Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 95 of 153
Found at i:29950987 original size:20 final size:20
Alignment explanation
Indices: 29950950--29951075 Score: 65
Period size: 20 Copynumber: 6.5 Consensus size: 20
29950940 CATAATTATT
*
29950950 TTATTTTTATT-ATT-TATA
1 TTATTATTATTCATTATATA
29950968 TTATTATTATTCATTATATA
1 TTATTATTATTCATTATATA
* ** *
29950988 TTA--CTT-TTCACAAAATA
1 TTATTATTATTCATTATATA
29951005 TTATTATT-TTACATTATAT-
1 TTATTATTATT-CATTATATA
* *
29951024 TTTTTACTT-GT-ATTATATA
1 TTATTA-TTATTCATTATATA
*
29951043 TTTATTAATTATTTA-TATATA
1 -TTATT-ATTATTCATTATATA
29951064 TTATATATTATT
1 TTAT-TATTATT
29951076 TTTACATATA
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
17 11 0.13
18 19 0.23
19 12 0.14
20 31 0.37
21 9 0.11
22 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (20 bp):
TTATTATTATTCATTATATA
Found at i:29951057 original size:28 final size:29
Alignment explanation
Indices: 29951017--29951072 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
29951007 ATTATTTTAC
* *
29951017 ATTATATTTTTTACT-TGTATTATATATTT
1 ATTATATTATTTA-TATATATTATATATTT
29951046 ATTA-ATTATTTATATATATTATATATT
1 ATTATATTATTTATATATATTATATATT
29951073 ATTTTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.04
28 19 0.79
29 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTATATTATTTATATATATTATATATTT
Found at i:29951141 original size:8 final size:7
Alignment explanation
Indices: 29951034--29951146 Score: 50
Period size: 7 Copynumber: 16.6 Consensus size: 7
29951024 TTTTTACTTG
29951034 TATTATA
1 TATTATA
29951041 TATT-TA
1 TATTATA
*
29951047 TTAATTATT
1 -T-ATTATA
29951056 TA-TATA
1 TATTATA
29951062 TATTATA
1 TATTATA
29951069 TATTAT-
1 TATTATA
29951075 T-TT-TA
1 TATTATA
*
29951080 CA-TATA
1 TATTATA
29951086 TACTT-TCA
1 TA-TTAT-A
29951094 TATTATA
1 TATTATA
29951101 TATTATA
1 TATTATA
29951108 -ATTAT-
1 TATTATA
29951113 T-TTATA
1 TATTATA
29951119 TTATGT-TA
1 -TAT-TATA
*
29951127 TTTTTATA
1 -TATTATA
29951135 CTATTATA
1 -TATTATA
29951143 TATT
1 TATT
29951147 TTTTTATCTA
Statistics
Matches: 82, Mismatches: 7, Indels: 34
0.67 0.06 0.28
Matches are distributed among these distances:
4 1 0.01
5 7 0.09
6 16 0.20
7 33 0.40
8 23 0.28
9 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:29951350 original size:22 final size:21
Alignment explanation
Indices: 29951299--29951371 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
29951289 CATTAATTAC
*
29951299 TTATTTTATAT-TATTCTAAA
1 TTATTTTATATATATTATAAA
29951319 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATA-AA
29951343 TTATTTTAT-TATAATTATAAA
1 TTATTTTATATAT-ATTATAAA
*
29951364 TTTTTTTA
1 TTATTTTA
29951372 CACATTTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 16 0.35
22 18 0.39
23 10 0.22
24 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTATATATATTATAAA
Found at i:29954584 original size:46 final size:46
Alignment explanation
Indices: 29954534--29954659 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
29954524 TGGTTGAGCA
*
29954534 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
29954580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
29954626 TCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29954660 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:29956230 original size:37 final size:37
Alignment explanation
Indices: 29956180--29956258 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29956170 TTGTTACGAA
* *
29956180 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29956217 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29956254 GTCTT
1 GTCTT
29956259 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:29956455 original size:47 final size:47
Alignment explanation
Indices: 29956377--29956598 Score: 309
Period size: 47 Copynumber: 4.6 Consensus size: 47
29956367 CCCTTCGGGA
* * * * * *
29956377 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29956424 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29956471 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29956518 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29956565 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
29956599 TCAAATATAC
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 135 0.87
51 21 0.13
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29963274 original size:27 final size:27
Alignment explanation
Indices: 29963244--29963330 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
29963234 TAGTTATGGG
29963244 TTGAGAGTTCAAGAAAACTATTTTGGC
1 TTGAGAGTTCAAGAAAACTATTTTGGC
* * * ** *
29963271 TTGATTAGGT-ATGAATTCT-TGGTTATGGG
1 TTGA-GAGTTCAAGAAAACTAT--TT-TGGC
29963300 TTGAGAGTTCAAGAAAACTATTTTGGC
1 TTGAGAGTTCAAGAAAACTATTTTGGC
29963327 TTGA
1 TTGA
29963331 TTAGGTATGA
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
26 1 0.02
27 17 0.40
28 10 0.24
29 13 0.31
30 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (27 bp):
TTGAGAGTTCAAGAAAACTATTTTGGC
Found at i:29963322 original size:56 final size:56
Alignment explanation
Indices: 29963236--29963347 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
29963226 GGAAACCCTA
29963236 GTTATGGGTTGAGAGTTCAAGAAAACTATTTTGGCTTGATTAGGTATGAATTCTTG
1 GTTATGGGTTGAGAGTTCAAGAAAACTATTTTGGCTTGATTAGGTATGAATTCTTG
29963292 GTTATGGGTTGAGAGTTCAAGAAAACTATTTTGGCTTGATTAGGTATGAATTCTTG
1 GTTATGGGTTGAGAGTTCAAGAAAACTATTTTGGCTTGATTAGGTATGAATTCTTG
29963348 TCCCGTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (56 bp):
GTTATGGGTTGAGAGTTCAAGAAAACTATTTTGGCTTGATTAGGTATGAATTCTTG
Found at i:29964487 original size:25 final size:25
Alignment explanation
Indices: 29964411--29964494 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
29964401 AGCTTCCTGA
** **
29964411 ATATGGCTCTTATGAGCTTCCCGCT
1 ATATGGCTCACATGAGCTTCCCATT
** * *
29964436 ATACAGCTCAGATAAGCTT-CCAGTT
1 ATATGGCTCACATGAGCTTCCCA-TT
29964461 ATATGGCTCACATGAGCTTCCCATT
1 ATATGGCTCACATGAGCTTCCCATT
29964486 ATATGGCTC
1 ATATGGCTC
29964495 GAGAGATGGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 2 0.04
25 41 0.89
26 3 0.07
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (25 bp):
ATATGGCTCACATGAGCTTCCCATT
Found at i:29983032 original size:18 final size:18
Alignment explanation
Indices: 29983001--29983042 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
29982991 TTTATAGGAG
29983001 TTAG-CAAATAAGAATGC
1 TTAGTCAAATAAGAATGC
*
29983018 TTAGTCAAATGAGAATGC
1 TTAGTCAAATAAGAATGC
29983036 TTAGTCA
1 TTAGTCA
29983043 TCTATGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (18 bp):
TTAGTCAAATAAGAATGC
Found at i:29984155 original size:26 final size:26
Alignment explanation
Indices: 29984121--29984195 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
29984111 GTCCCGATAT
* *
29984121 ATAGTTCTTCGTGAGTTTCTCGATTA
1 ATAGCTCTTCGTGAGCTTCTCGATTA
* *
29984147 A-ATGCTCTTTGTGAGCTTCTTGATTA
1 ATA-GCTCTTCGTGAGCTTCTCGATTA
*
29984173 ATAGCTCTTCG-GAGCTTCCCGAT
1 ATAGCTCTTCGTGAGCTTCTCGAT
29984196 AAGGCTTGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.28
26 28 0.70
27 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
ATAGCTCTTCGTGAGCTTCTCGATTA
Found at i:29988670 original size:13 final size:13
Alignment explanation
Indices: 29988652--29988677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29988642 GAGTAGTTCT
29988652 AAATTCTATAAGG
1 AAATTCTATAAGG
29988665 AAATTCTATAAGG
1 AAATTCTATAAGG
29988678 TTAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AAATTCTATAAGG
Found at i:29998396 original size:33 final size:33
Alignment explanation
Indices: 29998330--29998396 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
29998320 ACATTTTAAG
*
29998330 TTAGAAAAATAATCTTCAAAACATAACGTGTTT
1 TTAGAAAAATAATCTTCAAAACATAACGCGTTT
*
29998363 TTAGAAAAATAATCTTCAAAACATAATGCGTTT
1 TTAGAAAAATAATCTTCAAAACATAACGCGTTT
29998396 T
1 T
29998397 ATCATTACCA
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:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (33 bp):
TTAGAAAAATAATCTTCAAAACATAACGCGTTT
Found at i:29999055 original size:43 final size:43
Alignment explanation
Indices: 29999007--29999091 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
29998997 CAAAACTTGA
*
29999007 GGGTTAAAGTGTAAACATGAAAAAGTTGAAGGACCGGTAGTGC
1 GGGTTAAAGTGTAAACATGAAAAAGTTGAAGGACCGATAGTGC
29999050 GGGTTAAAGTGTAAACATGAAAAAGTTGAAGGACCGATAGTG
1 GGGTTAAAGTGTAAACATGAAAAAGTTGAAGGACCGATAGTG
29999092 TAAATATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.21
Consensus pattern (43 bp):
GGGTTAAAGTGTAAACATGAAAAAGTTGAAGGACCGATAGTGC
Found at i:29999373 original size:30 final size:30
Alignment explanation
Indices: 29999298--29999379 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
29999288 ATGTTGATGA
*
29999298 TATTTTATAATTATTTAATTAAAAAATTAT
1 TATTTTATTATTATTTAATTAAAAAATTAT
* * *
29999328 TATTTTATTAATATTTAA-TAAGATATTTAT
1 TATTTTATTATTATTTAATTAA-AAAATTAT
*
29999358 TATTATT-TTATTATTTTATTAA
1 TATT-TTATTATTATTTAATTAA
29999380 GTATATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.07
30 35 0.81
31 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTATTTAATTAAAAAATTAT
Found at i:30001647 original size:46 final size:46
Alignment explanation
Indices: 30001543--30001813 Score: 375
Period size: 46 Copynumber: 5.9 Consensus size: 46
30001533 TTCTGAAATG
* *
30001543 AAATGTATAAGACCATGGTTGAAAGATACCATGACAA-ATGATATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
30001588 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
30001634 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* ** *
30001680 AAATGTGTAAGACCATGGTTGAAAGATACCATGCCAACATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAGA
** * * *
30001727 AAATGAATAAGACCATGGTTGAAACATACGATGGCAACATGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * *
30001773 AAATGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
30001814 TCGAAGATAA
Statistics
Matches: 204, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
45 36 0.18
46 130 0.64
47 38 0.19
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:30001776 original size:93 final size:92
Alignment explanation
Indices: 30001542--30001801 Score: 380
Period size: 93 Copynumber: 2.8 Consensus size: 92
30001532 TTTCTGAAAT
*
30001542 GAAATGTATAAGACCATGGTTGAAAGATACCATGACAA-ATGATATG-AAATGTGTAAGACCATG
1 GAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGTGTAAGACCATG
* *
30001605 GTTGAAAGATACCATGGCAACATGATAG
65 GTTGAAAGATACCATGCCAACATGAGAG
* *
30001633 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCATGG
1 GAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCATGG
*
30001698 TTGAAAGATACCATGCCAACATGACGGG
66 TTGAAAGATACCATGCCAACATGA-GAG
* * * * * *
30001726 GAAATGAATAAGACCATGGTTGAAACATACGATGGCAACATGACAGAAAATGAGTAAGACCATAG
1 GAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCATGG
30001791 TTGAAAGATAC
66 TTGAAAGATAC
30001802 TATGGCATCA
Statistics
Matches: 152, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
91 36 0.24
92 47 0.31
93 69 0.45
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (92 bp):
GAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCATGG
TTGAAAGATACCATGCCAACATGAGAG
Found at i:30001794 original size:139 final size:137
Alignment explanation
Indices: 30001543--30001813 Score: 398
Period size: 139 Copynumber: 2.0 Consensus size: 137
30001533 TTCTGAAATG
* * **
30001543 AAATGTATAAGACCATGGTTGAAAGATACCATGACAAATGATATGAAATGTGTAAGACCATGGTT
1 AAATGTATAAGACCATGGTTGAAAGATACCATGACAAATGAGAGGAAATGAATAAGACCATGGTT
* * * *
30001608 GAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 GAAACATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACA
30001673 TGATAGA
131 TGATAGA
* * *
30001680 AAATGTGTAAGACCATGGTTGAAAGATACCATGCCAACATGACGGGGAAATGAATAAGACCATGG
1 AAATGTATAAGACCATGGTTGAAAGATACCATGACAA-ATGA-GAGGAAATGAATAAGACCATGG
* * *
30001745 TTGAAACATACGATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCAT
64 TTGAAACATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAA
30001810 CATG
129 CATG
30001814 TCGAAGATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 35 0.30
138 4 0.03
139 79 0.67
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (137 bp):
AAATGTATAAGACCATGGTTGAAAGATACCATGACAAATGAGAGGAAATGAATAAGACCATGGTT
GAAACATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACA
TGATAGA
Found at i:30003166 original size:22 final size:23
Alignment explanation
Indices: 30003086--30003168 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 23
30003076 CCTTAACACG
*
30003086 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTG--TATTAGCACT
* * *
30003111 CTAATGCTCTCCG-ATTAGCACAT
1 TTAGTGCTCTCTGTATTAGCAC-T
30003134 TT-GTGCTCTCTGTA-TAGCACT
1 TTAGTGCTCTCTGTATTAGCACT
30003155 TTAGTGCTCTCTGT
1 TTAGTGCTCTCTGT
30003169 TTAATAATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.06
22 33 0.69
23 2 0.04
25 10 0.21
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (23 bp):
TTAGTGCTCTCTGTATTAGCACT
Found at i:30007035 original size:46 final size:47
Alignment explanation
Indices: 30006920--30007147 Score: 316
Period size: 47 Copynumber: 4.9 Consensus size: 47
30006910 TTTCTAAAAT
* *
30006920 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACCGA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
* *
30006967 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
* * *
30007014 -AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGACTGA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
*
30007060 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-A
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
* ** * * *
30007106 AAAACAAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
30007148 TCGAAGATAA
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 77 0.48
47 83 0.52
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (47 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
Found at i:30007080 original size:93 final size:93
Alignment explanation
Indices: 30006921--30007147 Score: 364
Period size: 93 Copynumber: 2.4 Consensus size: 93
30006911 TTCTAAAATG
30006921 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACCGAGAAATGAATAAGACCATGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACCGAGAAATGAATAAGACCATGG
* *
30006986 TTGAAAGATACCATGGCAACATGATAGA
66 TTGAAAGATACCATGGCAACATGACAAA
* *
30007014 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGACTGAGAAATGAATAAGACCATGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACCGAGAAATGAATAAGACCATGG
30007079 TTGAAAGATACCATGGCAACATGACAAA
66 TTGAAAGATACCATGGCAACATGACAAA
*** * * *
30007107 AAACAAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
30007148 TCGAAGATAA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (93 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACCGAGAAATGAATAAGACCATGG
TTGAAAGATACCATGGCAACATGACAAA
Found at i:30026581 original size:47 final size:47
Alignment explanation
Indices: 30026509--30026640 Score: 122
Period size: 47 Copynumber: 2.8 Consensus size: 47
30026499 TAATACATTA
* * * * * * *
30026509 TGGATAAACCATTGGTCGAGTAGATGACTG-TGAACTTGAATATGTTG
1 TGGATAAAACACTAGTCGAGCAGATGACTGCCG-ACTAGAATATGTTC
* *
30026556 TGGATAAAACACTAGTTGAGCAGATGGCTGCCGACTAGAATATGTTC
1 TGGATAAAACACTAGTCGAGCAGATGACTGCCGACTAGAATATGTTC
* * * *
30026603 TGTATAAACCACTGGTCGAGCAGATGAACTGCTGACTA
1 TGGATAAAACACTAGTCGAGCAGATG-ACTGCCGACTA
30026641 CTTCCTCCGT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
47 58 0.85
48 10 0.15
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (47 bp):
TGGATAAAACACTAGTCGAGCAGATGACTGCCGACTAGAATATGTTC
Found at i:30034324 original size:42 final size:42
Alignment explanation
Indices: 30034217--30034363 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
30034207 TACCACACCA
* * **
30034217 ATGCCATATCCTAGATATGTTCTTACATGGGGTCTCAT-TTCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATT-G
* * * *
30034259 ATGCCA-ATAGCTAGCA-ATAGTCTTACATGAAATCTCATATTG
1 ATGCCATAT-CCCAG-ATATGGTCTTACATGAAGTCTCATATTG
* * *
30034301 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAAAATG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATTG
30034343 ATGCCATATCCCAGATATGGT
1 ATGCCATATCCCAGATATGGT
30034364 TTATTCCTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 79 0.91
43 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATTG
Found at i:30040201 original size:27 final size:27
Alignment explanation
Indices: 30040168--30040591 Score: 259
Period size: 27 Copynumber: 15.7 Consensus size: 27
30040158 CTTCAAATTG
*
30040168 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* **** *
30040195 TAGAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ****
30040222 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
30040249 TAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ***
30040276 TAGAATTACTATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** *
30040303 CAGAATTACTC-TTTTACCCTCGGTTTA
1 TAAAATTAC-CAAAATACCCTCGATTTA
* *
30040330 CAAAATTACTAAAATACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
30040357 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
30040383 GTAAAATTACCAAAATACCCTAG-TCTG
1 -TAAAATTACCAAAATACCCTCGATTTA
** * * *
30040410 TAAAATTATTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
30040437 TAAAATTATCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
30040464 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
30040491 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* * *
30040518 TGAAATTACCAAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
30040545 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
30040572 CAAAGTTA-CAGAAATACCCT
1 TAAAATTACCA-AAATACCCT
30040592 TGACTTTCTA
Statistics
Matches: 336, Mismatches: 49, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
26 28 0.08
27 307 0.91
28 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:30040402 original size:81 final size:80
Alignment explanation
Indices: 30040325--30040591 Score: 315
Period size: 81 Copynumber: 3.3 Consensus size: 80
30040315 TTTACCCTCG
* ** * **
30040325 GTTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAAT
1 GTTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAT
30040390 TACCAAAATA-CCCTA
65 TACCAAAATACCCCTA
* ** * * *
30040405 GTCTGTAAAATTATTAAAATACCCTTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAAT
1 GTTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAT
30040470 TACCAAAATACCCCTA
65 TACCAAAATACCCCTA
** * *
30040486 GTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTGTAAAAT
1 GTTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAT
30040551 TACCAAAATACCCCT-
65 TACCAAAATACCCCTA
*
30040566 GATTTACAAAGTTAC-AGAAATACCCT
1 G-TTTACAAAATTACTA-AAATACCCT
30040592 TGACTTTCTA
Statistics
Matches: 161, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
80 65 0.40
81 95 0.59
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
GTTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATT
ACCAAAATACCCCTA
Found at i:30040750 original size:27 final size:26
Alignment explanation
Indices: 30040706--30040794 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
30040696 ATACCTCTAT
* *
30040706 TAGGG-AAAAAGACAGTAAAGCCCCTG
1 TAGGGTAAAGAGACCGTAAA-CCCCTG
30040732 TAGGGTAAAGAGACCGTAAATCCCCTG
1 TAGGGTAAAGAGACCGTAAA-CCCCTG
* *
30040759 TAGGGTAAAGTGACCGTAATACCCCTA
1 TAGGGTAAAGAGACCGTAA-ACCCCTG
*
30040786 TATGGTAAA
1 TAGGGTAAA
30040795 ATGACGAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.09
27 49 0.89
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
TAGGGTAAAGAGACCGTAAACCCCTG
Found at i:30041669 original size:25 final size:26
Alignment explanation
Indices: 30041598--30041707 Score: 174
Period size: 26 Copynumber: 4.3 Consensus size: 26
30041588 GAGGAAGTGC
30041598 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30041624 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
30041650 AAAAGGG-TTTTGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30041675 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
30041698 AAAAGAGGCT
1 AAAAG-GGCT
30041708 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
23 5 0.06
24 9 0.11
25 32 0.40
26 35 0.43
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30041675 original size:51 final size:49
Alignment explanation
Indices: 30041598--30041707 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 49
30041588 GAGGAAGTGC
30041598 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAG-TTATT
*
30041649 GAAAAGGG-TTTTGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTATT
30041698 AAAAGAGGCT
1 AAAAG-GGCT
30041708 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
48 5 0.09
49 7 0.13
50 9 0.16
51 27 0.49
52 7 0.13
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTATT
Found at i:30041717 original size:25 final size:25
Alignment explanation
Indices: 30041598--30041717 Score: 127
Period size: 25 Copynumber: 4.7 Consensus size: 25
30041588 GAGGAAGTGC
*
30041598 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGC-TAGGCCCCAGTTTATTG
*
30041624 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGC-TAGGCCCCAGTTTATTG
* **
30041650 AAAAGGGTTTTGCCCCAGTTTATTG
1 AAAAGGGCTAGGCCCCAGTTTATTG
**
30041675 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTAGGCCCCAGTTTATTG
30041698 AAAAGAGGCTAGGCCTCCAG
1 AAAAG-GGCTAGGCC-CCAG
30041718 ATATATGATA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 5 0.06
24 12 0.14
25 37 0.43
26 33 0.38
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTAGGCCCCAGTTTATTG
Found at i:30041990 original size:31 final size:31
Alignment explanation
Indices: 30041913--30041991 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
30041903 TGTTTACAGT
*
30041913 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30041944 AAAGGCTGCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30041975 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
30041992 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30049543 original size:16 final size:18
Alignment explanation
Indices: 30049507--30049544 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30049497 TTCTTTATTT
*
30049507 AAATAAAATATAGAGGTA
1 AAATAAAATATAGAAGTA
30049525 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
30049541 AAAT
1 AAAT
30049545 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:30053271 original size:23 final size:22
Alignment explanation
Indices: 30053232--30053275 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
30053222 AACTAGACTC
30053232 ATTAAAATTTAATCTCATATTTT
1 ATTAAAATTTAATCTCA-ATTTT
*
30053255 ATTAAACTTCTAA-CTCAATTT
1 ATTAAAATT-TAATCTCAATTT
30053276 CCACTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATTTAATCTCAATTTT
Found at i:30056256 original size:14 final size:14
Alignment explanation
Indices: 30056237--30056263 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30056227 ATATTTGACT
30056237 TGTTCTTAATTATG
1 TGTTCTTAATTATG
30056251 TGTTCTTAATTAT
1 TGTTCTTAATTAT
30056264 TGTCTTGATA
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:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:30066413 original size:5 final size:5
Alignment explanation
Indices: 30066403--30066515 Score: 226
Period size: 5 Copynumber: 22.6 Consensus size: 5
30066393 CTATGTGTTC
30066403 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
30066453 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
30066503 TTTAT TTTAT TTT
1 TTTAT TTTAT TTT
30066516 CACAGAAGTG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 108 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:30069374 original size:27 final size:27
Alignment explanation
Indices: 30069323--30069410 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
30069313 GTGACAGAGT
30069323 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * * *
30069352 CACCAGAATAGATATCTGTGGCAGGGT
1 CACCAGAACAGATATTTGTGGCAGTGC
30069379 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
30069407 CACC
1 CACC
30069411 CGGACGCTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 22 0.45
28 20 0.41
29 7 0.14
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:30069565 original size:28 final size:28
Alignment explanation
Indices: 30069518--30069585 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
30069508 AAATTAACCC
* * *
30069518 TAGGGTTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30069546 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30069574 TAGGGGTATAAT
1 TAGGGGTATAAT
30069586 AGCACATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:30077274 original size:55 final size:55
Alignment explanation
Indices: 30077209--30077326 Score: 141
Period size: 55 Copynumber: 2.1 Consensus size: 55
30077199 AGCATGGCTG
* *
30077209 CCAGATACAGA-AAATGTGACAGAGTCACCAAATACAGATATTTTGTGGCAGT-GCCA
1 CCAGA-ACAGATAAATGTGACAGAGCCACCAAA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
30077265 CCAGAACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAAATGTGACAGAGCCACCAAAACAGATAATTTGTGGCATAGCCA
30077320 CCAGAAC
1 CCAGAAC
30077327 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 1 0.02
55 32 0.59
56 21 0.39
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATAAATGTGACAGAGCCACCAAAACAGATAATTTGTGGCATAGCCA
Found at i:30077286 original size:27 final size:27
Alignment explanation
Indices: 30077242--30077326 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 27
30077232 GTCACCAAAT
30077242 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
* *
30077270 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
30077297 ACAGATAATTTGTGGCA-TAGCCACCAGA
1 ACAGAT-ATTTGTGGCAGT-GCCACCAGA
30077325 AC
1 AC
30077327 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.47
28 27 0.53
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:30077476 original size:28 final size:28
Alignment explanation
Indices: 30077429--30077498 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
30077419 AAATTAACCC
* *
30077429 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30077457 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30077485 TAGGGGTATAATGG
1 TAGGGGTATAATGG
30077499 CACATCTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:30084785 original size:30 final size:30
Alignment explanation
Indices: 30084751--30084819 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
30084741 CCGAGTGCTA
*
30084751 GGCCATGTCCTTCACACAGCTGAGACACAT
1 GGCCATGTCCTCCACACAGCTGAGACACAT
**
30084781 GGCCATGTCCTCCACATGGCTGAGACACAT
1 GGCCATGTCCTCCACACAGCTGAGACACAT
*
30084811 GGCTATGTC
1 GGCCATGTC
30084820 TCTGCCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (30 bp):
GGCCATGTCCTCCACACAGCTGAGACACAT
Found at i:30106120 original size:19 final size:21
Alignment explanation
Indices: 30106098--30106138 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30106088 GTTGTTTTTC
30106098 CACTAT-T-TTGCTACTATTT
1 CACTATATGTTGCTACTATTT
30106117 CACTATCATGTTGCTACTATTT
1 CACTAT-ATGTTGCTACTATTT
30106139 TGGACATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (21 bp):
CACTATATGTTGCTACTATTT
Found at i:30108005 original size:6 final size:6
Alignment explanation
Indices: 30107994--30108021 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30107984 ATTTTAAAAA
30107994 TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATA
30108022 CTATTTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:30110354 original size:31 final size:32
Alignment explanation
Indices: 30110319--30110382 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
30110309 ATTATAAAAA
30110319 TATATAATTAAATTCTAAATCC-AAAATTTTT
1 TATATAATTAAATTCTAAATCCAAAAATTTTT
30110350 TATATAATTAAATTCTAAATCCAAAAATTTTT
1 TATATAATTAAATTCTAAATCCAAAAATTTTT
30110382 T
1 T
30110383 TAACTTCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (32 bp):
TATATAATTAAATTCTAAATCCAAAAATTTTT
Found at i:30113324 original size:28 final size:28
Alignment explanation
Indices: 30113273--30113334 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
30113263 TATAGTAGTT
*
30113273 TCTGAAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAAATTAGAAAAGACGTA
* * * *
30113301 TCTGAAAAAATAATTTTGAAAAGATGTT
1 TCTGAAAAAATAAATTAGAAAAGACGTA
30113329 TCTGAA
1 TCTGAA
30113335 CAACTAGTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (28 bp):
TCTGAAAAAATAAATTAGAAAAGACGTA
Found at i:30113676 original size:126 final size:125
Alignment explanation
Indices: 30113301--30113676 Score: 601
Period size: 126 Copynumber: 3.0 Consensus size: 125
30113291 AGAAGACGTA
* * *
30113301 TCTGAAAAAATAATTTTGAAAAGATGTTTCTGAACAACTAGTGCCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAA-AAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
30113366 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGATGCTT-TTTTTCTACAGTAATT
65 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATG-TTCTTTTTCTACAGTAGTT
* *
30113427 TCTGAAAAAATAATTTTAAGAAGATGTTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTG-AAAAATAGTGTCAAAAACGCTTCAAGCAGGAT
30113492 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGTTCTTTTTCTACAGTAGTT
65 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGTTCTTTTTCTACAGTAGTT
* *
30113553 TTTGAAAAAATAATTTTGAGAAGATGTTTCTGAAAATATAGTGTCAAAAACGCTTCAAACAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAAAA-ATAGTGTCAAAAACGCTTCAAGCAGGAT
* *
30113618 GCACTGTCAACAAAAGTACTGAAAAAAGCTCCCACATGGACGTTCTTTTTCTACAGTAG
65 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGTTCTTTTTCTACAGTAG
30113677 ATCCTATTTG
Statistics
Matches: 233, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
125 6 0.03
126 225 0.97
127 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (125 bp):
TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAAAAATAGTGTCAAAAACGCTTCAAGCAGGATG
CACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGTTCTTTTTCTACAGTAGTT
Found at i:30116782 original size:54 final size:55
Alignment explanation
Indices: 30116663--30116783 Score: 149
Period size: 54 Copynumber: 2.2 Consensus size: 55
30116653 GCATTATTTA
* * *
30116663 TATTTTATTAAAAATATAAAAATATTCAAAATATTTTCTTATTTAAAAGAACTTC
1 TATTTTATTAAAAATATAAAAAAATTCAAAATATATTCTTATTCAAAAGAACTTC
* * *
30116718 TATTTTATTAAAAATATAAAAGTAAATT-ATAAT-TATT-TTATTCAAAATAACTTT
1 TATTTTATTAAAAATATAAAA--AAATTCAAAATATATTCTTATTCAAAAGAACTTC
30116772 TATTTTATTAAA
1 TATTTTATTAAA
30116784 TAAAATAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 26 0.45
55 24 0.41
56 4 0.07
57 4 0.07
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (55 bp):
TATTTTATTAAAAATATAAAAAAATTCAAAATATATTCTTATTCAAAAGAACTTC
Found at i:30117229 original size:18 final size:18
Alignment explanation
Indices: 30117203--30117245 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30117193 GACTGGAAAA
* * *
30117203 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30117221 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30117239 AGGATAC
1 AGGATAC
30117246 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30117386 original size:30 final size:30
Alignment explanation
Indices: 30117307--30117390 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
30117297 ATTGGGCCCG
* * * *
30117307 GTGACTGTGTTGGCACTATTGATGGGCCTG
1 GTGATTGTGTGGGCACTGTTGATGGGCCTA
* * * *
30117337 GTGATTGTATGAGCGCTGTTGATGGGTCTA
1 GTGATTGTGTGGGCACTGTTGATGGGCCTA
*
30117367 GTGATTGTGTGGGTACTGTTGATG
1 GTGATTGTGTGGGCACTGTTGATG
30117391 AGCCCGCATC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.37
Consensus pattern (30 bp):
GTGATTGTGTGGGCACTGTTGATGGGCCTA
Found at i:30117904 original size:7 final size:7
Alignment explanation
Indices: 30117894--30117919 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30117884 TTATATACAG
30117894 AATACTA
1 AATACTA
30117901 AATACTA
1 AATACTA
30117908 AATACTA
1 AATACTA
30117915 AATAC
1 AATAC
30117920 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:30131603 original size:16 final size:16
Alignment explanation
Indices: 30131582--30131613 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30131572 ATCAAGCATA
30131582 ATGCAAACAATTAAGT
1 ATGCAAACAATTAAGT
30131598 ATGCAAACAATTAAGT
1 ATGCAAACAATTAAGT
30131614 GAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (16 bp):
ATGCAAACAATTAAGT
Found at i:30132413 original size:23 final size:23
Alignment explanation
Indices: 30132383--30132427 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30132373 TCCATGTGTA
30132383 TGTTTAATTTGGCAGAGGGTGGC
1 TGTTTAATTTGGCAGAGGGTGGC
30132406 TGTTTAATTTGGCAGAGGGTGG
1 TGTTTAATTTGGCAGAGGGTGG
30132428 TGGAAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.07, G:0.40, T:0.36
Consensus pattern (23 bp):
TGTTTAATTTGGCAGAGGGTGGC
Found at i:30136075 original size:6 final size:6
Alignment explanation
Indices: 30136064--30136088 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30136054 TAAAACAATT
30136064 ACTTAA ACTTAA ACTTAA ACTTAA A
1 ACTTAA ACTTAA ACTTAA ACTTAA A
30136089 ACAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTTAA
Found at i:30136718 original size:14 final size:14
Alignment explanation
Indices: 30136699--30136732 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30136689 CACTTTAGCC
*
30136699 TTTTGTTGGAACTT
1 TTTTGTTGAAACTT
*
30136713 TTTTGTTGAAATTT
1 TTTTGTTGAAACTT
30136727 TTTTGT
1 TTTTGT
30136733 GCTAACAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (14 bp):
TTTTGTTGAAACTT
Found at i:30146337 original size:15 final size:17
Alignment explanation
Indices: 30146317--30146353 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
30146307 TAATGTAAAG
30146317 TGAATTG-AAATATAT-
1 TGAATTGAAAATATATA
30146332 TGAATTGAAAATATATA
1 TGAATTGAAAATATATA
30146349 TGAAT
1 TGAAT
30146354 AACTGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (17 bp):
TGAATTGAAAATATATA
Found at i:30146842 original size:28 final size:28
Alignment explanation
Indices: 30146811--30146864 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
30146801 ATACTGAACA
* *
30146811 ATAAAGATTAACTGATTGCTATTAAATG
1 ATAAAGATAAACTGATTGATATTAAATG
* *
30146839 ATAATGATAAATTGATTGATATTAAA
1 ATAAAGATAAACTGATTGATATTAAA
30146865 AAGTACTGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (28 bp):
ATAAAGATAAACTGATTGATATTAAATG
Found at i:30148240 original size:5 final size:5
Alignment explanation
Indices: 30148230--30148263 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
30148220 GTTGATAAAG
30148230 AAAAT AAAAT AAACA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAA
30148264 ATAGAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:30151470 original size:29 final size:29
Alignment explanation
Indices: 30151425--30151482 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
30151415 TAAGAGATTA
30151425 AAAGAGTCATGGAAGAAGAAGTAAATAAT
1 AAAGAGTCATGGAAGAAGAAGTAAATAAT
* *
30151454 AAAGAGTCATGGTAGAAGAAGTAAGTAAT
1 AAAGAGTCATGGAAGAAGAAGTAAATAAT
30151483 GTGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.19
Consensus pattern (29 bp):
AAAGAGTCATGGAAGAAGAAGTAAATAAT
Found at i:30165115 original size:26 final size:26
Alignment explanation
Indices: 30165086--30165136 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
30165076 ACTCCAAACA
30165086 TGTATCAATTAATCCATAATATCATT
1 TGTATCAATTAATCCATAATATCATT
30165112 TGTATCAATTAATCCATAATATCAT
1 TGTATCAATTAATCCATAATATCAT
30165137 CAACCAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (26 bp):
TGTATCAATTAATCCATAATATCATT
Found at i:30166268 original size:42 final size:42
Alignment explanation
Indices: 30166204--30166356 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
30166194 TCGTATAATG
* *
30166204 CCAACGTCCCAGACATGGTCTTACATGTAATCAAATATC-ATG
1 CCAATGTCCCAGACATGGTCTTACATGTAATCAAATA-CGATA
* * * * * *
30166246 CTACTGTCCCAGATAGGGTCTTACACGAAATCAAATACGATA
1 CCAATGTCCCAGACATGGTCTTACATGTAATCAAATACGATA
*
30166288 CCAATGTCCCAGACATGGTCTTACATGTAAATCACAA-ATCGATG
1 CCAATGTCCCAGACATGGTCTTACATGT-AATCA-AATA-CGATA
* *
30166332 CCAACGTCCCAGACGTGGTCTTACA
1 CCAATGTCCCAGACATGGTCTTACA
30166357 CGATAACACA
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 54 0.60
43 6 0.07
44 29 0.32
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
CCAATGTCCCAGACATGGTCTTACATGTAATCAAATACGATA
Found at i:30173932 original size:17 final size:19
Alignment explanation
Indices: 30173897--30173933 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30173887 AGTTCCATGA
30173897 ATGTATTTATCTAAGATAC
1 ATGTATTTATCTAAGATAC
30173916 ATGTATTTA-CT-AGATAC
1 ATGTATTTATCTAAGATAC
30173933 A
1 A
30173934 CATTAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
ATGTATTTATCTAAGATAC
Found at i:30178627 original size:24 final size:24
Alignment explanation
Indices: 30178599--30178646 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30178589 TCCAAGTTTG
30178599 GAATTTTTCTTGGTCGGTTTTGGT
1 GAATTTTTCTTGGTCGGTTTTGGT
*
30178623 GAATTTTTCTTGGTGGGTTTTGGT
1 GAATTTTTCTTGGTCGGTTTTGGT
30178647 CTCTTAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.06, G:0.31, T:0.54
Consensus pattern (24 bp):
GAATTTTTCTTGGTCGGTTTTGGT
Found at i:30188437 original size:85 final size:85
Alignment explanation
Indices: 30188324--30188493 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
30188314 GATGGCTATG
30188324 AGTAAGGTCAAATCAATAAAGACCAATAATAATTCTACTTCTTTAATAAAAACAAAAAAATTAAA
1 AGTAAGGTCAAATCAATAAAGACCAATAATAATTCTACTTCTTTAATAAAAACAAAAAAATTAAA
30188389 AATTAAAAGGGGTTTAAAAA
66 AATTAAAAGGGGTTTAAAAA
*
30188409 AGTAAGGTCAAATCAATAAAGACCAATAATAATTCTACTTCTTTAATAAAAACAAATAAATTAAA
1 AGTAAGGTCAAATCAATAAAGACCAATAATAATTCTACTTCTTTAATAAAAACAAAAAAATTAAA
30188474 AATTAAAAGGGGTTTAAAAA
66 AATTAAAAGGGGTTTAAAAA
30188494 TTAAAAGAAA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (85 bp):
AGTAAGGTCAAATCAATAAAGACCAATAATAATTCTACTTCTTTAATAAAAACAAAAAAATTAAA
AATTAAAAGGGGTTTAAAAA
Found at i:30189354 original size:21 final size:21
Alignment explanation
Indices: 30189328--30189373 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
30189318 CGTGGCTTCG
* *
30189328 CACATGGCCTTGTGGTTTCCC
1 CACATGCCCATGTGGTTTCCC
30189349 CACATGCCCATGTGGTTTCCC
1 CACATGCCCATGTGGTTTCCC
30189370 CACA
1 CACA
30189374 CACCCGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.37, G:0.20, T:0.28
Consensus pattern (21 bp):
CACATGCCCATGTGGTTTCCC
Found at i:30189383 original size:21 final size:21
Alignment explanation
Indices: 30189338--30189384 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30189328 CACATGGCCT
**
30189338 TGTGGTTTCCCCACATGCCCA
1 TGTGGTTTCCCCACACACCCA
*
30189359 TGTGGTTTCCCCACACACCCG
1 TGTGGTTTCCCCACACACCCA
30189380 TGTGG
1 TGTGG
30189385 CTAGACCGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.36, G:0.23, T:0.28
Consensus pattern (21 bp):
TGTGGTTTCCCCACACACCCA
Found at i:30193693 original size:105 final size:105
Alignment explanation
Indices: 30193498--30193715 Score: 413
Period size: 105 Copynumber: 2.1 Consensus size: 105
30193488 CTATTTAACA
*
30193498 ACTT-TAAA-CTAATTTTTGTGGCATTTACGATTTAATCCTTTTTACTTAATTAATTAACTAAAC
1 ACTTGTAAATCTAACTTTTGTGGCATTTACGATTTAATCCTTTTTACTTAATTAATTAACTAAAC
30193561 ATTAAAATTTTAACCAAATTTTTATATGACACTAGTAAAT
66 ATTAAAATTTTAACCAAATTTTTATATGACACTAGTAAAT
30193601 ACTTGTAAATCTAACTTTTGTGGCATTTACGATTTAATCCTTTTTACTTAATTAATTAACTAAAC
1 ACTTGTAAATCTAACTTTTGTGGCATTTACGATTTAATCCTTTTTACTTAATTAATTAACTAAAC
30193666 ATTAAAATTTTAACCAAATTTTTATATGACACTAGTAAAT
66 ATTAAAATTTTAACCAAATTTTTATATGACACTAGTAAAT
30193706 ACTTGTAAAT
1 ACTTGTAAAT
30193716 ATTAAATAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 4 0.04
104 4 0.04
105 104 0.93
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (105 bp):
ACTTGTAAATCTAACTTTTGTGGCATTTACGATTTAATCCTTTTTACTTAATTAATTAACTAAAC
ATTAAAATTTTAACCAAATTTTTATATGACACTAGTAAAT
Found at i:30198032 original size:27 final size:27
Alignment explanation
Indices: 30198002--30198072 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
30197992 GTCCCGTCGA
**
30198002 ACTATCCTGTGTTTAATATCTT-TTCGG
1 ACTATCCCATGTTTAATATCTTATT-GG
* *
30198029 ACTACCCCATGTTTAATGTCTTATTGG
1 ACTATCCCATGTTTAATATCTTATTGG
30198056 ACTATCCCATGTTTAAT
1 ACTATCCCATGTTTAAT
30198073 TTCCCATTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (27 bp):
ACTATCCCATGTTTAATATCTTATTGG
Found at i:30198081 original size:27 final size:27
Alignment explanation
Indices: 30198027--30198084 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30198017 ATATCTTTTC
**
30198027 GGACTACCCCATGTTTAATGTCTTATT
1 GGACTACCCCATGTTTAATGTCCCATT
* *
30198054 GGACTATCCCATGTTTAATTTCCCATT
1 GGACTACCCCATGTTTAATGTCCCATT
30198081 GGAC
1 GGAC
30198085 AATCTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (27 bp):
GGACTACCCCATGTTTAATGTCCCATT
Found at i:30198237 original size:45 final size:45
Alignment explanation
Indices: 30198163--30198293 Score: 172
Period size: 45 Copynumber: 2.9 Consensus size: 45
30198153 GAACTACAAG
* * * *
30198163 GATGCCATAGCGTCTTTCAACTATGGTCTTACTCTTTTTTATTAT
1 GATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTTATCAT
* * * * * *
30198208 GATGTCATAGCATCGTTCAACCATAGTCTTACTCAATTATATCGT
1 GATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTTATCAT
30198253 GATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTTA
1 GATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTTA
30198294 GGCGAATAGC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (45 bp):
GATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTTATCAT
Found at i:30211862 original size:72 final size:71
Alignment explanation
Indices: 30211644--30211874 Score: 214
Period size: 71 Copynumber: 3.2 Consensus size: 71
30211634 ATTAATTATC
* * * *
30211644 AAGTAAAATCGTTTATTTAATTATGTGTTTTTAAAAGGTTAATTTAATTCAATTTATT-AAGTTT
1 AAGTAAAACCGTTTATTTAATTATGCGTTTTTAAAAAGTTAATTTAGTTCAATTTATTGAA-TTT
30211708 TGATATT
65 TGATATT
** * * * * * * ** *
30211715 AAGCGAAACCATTTATTTAGTTATAC-ATTTTCAGAAGCTTAATTTAGTTTGATTTATTGAAATT
1 AAGTAAAACCGTTTATTTAATTATGCGTTTTTAAAAAG-TTAATTTAGTTCAATTTATTGAATTT
* **
30211779 TAATACG
65 TGATATT
* * *
30211786 AAGTAAAACCGCTTGTTCAATTATGCGTTTTTAAAAAAGTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAACCGTTTATTTAATTATGCGTTTTT-AAAAAGTTAATTTAGTTCAATTTATTGAATTT
*
30211851 TGCTATT
65 TGATATT
*
30211858 AAGTAGAACCGTTTATT
1 AAGTAAAACCGTTTATT
30211875 AAAAAGGTAA
Statistics
Matches: 117, Mismatches: 39, Indels: 7
0.72 0.24 0.04
Matches are distributed among these distances:
70 7 0.06
71 60 0.51
72 46 0.39
73 4 0.03
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.45
Consensus pattern (71 bp):
AAGTAAAACCGTTTATTTAATTATGCGTTTTTAAAAAGTTAATTTAGTTCAATTTATTGAATTTT
GATATT
Found at i:30223844 original size:16 final size:16
Alignment explanation
Indices: 30223820--30223854 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30223810 ATAAAAATAT
30223820 ATAAAAAATGAATAAA
1 ATAAAAAATGAATAAA
*
30223836 ATAAAAAATGAATAGA
1 ATAAAAAATGAATAAA
30223852 ATA
1 ATA
30223855 CATAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (16 bp):
ATAAAAAATGAATAAA
Found at i:30223982 original size:13 final size:12
Alignment explanation
Indices: 30223964--30224022 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
30223954 AATAATAATA
30223964 AAATAAATCAAAC
1 AAATAAAT-AAAC
*
30223977 AAATAACATAAAA
1 AAATAA-ATAAAC
* *
30223990 AAATAAACAAAT
1 AAATAAATAAAC
30224002 AAATAAATAAGAC
1 AAATAAATAA-AC
*
30224015 AAGTAAAT
1 AAATAAAT
30224023 GATTCTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 13 0.34
13 23 0.61
14 2 0.05
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.17
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:30224007 original size:4 final size:4
Alignment explanation
Indices: 30223964--30224011 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
30223954 AATAATAATA
* * *
30223964 AAAT AAAT CAAAC AAAT AACAT AAAA AAAT AAAC AAAT AAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AA
30224012 GACAAGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 29 0.81
5 7 0.19
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:30224021 original size:17 final size:16
Alignment explanation
Indices: 30223964--30224022 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
30223954 AATAATAATA
* *
30223964 AAATAAATCAAACAAAT
1 AAATAAAT-AAATAAAC
*
30223981 AACATAAAAAAATAAAC
1 AA-ATAAATAAATAAAC
30223998 AAATAAATAAATAAGAC
1 AAATAAATAAATAA-AC
*
30224015 AAGTAAAT
1 AAATAAAT
30224023 GATTCTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 11 0.31
17 19 0.54
18 5 0.14
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.17
Consensus pattern (16 bp):
AAATAAATAAATAAAC
Found at i:30224413 original size:21 final size:21
Alignment explanation
Indices: 30224389--30224430 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30224379 TTAAAGGGGC
30224389 AAATTAAAAAATATAAAAAAT
1 AAATTAAAAAATATAAAAAAT
* * *
30224410 AAATTTAAAATTTTAAAAAAT
1 AAATTAAAAAATATAAAAAAT
30224431 TCAGAAGGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTAAAAAATATAAAAAAT
Found at i:30231263 original size:28 final size:30
Alignment explanation
Indices: 30231239--30231293 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30231229 GCGAAAATCT
*
30231239 TATTTTT-ACTAA-TTATA-AAATAAAACA
1 TATTTTTAACTAAGTAATATAAATAAAACA
30231266 TATTTTTAACTAAGTAATATAAATAAAA
1 TATTTTTAACTAAGTAATATAAATAAAA
30231294 ATTTTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 5 0.21
29 4 0.17
30 8 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
TATTTTTAACTAAGTAATATAAATAAAACA
Found at i:30234490 original size:23 final size:23
Alignment explanation
Indices: 30234444--30234490 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30234434 AATAAAATTT
*
30234444 ATTAAAATAAAAAATAAATCAAA
1 ATTAAAATAAAAAATAAATAAAA
*
30234467 ATTAAAATTAAAAAA-ATATAAAA
1 ATTAAAA-TAAAAAATAAATAAAA
30234490 A
1 A
30234491 GTTCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
ATTAAAATAAAAAATAAATAAAA
Found at i:30236719 original size:8 final size:9
Alignment explanation
Indices: 30236698--30236723 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30236688 TGTTATGAGT
30236698 TTTTTTAAA
1 TTTTTTAAA
30236707 TTTTTTAAA
1 TTTTTTAAA
30236716 TTTTTTAA
1 TTTTTTAA
30236724 TAAATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:30237060 original size:15 final size:16
Alignment explanation
Indices: 30237040--30237086 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
30237030 TCAGCGTTTA
30237040 ATTAAAT-TTTTAAAT
1 ATTAAATATTTTAAAT
30237055 ATTAAATATTTTAATAAT
1 ATTAAATATTTT-A-AAT
*
30237073 ATT-AATGTTTTAAA
1 ATTAAATATTTTAAA
30237087 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 8 0.29
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAAATATTTTAAAT
Found at i:30237083 original size:17 final size:18
Alignment explanation
Indices: 30237040--30237095 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
30237030 TCAGCGTTTA
30237040 ATTAAAT-TTTT-A-AAT
1 ATTAAATATTTTAATAAT
30237055 ATTAAATATTTTAATAAT
1 ATTAAATATTTTAATAAT
* *
30237073 ATT-AATGTTTTAAAAAT
1 ATTAAATATTTTAATAAT
*
30237090 TTTAAA
1 ATTAAA
30237096 AATAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.21
16 4 0.12
17 15 0.44
18 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAAATATTTTAATAAT
Found at i:30271869 original size:34 final size:34
Alignment explanation
Indices: 30271805--30271870 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
30271795 CTGAAAAAAG
30271805 AAAAAAGAAGAAATAGGGAAAGCGAATAAGAAACA
1 AAAAAAGAAGAAATA-GGAAAGCGAATAAGAAACA
*
30271840 AAAAAAGAAAGGAAATA-GAAAG-GAGTAAGAA
1 AAAAAAG-AA-GAAATAGGAAAGCGAATAAGAA
30271871 TAAAGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
34 8 0.29
35 12 0.43
36 2 0.07
37 6 0.21
ACGTcount: A:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (34 bp):
AAAAAAGAAGAAATAGGAAAGCGAATAAGAAACA
Found at i:30272923 original size:42 final size:42
Alignment explanation
Indices: 30272858--30273115 Score: 291
Period size: 42 Copynumber: 6.1 Consensus size: 42
30272848 GAAAACATTT
* * *
30272858 ATTGCATTTAGAGGCCTAGGTGTGGAGGTTCGTTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
30272900 ATTACATTTAGAGGCCTAAGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* ** * * *
30272942 ATTGAATTTAGAAACCTAGGTATGGAGGTCCATTCACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
** ** * * * *
30272984 ATTGCATACAGACACCCAGGTGTGGAGATCAATTCACTATTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* *
30273026 ATTGCATTTAAAGGCCCAGGTGTGGAGTTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
30273068 ATTGCATTTAAAGGCCCAAGTGTAGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
30273110 ATTGCA
1 ATTGCA
30273116 CTGTATATGA
Statistics
Matches: 184, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 184 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (42 bp):
ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
Found at i:30274062 original size:54 final size:53
Alignment explanation
Indices: 30274002--30274111 Score: 211
Period size: 54 Copynumber: 2.1 Consensus size: 53
30273992 CAACTATTTC
30274002 AAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTGTGTGTGTTTTTTTTTAAA
1 AAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTGTGTGT-TTTTTTTTTAAA
30274056 AAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTGTGTGTTTTTTTTTTAAA
1 AAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTGTGTGTTTTTTTTTTAAA
30274109 AAA
1 AAA
30274112 GGAGAAAGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 15 0.27
54 41 0.73
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.42
Consensus pattern (53 bp):
AAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTGTGTGTTTTTTTTTTAAA
Found at i:30278421 original size:49 final size:49
Alignment explanation
Indices: 30278346--30278452 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
30278336 CTTACCACAC
* * *
30278346 GGCCATGTGGAGTGGTTCAACATGTGT-GAGTCACACGACTGTGTGGTAT
1 GGCCATGTTGAATGGTTCAACATGTGTAGA-TCACACGACCGTGTGGTAT
* * * *
30278395 GGCCATGTTGAATGGTTCAACCTGTGTAGATTATATGACCGTGTGGTAT
1 GGCCATGTTGAATGGTTCAACATGTGTAGATCACACGACCGTGTGGTAT
*
30278444 GACCATGTT
1 GGCCATGTT
30278453 AAGCTTGCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 47 0.96
50 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (49 bp):
GGCCATGTTGAATGGTTCAACATGTGTAGATCACACGACCGTGTGGTAT
Found at i:30280228 original size:22 final size:23
Alignment explanation
Indices: 30280194--30280264 Score: 58
Period size: 27 Copynumber: 3.0 Consensus size: 23
30280184 AAAAAAAAAC
* *
30280194 AATAAAGTGCATAAT-AAAATAA
1 AATAAAATACATAATGAAAATAA
30280216 AATAAAATACATAAGTTTGGAAAATAA
1 AATAAAATACATAA---T-GAAAATAA
*
30280243 AATAAAA-ACA-AATAAAAATAA
1 AATAAAATACATAATGAAAATAA
30280264 A
1 A
30280265 GATAGTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 8 0.20
22 13 0.32
25 3 0.07
26 3 0.07
27 14 0.34
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (23 bp):
AATAAAATACATAATGAAAATAA
Found at i:30283866 original size:18 final size:18
Alignment explanation
Indices: 30283845--30284034 Score: 344
Period size: 18 Copynumber: 10.6 Consensus size: 18
30283835 TTGATGATAT
*
30283845 CGATATTGATGATAGTGA
1 CGATATTGATGCTAGTGA
30283863 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283881 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283899 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283917 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283935 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283953 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283971 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
30283989 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
* *
30284007 CGCTATTGATGATAGTGA
1 CGATATTGATGCTAGTGA
*
30284025 CGCTATTGAT
1 CGATATTGAT
30284035 CGTGACCTTG
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 169 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (18 bp):
CGATATTGATGCTAGTGA
Found at i:30292391 original size:25 final size:25
Alignment explanation
Indices: 30292357--30292413 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
30292347 TTAGTTACGA
30292357 TATATGTAACGAAAGTCGCATTGGT
1 TATATGTAACGAAAGTCGCATTGGT
30292382 TATATGTAACGAAAGTCGCATTGGT
1 TATATGTAACGAAAGTCGCATTGGT
*
30292407 TCTATGT
1 TATATGT
30292414 TAACATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
TATATGTAACGAAAGTCGCATTGGT
Found at i:30302200 original size:43 final size:43
Alignment explanation
Indices: 30302152--30302235 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
30302142 ACTTTCAATC
*
30302152 GAATAACAGTAATTCATTCGTACCAACAGTACTCTACCATAAT
1 GAATAACAGTAATTCATTCGTACAAACAGTACTCTACCATAAT
*
30302195 GAATAACAGTAATTCATTCGTATAAACAGTACTCTACCATA
1 GAATAACAGTAATTCATTCGTACAAACAGTACTCTACCATA
30302236 TCACAGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (43 bp):
GAATAACAGTAATTCATTCGTACAAACAGTACTCTACCATAAT
Found at i:30302422 original size:23 final size:22
Alignment explanation
Indices: 30302381--30302492 Score: 107
Period size: 23 Copynumber: 4.8 Consensus size: 22
30302371 GAGTTGATGG
*
30302381 ACAGTAAGCTCTATTGAGCTAAA
1 ACAGTAAGCTCTA-CGAGCTAAA
* *
30302404 ACGGTAAGCTCTGACGAGCTGAA
1 ACAGTAAGCTCT-ACGAGCTAAA
*
30302427 TCAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTC-TACGAGCTAA-A
*
30302451 ACAGTAAGCTCCAACGAGCTAAAA
1 ACAGTAAGCT-CTACGAGCT-AAA
*
30302475 ATAGTAAGCTCTTACGAG
1 ACAGTAAGCTC-TACGAG
30302493 TTGATATATC
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
23 36 0.49
24 34 0.47
25 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (22 bp):
ACAGTAAGCTCTACGAGCTAAA
Found at i:30302460 original size:24 final size:23
Alignment explanation
Indices: 30302381--30302492 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 23
30302371 GAGTTGATGG
*
30302381 ACAGTAAGCTCTATTGAGCTAA-A
1 ACAGTAAGCTCTA-CGAGCTAAGA
*
30302404 ACGGTAAGCTCTGACGAGCT--GA
1 ACAGTAAGCTCT-ACGAGCTAAGA
30302426 ATCAGTAAGCTCATACGAGCTAAGA
1 A-CAGTAAGCTC-TACGAGCTAAGA
* *
30302451 ACAGTAAGCTCCAACGAGCTAAAA
1 ACAGTAAGCT-CTACGAGCTAAGA
*
30302475 ATAGTAAGCTCTTACGAG
1 ACAGTAAGCTC-TACGAG
30302493 TTGATATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
22 2 0.03
23 33 0.45
24 35 0.47
25 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCTACGAGCTAAGA
Found at i:30310010 original size:21 final size:20
Alignment explanation
Indices: 30309977--30310016 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30309967 GTTAAAAGGA
*
30309977 CACACGGGTGTGTCGCCCTTC
1 CACACGGGCGTGT-GCCCTTC
*
30309998 CACACTGGCGTGTGCCCTT
1 CACACGGGCGTGTGCCCTT
30310017 GTTTGTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCTTC
Found at i:30315395 original size:27 final size:27
Alignment explanation
Indices: 30315357--30315410 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30315347 AAATAAGGAG
30315357 AAGCTTTCATCTTTTTCATTCTCTCTT
1 AAGCTTTCATCTTTTTCATTCTCTCTT
30315384 AAGCTTTCATCTTTTTCATTCTCTCTT
1 AAGCTTTCATCTTTTTCATTCTCTCTT
30315411 TCTTCTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.04, T:0.56
Consensus pattern (27 bp):
AAGCTTTCATCTTTTTCATTCTCTCTT
Found at i:30316401 original size:48 final size:48
Alignment explanation
Indices: 30316228--30316402 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
30316218 TGTGTGCTAT
* * * *
30316228 TGTAAAACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGAGAGCCAG
* * * * * * * *
30316276 CGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
* * * *
30316324 TGTAAGACCAAGTCTTGGACATAGCATCGGCCTCGACATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
* *
30316372 TATAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
30316403 AATTTAACCT
Statistics
Matches: 98, Mismatches: 28, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
48 97 0.99
49 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
Found at i:30317988 original size:54 final size:54
Alignment explanation
Indices: 30317925--30318086 Score: 306
Period size: 54 Copynumber: 3.0 Consensus size: 54
30317915 TTTAAAGCAA
30317925 GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
1 GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
30317979 GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
1 GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
* *
30318033 GCTCCGTTCACTAATCTATATTCACCATAATGTCGCTTATTGCAGTATTTACAT
1 GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
30318087 TTGGGCCCAG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (54 bp):
GCTCCGTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTGTTTACAT
Found at i:30320170 original size:13 final size:13
Alignment explanation
Indices: 30320154--30320193 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
30320144 TTTAAACCAA
30320154 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
30320167 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
30320180 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
30320193 A
1 A
30320194 TTGCCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:30320810 original size:40 final size:40
Alignment explanation
Indices: 30320741--30320888 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 40
30320731 TATTCGAATG
* * * *
30320741 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCAGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
30320781 AGATCCAGACTAAGATCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCAGACTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
30320821 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCAGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
30320861 ATATCCGGGCTAAGTCCCAAAGGCATTT
1 ATATCCAGACTAAGACCCGAAGGCATTT
30320889 ATGTAACACC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 86 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCAGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:30320884 original size:80 final size:80
Alignment explanation
Indices: 30320741--30320888 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
30320731 TATTCGAATG
* * * **
30320741 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTAGATCCAGACTAAGATCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTAGATCCAGACTAAGATCCAAAGGCA
30320806 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
30320821 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTAGATCCAGACTAAGAT-CCAAAGGC
30320885 ATTT
65 ATTT
30320889 ATGTAACACC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTAGATCCAGACTAAGATCCAAAGGCA
TTTGTGCGAGTTGCT
Found at i:30322269 original size:27 final size:27
Alignment explanation
Indices: 30322239--30322416 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
30322229 ATATTGAGTC
* * * *
30322239 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30322266 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30322293 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30322321 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30322348 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30322375 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30322402 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30322417 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30322378 original size:82 final size:81
Alignment explanation
Indices: 30322260--30322415 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30322250 TGCTATATAA
*
30322260 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30322325 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30322342 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30322406 CACTTAGTGC
65 CACTTAGTGC
30322416 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30324567 original size:22 final size:22
Alignment explanation
Indices: 30324527--30324568 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30324517 GAATGTGCAT
*
30324527 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
30324549 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
30324569 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:30327261 original size:43 final size:43
Alignment explanation
Indices: 30327156--30327325 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 43
30327146 ATATAGCTAG
* * * **
30327156 TACAATG-CAATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
* ** * * * *
30327197 TATCGACACCACTGTCTCAGACAGGGTCTTACACGAAATCA-AT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
** *
30327240 TA-ATGATGCCAATGTCCCAGACATCATCTTACACGTAATCACAA
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
* *
30327284 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
30327326 TCTCAGTAAC
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 89 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
Found at i:30332875 original size:7 final size:7
Alignment explanation
Indices: 30332863--30332895 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
30332853 AAAATATAAA
30332863 TGTTAAT
1 TGTTAAT
30332870 TGTTAAT
1 TGTTAAT
30332877 TGTTAAT
1 TGTTAAT
30332884 TGTTAAT
1 TGTTAAT
30332891 TGTTA
1 TGTTA
30332896 CCATGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
TGTTAAT
Found at i:30338278 original size:22 final size:22
Alignment explanation
Indices: 30338250--30338325 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
30338240 ATGTGTATAT
30338250 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
30338272 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
30338296 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
30338319 ATGTGAT
1 ATGTGAT
30338326 GAATTTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:30338279 original size:47 final size:47
Alignment explanation
Indices: 30338225--30338418 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
30338215 TTAGGATTTT
** *
30338225 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30338272 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
30338319 ATGTGATGAATTTGAGCATGCATATGTGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
30338366 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30338413 ATGTGA
1 ATGTGA
30338419 AATATATATA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30338469 original size:94 final size:91
Alignment explanation
Indices: 30338247--30338474 Score: 255
Period size: 94 Copynumber: 2.4 Consensus size: 91
30338237 TGAATGTGTA
* * * *
30338247 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
1 TATATGTGGTAAGGCCGAATGGCCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCCGA
30338312 ATGGCCAATGTGATGAATTTGAGCATG
65 ATGGCCAATGTGATGAATTTGAGCATG
* *
30338339 CATATGTGTGATAAGGCCGAATGGCCTATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
1 TATATGTG-G-TAAGGCCGAATGGCCTATGT-GTGAATATGAACATGCATATATGTGATAAAGCC
* *
30338404 GAATGGTCAATGTGAAAT-ATATATATGAGATATG
63 GAATGGCCAATGTG--ATGA-AT-T-TGAG-CATG
*
30338438 TATATGTGGTAAAGCCGAATGG-CTA-GTGTGAAATATG
1 TATATGTGGTAAGGCCGAATGGCCTATGTGTG-AATATG
30338475 TAGGCGATGT
Statistics
Matches: 116, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
92 7 0.06
94 64 0.55
95 10 0.09
96 7 0.06
97 13 0.11
98 5 0.04
99 10 0.09
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (91 bp):
TATATGTGGTAAGGCCGAATGGCCTATGTGTGAATATGAACATGCATATATGTGATAAAGCCGAA
TGGCCAATGTGATGAATTTGAGCATG
Found at i:30338768 original size:37 final size:37
Alignment explanation
Indices: 30338623--30338767 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
30338613 GGAAATATAT
*
30338623 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30338660 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30338697 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
30338734 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
30338768 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30342510 original size:338 final size:338
Alignment explanation
Indices: 30341894--30343221 Score: 2593
Period size: 338 Copynumber: 3.9 Consensus size: 338
30341884 GAATCTTATT
* *
30341894 AAGTCTGTTTTCATATGGAATAAACAAAATAAGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
1 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
*
30341959 TTTGGTGGAATAGGGTCAGAGCGATTTCTGAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
66 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
30342024 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
131 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
30342089 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
196 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
30342154 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
261 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
30342219 TACTGAACAGTTG
326 TACTGAACAGTTG
30342232 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
1 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
30342297 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
66 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
30342362 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
131 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
30342427 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
196 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
30342492 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
261 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
30342557 TACTGAACAGTTG
326 TACTGAACAGTTG
30342570 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
1 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
30342635 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
66 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
30342700 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
131 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
30342765 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
196 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
30342830 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
261 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
30342895 TACTGAACAGTTG
326 TACTGAACAGTTG
30342908 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
1 AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
30342973 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
66 TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
30343038 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
131 TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
* * * *
30343103 AGAAACAAACGTCATAGTCATCTGAATTCTGTACAGAGAGAAAAACTATTCGTAGTGAACAGAGG
196 AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
30343168 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAA
261 TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAA
30343222 TTGGCCCAAC
Statistics
Matches: 983, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
338 983 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (338 bp):
AAGTCTGTTTTCATATGGAATAAACAAAACAGGTAAATGAGTTGTATTTCATGAGAAATTTTAGT
TTTGGTGGAATAGGGTCAGAGCGATTTCTAAATTCCCTATTCTAATTTTATAAATTCATTAAAAA
TTGAAAAAAACTAGTTAGGAGTCATACTTTATATGAATATATTTCTTATTGAGTTTAATTTTAAG
AGAAACAAATGTCATAGTCATCTGAATTTTATACAGAGAGAAAAACTATTCGTAGTGAACAGGGG
TCAGAACAGTTGAAGACTGAAATAGGGGAAAATTTAACTAATAAAATGTACTAAACAGGTAAATG
TACTGAACAGTTG
Found at i:30350539 original size:53 final size:53
Alignment explanation
Indices: 30350476--30350580 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
30350466 AAATTTGTTA
*
30350476 TTTCCAAATTCAACTTCTTATAAATTAAAATAGACCTGAAATCACTTATATAT
1 TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATAT
* *
30350529 TTTCCAAATTCAACTTATTGTAAGTTAAAATAGACCTGAAATCACTTATATA
1 TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATA
30350581 CATTCTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (53 bp):
TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATAT
Found at i:30352550 original size:40 final size:40
Alignment explanation
Indices: 30352468--30352691 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
30352458 ACCCAAGTAT
* * *
30352468 CTTCGGGATTTAG-CCGGATATAG-CAGCTCGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATGC
* * ** *
30352507 CTTCGGGTCTTAGCCCGGATGTAGTCACTAGCATGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30352547 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30352587 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
30352630 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30352670 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30352692 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
41 2 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30352653 original size:83 final size:80
Alignment explanation
Indices: 30352468--30352691 Score: 274
Period size: 83 Copynumber: 2.8 Consensus size: 80
30352458 ACCCAAGTAT
* * * * *
30352468 CTTCGGGATTTAG-CCGGATATAG-CAGCTCGCTCAAATGCCTTCGGGTCTTAGCCCGGATGTAG
1 CTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
30352531 TCACTAGCATGAATAC
65 TCACTAGCACAAATAC
*
30352547 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
30352611 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATAC
* * *
30352630 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30352692 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 13 0.10
80 46 0.37
81 2 0.02
83 65 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATAC
Found at i:30359858 original size:24 final size:23
Alignment explanation
Indices: 30359797--30359889 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 23
30359787 TACTCACCAT
*
30359797 AGCTCGAATGAGCTTACTGATATATT-
1 AGCTCGTA-GAGCTTACTG-T-T-TTC
30359823 AGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGT-AGAGCTTACTGTTTTC
*
30359847 AGCTCGTCAGAGCTTACCG-TTTC
1 AGCTCGT-AGAGCTTACTGTTTTC
* *
30359870 ATCTCAATAGAGCTTACTGT
1 AGCTC-GTAGAGCTTACTGT
30359890 CCATCAGCTC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 20 0.35
24 19 0.33
25 1 0.02
26 16 0.28
27 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (23 bp):
AGCTCGTAGAGCTTACTGTTTTC
Found at i:30361440 original size:59 final size:59
Alignment explanation
Indices: 30361371--30361490 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
30361361 GGTTTTTTAC
* * * * * * *
30361371 AAAATTAAAATGAAAATGGAGAAATGGAGTC-TTTTGAAAATAAATGTGGTTTTCTCTAA
1 AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAG-AAATAAATGTGATTTTCTCCAA
* *
30361430 AAAATGAAAATGAAAATAGTGAAATAGAATCATTTAGAAATGAATGTGATTTTCTCCAA
1 AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAGAAATAAATGTGATTTTCTCCAA
30361489 AA
1 AA
30361491 TGATAATGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 47 0.92
60 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (59 bp):
AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAGAAATAAATGTGATTTTCTCCAA
Found at i:30365716 original size:14 final size:14
Alignment explanation
Indices: 30365680--30365718 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
30365670 TTGTTTCACT
* *
30365680 GAAAATGACTTCTG
1 GAAAATGATTTCTA
30365694 GAAAATGATTTCTA
1 GAAAATGATTTCTA
30365708 GAAAATGATTT
1 GAAAATGATTT
30365719 GCTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:30366183 original size:15 final size:15
Alignment explanation
Indices: 30366163--30366216 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
30366153 ATACTACAAA
30366163 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
30366178 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
30366195 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
30366212 ATATT
1 ATATT
30366217 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:30366274 original size:15 final size:17
Alignment explanation
Indices: 30366249--30366284 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
30366239 ATGTGAATAA
30366249 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
30366265 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
30366281 TATT
1 TATT
30366285 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:30366280 original size:13 final size:14
Alignment explanation
Indices: 30366244--30366290 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
30366234 ATAATATGTG
*
30366244 AATAATATTGTTTAA
1 AATATTATT-TTTAA
30366259 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
30366274 AAT-TTATTATTAA
1 AATATTATTTTTAA
30366287 AATA
1 AATA
30366291 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:30369292 original size:40 final size:40
Alignment explanation
Indices: 30369238--30369462 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
30369228 CTTGCACAAG
* * *
30369238 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
30369278 GCCTTCGGGACTTAGCTCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
30369318 GCCCTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * * *
30369358 GCCTTTGGGTCTTAGCACGAATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
30369398 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
30369439 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
30369463 CATTCGAATA
Statistics
Matches: 152, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.02
40 119 0.78
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:30369799 original size:46 final size:46
Alignment explanation
Indices: 30369641--30369807 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
30369631 TGATATGTGT
* * *
30369641 GCTAGTGTAAGACATGTC-GAAGACATGCATCGACCAT--ATTATGAGA
1 GCTAGTGTAAGACATGTCTG-GGACATGCATC-AGCATCGA-GATGAGA
* * * * * * *
30369687 GCCAGCGTAAGACATATCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGAT-GA-GA
* *
30369735 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATGAGA
30369781 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
30369808 AGCTAATTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 55 0.57
47 4 0.04
48 36 0.37
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATGAGA
Found at i:30370248 original size:38 final size:38
Alignment explanation
Indices: 30370123--30370247 Score: 216
Period size: 38 Copynumber: 3.3 Consensus size: 38
30370113 TGCTTACCTA
30370123 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
30370161 TTGG-CGAACATACACATCAACTTATGTACTCATTCATG
1 -TGGCCGAACATACACATCAACTTATGTACTCATTCATG
* *
30370199 TGGCCGAACATGCACATCAAGTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
30370237 TGGCCGAACAT
1 TGGCCGAACAT
30370248 GAAGCAAGAG
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
37 3 0.04
38 77 0.93
39 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:30376826 original size:40 final size:40
Alignment explanation
Indices: 30376736--30376996 Score: 271
Period size: 40 Copynumber: 6.5 Consensus size: 40
30376726 CTCAAGTAAT
* * * *
30376736 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
30376774 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
30376814 CTTCGGGACTTAGCTCAGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
30376854 CCTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
30376894 CCTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
30376934 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
30376975 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30376997 CATTCGAATA
Statistics
Matches: 184, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 125 0.68
41 27 0.15
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Done.