT
*
9073054 ATCGATGCA
1 ATTGATGCA
9073063 TGAAGCACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTGATGCACTGTTAAGTGT
Found at i:9076845 original size:22 final size:21
Alignment explanation
Indices: 9076803--9076842 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9076793 GAGCTTATTT
*
9076803 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9076824 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9076843 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9078954 original size:20 final size:20
Alignment explanation
Indices: 9078929--9078984 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
9078919 ATTTATTCCA
*
9078929 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGGTGCATGGAT
9078949 TGGTGCATCGGTGCATGGAT
1 TGGTGCATCGGTGCATGGAT
9078969 TGGTGCATCGGTGCAT
1 TGGTGCATCGGTGCAT
9078985 CACTTTGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.38, T:0.30
Consensus pattern (20 bp):
TGGTGCATCGGTGCATGGAT
Found at i:9078955 original size:65 final size:64
Alignment explanation
Indices: 9078766--9078965 Score: 214
Period size: 65 Copynumber: 3.1 Consensus size: 64
9078756 AGTGTAACGA
* * * *
9078766 TGCATGAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGCATCGATGCATGGCTGGTGCATCGA
1 TGCATGAAATGCATTCGATGTTTC-AATTAACCATGAGTGCATCGATGCATGGTTGGTGCATCGG
* * *
9078830 TGCATCAAATGCATTCGATGTTTTC-ATAAAACTC-TGAGTGCATCGATGCATAGTAT-GTGCAT
1 TGCATGAAATGCATTCGATG-TTTCAAT-TAAC-CATGAGTGCATCGATGCATGGT-TGGTGCAT
9078892 CGG
62 CGG
*
9078895 TGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGATTGGTGCATC
1 TGCATGAAATGCATTCGATGTTTCAA-TTA-ACCATGAGTGCATCGATGCATGG-TTGGTGCATC
9078958 GG
63 GG
9078960 TGCATG
1 TGCATG
9078966 GATTGGTGCA
Statistics
Matches: 114, Mismatches: 11, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
63 4 0.04
64 40 0.35
65 69 0.61
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATGAAATGCATTCGATGTTTCAATTAACCATGAGTGCATCGATGCATGGTTGGTGCATCGG
Found at i:9082685 original size:31 final size:31
Alignment explanation
Indices: 9082649--9082708 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
9082639 AACTTAAAAG
* *
9082649 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
9082680 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
9082709 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:9083411 original size:20 final size:21
Alignment explanation
Indices: 9083362--9083413 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
9083352 ATAATATAAG
*
9083362 AAATAATATTTAATTATTTAAA
1 AAATAATA-TTAATTATCTAAA
9083384 AAATTAATATTAA-TATCTAAA
1 AAA-TAATATTAATTATCTAAA
*
9083405 ATATAATAT
1 AAATAATAT
9083414 AAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 9 0.33
22 7 0.26
23 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATATTAATTATCTAAA
Found at i:9083418 original size:12 final size:12
Alignment explanation
Indices: 9083401--9083498 Score: 53
Period size: 12 Copynumber: 8.4 Consensus size: 12
9083391 TATTAATATC
9083401 TAAAATATAATA
1 TAAAATATAATA
*
9083413 TAAAATTTAATA
1 TAAAATATAATA
** * *
9083425 TTTAAT-TTATT
1 TAAAATATAATA
9083436 TAAAA-ATTAATA
1 TAAAATA-TAATA
*
9083448 TTAAAAT-TAAAA
1 -TAAAATATAATA
*
9083460 TCAAATATAATA
1 TAAAATATAATA
* *
9083472 TAATATAAAAT-
1 TAAAATATAATA
*
9083483 TAAATTA-AATA
1 TAAAATATAATA
9083494 TAAAA
1 TAAAA
9083499 CCTCTTTGAA
Statistics
Matches: 62, Mismatches: 18, Indels: 13
0.67 0.19 0.14
Matches are distributed among these distances:
10 3 0.05
11 20 0.32
12 34 0.55
13 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:9083424 original size:55 final size:54
Alignment explanation
Indices: 9083351--9083469 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 54
9083341 ATTAAATATC
*
9083351 TATAATATAAGAAATAATATTTAA-TTATTTAAAAAATTAATATTAATATCTAAAA
1 TATAATATAAGAAATAATATTTAATTTATTT-AAAAATTAATATTAAAAT-TAAAA
*
9083406 TATAATATAA-AATTTAATATTTAATTTATTTAAAAATTAATATTAAAATTAAAA
1 TATAATATAAGAA-ATAATATTTAATTTATTTAAAAATTAATATTAAAATTAAAA
9083460 TCA-AATATAA
1 T-ATAATATAA
9083470 TATAATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
54 15 0.25
55 38 0.64
56 6 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (54 bp):
TATAATATAAGAAATAATATTTAATTTATTTAAAAATTAATATTAAAATTAAAA
Found at i:9083459 original size:19 final size:19
Alignment explanation
Indices: 9083382--9083459 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
9083372 TAATTATTTA
*
9083382 AAAAATTAATATTAATATCT
1 AAAAATTAATATTAAAAT-T
9083402 -AAAATATAATA-TAAAATTT
1 AAAAAT-TAATATTAAAA-TT
* * *
9083421 AATATTTAAT-TT--ATTT
1 AAAAATTAATATTAAAATT
9083437 AAAAATTAATATTAAAATT
1 AAAAATTAATATTAAAATT
9083456 AAAA
1 AAAA
9083460 TCAAATATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 15
0.67 0.11 0.23
Matches are distributed among these distances:
16 10 0.23
17 3 0.07
19 22 0.50
20 9 0.20
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTAATATTAAAATT
Found at i:9083482 original size:22 final size:22
Alignment explanation
Indices: 9083455--9083496 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9083445 ATATTAAAAT
9083455 TAAAATCAAA-TATAATATAATA
1 TAAAATCAAATTA-AATATAATA
*
9083477 TAAAATTAAATTAAATATAA
1 TAAAATCAAATTAAATATAA
9083497 AACCTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATCAAATTAAATATAATA
Found at i:9083745 original size:22 final size:22
Alignment explanation
Indices: 9083712--9084115 Score: 456
Period size: 22 Copynumber: 18.8 Consensus size: 22
9083702 TGCAACTATA
9083712 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
*** *
9083734 GAAAAATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATG
*
9083756 GATTGATTTATTTT-AAATATA
1 GATTGATTTATTTTAAAATATG
9083777 GATTGATTTA-TTTAAAATATG
1 GATTGATTTATTTTAAAATATG
9083798 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
*
9083820 GATTGATTTATTTTAAAAT-TT
1 GATTGATTTATTTTAAAATATG
***
9083841 GAAAAATTTTATTTTAAAATATG
1 GATTGA-TTTATTTTAAAATATG
*
9083864 AATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
*** *
9083886 GAAAAATTTATTTTAAAATATC
1 GATTGATTTATTTTAAAATATG
9083908 GATTGA-TTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
*** * *
9083929 GAACCAATTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATG
9083951 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
* *
9083973 AATTGATTTATTTTAAAATAGG
1 GATTGATTTATTTTAAAATATG
9083995 GATTGATTT-TTTTAAAAATAT-
1 GATTGATTTATTTT-AAAATATG
***
9084016 GAAAAATTTTATTTTAAAATATG
1 GATTGA-TTTATTTTAAAATATG
9084039 GATTGATTTA-TTTAAAATATG
1 GATTGATTTATTTTAAAATATG
9084060 GATTGA-TT-TTTT-AAA-ATG
1 GATTGATTTATTTTAAAATATG
*
9084078 GATTGATTT-TTTTTAAATATG
1 GATTGATTTATTTTAAAATATG
*
9084099 AATTGATTT-TTTTAAAA
1 GATTGATTTATTTTAAAA
9084116 AATTTATTAT
Statistics
Matches: 322, Mismatches: 47, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.03
19 9 0.03
20 11 0.03
21 96 0.30
22 187 0.58
23 10 0.03
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.48
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATG
Found at i:9083959 original size:131 final size:130
Alignment explanation
Indices: 9083717--9084115 Score: 442
Period size: 131 Copynumber: 3.1 Consensus size: 130
9083707 CTATAGATTG
** ***
9083717 ATTTATTTTAAAATATGGAA-AAATTTATTTTAAAATATAGATTGATTTATTTT-AAATATAGAT
1 ATTTATTTTAAAATAT-GAATTGATTTATTTTAAAATAT-GAAAAATTTATTTTAAAATATAGAT
*** * * *
9083780 TGATTTATTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATTTGAA-
64 TGATTTATTTAAAATATGGAACCAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAT
9083844 AA
129 AA
*
9083846 ATTTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATCGAT
1 A-TTTATTTTAAAATATGAATTGATTTATTTTAAAATAT-GAAAAATTTATTTTAAAATATAGAT
9083911 TGA-TTATTTTAAAATATGGAACCAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAA
64 TGATTTA-TTTAAAATATGGAACCAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAA
**
9083975 TTG
128 TAA
* * *
9083978 ATTTATTTTAAAATAGGGATTGATTT-TTTTAAAAATATGAAAAATTTTATTTTAAAATATGGAT
1 ATTTATTTTAAAATATGAATTGATTTATTTT-AAAATATGAAAAA-TTTATTTTAAAATATAGAT
*** * *
9084042 TGATTTATTTAAAATATGG-ATTGATT-TTTT-AAA-ATGGATTGATTT-TTTTTAAATATGAAT
64 TGATTTATTTAAAATATGGAACCAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAT
**
9084102 TG
129 AA
9084104 ATTT-TTTTAAAA
1 ATTTATTTTAAAA
9084116 AATTTATTAT
Statistics
Matches: 239, Mismatches: 23, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
125 8 0.03
126 20 0.08
127 11 0.05
128 3 0.01
129 8 0.03
130 59 0.25
131 126 0.53
132 4 0.02
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (130 bp):
ATTTATTTTAAAATATGAATTGATTTATTTTAAAATATGAAAAATTTATTTTAAAATATAGATTG
ATTTATTTAAAATATGGAACCAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAATAA
Found at i:9084196 original size:31 final size:31
Alignment explanation
Indices: 9084139--9084197 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9084129 AGTTGTATGT
*
9084139 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
9084170 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
9084198 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:9085934 original size:23 final size:23
Alignment explanation
Indices: 9085908--9085958 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
9085898 TGGAAGACGC
9085908 TTAATTAATAAATA-AATTAATAT
1 TTAATTAATAAATAGAATTAA-AT
* *
9085931 TTAATTAATCAATAGCATTAAAT
1 TTAATTAATAAATAGAATTAAAT
9085954 TTAAT
1 TTAAT
9085959 CCGACTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAATTAATAAATAGAATTAAAT
Found at i:9087142 original size:17 final size:17
Alignment explanation
Indices: 9087098--9087153 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
9087088 TTTATGATAA
*
9087098 AATTGGAATCTGTGAAGG
1 AATTGGAATCTGTCAA-G
**
9087116 AATTATAATCTGTCAAG
1 AATTGGAATCTGTCAAG
*
9087133 AATTGGAATCTGTCATG
1 AATTGGAATCTGTCAAG
9087150 AATT
1 AATT
9087154 ATAATCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
AATTGGAATCTGTCAAG
Found at i:9087159 original size:17 final size:17
Alignment explanation
Indices: 9087104--9087159 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
9087094 ATAAAATTGG
*
9087104 AATCTGTGAAGGAATTAT
1 AATCTGTCAA-GAATTAT
**
9087122 AATCTGTCAAGAATTGG
1 AATCTGTCAAGAATTAT
*
9087139 AATCTGTCATGAATTAT
1 AATCTGTCAAGAATTAT
9087156 AATC
1 AATC
9087160 AAATTTCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 23 0.72
18 9 0.28
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (17 bp):
AATCTGTCAAGAATTAT
Found at i:9087536 original size:34 final size:34
Alignment explanation
Indices: 9087488--9087564 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
9087478 TGGTCCACCC
9087488 GACCCGACCCGAGAACAAAGGAACCTCCATCCGA
1 GACCCGACCCGAGAACAAAGGAACCTCCATCCGA
* *
9087522 GACCCGACCTGAGAATAAAGGAACCTCCATCCGA
1 GACCCGACCCGAGAACAAAGGAACCTCCATCCGA
9087556 GACCCGACC
1 GACCCGACC
9087565 AGAATATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.08
Consensus pattern (34 bp):
GACCCGACCCGAGAACAAAGGAACCTCCATCCGA
Found at i:9087645 original size:2 final size:2
Alignment explanation
Indices: 9087638--9087674 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9087628 CAGTGACTTA
9087638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9087675 GGTATTATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9087863 original size:37 final size:37
Alignment explanation
Indices: 9087769--9087873 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
9087759 CATTTTCGTC
*
9087769 CTACTAGGATTCAAACTCTTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
9087806 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
9087843 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
9087874 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:9088140 original size:15 final size:15
Alignment explanation
Indices: 9088108--9088201 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
9088098 ATTATTTTCA
9088108 TTTA-TTTTT-ATAT
1 TTTATTTTTTAATAT
9088121 ATTTATTTTTTAATAT
1 -TTTATTTTTTAATAT
* *
9088137 TTTATTATATAATAT
1 TTTATTTTTTAATAT
* *
9088152 TATATATATTGTAATTAT
1 T-T-TATTTTTTAA-TAT
*
9088170 CTTTA-TTTTTACTA-
1 -TTTATTTTTTAATAT
*
9088184 TATATTTTTT-ATAT
1 TTTATTTTTTAATAT
9088198 TTTA
1 TTTA
9088202 ATAGTTTATT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
13 5 0.08
14 12 0.20
15 21 0.34
16 9 0.15
17 9 0.15
18 4 0.07
19 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTATTTTTTAATAT
Found at i:9088221 original size:69 final size:68
Alignment explanation
Indices: 9088070--9088229 Score: 179
Period size: 69 Copynumber: 2.4 Consensus size: 68
9088060 ATTATTATAT
* *
9088070 GTTTATTATATATA-TATATATA-TGTTAAATTATTTTCATTTATTTTTATATATTTATTTTTTA
1 GTTTATTATATATATTATATATATTGTTAAATTATTTTCATTTATTTATATATATTTATATTTTA
9088133 ATA
66 ATA
* *
9088136 TTTTATTATATAATATTATATATATTG-T-AATTATCTTT-ATTT-TTACTATATATTTTTTATA
1 GTTTATTATAT-ATATTATATATATTGTTAAATTAT-TTTCATTTATT--TATATA-TATTTATA
9088197 TTTTAATA
61 TTTTAATA
*
9088205 GTTTATTTATATATATTAAATATAT
1 GTTTA-TTATATATATTATATATAT
9088230 ATATTCTTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
66 12 0.15
67 13 0.16
68 17 0.21
69 32 0.40
70 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (68 bp):
GTTTATTATATATATTATATATATTGTTAAATTATTTTCATTTATTTATATATATTTATATTTTA
ATA
Found at i:9088291 original size:41 final size:42
Alignment explanation
Indices: 9088227--9088306 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
9088217 ATATTAAATA
*
9088227 TATATATTCTTAATTATTTTATTTTATTATTTCTTTATTTAT
1 TATATATTCTTAATAATTTTATTTTATTATTTCTTTATTTAT
*
9088269 TATATA-TCTT-ATAATTTATATTTTATTATTTTTTTATT
1 TATATATTCTTAATAATTT-TATTTTATTATTTCTTTATT
9088307 ATTTTCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 6 0.17
41 23 0.66
42 6 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (42 bp):
TATATATTCTTAATAATTTTATTTTATTATTTCTTTATTTAT
Found at i:9088309 original size:44 final size:47
Alignment explanation
Indices: 9088191--9088310 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 47
9088181 CTATATATTT
* * *
9088191 TTTATATTTTAATAGTTTATTTATATATATTAAATATATATATTCTTAATTA
1 TTTATATTTTATTA-TTT-TTT-TAT-TATT-TATATATATATTCTTAATAA
*
9088243 TTT-TATTTTATTA--TTTCT-TTATTTAT-TATATA-TCTT-ATAA
1 TTTATATTTTATTATTTTTTTATTATTTATATATATATTCTTAATAA
9088283 TTTATATTTTATTATTTTTTTATTATTT
1 TTTATATTTTATTATTTTTTTATTATTT
9088311 TCATTTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
40 6 0.10
41 14 0.24
42 6 0.10
43 6 0.10
44 10 0.17
45 1 0.02
46 1 0.02
47 2 0.03
48 1 0.02
51 9 0.15
52 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (47 bp):
TTTATATTTTATTATTTTTTTATTATTTATATATATATTCTTAATAA
Found at i:9094274 original size:12 final size:12
Alignment explanation
Indices: 9094257--9094282 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9094247 ACCCGTTTAC
9094257 CCGTTGACCCGA
1 CCGTTGACCCGA
9094269 CCGTTGACCCGA
1 CCGTTGACCCGA
9094281 CC
1 CC
9094283 CGACCCGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (12 bp):
CCGTTGACCCGA
Found at i:9094296 original size:18 final size:17
Alignment explanation
Indices: 9094262--9094302 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
9094252 TTTACCCGTT
*
9094262 GACCCGACCGTTGACCC
1 GACCCGACCGCTGACCC
9094279 GACCCGACCCGCTGACCC
1 GACCCGA-CCGCTGACCC
9094297 GACCCG
1 GACCCG
9094303 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.17, C:0.51, G:0.24, T:0.07
Consensus pattern (17 bp):
GACCCGACCGCTGACCC
Found at i:9094297 original size:13 final size:13
Alignment explanation
Indices: 9094279--9094308 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9094269 CCGTTGACCC
9094279 GACCCGACCCGCT
1 GACCCGACCCGCT
*
9094292 GACCCGACCCGTT
1 GACCCGACCCGCT
9094305 GACC
1 GACC
9094309 GTTGACCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.50, G:0.23, T:0.10
Consensus pattern (13 bp):
GACCCGACCCGCT
Found at i:9094390 original size:29 final size:29
Alignment explanation
Indices: 9094348--9094478 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 29
9094338 TGGTTTAATA
*
9094348 CTATTCTGGGAATTAATTCGAAATGGGTG
1 CTATTTTGGGAATTAATTCGAAATGGGTG
* ** * **
9094377 CTATTTTGGTAATTGTTTTTGAAA-AAGTG
1 CTATTTTGGGAATT-AATTCGAAATGGGTG
* * * *
9094406 ATATTCTGGGAATTAATTTGAAATTGGTG
1 CTATTTTGGGAATTAATTCGAAATGGGTG
*
9094435 CTATTTTGGGAATTAATTCGAAAAGGGTG
1 CTATTTTGGGAATTAATTCGAAATGGGTG
*
9094464 CTATTTTGGTAATTA
1 CTATTTTGGGAATTA
9094479 TTAAAAAAAG
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 7 0.09
29 67 0.84
30 6 0.08
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (29 bp):
CTATTTTGGGAATTAATTCGAAATGGGTG
Found at i:9094478 original size:58 final size:58
Alignment explanation
Indices: 9094348--9094478 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
9094338 TGGTTTAATA
* ** *
9094348 CTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGTAATTGTTTTTGAAAAAGTG
1 CTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTGAATTCGAAAAAGTG
* * * *
9094406 ATATTCTGGGAATTAATTTGAAATTGGTGCTATTTTGGGAATT-AATTCGAAAAGGGTG
1 CTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTGAATTCGAAAA-AGTG
* *
9094464 CTATTTTGGTAATTA
1 CTATTCTGGGAATTA
9094479 TTAAAAAAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 7 0.11
58 54 0.89
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (58 bp):
CTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTGAATTCGAAAAAGTG
Found at i:9094493 original size:27 final size:29
Alignment explanation
Indices: 9094348--9094496 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 29
9094338 TGGTTTAATA
* * ***
9094348 CTATTCTGGGAATTAATTCGAAATGGGTG
1 CTATTTTGGGAATTAATTCAAAAAAAGTG
* ** ***
9094377 CTATTTTGGTAATTGTTTTTGAAAAAGTG
1 CTATTTTGGGAATTAATTCAAAAAAAGTG
* * ** ***
9094406 ATATTCTGGGAATTAATTTGAAATTGGTG
1 CTATTTTGGGAATTAATTCAAAAAAAGTG
* **
9094435 CTATTTTGGGAATTAATTCGAAAAGGGTG
1 CTATTTTGGGAATTAATTCAAAAAAAGTG
*
9094464 CTATTTTGGTAATT-ATT-AAAAAAAGTG
1 CTATTTTGGGAATTAATTCAAAAAAAGTG
9094491 CTATTT
1 CTATTT
9094497 GTGTAAAATT
Statistics
Matches: 91, Mismatches: 29, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
27 13 0.14
28 3 0.03
29 75 0.82
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (29 bp):
CTATTTTGGGAATTAATTCAAAAAAAGTG
Found at i:9101772 original size:29 final size:29
Alignment explanation
Indices: 9101641--9101764 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
9101631 TCAGTTTTAA
* *
9101641 TGCTATTCTGGGAATTAATTCGAAATGGG
1 TGCTATTTTGGGAATTAATTCGAAAAGGG
* ** *
9101670 TGCTATTTTGGTAATTGTTTTTGAAAA--G
1 TGCTATTTTGGGAATT-AATTCGAAAAGGG
* * * ** *
9101698 TGATATTCTGGGAATTAATTTGAAATTGT
1 TGCTATTTTGGGAATTAATTCGAAAAGGG
9101727 TGCTATTTTGGGAATTAATTCGAAAAGGG
1 TGCTATTTTGGGAATTAATTCGAAAAGGG
9101756 TGCTATTTT
1 TGCTATTTT
9101765 AGTAATTATT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
27 7 0.10
28 14 0.19
29 46 0.63
30 6 0.08
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.43
Consensus pattern (29 bp):
TGCTATTTTGGGAATTAATTCGAAAAGGG
Found at i:9103497 original size:36 final size:36
Alignment explanation
Indices: 9103457--9103573 Score: 99
Period size: 36 Copynumber: 3.1 Consensus size: 36
9103447 ATACTTTGTC
*
9103457 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
1 TCACTTGAGACTGTTTTTCTTGAAAGAAGATTTATT
** * * * * *
9103493 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTC
1 TCACTTGAGACTGTTTTTCTTGAAAGAAGATTTATT
* * *
9103529 TCGCTTGAGACCGTTTTCACTTGAAAGAAGGCATTTCATT
1 TCACTTGAGACTGTTTT-TCTTGAAAGAA-G-ATTT-ATT
9103569 TCACT
1 TCACT
9103574 CAAGGCTATT
Statistics
Matches: 58, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
36 40 0.69
37 8 0.14
38 1 0.02
39 4 0.07
40 5 0.09
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (36 bp):
TCACTTGAGACTGTTTTTCTTGAAAGAAGATTTATT
Found at i:9103527 original size:72 final size:77
Alignment explanation
Indices: 9103415--9103577 Score: 205
Period size: 72 Copynumber: 2.2 Consensus size: 77
9103405 ATTCAGATGA
* * * *
9103415 TTATCTCACTCAA-ATTTGTTTTTTCTTAAAACATACTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGATTTGTTTTTTCTTAAAACATAATTTGTCTCACTTGAGACCGTTTTCACTC
9103478 GAAAGAA-G-AT
66 GAAAGAAGGCAT
*
9103488 TTATTTCACTCAAGA-TTG-TTTTTCTTAAAACA-AGATTTGTCTCGCTTGAGACCGTTTTCACT
1 TTATTTCACTCAAGATTTGTTTTTTCTTAAAACATA-ATTTGTCTCACTTGAGACCGTTTTCACT
*
9103550 TGAAAGAAGGCAT
65 CGAAAGAAGGCAT
9103563 TTCATTTCACTCAAG
1 TT-ATTTCACTCAAG
9103578 GCTATTTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
71 1 0.01
72 35 0.45
73 24 0.31
74 2 0.03
75 4 0.05
76 12 0.15
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (77 bp):
TTATTTCACTCAAGATTTGTTTTTTCTTAAAACATAATTTGTCTCACTTGAGACCGTTTTCACTC
GAAAGAAGGCAT
Found at i:9103649 original size:39 final size:39
Alignment explanation
Indices: 9103606--9103758 Score: 119
Period size: 39 Copynumber: 3.6 Consensus size: 39
9103596 TTTTATCTTG
* *
9103606 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCTCTCGAAACAGAAAATTTTGTCTCC
* *
9103645 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCTCTCG-AAACA--------G-AA--AATTTTGTCTC-C
* *
9103697 C-TAAGATAGTTTCTCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCTCTCGAAACAGAAAATTTTGTCTCC
*
9103735 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCTCTCGAAACA
9103759 TAAACATTGA
Statistics
Matches: 89, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
38 2 0.02
39 45 0.51
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.27
52 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (39 bp):
CTTGAGACAGTTTCTCTCGAAACAGAAAATTTTGTCTCC
Found at i:9103827 original size:105 final size:104
Alignment explanation
Indices: 9103661--9103979 Score: 491
Period size: 105 Copynumber: 3.1 Consensus size: 104
9103651 ACAGTTTCTC
* * * *
9103661 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTAAGATAGTTTCTCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
9103726 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
9103765 TTGAAAACATTTCCCTTGAAATGATTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGA-ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
9103830 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * * *
9103870 ATGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGATATAGTTTCCCTTGAAAC-G--AAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
** *
9103932 TTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
9103971 TTGAAAACA
1 TTGAAAACA
9103980 ATTTAACGAA
Statistics
Matches: 199, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
101 47 0.24
103 1 0.01
104 52 0.26
105 99 0.50
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (104 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:9103926 original size:36 final size:36
Alignment explanation
Indices: 9103879--9103954 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
9103869 AATGAAAACA
* * * *
9103879 TTTCCCTTGAAATGAATTTTATCTCGCTTGATATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
9103915 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
9103951 TTTC
1 TTTC
9103955 TCTCCAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:9104575 original size:106 final size:106
Alignment explanation
Indices: 9104154--9104575 Score: 581
Period size: 105 Copynumber: 4.0 Consensus size: 106
9104144 ATATCGTGAC
* *
9104154 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
9104219 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
9104260 ACTCCAGACAACGCAATTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
9104324 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
9104365 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTTAA-TAA-AA-TT-TC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
*
9104426 -A-TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
9104465 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGC-TGTCAACAAATAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCT-GCTTGTCAACAAACAACTTCT
** * * *
9104529 CGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
9104571 ACTCG
1 ACTCG
9104576 GAACAATGCT
Statistics
Matches: 285, Mismatches: 23, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
100 80 0.28
101 5 0.02
102 4 0.01
103 4 0.01
104 3 0.01
105 103 0.36
106 86 0.30
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:9105170 original size:37 final size:37
Alignment explanation
Indices: 9105117--9105221 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
9105107 CATTTTCGTC
9105117 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
9105154 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
9105191 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
9105222 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:9105611 original size:18 final size:17
Alignment explanation
Indices: 9105572--9105614 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
9105562 ATTATATGGA
9105572 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
9105588 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
9105606 TATTATTAT
1 TATTATTAT
9105615 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:9106116 original size:14 final size:14
Alignment explanation
Indices: 9106099--9106127 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9106089 ATTTTATACT
9106099 TTGATATATATATA
1 TTGATATATATATA
9106113 TTGATATATATATA
1 TTGATATATATATA
9106127 T
1 T
9106128 ATTCCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTGATATATATATA
Found at i:9107350 original size:18 final size:19
Alignment explanation
Indices: 9107327--9107368 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9107317 ATAAATATTA
*
9107327 TTATTTTTAT-CGGTTTTG
1 TTATTTTTATACCGTTTTG
*
9107345 TTATTTTTCTACCGTTTTG
1 TTATTTTTATACCGTTTTG
9107364 TTATT
1 TTATT
9107369 GTTAGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (19 bp):
TTATTTTTATACCGTTTTG
Found at i:9107416 original size:21 final size:21
Alignment explanation
Indices: 9107392--9107432 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9107382 CCGAAAATGT
* *
9107392 TAAAAATATTAATGTTTTAAA
1 TAAAAATAATAATATTTTAAA
9107413 TAAAAATAATAATATTTTAA
1 TAAAAATAATAATATTTTAA
9107433 GTAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:9108159 original size:12 final size:12
Alignment explanation
Indices: 9108142--9108166 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9108132 GTAATTTAAA
9108142 ATTTTTTATTTT
1 ATTTTTTATTTT
9108154 ATTTTTTATTTT
1 ATTTTTTATTTT
9108166 A
1 A
9108167 ATCATATTTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:9108849 original size:24 final size:24
Alignment explanation
Indices: 9108822--9108872 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9108812 ATAGTGAGTT
9108822 ATTACACAATATATTTTTATTATA
1 ATTACACAATATATTTTTATTATA
* ***
9108846 ATTATATTTTATATTTTTATTATA
1 ATTACACAATATATTTTTATTATA
9108870 ATT
1 ATT
9108873 TAAATTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTACACAATATATTTTTATTATA
Found at i:9108860 original size:18 final size:18
Alignment explanation
Indices: 9108831--9108874 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
9108821 TATTACACAA
9108831 TATATTTT-TATTATAAT
1 TATATTTTATATTATAAT
* *
9108848 TATATTTTATATTTTTAT
1 TATATTTTATATTATAAT
*
9108866 TATAATTTA
1 TATATTTTA
9108875 AATTGATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTTATATTATAAT
Found at i:9108883 original size:24 final size:25
Alignment explanation
Indices: 9108832--9108897 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
9108822 ATTACACAAT
* *
9108832 ATATTTTTATTATAA-TTATATTTT
1 ATATTTTTATTATAATTTATAATTG
9108856 ATATTTTTATTATAATTTA-AATTG
1 ATATTTTTATTATAATTTATAATTG
*
9108880 ATATATTTCATATATAAT
1 ATAT-TTTTAT-TATAAT
9108898 AATAATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 22 0.61
25 8 0.22
26 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATATTTTTATTATAATTTATAATTG
Found at i:9112886 original size:20 final size:19
Alignment explanation
Indices: 9112861--9112927 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
9112851 CAATTTCTTG
* *
9112861 TTGCATTTGTATCTCGCATT
1 TTGCATTTGCATGT-GCATT
9112881 TTGCATTTGCATGTGCATCT
1 TTGCATTTGCATGTGCAT-T
9112901 TTGCATTTGCATGTGCATTT
1 TTGCATTTGCATGTGCA-TT
9112921 TTGCATT
1 TTGCATT
9112928 AGTATACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.09
20 38 0.88
21 1 0.02
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.49
Consensus pattern (19 bp):
TTGCATTTGCATGTGCATT
Found at i:9112900 original size:26 final size:26
Alignment explanation
Indices: 9112861--9112918 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
9112851 CAATTTCTTG
* *
9112861 TTGCATTTGTATC-TCGCATTTTGCAT
1 TTGCATGTGCATCTTCGCA-TTTGCAT
*
9112887 TTGCATGTGCATCTTTGCATTTGCAT
1 TTGCATGTGCATCTTCGCATTTGCAT
*
9112913 GTGCAT
1 TTGCAT
9112919 TTTTGCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (26 bp):
TTGCATGTGCATCTTCGCATTTGCAT
Found at i:9115270 original size:76 final size:75
Alignment explanation
Indices: 9115175--9115453 Score: 420
Period size: 76 Copynumber: 3.7 Consensus size: 75
9115165 ATCTCACTAT
* * * *
9115175 AGATTTTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACTACTTTTACTCAAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-ATTTTTACTCGAAAGAAGACATTT
9115240 CATTTCACTCA
65 CATTTCACTCA
*
9115251 AGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGACAGTTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACA-TTTTTACTCGAAAGAAGACATTT
9115316 CATTTCACTCA
65 CATTTCACTCA
*
9115327 AGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGACAATTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-ATTTTTACTCGAAAGAAGACATTT
9115392 CATTTCACTCA
65 CATTTCACTCA
* * * *
9115403 AGATTG--TTT-TTAAAACAAGATTTATCTCGCTTGAGATAGTTTCACTCGAAA
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATTTTTACTCGAAA
9115454 CAAAAGATTT
Statistics
Matches: 191, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
72 12 0.06
73 25 0.13
74 3 0.02
75 1 0.01
76 149 0.78
77 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATTTTTACTCGAAAGAAGACATTTC
ATTTCACTCA
Found at i:9115468 original size:39 final size:39
Alignment explanation
Indices: 9115419--9115578 Score: 243
Period size: 39 Copynumber: 4.1 Consensus size: 39
9115409 TTTTTAAAAC
9115419 AAGA-TTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
9115457 AAGATTTTATCTTGCTTGAGATAGTTTCACTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
9115496 AA-ATTTTTATCTCGCTTGAGATTGTTTCACTCGAAACAG
1 AAGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
9115535 AAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAAAAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
9115574 AAGAT
1 AAGAT
9115579 AACAATACAA
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 5 0.05
39 103 0.94
40 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
Found at i:9115508 original size:78 final size:77
Alignment explanation
Indices: 9115423--9115575 Score: 270
Period size: 78 Copynumber: 2.0 Consensus size: 77
9115413 TAAAACAAGA
*
9115423 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTTGCTTGAGATAGTTTCACT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCACT
9115488 TGAAACAAAAATT
66 TGAAA-AAAAATT
* *
9115501 TTTATCTCGCTTGAGATTGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCACT
9115566 TGAAAAAAAA
66 TGAAAAAAAA
9115576 GATAACAATA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 5 0.07
78 67 0.93
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (77 bp):
TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCACT
TGAAAAAAAATT
Found at i:9115537 original size:152 final size:149
Alignment explanation
Indices: 9115186--9115538 Score: 367
Period size: 152 Copynumber: 2.3 Consensus size: 149
9115176 GATTTTTTTT
*
9115186 CTTAAAACAAAATTTGTCTCGCTTGAGACTACTTTTACTC-AAAAGAAGACATTTCATTTCACTC
1 CTTAAAACAAAATTTATCTCGCTTGAGA-T--TTTTACTCGAAAAGAAGACATTTCATTTCACTC
* * * * *
9115250 AAGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGACAGTTTTTACTCGAAAGAAGACATT
63 AAGATTG-TTTTCTTAAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAACAAAACATT
* **
9115315 TCATTTCACTCAAGATTGTTTTT
127 TCATTTCACTCAAGATAGTTTCA
* * *
9115338 CTTAAAACAAGATTTGTCTTGCTTGAGACAATTTTTACTCG-AAAGAAGACATTTCATTTCACTC
1 CTTAAAACAAAATTTATCTCGCTTGAG---ATTTTTACTCGAAAAGAAGACATTTCATTTCACTC
* *
9115402 AAGATTG-TTT-TTAAAACAAGATTTATCTCGCTTGAGATAG-TTTCACTCGAAACAAAAGATTT
63 AAGATTGTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAACAAAACATTT
* * **
9115464 TATCTT-GCTTGAGATAGTTTCA
128 CAT-TTCACTCAAGATAGTTTCA
*
9115486 CTTGAAACAAAAATTTTTATCTCGCTTGAGATTGTTTCACTCGAAACAGAAGA
1 CTTAAAAC-AAAA--TTTATCTCGCTTGAGATT-TTT-ACTCGAAA-AGAAGA
9115539 TTTTATCTCG
Statistics
Matches: 169, Mismatches: 20, Indels: 24
0.79 0.09 0.11
Matches are distributed among these distances:
148 40 0.24
149 35 0.21
150 8 0.05
151 15 0.09
152 69 0.41
154 1 0.01
155 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (149 bp):
CTTAAAACAAAATTTATCTCGCTTGAGATTTTTACTCGAAAAGAAGACATTTCATTTCACTCAAG
ATTGTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAACAAAACATTTCAT
TTCACTCAAGATAGTTTCA
Found at i:9116735 original size:15 final size:15
Alignment explanation
Indices: 9116709--9116756 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
9116699 TTCAAACATC
*
9116709 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
9116725 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
9116742 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
9116757 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:9118430 original size:21 final size:21
Alignment explanation
Indices: 9118348--9118450 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 21
9118338 CAGAACCCCA
* * *
9118348 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCTTAT
* *
9118369 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCCTT-AT
* *
9118392 AGGGGGAATCGGTTCCCTTAT
1 GGGGGGAATCGATTCCCTTAT
* *
9118413 GGGGGGAACCGATTCCCTCAT
1 GGGGGGAATCGATTCCCTTAT
*
9118434 -GGGGGTATCGATTCCCT
1 GGGGGGAATCGATTCCCT
9118451 CTGCACCAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 15 0.22
21 30 0.45
22 9 0.13
23 13 0.19
ACGTcount: A:0.16, C:0.24, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTAT
Found at i:9125706 original size:17 final size:17
Alignment explanation
Indices: 9125678--9125711 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9125668 TTCCATCAAG
9125678 AAGCATTATTGCACTTGC
1 AAGCATTATTGC-CTTGC
9125696 AAGCA-TATTGCCTTGC
1 AAGCATTATTGCCTTGC
9125712 TTGAACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (17 bp):
AAGCATTATTGCCTTGC
Found at i:9127019 original size:18 final size:18
Alignment explanation
Indices: 9126996--9127030 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9126986 AATAGAATGA
9126996 AACAAAGATTTACGAGAT
1 AACAAAGATTTACGAGAT
9127014 AACAAAGATTTACGAGA
1 AACAAAGATTTACGAGA
9127031 ACATAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (18 bp):
AACAAAGATTTACGAGAT
Found at i:9127614 original size:36 final size:36
Alignment explanation
Indices: 9127567--9127679 Score: 190
Period size: 36 Copynumber: 3.1 Consensus size: 36
9127557 CATTTCAAAG
*
9127567 ATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 ATTTTATCTCACTTGAGATTGTTTTTCTCAAAACAA
* *
9127603 ATTTTGTCTCACTTGATATTGTTTTTCTCAAAACAA
1 ATTTTATCTCACTTGAGATTGTTTTTCTCAAAACAA
*
9127639 ATTTTATCTCACTTGAGATTGTTTTTCTCAAATCAA
1 ATTTTATCTCACTTGAGATTGTTTTTCTCAAAACAA
9127675 ATTTT
1 ATTTT
9127680 GTATCTTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (36 bp):
ATTTTATCTCACTTGAGATTGTTTTTCTCAAAACAA
Found at i:9128172 original size:42 final size:41
Alignment explanation
Indices: 9128113--9128192 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 41
9128103 GCAAATAGAT
* * *
9128113 AAAATTATGTCATTATTTATTTTTGATTTGCTTCTTGTTAAC
1 AAAATTAGGTAATTATTTAATTTTGATTTG-TTCTTGTTAAC
9128155 AAAATTAGGTAATTATTTAATTTTGATTTGTTCTTGTT
1 AAAATTAGGTAATTATTTAATTTTGATTTGTTCTTGTT
9128193 TCATAGCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 8 0.23
42 27 0.77
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (41 bp):
AAAATTAGGTAATTATTTAATTTTGATTTGTTCTTGTTAAC
Found at i:9129294 original size:20 final size:19
Alignment explanation
Indices: 9129255--9129306 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
9129245 TTTCTTTGAT
9129255 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
9129274 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
9129294 ATTTATAAAATAA
1 A-TTAAAAAATAA
9129307 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:9129407 original size:120 final size:120
Alignment explanation
Indices: 9129163--9129398 Score: 293
Period size: 120 Copynumber: 2.0 Consensus size: 120
9129153 AAATATATAT
* * * *
9129163 CAATTTATATAT-ATTTAT-AAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTA
1 CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCA
* * *
9129226 GGTGCCTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAA
66 GGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
* *
9129281 CAATTAATATATAATTTATAAAATAAGATATTTATTTATTTAAAAATATCATAAAATGGACATCC
1 CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCC
* ** * **
9129346 AGTTATTTTAAGACTGC-CCTTTC-TTAATATTGGAAAATAAATAAAT-ATTAAAA
65 AGGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
9129399 TAGGATTAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 18 0.18
119 26 0.26
120 38 0.38
121 18 0.18
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (120 bp):
CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCA
GGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
Found at i:9129493 original size:24 final size:23
Alignment explanation
Indices: 9129441--9129498 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
9129431 AGATTTTAAA
9129441 AAATAAAATACATATTATGTATT
1 AAATAAAATACATATTATGTATT
* * *
9129464 ATATAAATATATATATTTATG-GTT
1 AAATAAA-ATACATA-TTATGTATT
9129488 AAATAATAATA
1 AAATAA-AATA
9129499 ATAATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 6 0.21
24 16 0.57
25 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (23 bp):
AAATAAAATACATATTATGTATT
Found at i:9129497 original size:3 final size:3
Alignment explanation
Indices: 9129489--9129523 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9129479 TTTATGGTTA
*
9129489 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9129524 AAAGTAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9130362 original size:5 final size:6
Alignment explanation
Indices: 9130336--9130366 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
9130326 TTCTTCTTTC
9130336 TTTGTT TTCTGTT TTTGTT TTTGTT TTTGTT
1 TTTGTT TT-TGTT TTTGTT TTTGTT TTTGTT
9130367 GCTCTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (6 bp):
TTTGTT
Found at i:9130851 original size:3 final size:3
Alignment explanation
Indices: 9130843--9130902 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
9130833 GGCCTGTTTG
**
9130843 TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
9130888 TAA TAAA TAA TAA TA
1 TAA T-AA TAA TAA TA
9130903 GAAAATGGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9130885 original size:27 final size:28
Alignment explanation
Indices: 9130843--9130902 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
9130833 GGCCTGTTTG
**
9130843 TAATAATAATTTTAATAATAATAAATAA
1 TAATAATAATAATAATAATAATAAATAA
9130871 -AATAATAATAATAATAATAATAAATAA
1 TAATAATAATAATAATAATAATAAATAA
9130898 TAATA
1 TAATA
9130903 GAAAATGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
TAATAATAATAATAATAATAATAAATAA
Found at i:9131286 original size:124 final size:122
Alignment explanation
Indices: 9131042--9131673 Score: 513
Period size: 124 Copynumber: 5.3 Consensus size: 122
9131032 GTTGAATAAA
* *
9131042 TTCTT-TTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG-GAA--TGA--T-A-
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCC-CTGGAAAAGTTGATGTGAC
* * ** * * * *
9131099 ATATCTCCTTCTGTGAT-GTAAT-TTGGAAAAGGGTTGAACAAGTTCTTCTTATTATAAAA
65 CTAT-TCCTTCTGTGATAG-AATCATACAAAA-GGTTGAACAAATTCTTCTCATTATGAAC
*
9131158 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCCCTGGAAAAGTTGATGTTGAC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTGGAAAAGTTGATG-TGAC
* * * **
9131223 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAAC
65 CTA-TTCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * * *
9131282 TTCTTCTTTCTTCTTCAAATGAGTTCTTCTTATTATGAACTTTCTCTAGAAAAGTTGATGCTGAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTGGAAAAGTTGATG-TGAC
* * * *
9131347 CTATCTCCTTCTGTGATAGAATTATGCAAAAGATTGAACAAATTCTTCTCAATATGAA-
65 CTAT-TCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
9131405 -T-TTATT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGA--T-
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTCCCTGGAAAAGTTGATGTG
*** *
9131464 -CC-A-T-C--AAATGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 ACCTATTCCTTCTGTGATAGAA-TCATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
9131518 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGA--T--CC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTGGAAAAGTTGATGTGACC
*** * * *
9131579 -A-T-C--AAATGAT-GAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 TATTCCTTCTGTGATAGAA-TCATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
9131631 TTCTTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCTTC-C-TTCTTCAGATGAGTTCTTCTCATTATGAACT
9131674 CTAACTGGCA
Statistics
Matches: 440, Mismatches: 53, Indels: 47
0.81 0.10 0.09
Matches are distributed among these distances:
111 3 0.01
112 36 0.08
113 95 0.22
114 3 0.01
115 36 0.08
116 20 0.05
117 40 0.09
118 1 0.00
119 3 0.01
120 11 0.03
121 4 0.01
122 2 0.00
123 33 0.08
124 146 0.33
125 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (122 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTGGAAAAGTTGATGTGACC
TATTCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:9131712 original size:115 final size:114
Alignment explanation
Indices: 9131374--9131695 Score: 458
Period size: 113 Copynumber: 2.8 Consensus size: 114
9131364 AGAATTATGC
* *
9131374 AAAAGATTGAACAAATTCTTCTCAATATGAA--T-TT-AT-TCTTCTTCAGATGACGAGTTCTTC
1 AAAAG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCTTCAGAT---GAGTTCTTC
* *
9131434 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACA
62 TCATTATGAACTCTAACTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
*
9131487 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCAT
* ** * *
9131551 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTTAAACA
66 TATGAACTCTAACTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
9131600 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTTCTTCAGATGAGTTCTTCTCA
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTC-TTCTTCAGATGAGTTCTTCTCA
*
9131665 TTATGAACTCTAACTGGCACTGTTGATCCAT
65 TTATGAACTCTAACTGGCAATGTTGATCCAT
9131696 TGAATAATGG
Statistics
Matches: 186, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
112 24 0.13
113 99 0.53
114 2 0.01
115 49 0.26
116 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (114 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTAACTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
Found at i:9132606 original size:115 final size:114
Alignment explanation
Indices: 9132405--9132628 Score: 376
Period size: 115 Copynumber: 2.0 Consensus size: 114
9132395 GATCATGCAG
* * *
9132405 TTCATCTTTTAATTCTAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
9132470 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
* *
9132519 TTCATCTTTTAAATCTAATGATTGGTTTTGGGGTTTATACCAAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTTAAATCTAATGATTGGTTCTGGGGTTCATACC-AAACCAGATCAGATAACTCAAAG
9132584 AACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
65 AACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
9132629 TAATGTGGCA
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 37 0.36
115 65 0.64
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTTAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
Found at i:9132986 original size:19 final size:18
Alignment explanation
Indices: 9132958--9133028 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 18
9132948 AAAATAAAAG
*
9132958 AATAAGTTGAATTTTCAAA
1 AATAAATTGAATTTT-AAA
*
9132977 AATAAATTGAATCTT--A
1 AATAAATTGAATTTTAAA
9132993 AATAAATTGAATTTATAGAA
1 AATAAATTGAATTT-TA-AA
9133013 AATAAACTTAGAATTT
1 AATAAA-TT-GAATTT
9133029 ATTAATAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 14 0.33
17 1 0.02
19 13 0.30
20 7 0.16
21 2 0.05
22 6 0.14
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (18 bp):
AATAAATTGAATTTTAAA
Found at i:9133392 original size:25 final size:25
Alignment explanation
Indices: 9133358--9133421 Score: 96
Period size: 23 Copynumber: 2.6 Consensus size: 25
9133348 CTTGACCCCC
*
9133358 TCTTTTTTCTCTTTTTTT-TTC-TT
1 TCTTTTTTTTCTTTTTTTCTTCTTT
9133381 TCTTTTTTTTCTTTTTTTCTTCTTT
1 TCTTTTTTTTCTTTTTTTCTTCTTT
*
9133406 TCTTTCTTTTCTTTTT
1 TCTTTTTTTTCTTTTT
9133422 CTTCAAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 17 0.46
24 3 0.08
25 17 0.46
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TCTTTTTTTTCTTTTTTTCTTCTTT
Found at i:9133397 original size:20 final size:19
Alignment explanation
Indices: 9133367--9133424 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
9133357 CTCTTTTTTC
9133367 TCTTT-TTTTTTCTTTCTTT
1 TCTTTCTTTTTT-TTTCTTT
*
9133386 TTTTTCTTTTTTTCTTCTTT
1 TCTTTCTTTTTTT-TTCTTT
9133406 TCTTTCTTTTCTTTTTCTT
1 TCTTTCTTTT-TTTTTCTT
9133425 CAAGCATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 26 0.76
21 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TCTTTCTTTTTTTTTCTTT
Found at i:9133416 original size:9 final size:9
Alignment explanation
Indices: 9133362--9133419 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 9
9133352 ACCCCCTCTT
9133362 TTTTCTCTT-
1 TTTTCT-TTC
9133371 TTTT-TTTC
1 TTTTCTTTC
*
9133379 -TTTCTTTT
1 TTTTCTTTC
9133387 TTTTCTTT-
1 TTTTCTTTC
9133395 TTTTC-TTC
1 TTTTCTTTC
9133403 TTTTCTTTC
1 TTTTCTTTC
9133412 TTTTCTTT
1 TTTTCTTT
9133420 TTCTTCAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
7 7 0.16
8 14 0.33
9 22 0.51
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:9140770 original size:15 final size:15
Alignment explanation
Indices: 9140747--9140778 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9140737 TGCAATGAAT
9140747 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
9140762 AATGCATGTATGCAA
1 AATGAATGTATGCAA
9140777 AA
1 AA
9140779 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:9144745 original size:20 final size:19
Alignment explanation
Indices: 9144706--9144757 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
9144696 TTTCTTTGAT
9144706 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
9144725 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
9144745 ATTTATAAAATAA
1 A-TTAAAAAATAA
9144758 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:9144858 original size:120 final size:120
Alignment explanation
Indices: 9144614--9144849 Score: 302
Period size: 120 Copynumber: 2.0 Consensus size: 120
9144604 AAATATATAT
* * * *
9144614 CAATTTATATAT-ATTTAT-AAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTA
1 CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCA
* * *
9144677 GGTGCCTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAA
66 GGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
*
9144732 CAATTAATATATAATTTATAAAATAAGATATTTATTTATTTAAAAATATCAGAAAATAGACATCC
1 CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCC
* ** * **
9144797 AGTTATTTTAAGACTGC-CCTTTC-TTAATATTGGAAAATAAATAAAT-ATTAAAA
65 AGGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
9144850 TAGGATTAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 18 0.18
119 26 0.26
120 40 0.40
121 17 0.17
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (120 bp):
CAATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCA
GGTACCTTAAGACAGCTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
Found at i:9144948 original size:3 final size:3
Alignment explanation
Indices: 9144940--9144971 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9144930 TTTATGGTTA
*
9144940 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9144972 AAAGTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9146314 original size:3 final size:3
Alignment explanation
Indices: 9146306--9146344 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
9146296 GACCTGTTTG
**
9146306 TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
9146345 TTAGAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:9146353 original size:16 final size:16
Alignment explanation
Indices: 9146306--9146344 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9146296 GACCTGTTTG
* *
9146306 TAATAATAAT-TTTAA
1 TAATAATAATAATAAA
9146321 TAATAATAATAATAAA
1 TAATAATAATAATAAA
9146337 TAATAATA
1 TAATAATA
9146345 TTAGAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:9147548 original size:21 final size:21
Alignment explanation
Indices: 9147518--9147565 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9147508 AGTGTCAAAC
* *
9147518 AATAACAAAATTGATAGAAAA-
1 AATAATAAAATCGATA-AAAAT
9147539 AATAATAAAATCGATAAAAAT
1 AATAATAAAATCGATAAAAAT
9147560 AATAAT
1 AATAAT
9147566 GGTTCCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (21 bp):
AATAATAAAATCGATAAAAAT
Found at i:9148509 original size:137 final size:139
Alignment explanation
Indices: 9148213--9148542 Score: 390
Period size: 137 Copynumber: 2.4 Consensus size: 139
9148203 TCCAGGGTAT
* * * * *
9148213 ATTTCGATTATTCGATTCAATATTGGA-TAAAATCAATTAGGATTAAGTATCAGAGTCTTCACTT
1 ATTTCGACTATTCGATTCAATATTCGATTAAAATCAATTAGGA-TAAATATTAGAGTCCTCACTT
* * *
9148277 TAGGTTTAATTTCACTTTTAGTTCTTTAATTTAAAGAATATTTGATTTGTCCCTTACCTTAATGC
65 TAGGTCTAATTTCACTTTTAGTCCTTTAATTTAAAGAATATTTCATTTGTCCCTTACCTTAATGC
9148342 TCGAGGGTCC
130 TCGAGGGTCC
* * *
9148352 ATTTCGATTATTCGATTCAATAATT-GATTAAAATCAATTAGGGTAAATATTAGA-TCCTCCCGT
1 ATTTCGACTATTCGATTCAAT-ATTCGATTAAAATCAATTAGGATAAATATTAGAGTCCTCAC-T
*
9148415 TTAGG-CTAATTTCACTTTTAGTCCTTTAATTTAAGGAATA-TTCATTGTGGT-CC-T-CGCTTA
64 TTAGGTCTAATTTCACTTTTAGTCCTTTAATTTAAAGAATATTTCATT-T-GTCCCTTAC-CTTA
*
9148475 ATGCTTGAGGGTCC
126 ATGCTCGAGGGTCC
* * *
9148489 ATTTTGACTATTCGATTCAATTATTCG-TTAAAACCAATTAGGATTAATATTAGA
1 ATTTCGACTATTCGATTCAA-TATTCGATTAAAATCAATTAGGATAAATATTAGA
9148543 ACTTTCATTT
Statistics
Matches: 168, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
136 1 0.01
137 68 0.40
138 42 0.25
139 40 0.24
140 17 0.10
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (139 bp):
ATTTCGACTATTCGATTCAATATTCGATTAAAATCAATTAGGATAAATATTAGAGTCCTCACTTT
AGGTCTAATTTCACTTTTAGTCCTTTAATTTAAAGAATATTTCATTTGTCCCTTACCTTAATGCT
CGAGGGTCC
Found at i:9149467 original size:15 final size:15
Alignment explanation
Indices: 9149447--9149477 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9149437 ACAAATTGTT
9149447 CACTCGTCGTTAATA
1 CACTCGTCGTTAATA
9149462 CACTCGTCGTTAATA
1 CACTCGTCGTTAATA
9149477 C
1 C
9149478 CGGTTATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (15 bp):
CACTCGTCGTTAATA
Found at i:9150320 original size:56 final size:56
Alignment explanation
Indices: 9150259--9150371 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
9150249 AAAACGAAAA
9150259 CTTATTCAAACATTAGTGTAATTTACCCAAATAATTTCTTTCATTTTGTCCATAGG
1 CTTATTCAAACATTAGTGTAATTTACCCAAATAATTTCTTTCATTTTGTCCATAGG
9150315 CTTATTCAAACATTAGTGTAATTTACCCAAATAATTTCTTTCATTTTGTCCATAGG
1 CTTATTCAAACATTAGTGTAATTTACCCAAATAATTTCTTTCATTTTGTCCATAGG
9150371 C
1 C
9150372 AATGACACAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (56 bp):
CTTATTCAAACATTAGTGTAATTTACCCAAATAATTTCTTTCATTTTGTCCATAGG
Found at i:9176967 original size:97 final size:101
Alignment explanation
Indices: 9176860--9177057 Score: 368
Period size: 97 Copynumber: 2.0 Consensus size: 101
9176850 TTTTTTAATT
9176860 TTTTTTATTTTTAAAATAATTAATGAATTAAAAAATATTTTTCATGACACTCATCACATCGACAT
1 TTTTTTATTTTTAAAATAATTAATGAATTAAAAAATATTTTTCATGACACTCATCACATCGACAT
9176925 GACAAGTCTTTAAAAAT-TA-TAT-A-ATTGACTCA
66 GACAAGTCTTTAAAAATATATTATAATATTGACTCA
9176957 TTTTTTATTTTTAAAATAATTAATGAATTAAAAAATATTTTTCATGACACTCATCACATCGACAT
1 TTTTTTATTTTTAAAATAATTAATGAATTAAAAAATATTTTTCATGACACTCATCACATCGACAT
9177022 GACAAGTCTTTAAAAATATATTATAATATTGACTCA
66 GACAAGTCTTTAAAAATATATTATAATATTGACTCA
9177058 CATAAGACCC
Statistics
Matches: 97, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
97 82 0.85
98 2 0.02
99 3 0.03
100 1 0.01
101 9 0.09
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (101 bp):
TTTTTTATTTTTAAAATAATTAATGAATTAAAAAATATTTTTCATGACACTCATCACATCGACAT
GACAAGTCTTTAAAAATATATTATAATATTGACTCA
Found at i:9179146 original size:12 final size:11
Alignment explanation
Indices: 9179120--9179200 Score: 60
Period size: 11 Copynumber: 7.1 Consensus size: 11
9179110 TGTAAAGTAG
9179120 AAAAATAATAA-
1 AAAAA-AATAAT
9179131 AAAAATAATAAT
1 AAAAA-AATAAT
9179143 AAAAAACATAAT
1 AAAAAA-ATAAT
*
9179155 AATAAAGATAA-
1 AA-AAAAATAAT
* *
9179166 AAGAAAATAAAG
1 AAAAAAAT-AAT
9179178 AAAAAAATAA-
1 AAAAAAATAAT
9179188 AACAAAAATAAT
1 AA-AAAAATAAT
9179200 A
1 A
9179201 TATACATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
10 6 0.10
11 26 0.44
12 24 0.41
13 3 0.05
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:9179153 original size:15 final size:14
Alignment explanation
Indices: 9179123--9179200 Score: 70
Period size: 14 Copynumber: 5.3 Consensus size: 14
9179113 AAAGTAGAAA
9179123 AATAATAAAAAAAT
1 AATAATAAAAAAAT
9179137 AATAATAAAAAACAT
1 AATAATAAAAAA-AT
9179152 AATAATAAAGATAAA-
1 AATAATAAA-A-AAAT
* *
9179167 AGAAAATAAAGAAAAA
1 A-ATAATAAA-AAAAT
9179183 AATAA-AACAAAAAT
1 AATAATAA-AAAAAT
9179197 AATA
1 AATA
9179201 TATACATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.40
15 19 0.35
16 12 0.22
17 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (14 bp):
AATAATAAAAAAAT
Found at i:9179172 original size:26 final size:25
Alignment explanation
Indices: 9179120--9179172 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
9179110 TGTAAAGTAG
*
9179120 AAAAATAATAAAAAAATAATAATAA
1 AAAAATAATAAAAAAATAATAAGAA
*
9179145 AAAACATAATAATAAAGATAA-AAGAA
1 AAAA-ATAATAA-AAAAATAATAAGAA
9179171 AA
1 AA
9179173 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 13 0.54
27 7 0.29
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (25 bp):
AAAAATAATAAAAAAATAATAAGAA
Found at i:9179256 original size:2 final size:2
Alignment explanation
Indices: 9179249--9179277 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9179239 ATAAAGGGAA
9179249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9179278 AATAAATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9179371 original size:3 final size:3
Alignment explanation
Indices: 9179363--9179401 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
9179353 AAAGAAAAAG
9179363 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
9179402 AAAAGGAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.