Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 73 of 97
Found at i:29153445 original size:23 final size:23
Alignment explanation
Indices: 29153416--29153492 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
29153406 AAGGCTAGCA
29153416 TGTCACAGATTCCCTCCATGTCG
1 TGTCACAGATTCCCTCCATGTCG
* * **
29153439 TGTCACAAACTCCGAACGC-TGTCG
1 TGTCACAGATTCC-CTC-CATGTCG
* * *
29153463 TGTCACAGATTCCCTCTATGGCA
1 TGTCACAGATTCCCTCCATGTCG
29153486 TGTCACA
1 TGTCACA
29153493 AACTCTGAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
23 22 0.55
24 17 0.43
25 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (23 bp):
TGTCACAGATTCCCTCCATGTCG
Found at i:29153498 original size:140 final size:140
Alignment explanation
Indices: 29153246--29153584 Score: 412
Period size: 140 Copynumber: 2.4 Consensus size: 140
29153236 GACATCCCTA
* * * *
29153246 ATGGCGTGTCATAAACTCCAAACGCTGGCGTGTCACAAATTCTCTCCATGACATGTCACAAACTC
1 ATGGCGTGTCACAAACTCTAAACGCT-GCGTGTCACAAATTCTCTCCATGTCGTGTCACAAACTC
* **
29153311 TAAACACTGACCTGTCACAAATTCCCTTCATGGCATGTCACAAACTCT-AACCCTGTCGTGTCAC
65 CAAACACTGACCTGTCACAAATTCCCTTCATGGCATGTCACAAACTCTGAACCCTACCGTGTCAC
*
29153375 AGATTCCCTCC
130 AAATTCCCTCC
* * * *
29153386 ATGGCGTGTCACAAACTCTAAAGGCTAGCATGTCACAGATTCCCTCCATGTCGTGTCACAAACTC
1 ATGGCGTGTCACAAACTCTAAACGCT-GCGTGTCACAAATTCTCTCCATGTCGTGTCACAAACTC
* * * * * *
29153451 CGAACGCTGTCGTGTCACAGATTCCC-TCTATGGCATGTCACAAACTCTGAACCTTACCGTGTCA
65 CAAACACTGACCTGTCACAAATTCCCTTC-ATGGCATGTCACAAACTCTGAACCCTACCGTGTCA
*
29153515 CAAATTCCGTCC
129 CAAATTCCCTCC
* * * * *
29153527 ATGGCTTGTCACAAGCTCTAAACCCTGTCGTGTCACATATTCTCACCATGTCGTGTCA
1 ATGGCGTGTCACAAACTCTAAACGCTG-CGTGTCACAAATTCTCTCCATGTCGTGTCA
29153585 TACATTCCCA
Statistics
Matches: 168, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
139 2 0.01
140 96 0.57
141 70 0.42
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (140 bp):
ATGGCGTGTCACAAACTCTAAACGCTGCGTGTCACAAATTCTCTCCATGTCGTGTCACAAACTCC
AAACACTGACCTGTCACAAATTCCCTTCATGGCATGTCACAAACTCTGAACCCTACCGTGTCACA
AATTCCCTCC
Found at i:29153581 original size:23 final size:23
Alignment explanation
Indices: 29153552--29153603 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
29153542 CTCTAAACCC
* * *
29153552 TGTCGTGTCACATATTCTCACCA
1 TGTCGTGTCACACATTCCCAACA
*
29153575 TGTCGTGTCATACATTCCCAACA
1 TGTCGTGTCACACATTCCCAACA
29153598 TGTCGT
1 TGTCGT
29153604 TTCATAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (23 bp):
TGTCGTGTCACACATTCCCAACA
Found at i:29153584 original size:47 final size:47
Alignment explanation
Indices: 29153246--29153584 Score: 340
Period size: 47 Copynumber: 7.2 Consensus size: 47
29153236 GACATCCCTA
* * * * *
29153246 ATGGCGTGTCATAAACTCCAAACGCTGGCGTGTCACAAATTCTCTCC
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
* * * * * *
29153293 ATGACATGTCACAAACTCTAAACACTGACCTGTCACAAATTCCCTTC
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
* *
29153340 ATGGCATGTCACAAACTCT-AACCCTGTCGTGTCACAGATTCCCTCC
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
** * *
29153386 ATGGCGTGTCACAAACTCTAAAGGCTAG-CATGTCACAGATTCCCTCC
1 ATGGCGTGTCACAAACTCTAAACCCT-GTCGTGTCACAAATTCCCTCC
* ** * * *
29153433 ATGTCGTGTCACAAACTCCGAACGCTGTCGTGTCACAGATTCCCTCT
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
* * * ** *
29153480 ATGGCATGTCACAAACTCTGAACCTTACCGTGTCACAAATTCCGTCC
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
* * * * *
29153527 ATGGCTTGTCACAAGCTCTAAACCCTGTCGTGTCACATATTCTCACC
1 ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
*
29153574 ATGTCGTGTCA
1 ATGGCGTGTCA
29153585 TACATTCCCA
Statistics
Matches: 242, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
46 41 0.17
47 200 0.83
48 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
ATGGCGTGTCACAAACTCTAAACCCTGTCGTGTCACAAATTCCCTCC
Found at i:29153584 original size:94 final size:93
Alignment explanation
Indices: 29153246--29153568 Score: 380
Period size: 94 Copynumber: 3.5 Consensus size: 93
29153236 GACATCCCTA
* * * * * *
29153246 ATGGCGTGTCATAAACTCCAAACGCTGGCGTGTCACAAATTCTCTCCATGACATGTCACAAACTC
1 ATGGCGTGTCACAAACTCCAAACCCTGTCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTC
* *
29153311 TAAACACTGACCTGTCACAAATTCCCTTC
66 TAAAC-CTTACCTGTCACAAATTCCCTCC
* * *
29153340 ATGGCATGTCACAAACT-CTAACCCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTC
1 ATGGCGTGTCACAAACTCCAAACCCTGTCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTC
* * *
29153404 TAAAGGC-TAGCATGTCACAGATTCCCTCC
66 TAAA-CCTTA-CCTGTCACAAATTCCCTCC
* * * *
29153433 ATGTCGTGTCACAAACTCCGAACGCTGTCGTGTCACAGATTCCCTCTATGGCATGTCACAAACTC
1 ATGGCGTGTCACAAACTCCAAACCCTGTCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTC
* *
29153498 TGAACCTTACCGTGTCACAAATTCCGTCC
66 TAAACCTTACC-TGTCACAAATTCCCTCC
* * * *
29153527 ATGGCTTGTCACAAGCTCTAAACCCTGTCGTGTCACATATTC
1 ATGGCGTGTCACAAACTCCAAACCCTGTCGTGTCACAGATTC
29153569 TCACCATGTC
Statistics
Matches: 192, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
92 1 0.01
93 78 0.41
94 113 0.59
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (93 bp):
ATGGCGTGTCACAAACTCCAAACCCTGTCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTC
TAAACCTTACCTGTCACAAATTCCCTCC
Found at i:29168715 original size:13 final size:13
Alignment explanation
Indices: 29168699--29168725 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29168689 TCCACCTAGA
29168699 CAATCATCACACT
1 CAATCATCACACT
29168712 CAATCATCACACT
1 CAATCATCACACT
29168725 C
1 C
29168726 CTCCCTGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (13 bp):
CAATCATCACACT
Found at i:29175183 original size:18 final size:18
Alignment explanation
Indices: 29175145--29175184 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
29175135 CTATGTAAGA
*
29175145 TAATATTTTATTTAATTC
1 TAATATTTTATTTAATGC
29175163 TAATATTTTAATTT-ATGC
1 TAATATTTT-ATTTAATGC
29175181 TAAT
1 TAAT
29175185 GAGTAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATATTTTATTTAATGC
Found at i:29183848 original size:34 final size:34
Alignment explanation
Indices: 29183756--29183857 Score: 89
Period size: 34 Copynumber: 2.9 Consensus size: 34
29183746 AGATAAAGAA
* *
29183756 GTTGTGCTTGATCCTAAAAAGGTAGTGATTTGTAAAG
1 GTTGTGCTTGATCAT-AAAAGGTAGTGA-CT-TAAAG
* * *
29183793 GTTATGCTTAATCCATGAAAGGTAGTGACTT-AAG
1 GTTGTGCTTGAT-CATAAAAGGTAGTGACTTAAAG
* *
29183827 GTTGTGCTTGATACATAAAAGGCAATGACTT
1 GTTGTGCTTGAT-CATAAAAGGTAGTGACTT
29183858 TTATAGAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
34 28 0.53
35 1 0.02
36 1 0.02
37 21 0.40
38 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (34 bp):
GTTGTGCTTGATCATAAAAGGTAGTGACTTAAAG
Found at i:29189312 original size:20 final size:20
Alignment explanation
Indices: 29189287--29189325 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29189277 ATTCCAATTT
29189287 AATCATAGGTAGCAAAAAGA
1 AATCATAGGTAGCAAAAAGA
29189307 AATCATAGGTAGCAAAAAG
1 AATCATAGGTAGCAAAAAG
29189326 GTTTAGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCATAGGTAGCAAAAAGA
Found at i:29193123 original size:9 final size:9
Alignment explanation
Indices: 29193109--29193150 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
29193099 AGTCATCTTT
29193109 CTCTCTCAA
1 CTCTCTCAA
*
29193118 CTCTCTGAA
1 CTCTCTCAA
*
29193127 CTGTCTCAA
1 CTCTCTCAA
29193136 CTCTGC-CAA
1 CTCT-CTCAA
29193145 CTCTCT
1 CTCTCT
29193151 GTTGAGCACC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.19, C:0.40, G:0.07, T:0.33
Consensus pattern (9 bp):
CTCTCTCAA
Found at i:29193522 original size:31 final size:31
Alignment explanation
Indices: 29193487--29193806 Score: 496
Period size: 31 Copynumber: 10.3 Consensus size: 31
29193477 GCATTGGCAC
*
29193487 GTTACAACATTTTACGTTATATGCATGGCAT
1 GTTACAACATTTTACGTTATATGCATGGCGT
29193518 GTTACAACATTTTACGTTATATGCATGGCGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
* * *
29193549 ATTACCACATTTTACCTTATATGCATGGCGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
* * *
29193580 GTTACAACATTTTTCCTTATATGCATGGCAT
1 GTTACAACATTTTACGTTATATGCATGGCGT
*
29193611 GTTACAACATTTTACCTTATATGCATGGCGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
* *
29193642 GTTACCACATTTTACGTTATATGCATGGCAT
1 GTTACAACATTTTACGTTATATGCATGGCGT
*
29193673 GTTACAACATTTTACGTTATATGCATGGCAT
1 GTTACAACATTTTACGTTATATGCATGGCGT
29193704 GTTACAACATTTTACGTTATATGCATGGCGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
* * *
29193735 GTCACCACATTTTACGTTATATGCATGGTGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
*
29193766 GTTACAAGATTTTACGTTATATGCATGGCGT
1 GTTACAACATTTTACGTTATATGCATGGCGT
*
29193797 GTAACAACAT
1 GTTACAACAT
29193807 GACTAACAAA
Statistics
Matches: 265, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 265 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (31 bp):
GTTACAACATTTTACGTTATATGCATGGCGT
Found at i:29197427 original size:86 final size:86
Alignment explanation
Indices: 29197300--29197976 Score: 852
Period size: 86 Copynumber: 7.9 Consensus size: 86
29197290 GAGCAAATGC
* * * *
29197300 TTGTGGTGACACGCTCAGTGCATGCAGACTTCTGGCGTGACATGCTGACTTATTGCAATCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
* *
29197365 GGGTGTCACGGCAGGGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * * * *
29197386 TTGTGGTGACACGTTGAGTGAATGCGGAGTTCTGGCATGACACGCTGGCTTGTTGTAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
*
29197451 GGTTGACACGGCACGGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * * *
29197472 TTGTGGTAACACGTTGAGTGAATGCAGAGTTCTGGGGTGACACGCTGACTTGTTGTAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
**
29197537 GGGTGACACGGCACAAGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * * * *
29197558 TTGTGATGACATGCTGAGTGCATGCAAAGTTCTGACGTGACACACTGACTTGTTGCAGTCTTATG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
* ** * *
29197623 GAGTGATGCAGCACAGGCCAA
66 GGGTGACACGGCACGGGCCAA
** *
29197644 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGATGTGACACGCTGACTTGTTGCAGTCTTATG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
* *
29197709 GGGTGACACTGCACAGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * *
29197730 TTGTGGTGACACGCTGAGTGCATGCAGACTTTTGGCATGACACGCTGACTTGTTGCAGTCTTGTA
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
* * *
29197795 GGGTG-CTGCGACACGAGCCAA
66 GGGTGAC-ACGGCACGGGCCAA
* * * *
29197816 TTGTGGTGACACGCTGAGTGCATGTAGACTTCTAGCGTGACACGTTGACTTGTTGCAATCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
*
29197881 GGGTGACATGGCACGGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * *
29197902 TTGTGGTGACACGCTAAGTGCATGCAGACTTCTGGCGTGACATGCTGACTTATTGCAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
*
29197967 AGGTGACACG
66 GGGTGACACG
29197977 CCATGCCCCA
Statistics
Matches: 510, Mismatches: 79, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
85 1 0.00
86 508 1.00
87 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (86 bp):
TTGTGGTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
GGGTGACACGGCACGGGCCAA
Found at i:29199458 original size:81 final size:81
Alignment explanation
Indices: 29199373--29199638 Score: 311
Period size: 81 Copynumber: 3.3 Consensus size: 81
29199363 CTACTGCATA
* * * * * * *
29199373 AGCCTCAAGAAGATGCTCTCCTTCAACCACTAGTGACTGAAGGTCCTCCTCCCCTCTCGCAGATG
1 AGCCTCAAGAAAATGCACTCCTTCAGCCACCAGTGAATGAAGGTCCCCCTCCCCTCCCGCAGATG
* *
29199438 AATCGATAACTGAATC
66 CATCGATAACCGAATC
* * *
29199454 AGCCTCAAGAATAT-CGACTCATTCAGCCACCAGAGAATGAAGGTCCCCCTCCCCTCCCGCAGAT
1 AGCCTCAAGAAAATGC-ACTCCTTCAGCCACCAGTGAATGAAGGTCCCCCTCCCCTCCCGCAGAT
*
29199518 GCATCAATAACCGAATC
65 GCATCGATAACCGAATC
* * * * * *
29199535 AGCCTTAGGAAAATGGACTCCTTCAGCCACGAGTGAGTGAAGGTCCCCCTTCCCTCCCGCAGATG
1 AGCCTCAAGAAAATGCACTCCTTCAGCCACCAGTGAATGAAGGTCCCCCTCCCCTCCCGCAGATG
*
29199600 CATCGATAACCGAATT
66 CATCGATAACCGAATC
*
29199616 AGCCT-AAGAAACATGGACTCCTT
1 AGCCTCAAGAAA-ATGCACTCCTT
29199639 TAGCATCATC
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 6 0.04
81 152 0.96
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (81 bp):
AGCCTCAAGAAAATGCACTCCTTCAGCCACCAGTGAATGAAGGTCCCCCTCCCCTCCCGCAGATG
CATCGATAACCGAATC
Found at i:29202145 original size:55 final size:54
Alignment explanation
Indices: 29202015--29202497 Score: 446
Period size: 55 Copynumber: 9.0 Consensus size: 54
29202005 TCGTTACACT
* * * *
29202015 AACAGCTGTGACACACTAAAAACACAAAAAACCAGTTAACCCACAACAAGCC-GG
1 AACAGCCGTGACACGCTAAAAAC-CAAAAAACTAGTTAACCCACAACACGCCAGG
* * * * *
29202069 AACAACCGTGACATGCCAAAAACTCAAAAATCTAG-TAACCCCACAACACGCCAAG
1 AACAGCCGTGACACGCTAAAAAC-CAAAAAACTAGTTAA-CCCACAACACGCCAGG
* *
29202124 AACAGCCGTGACACGCTAAAAACCACAAAAACTAGTTAACCCACAACACTCCTGG
1 AACAGCCGTGACACGCTAAAAACCA-AAAAACTAGTTAACCCACAACACGCCAGG
* * * * *
29202179 AACAGCCGTGACATGCCAAAAACCCAAAAATTCAGTTAACCCACAACACGCCAAG
1 AACAGCCGTGACACGCTAAAAACCAAAAAACT-AGTTAACCCACAACACGCCAGG
* * * **
29202234 AATAGCCGTGACACG-------CC-AAAAACTCGTTAACTCACAACACGTTAGG
1 AACAGCCGTGACACGCTAAAAACCAAAAAACTAGTTAACCCACAACACGCCAGG
* * * * * * *
29202280 AACAGCTGTGACACGCTAAAAACCAGAAAATCCAATTACCCCACTACATGCCAGG
1 AACAGCCGTGACACGCTAAAAACCA-AAAAACTAGTTAACCCACAACACGCCAGG
* ** * * * *
29202335 AACAACTATGACATGTTAAAAACCTAAAAAACCAGTTAACCCACAACACGCTAGG
1 AACAGCCGTGACACGCTAAAAACC-AAAAAACTAGTTAACCCACAACACGCCAGG
* * * *
29202390 AACAACCGTGACACGCCAAAAACCAAAAAATCCAATTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCAAAAAA-CTAGTTAACCCACAACACGCCAGG
* *
29202445 AACAGTCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACATGCCA
1 AACAGCCGTGACACGCTAAAAA-CCAAAAAACTAGTTAACCCACAACACGCCA
29202498 TATGCAAACG
Statistics
Matches: 345, Mismatches: 67, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
46 30 0.09
47 6 0.02
48 2 0.01
53 5 0.01
54 53 0.15
55 237 0.69
56 12 0.03
ACGTcount: A:0.44, C:0.31, G:0.13, T:0.12
Consensus pattern (54 bp):
AACAGCCGTGACACGCTAAAAACCAAAAAACTAGTTAACCCACAACACGCCAGG
Found at i:29202270 original size:46 final size:47
Alignment explanation
Indices: 29202202--29202302 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 47
29202192 TGCCAAAAAC
* *
29202202 CCAAAAATTCAGTTAACCCACAACACGCCAAGAATAGCCGTGACACG
1 CCAAAAACTCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACG
* ** * *
29202249 CCAAAAACTC-GTTAACTCACAACACGTTAGGAACAGCTGTGACACG
1 CCAAAAACTCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACG
*
29202295 CTAAAAAC
1 CCAAAAAC
29202303 CAGAAAATCC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
46 37 0.80
47 9 0.20
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (47 bp):
CCAAAAACTCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACG
Found at i:29202291 original size:156 final size:160
Alignment explanation
Indices: 29202032--29202497 Score: 464
Period size: 156 Copynumber: 2.9 Consensus size: 160
29202022 GTGACACACT
* * * *
29202032 AAAAACACAAAAAACCAGTTAACCCACAACAAGCC-GGAACAACCGTGACATGCCAAAAACTCAA
1 AAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAACCGTGACACGCCAAAAAC-C--
* * * *
29202096 AAAT-CTAGTAACCCCACAACACGCCAAGAACAGCCGTGACACGCTAAAAACCACAAAAACTAGT
63 --ATCCAATTAA-CCCACAACACGCCAGGAACAGCTGTGACACGCTAAAAACCACAAAAACTAGT
* * *
29202160 TAACCCACAACACT-CCTGGAACAGCCGTGACATGCC
125 TAACCCACAACA-TGCCAGGAACAACCATGACATGCC
** * *
29202196 AAAAACCCAAAAATTCAGTTAACCCACAACACGCCAAGAATAGCCGTGACACGCCAAAAA-C-T-
1 AAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAACCGTGACACGCCAAAAACCATC
* * ** * * * * *
29202258 C-GTTAACTCACAACACGTTAGGAACAGCTGTGACACGCTAAAAACCAGAAAATCCAATTACCCC
66 CAATTAACCCACAACACGCCAGGAACAGCTGTGACACGCTAAAAACCACAAAAACTAGTTAACCC
* * **
29202322 ACTACATGCCAGGAACAACTATGACATGTT
131 ACAACATGCCAGGAACAACCATGACATGCC
* * *
29202352 AAAAACCTAAAAAACCAGTTAACCCACAACACGCTAGGAACAACCGTGACACGCCAAAAACCAAA
1 AAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAACCGTGACACGCCAAAAACC---
29202417 AAATCCAATTAACCCACAACACGCCAGGAACAG-TCGTGACACGCTAAAAACC-CAAAAAACTAG
63 --ATCCAATTAACCCACAACACGCCAGGAACAGCT-GTGACACGCTAAAAACCAC-AAAAACTAG
29202480 TTAACCCACAACATGCCA
124 TTAACCCACAACATGCCA
29202498 TATGCAAACG
Statistics
Matches: 245, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
155 1 0.00
156 122 0.50
157 4 0.02
158 2 0.01
163 2 0.01
164 33 0.13
165 81 0.33
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (160 bp):
AAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAACCGTGACACGCCAAAAACCATC
CAATTAACCCACAACACGCCAGGAACAGCTGTGACACGCTAAAAACCACAAAAACTAGTTAACCC
ACAACATGCCAGGAACAACCATGACATGCC
Found at i:29202347 original size:101 final size:101
Alignment explanation
Indices: 29202149--29202448 Score: 284
Period size: 101 Copynumber: 2.9 Consensus size: 101
29202139 CTAAAAACCA
* * *
29202149 CAAAAACTAGTTAACCCACAACAC-TCCT-GGAACAGCCGTGACATGCCAAAAACCCAAAAATTC
1 CAAAAACTCGTTAACCCACAACACGT--TAGGAACAGCCGTGACACGCCAAAAA-CCAAAAATCC
* * * * *
29202212 AGTTAACCCACAACACGCCAAGAATAGCCGTGACACG-C
63 AATTAACCCACAACACGCCAGGAACAACCATGACACGAC
* * *
29202250 CAAAAACTCGTTAACTCACAACACGTTAGGAACAGCTGTGACACGCTAAAAACCAGAAAATCCAA
1 CAAAAACTCGTTAACCCACAACACGTTAGGAACAGCCGTGACACGCCAAAAACCA-AAAATCCAA
* * * * *
29202315 TTACCCCACTACATGCCAGGAACAACTATGACATGTTAAAAAC
65 TTAACCCACAACACGCCAGGAACAACCATGACACG------AC
* *
29202358 CTAAAAAAC-CAGTTAACCCACAACACGCTAGGAACAACCGTGACACGCCAAAAACCAAAAAATC
1 C--AAAAACTC-GTTAACCCACAACACGTTAGGAACAGCCGTGACACGCCAAAAACC-AAAAATC
29202422 CAATTAACCCACAACACGCCAGGAACA
62 CAATTAACCCACAACACGCCAGGAACA
29202449 GTCGTGACAC
Statistics
Matches: 161, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
100 4 0.02
101 76 0.47
102 1 0.01
108 2 0.01
109 1 0.01
110 76 0.47
111 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.13, T:0.13
Consensus pattern (101 bp):
CAAAAACTCGTTAACCCACAACACGTTAGGAACAGCCGTGACACGCCAAAAACCAAAAATCCAAT
TAACCCACAACACGCCAGGAACAACCATGACACGAC
Found at i:29202977 original size:23 final size:23
Alignment explanation
Indices: 29202951--29203052 Score: 118
Period size: 23 Copynumber: 4.5 Consensus size: 23
29202941 CCTTTCACAA
** *
29202951 CATGGCGTGTCACATATTCAACC
1 CATGGCGTGTCACACGTTCAAGC
*
29202974 CATGGTGTGTCACACGTTCAAGC
1 CATGGCGTGTCACACGTTCAAGC
*
29202997 CATGCCGTGTCACACGTTCAAGC
1 CATGGCGTGTCACACGTTCAAGC
* *
29203020 CATGTCGTGTCACACG-TC-TGAC
1 CATGGCGTGTCACACGTTCAAG-C
29203042 CATGGCGTGTC
1 CATGGCGTGTC
29203053 CCACACTCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
21 1 0.01
22 13 0.19
23 55 0.80
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (23 bp):
CATGGCGTGTCACACGTTCAAGC
Found at i:29203133 original size:57 final size:57
Alignment explanation
Indices: 29203071--29203194 Score: 185
Period size: 57 Copynumber: 2.2 Consensus size: 57
29203061 TAAATGCTAC
* ** *
29203071 CGTGTCACACCTGTGTCACAAATTATCACTGTGTCGTCTCACACATTATCACCCTAT
1 CGTGTCACACCCGTGTCACAAATTATCACAATGCCGTCTCACACATTATCACCCTAT
* * *
29203128 TGTGTCACACCCGTGTCACATATTATCACAATGCCGTCTCACACATTATCACCCTGT
1 CGTGTCACACCCGTGTCACAAATTATCACAATGCCGTCTCACACATTATCACCCTAT
29203185 CGTGTCACAC
1 CGTGTCACAC
29203195 ATTCTGACCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (57 bp):
CGTGTCACACCCGTGTCACAAATTATCACAATGCCGTCTCACACATTATCACCCTAT
Found at i:29203135 original size:23 final size:23
Alignment explanation
Indices: 29203082--29203137 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
29203072 GTGTCACACC
* ** *
29203082 TGTGTCACAAATTATCACTGTGT
1 TGTGTCACACATTATCACCCTAT
* *
29203105 CGTCTCACACATTATCACCCTAT
1 TGTGTCACACATTATCACCCTAT
29203128 TGTGTCACAC
1 TGTGTCACAC
29203138 CCGTGTCACA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (23 bp):
TGTGTCACACATTATCACCCTAT
Found at i:29203164 original size:23 final size:23
Alignment explanation
Indices: 29203138--29203197 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
29203128 TGTGTCACAC
*
29203138 CCGTGTCACATATTATCACAATG
1 CCGTGTCACACATTATCACAATG
* **
29203161 CCGTCTCACACATTATCACCCTG
1 CCGTGTCACACATTATCACAATG
*
29203184 TCGTGTCACACATT
1 CCGTGTCACACATT
29203198 CTGACCATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (23 bp):
CCGTGTCACACATTATCACAATG
Found at i:29203271 original size:104 final size:104
Alignment explanation
Indices: 29203130--29204117 Score: 907
Period size: 104 Copynumber: 9.6 Consensus size: 104
29203120 CACCCTATTG
** *
29203130 TGTCACACCCGTGTCACATATTATCACAATGCCGTCTCACACATTATCACCCTGTCGTGTCACAC
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
* *
29203195 ATTCTGACCATGGCATGTCACACACTCTAAACGCTGTGC
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* * * ** * *
29203234 TGTCACACTCGTGTCACATATTCTCACCGTGCTGTCTCACACATTATCACCCTATCGTGTCATAA
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
*** * ** *
29203299 ATTCCCTCTATTACGTGTCACACACTCTAAACCCTG-CC
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* * * * *
29203337 ATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
1 -TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACA
* * *
29203402 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTAG-
65 CATTCTGACCATGGCGTGTCACACACTCTAAACCCTGT-GC
* * * * * * * *
29203442 TGTCACACCTGTGTCACATATTCTCACCATGCCATCTCACACATTATCACCATACTGTGTCACAG
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
*** * *
29203507 ATTCCCTCCATGGCGTGTCACACATTCTAAACCCTGTGG
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* ** ** * * *
29203546 TGTCACACCCTTGTCACGCATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACAC
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
* * *
29203611 GTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTAG-
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGT-GC
* * * * * * * *
29203650 TGTCACACCTGTGTCACATATTCTCACCATGCCATCTCACACATTATCACCATACTGTGTCACAG
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
*** * *
29203715 ATTCCCTCCATGGCGTGTCACACATTCTAAACCCTGTGG
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* ** ** * * *
29203754 TGTCACACCCTTGTCACGCATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACAC
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
* * *
29203819 GTTTTGACCATGGTGTGTCACACACTCTAAA-----TGC
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* *
29203853 TG------CCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCTTGCCGTGTCACAG
1 TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
** * *
29203912 ATTCCCACCATGGAGTGTCACACACTCTAAACCCTAT-C
66 ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* * * * * * * * *
29203950 GTGTCACACTCGTGTCACACATTATTACTGTGTCGTTTCACACATTATAACCTTGCCATGTCACA
1 -TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACA
* * *
29204015 CA-TCTGACCATGGCGTATCACATACTCTAAACGCTGT-C
65 CATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
* * * * * *
29204053 GTGTCACACCCCTATCAC--ATTCTCACCATGCCGTCTTACACATTATCACCCTGACGTGTCACA
1 -TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACA
29204116 CA
65 CA
29204118 CTCTAAACCC
Statistics
Matches: 694, Mismatches: 172, Indels: 39
0.77 0.19 0.04
Matches are distributed among these distances:
93 73 0.11
97 1 0.00
98 3 0.00
99 4 0.01
101 36 0.05
103 47 0.07
104 529 0.76
105 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (104 bp):
TGTCACACCCGTGTCACATATTATCACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAC
ATTCTGACCATGGCGTGTCACACACTCTAAACCCTGTGC
Found at i:29203377 original size:23 final size:23
Alignment explanation
Indices: 29203347--29203426 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 23
29203337 ATGTCACACT
**
29203347 CGTGTCACACATTATCACTGTGC
1 CGTGTCACACATTATCACCCTGC
* *
29203370 CGTTTCACACATTATGACCCTGC
1 CGTGTCACACATTATCACCCTGC
* * * * *
29203393 CGTGTCACACGTTTTGACCATGG
1 CGTGTCACACATTATCACCCTGC
29203416 CGTGTCACACA
1 CGTGTCACACA
29203427 CTCTAAACGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (23 bp):
CGTGTCACACATTATCACCCTGC
Found at i:29203380 original size:208 final size:206
Alignment explanation
Indices: 29203129--29204115 Score: 1234
Period size: 208 Copynumber: 4.8 Consensus size: 206
29203119 TCACCCTATT
* ** * * *
29203129 GTGTCACACCCGTGTCACATATTATCACAATGCCGTCTCACACATTATCACCCTGTCGTGTCACA
1 GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
* * *
29203194 CATTCTGACCATGGCATGTCACACACTCTAAACGCTGTGCTGTCACACTCGTGTCACATATTCTC
66 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTGCTGTCACAC-CGTGTCACATATTCTC
* * * * * * *
29203259 ACCGTGCTGTCTCACACATTATCACCCTATCGTGTCATAAATTCCCTCTATTACGTGTCACACAC
130 ACCATGCCGTCTCACACATTATCACCATA-CGTGTCACAGATTCCCTCCATGACGTGTCACACAC
*
29203324 TCTAAACCCTGCC
194 TCTAAACCCTGTC
* *
29203337 ATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
1 GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
29203402 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTAG-TGTCACACCTGTGTCACATATTCT
66 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGT-GCTGTCACACC-GTGTCACATATTCT
* *
29203466 CACCATGCCATCTCACACATTATCACCATACTGTGTCACAGATTCCCTCCATGGCGTGTCACACA
129 CACCATGCCGTCTCACACATTATCACCATAC-GTGTCACAGATTCCCTCCATGACGTGTCACACA
* *
29203531 TTCTAAACCCTGTG
193 CTCTAAACCCTGTC
* * * *
29203545 GTGTCACACCCTTGTCACGCATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACA
1 GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
29203610 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTAG-TGTCACACCTGTGTCACATATTCT
66 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGT-GCTGTCACACC-GTGTCACATATTCT
* *
29203674 CACCATGCCATCTCACACATTATCACCATACTGTGTCACAGATTCCCTCCATGGCGTGTCACACA
129 CACCATGCCGTCTCACACATTATCACCATAC-GTGTCACAGATTCCCTCCATGACGTGTCACACA
* *
29203739 TTCTAAACCCTGTG
193 CTCTAAACCCTGTC
* * * *
29203753 GTGTCACACCCTTGTCACGCATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACA
1 GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
* *
29203818 CGTTTTGACCATGGTGTGTCACACACTCTAAA-----TGCTG-----CCGTGTCACATATTATCA
66 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTGCTGTCACACCGTGTCACATATTCTCA
* * * *
29203873 CCGTGCCGTCTCACACATTATCACCTTGCCGTGTCACAGATTCCCACCATGGA-GTGTCACACAC
131 CCATGCCGTCTCACACATTATCACCAT-ACGTGTCACAGATTCCCTCCAT-GACGTGTCACACAC
*
29203937 TCTAAACCCTATC
194 TCTAAACCCTGTC
* * * * * *
29203950 GTGTCACACTCGTGTCACACATTATTACTGTGTCGTTTCACACATTATAACCTTGCCATGTCACA
1 GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
* * * * * *
29204015 C-ATCTGACCATGGCGTATCACATACTCTAAACGCTGT-CGTGTCACACCCCTATCAC--ATTCT
66 CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTGC-TGTCACA-CCGTGTCACATATTCT
* *
29204076 CACCATGCCGTCTTACACATTATCACCCTGACGTGTCACA
129 CACCATGCCGTCTCACACATTATCACCAT-ACGTGTCACA
29204116 CACTCTAAAC
Statistics
Matches: 699, Mismatches: 62, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
196 25 0.04
197 135 0.19
198 4 0.01
200 1 0.00
201 3 0.00
202 1 0.00
203 3 0.00
205 40 0.06
207 9 0.01
208 477 0.68
209 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (206 bp):
GTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACA
CGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTGCTGTCACACCGTGTCACATATTCTCA
CCATGCCGTCTCACACATTATCACCATACGTGTCACAGATTCCCTCCATGACGTGTCACACACTC
TAAACCCTGTC
Found at i:29203484 original size:312 final size:309
Alignment explanation
Indices: 29203129--29204117 Score: 1011
Period size: 312 Copynumber: 3.2 Consensus size: 309
29203119 TCACCCTATT
* *
29203129 GTGTCACACCCGTGTCACATATTATCACAATGCCGTCTCACACATTATCACCCTGTCGTGTCACA
1 GTGTCACACCCGTGTCACATATTATCACCATGCCGTCTCACACATTATCACCCTGACGTGTCACA
* *
29203194 CATTCTGACCATGGCATGTCACACACTCTAAACGCTGTGCTGTCACACTCGTGTCACATATTCTC
66 CATTCTGACCATGGCGTGTCACACACTCTAAAC-CTGTGCTGTCACAC-CGTGTCACATATTATC
* ** * * * *
29203259 ACCGTGCTGTCTCACACATTATCACCCTATCGTGTCATAAATTCCCTCTATTACGTGTCACACAC
129 ACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCACCATGACGTGTCACACAC
*
29203324 TCTAAACCCTGCCATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACC
194 TCTAAACCCTG-CATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATAACC
* *
29203389 CTGCCGTGTCACACGTTTTGACCATGGCGTGTCACACACTCTAAACGCTGTA
258 ATGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGTA
* * * *
29203441 GTGTCACACCTGTGTCACATATTCTCACCATGCCATCTCACACATTATCACCAT-ACTGTGTCAC
1 GTGTCACACCCGTGTCACATATTATCACCATGCCGTCTCACACATTATCACCCTGAC-GTGTCAC
* *** * * * **
29203505 AGATTCCCTCCATGGCGTGTCACACATTCTAAACCCTGTGGTGTCACACCCTTGTCACGCATTAT
65 ACATTCTGACCATGGCGTGTCACACACTCTAAA-CCTGTGCTGTCACA-CCGTGTCACATATTAT
** * * * ** *** *
29203570 CATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACACGTTTTGACCATGGCGTGTCACACA
128 CACCGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCACCATGACGTGTCACACA
* * * * ** * * *
29203635 CTCTAAACGCTGTAGTGTCACAC-CTGTGTCACATATTCTCACCATGCCATCTCACACATTATCA
193 CTCTAAACCCTGCA-TGTCACACTC-GTGTCACACATTATCACTGTGCCGTTTCACACATTATAA
* * *** * * *
29203699 CCATACTGTGTCACA-GATTCCCTCCATGGCGTGTCACACATTCTAAACCCTGTG
256 CCATGCCGTGTCACACG-TTCTGACCATGGCGTGTCACACACTCTAAACGCTGTA
* ** *** * * * *
29203753 GTGTCACACCCTTGTCACGCATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACA
1 GTGTCACACCCGTGTCACATATTATCACCATGCCGTCTCACACATTATCACCCTGACGTGTCACA
* * *
29203818 CGTTTTGACCATGGTGTGTCACACACTCTAAA----TGCTG-----CCGTGTCACATATTATCAC
66 CATTCTGACCATGGCGTGTCACACACTCTAAACCTGTGCTGTCACACCGTGTCACATATTATCAC
* *
29203874 CGTGCCGTCTCACACATTATCACCTTGCCGTGTCACAGATTCCCACCATGGA-GTGTCACACACT
131 CGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCACCAT-GACGTGTCACACACT
* * * * *
29203938 CTAAACCCTATCGTGTCACACTCGTGTCACACATTATTACTGTGTCGTTTCACACATTATAACCT
195 CTAAACCCT-GCATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATAACCA
* * * * *
29204003 TGCCATGTCACAC-ATCTGACCATGGCGTATCACATACTCTAAACGCTGTC
259 TGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGTA
* * * *
29204053 GTGTCACACCCCTATCAC--ATTCTCACCATGCCGTCTTACACATTATCACCCTGACGTGTCACA
1 GTGTCACACCCGTGTCACATATTATCACCATGCCGTCTCACACATTATCACCCTGACGTGTCACA
29204116 CA
66 CA
29204118 CTCTAAACCC
Statistics
Matches: 537, Mismatches: 129, Indels: 36
0.76 0.18 0.05
Matches are distributed among these distances:
298 38 0.07
300 44 0.08
301 123 0.23
302 2 0.00
307 4 0.01
311 4 0.01
312 319 0.59
313 3 0.01
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (309 bp):
GTGTCACACCCGTGTCACATATTATCACCATGCCGTCTCACACATTATCACCCTGACGTGTCACA
CATTCTGACCATGGCGTGTCACACACTCTAAACCTGTGCTGTCACACCGTGTCACATATTATCAC
CGTGCCGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCACCATGACGTGTCACACACTC
TAAACCCTGCATGTCACACTCGTGTCACACATTATCACTGTGCCGTTTCACACATTATAACCATG
CCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGTA
Found at i:29203504 original size:23 final size:23
Alignment explanation
Indices: 29203450--29203505 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
29203440 AGTGTCACAC
* * *
29203450 CTGTGTCACATATTCTCACCATG
1 CTGTGTCACACATTATCACCATA
** *
29203473 CCATCTCACACATTATCACCATA
1 CTGTGTCACACATTATCACCATA
29203496 CTGTGTCACA
1 CTGTGTCACA
29203506 GATTCCCTCC
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.34, G:0.09, T:0.30
Consensus pattern (23 bp):
CTGTGTCACACATTATCACCATA
Found at i:29203610 original size:23 final size:23
Alignment explanation
Indices: 29203575--29203634 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
29203565 ATTATCATTG
* * *
29203575 TGCCGTTTAACACATTATGACCC
1 TGCCGTGTCACACATTATGACCA
* *
29203598 TGCCGTGTCACACGTTTTGACCA
1 TGCCGTGTCACACATTATGACCA
*
29203621 TGGCGTGTCACACA
1 TGCCGTGTCACACA
29203635 CTCTAAACGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (23 bp):
TGCCGTGTCACACATTATGACCA
Found at i:29203712 original size:23 final size:23
Alignment explanation
Indices: 29203658--29203713 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
29203648 AGTGTCACAC
* * *
29203658 CTGTGTCACATATTCTCACCATG
1 CTGTGTCACACATTATCACCATA
** *
29203681 CCATCTCACACATTATCACCATA
1 CTGTGTCACACATTATCACCATA
29203704 CTGTGTCACA
1 CTGTGTCACA
29203714 GATTCCCTCC
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.34, G:0.09, T:0.30
Consensus pattern (23 bp):
CTGTGTCACACATTATCACCATA
Found at i:29203920 original size:23 final size:23
Alignment explanation
Indices: 29203765--29203910 Score: 94
Period size: 23 Copynumber: 6.3 Consensus size: 23
29203755 GTCACACCCT
* **
29203765 TGTCACGCATTATCATTGTGCCG
1 TGTCACACATTATCACCGTGCCG
* * * *
29203788 TTTAACACATTATGACCCTGCCG
1 TGTCACACATTATCACCGTGCCG
* * * * **
29203811 TGTCACACGTTTTGACCATGGTG
1 TGTCACACATTATCACCGTGCCG
* * * **
29203834 TGTCACACACTCTAAATGCTGCCG
1 TGTCACACATTATCACCG-TGCCG
*
29203858 TGTCACATATTATCACCGTGCCG
1 TGTCACACATTATCACCGTGCCG
* *
29203881 TCTCACACATTATCACCTTGCCG
1 TGTCACACATTATCACCGTGCCG
29203904 TGTCACA
1 TGTCACA
29203911 GATTCCCACC
Statistics
Matches: 89, Mismatches: 33, Indels: 2
0.72 0.27 0.02
Matches are distributed among these distances:
23 74 0.83
24 15 0.17
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (23 bp):
TGTCACACATTATCACCGTGCCG
Found at i:29203924 original size:93 final size:93
Alignment explanation
Indices: 29203773--29203942 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
29203763 CTTGTCACGC
** * * *** *
29203773 ATTATCATTGTGCCGTTTAACACATTATGACCCTGCCGTGTCACACGTTTTGACCATGGTGTGTC
1 ATTATCACCGTGCCGTCTAACACATTATCACCCTGCCGTGTCACACGTTCCCACCATGGAGTGTC
29203838 ACACACTCTAAATGCTGCCGTGTCACAT
66 ACACACTCTAAATGCTGCCGTGTCACAT
* *
29203866 ATTATCACCGTGCCGTCTCACACATTATCACCTTGCCGTGTCACA-GATTCCCACCATGGAGTGT
1 ATTATCACCGTGCCGTCTAACACATTATCACCCTGCCGTGTCACACG-TTCCCACCATGGAGTGT
29203930 CACACACTCTAAA
65 CACACACTCTAAA
29203943 CCCTATCGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
92 1 0.02
93 65 0.98
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (93 bp):
ATTATCACCGTGCCGTCTAACACATTATCACCCTGCCGTGTCACACGTTCCCACCATGGAGTGTC
ACACACTCTAAATGCTGCCGTGTCACAT
Found at i:29204118 original size:103 final size:104
Alignment explanation
Indices: 29203866--29204118 Score: 255
Period size: 103 Copynumber: 2.5 Consensus size: 104
29203856 CGTGTCACAT
* * * *
29203866 ATTATCACCGTGCCGTCTCACACATTATCACCTTGCCGTGTCACAGA-TTCCCACCATGGAGTGT
1 ATTATCACCGTGCCGTCTTACACATTATCACCTTGCCGTGTCACACACATCCCACCATGGAGTAT
* * *
29203930 CACACACTCTAAACCCTATCGTGTCACACTCGTGTCACAC
66 CACACACTCTAAACCCTATCGTGTCACACCCCTAT-ACAC
* * * * * ** *
29203970 ATTATTACTGTGTCGT-TTCACACATTATAACCTTGCCATGT--CACACATCTGACCATGGCGTA
1 ATTATCACCGTGCCGTCTT-ACACATTATCACCTTGCCGTGTCACACACATCCCACCATGGAGTA
* * *
29204032 TCACATACTCTAAACGCTGTCGTGTCACACCCCTAT-CAC
65 TCACACACTCTAAACCCTATCGTGTCACACCCCTATACAC
* * * *
29204071 ATTCTCACCATGCCGTCTTACACATTATCACCCTGACGTGTCACACAC
1 ATTATCACCGTGCCGTCTTACACATTATCACCTTGCCGTGTCACACAC
29204119 TCTAAACCCT
Statistics
Matches: 117, Mismatches: 27, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
101 32 0.27
102 5 0.04
103 47 0.40
104 33 0.28
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (104 bp):
ATTATCACCGTGCCGTCTTACACATTATCACCTTGCCGTGTCACACACATCCCACCATGGAGTAT
CACACACTCTAAACCCTATCGTGTCACACCCCTATACAC
Found at i:29204172 original size:23 final size:23
Alignment explanation
Indices: 29204068--29204183 Score: 101
Period size: 23 Copynumber: 5.0 Consensus size: 23
29204058 ACACCCCTAT
* * *
29204068 CACATTCTCACCATGCCGTCTTA
1 CACATTCTCACCATGTCGTGTCA
* * *
29204091 CACATTATCACCCTGACGTGTCA
1 CACATTCTCACCATGTCGTGTCA
* * *
29204114 CACACTCTAAACCCTGTCGTGTCA
1 CACATTCT-CACCATGTCGTGTCA
*
29204138 CATATTCTCACCATGAT-GTGTCA
1 CACATTCTCACCATG-TCGTGTCA
29204161 CACATTGC-CACCATGTCGTGTCA
1 CACATT-CTCACCATGTCGTGTCA
29204184 TAAAGACGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
22 1 0.01
23 53 0.71
24 21 0.28
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.28
Consensus pattern (23 bp):
CACATTCTCACCATGTCGTGTCA
Found at i:29205782 original size:50 final size:50
Alignment explanation
Indices: 29205707--29205806 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
29205697 TAAGAGAATT
29205707 AAAATTTGGACAAAATTACCCTTAATGAAATCAGCCCATTTCTTTGGCTC
1 AAAATTTGGACAAAATTACCCTTAATGAAATCAGCCCATTTCTTTGGCTC
29205757 AAAATTTGGACAAAATTACCCTTAATGAAATCAGCCCATTTCTTTGGCTC
1 AAAATTTGGACAAAATTACCCTTAATGAAATCAGCCCATTTCTTTGGCTC
29205807 TGCGCCTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (50 bp):
AAAATTTGGACAAAATTACCCTTAATGAAATCAGCCCATTTCTTTGGCTC
Found at i:29206017 original size:20 final size:22
Alignment explanation
Indices: 29205992--29206031 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
29205982 AAAACCTTTG
29205992 AGCATTTTGG-GT-ATTTTTAA
1 AGCATTTTGGAGTGATTTTTAA
29206012 AGCATTTTGGAGTGATTTTT
1 AGCATTTTGGAGTGATTTTT
29206032 TATATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (22 bp):
AGCATTTTGGAGTGATTTTTAA
Found at i:29206356 original size:23 final size:23
Alignment explanation
Indices: 29206330--29206377 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
29206320 TGGTTGATAT
*
29206330 GGCATTACGTGACTTGTTAGTAA
1 GGCATTACGTGACTAGTTAGTAA
*
29206353 GGCATTGCGTGACTAGTTAGTAA
1 GGCATTACGTGACTAGTTAGTAA
29206376 GG
1 GG
29206378 AATTGCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (23 bp):
GGCATTACGTGACTAGTTAGTAA
Found at i:29206382 original size:23 final size:23
Alignment explanation
Indices: 29206337--29206389 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
29206327 TATGGCATTA
* *
29206337 CGTGACTTGTTAGTAAGGCATTG
1 CGTGACTAGTTAGTAAGGAATTG
29206360 CGTGACTAGTTAGTAAGGAATTG
1 CGTGACTAGTTAGTAAGGAATTG
*
29206383 CATGACT
1 CGTGACT
29206390 TAAGCATTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (23 bp):
CGTGACTAGTTAGTAAGGAATTG
Found at i:29206442 original size:22 final size:22
Alignment explanation
Indices: 29206397--29206478 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
29206387 ACTTAAGCAT
* * * *
29206397 TGCTTAAAAACCAATCATGCAA
1 TGCTTAAAAATCAGTCACGTAA
* *
29206419 TGCCTAAAAAGCAGTCACGTAA
1 TGCTTAAAAATCAGTCACGTAA
29206441 TGCTTAAAAATCAGTCACGTAA
1 TGCTTAAAAATCAGTCACGTAA
*
29206463 TACTTAAAAATCAGTC
1 TGCTTAAAAATCAGTC
29206479 TAGTAATACT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (22 bp):
TGCTTAAAAATCAGTCACGTAA
Found at i:29206484 original size:22 final size:22
Alignment explanation
Indices: 29206423--29206494 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
29206413 ATGCAATGCC
* *
29206423 TAAAAAGCAGTCACGTAATGCT
1 TAAAAATCAGTCACGTAATACT
29206445 TAAAAATCAGTCACGTAATACT
1 TAAAAATCAGTCACGTAATACT
29206467 TAAAAATCAGTCTA-GTAATACT
1 TAAAAATCAGTC-ACGTAATACT
*
29206489 GAAAAA
1 TAAAAA
29206495 CAAGTGACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 45 0.98
23 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (22 bp):
TAAAAATCAGTCACGTAATACT
Found at i:29209822 original size:73 final size:73
Alignment explanation
Indices: 29209737--29209999 Score: 382
Period size: 73 Copynumber: 3.6 Consensus size: 73
29209727 CGGTTCAAAA
*
29209737 ACAGAGACGACTTGATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
1 ACAGAGACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
29209802 ATTTAGAG
66 ATTTAGAG
*
29209810 ACAGAGATGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
1 ACAGAGACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
29209875 ATTTAGAG
66 ATTTAGAG
* * * * * * *
29209883 ACAGAGATGACTTAATCGACTAAGAAGTATTGTTAGTTGACTAAAAGCTCACTGCCAGAAATTGG
1 ACAGAGACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
* * * *
29209948 GTTCAAAA
66 ATTTAGAG
* * *
29209956 ACAGAGACGATTTAATCGACTAAGAAGCATAGTTAGTCGACTAA
1 ACAGAGACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAA
29210000 AAACATTCTA
Statistics
Matches: 173, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 173 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (73 bp):
ACAGAGACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTACTCCCAAAAACTGG
ATTTAGAG
Found at i:29218925 original size:67 final size:67
Alignment explanation
Indices: 29218792--29218969 Score: 221
Period size: 67 Copynumber: 2.6 Consensus size: 67
29218782 AATAGAGATG
* *
29218792 ACTTAATCGACTAAGAAGCATTGTTAATCGACTAAGAGCTTACTGCCAGAAACTGGGTTCAAAGA
1 ACTTAATCGACTAAGAAGCATTGTTAATCGACTAAGAGCTCACTGCCAGAAACTAGGTTCAAAGA
29218857 CA
66 CA
* * *
29218859 ACTTAATCGACTAAGAAGTATTGTTAATTGACTAAGAGCTCACTGCCAGAAACTAGTTTCAGAGA
1 ACTTAATCGACTAAGAAGCATTGTTAATCGACTAAGAGCTCACTGCCAGAAACTAGGTTC----A
*
29218924 CAGAGACG
62 -A-AGACA
* * *
29218932 ACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAG
1 ACTTAATCGACTAAGAAGCATTGTTAATCGACTAAGAG
29218970 TATTCTGTCT
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
67 55 0.59
71 1 0.01
72 1 0.01
73 37 0.39
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (67 bp):
ACTTAATCGACTAAGAAGCATTGTTAATCGACTAAGAGCTCACTGCCAGAAACTAGGTTCAAAGA
CA
Found at i:29237594 original size:2 final size:2
Alignment explanation
Indices: 29237587--29237617 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29237577 TTTCTCTACA
29237587 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
29237618 TTTATTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:29237633 original size:18 final size:19
Alignment explanation
Indices: 29237607--29237644 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
29237597 TCTCTCTCTC
*
29237607 TCTCTCTCTCTTTTATTTT
1 TCTCTCTCTATTTTATTTT
*
29237626 TCTC-CTCTATTTTGTTTT
1 TCTCTCTCTATTTTATTTT
29237644 T
1 T
29237645 TTATTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (19 bp):
TCTCTCTCTATTTTATTTT
Found at i:29238307 original size:21 final size:22
Alignment explanation
Indices: 29238281--29238321 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
29238271 AATCATATAA
29238281 AAATATAAA-AATTAAAATTTG
1 AAATATAAATAATTAAAATTTG
29238302 AAATATAAATAATTAAAATT
1 AAATATAAATAATTAAAATT
29238322 CATAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATATAAATAATTAAAATTTG
Found at i:29238328 original size:22 final size:21
Alignment explanation
Indices: 29238281--29238329 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
29238271 AATCATATAA
*
29238281 AAATATAAAAATTAAAATTTG
1 AAATATAAAAATTAAAATTTC
29238302 AAATATAAATAATTAAAA-TTC
1 AAATATAAA-AATTAAAATTTC
29238323 ATAATAT
1 A-AATAT
29238330 TAACTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATATAAAAATTAAAATTTC
Found at i:29240412 original size:4 final size:4
Alignment explanation
Indices: 29240376--29240423 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
29240366 CTGTAGACAC
* *
29240376 ATAA ATTAA AAAA AAAA ATAA ATAAA ATAAA ATAA ATAA ATAA ATAA A
1 ATAA A-TAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA A
29240424 AATCGGGATG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 27 0.68
5 13 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:29240416 original size:22 final size:21
Alignment explanation
Indices: 29240376--29240424 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
29240366 CTGTAGACAC
*
29240376 ATAAATTAAAAAAAAAAATAA
1 ATAAAATAAAAAAAAAAATAA
*
29240397 ATAAAATAAAATAAATAAATAA
1 ATAAAATAAAA-AAAAAAATAA
29240419 ATAAAA
1 ATAAAA
29240425 ATCGGGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAATAAAAAAAAAAATAA
Found at i:29241330 original size:7 final size:7
Alignment explanation
Indices: 29241327--29241360 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
29241317 AAAAAAATAA
29241327 AAAAAAT
1 AAAAAAT
29241334 AAAAAAT
1 AAAAAAT
29241341 AAAAAAT
1 AAAAAAT
29241348 ATATAAAAT
1 A-A-AAAAT
29241357 AAAA
1 AAAA
29241361 TAAAAANNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 17 0.68
8 2 0.08
9 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:29241331 original size:9 final size:9
Alignment explanation
Indices: 29241317--29241366 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
29241307 ATTTTTAGAT
29241317 AAAAAAATA
1 AAAAAAATA
29241326 AAAAAAAT-
1 AAAAAAATA
29241334 -AAAAAATA
1 AAAAAAATA
29241342 AAAAATATATA
1 AAAAA-A-ATA
29241353 AAATAAAATA
1 AAA-AAAATA
29241363 AAAA
1 AAAA
29241367 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.19
9 13 0.36
10 7 0.19
11 7 0.19
12 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAATA
Found at i:29241339 original size:16 final size:16
Alignment explanation
Indices: 29241318--29241365 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
29241308 TTTTTAGATA
29241318 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
*
29241334 AAAAAATAAAAAATAT
1 AAAAAATAAAAAAAAT
*
29241350 ATAAAATAAAATAAAA
1 AAAAAATAAAA-AAAA
29241366 ANNNNNNNNN
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:29252627 original size:21 final size:21
Alignment explanation
Indices: 29252598--29252671 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
29252588 ATTACAATTC
* * *
29252598 TTTTGGTAACTAAAGCTCATA
1 TTTTTGTAACTAAAGTTGATA
*
29252619 TTTTTGTAAGTAAAGTTGA-A
1 TTTTTGTAACTAAAGTTGATA
29252639 CTTTTTGCT-ACTAAAGTTGATA
1 -TTTTTG-TAACTAAAGTTGATA
29252661 TTTTTGTAACT
1 TTTTTGTAACT
29252672 GGTTTGTGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTTTGTAACTAAAGTTGATA
Found at i:29252848 original size:38 final size:38
Alignment explanation
Indices: 29252806--29252887 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
29252796 AGATAGCAAA
* **
29252806 GTTTCGTATTACAAGTAAAAATTGCATTTAACTACAAT
1 GTTTCATATTACAAACAAAAATTGCATTTAACTACAAT
* * *
29252844 GTTTCATATTATAAACAGAAATTGCATTTAACTACAGT
1 GTTTCATATTACAAACAAAAATTGCATTTAACTACAAT
29252882 GTTTCA
1 GTTTCA
29252888 AAATTTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (38 bp):
GTTTCATATTACAAACAAAAATTGCATTTAACTACAAT
Found at i:29253386 original size:29 final size:29
Alignment explanation
Indices: 29253346--29253401 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
29253336 ATTTAAGAAA
* **
29253346 ATTCAAATAAACTTTTATTTTTTTATTAC
1 ATTCAAATAAACCTTTATACTTTTATTAC
29253375 ATTC-AATCAAACCTTTATACTTTTATT
1 ATTCAAAT-AAACCTTTATACTTTTATT
29253402 TTGAGTCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTCAAATAAACCTTTATACTTTTATTAC
Found at i:29253712 original size:30 final size:30
Alignment explanation
Indices: 29253690--29253765 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
29253680 TATTTCATTT
29253690 AAAATAAAAATATAAAAACTTATTAAAGTC
1 AAAATAAAAATATAAAAACTTATTAAAGTC
**
29253720 AAAATAAAAATATAAGGACTTGATTAAA--C
1 AAAATAAAAATATAAAAACTT-ATTAAAGTC
*
29253749 ATAATAAAAATATAAAA
1 AAAATAAAAATATAAAA
29253766 GTTTATTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 15 0.38
30 19 0.47
31 6 0.15
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (30 bp):
AAAATAAAAATATAAAAACTTATTAAAGTC
Found at i:29268248 original size:57 final size:58
Alignment explanation
Indices: 29268182--29268297 Score: 180
Period size: 57 Copynumber: 2.0 Consensus size: 58
29268172 AAAGTAGAAA
*
29268182 GGTGGAGACACAACCTCCAATAACATGAAATAAAAAACTACCACTAACAAT-AAATAG
1 GGTGGAGACACAACCTCCAACAACATGAAATAAAAAACTACCACTAACAATAAAATAG
* ** *
29268239 GGTGGAGACACAATCTCCAACAACATGAAATGGAAAACTACCACTAACACTAAAATAG
1 GGTGGAGACACAACCTCCAACAACATGAAATAAAAAACTACCACTAACAATAAAATAG
29268297 G
1 G
29268298 AACCACAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 46 0.87
58 7 0.13
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.16
Consensus pattern (58 bp):
GGTGGAGACACAACCTCCAACAACATGAAATAAAAAACTACCACTAACAATAAAATAG
Found at i:29272325 original size:65 final size:65
Alignment explanation
Indices: 29272221--29272346 Score: 252
Period size: 65 Copynumber: 1.9 Consensus size: 65
29272211 AATCGCAAGT
29272221 GACATTGACGTTTGAATTCATTCCAAGAATGTTGTGGCGTATCAACTTCCATTTGAAGGAAGCAG
1 GACATTGACGTTTGAATTCATTCCAAGAATGTTGTGGCGTATCAACTTCCATTTGAAGGAAGCAG
29272286 GACATTGACGTTTGAATTCATTCCAAGAATGTTGTGGCGTATCAACTTCCATTTGAAGGAA
1 GACATTGACGTTTGAATTCATTCCAAGAATGTTGTGGCGTATCAACTTCCATTTGAAGGAA
29272347 CCATAACTGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (65 bp):
GACATTGACGTTTGAATTCATTCCAAGAATGTTGTGGCGTATCAACTTCCATTTGAAGGAAGCAG
Found at i:29273128 original size:58 final size:58
Alignment explanation
Indices: 29273033--29273144 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
29273023 AAAGTGAAAA
* *
29273033 AGTGGAGACACAACCTCTAATAACATGAAATAGAAAACTACCACTAACAATAAAATAG
1 AGTGGAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAG
* * *
29273091 AGTGGAGATACAACCTCCGACAACATGAAAT-GAAAAACTACCACTAACACTAAA
1 AGTGGAGACACAACCTCCAACAACATGAAATAG-AAAACTACCACTAACAATAAA
29273145 TAGGAACCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 1 0.02
58 47 0.98
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.16
Consensus pattern (58 bp):
AGTGGAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAG
Found at i:29279837 original size:21 final size:21
Alignment explanation
Indices: 29279812--29279852 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
29279802 ACTCGACAAT
*
29279812 AATTTAAAATAAAATGATAAA
1 AATTTAAAATAAAATAATAAA
29279833 AATTTAAAATAAAATAATAA
1 AATTTAAAATAAAATAATAA
29279853 TTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATTTAAAATAAAATAATAAA
Found at i:29306380 original size:16 final size:15
Alignment explanation
Indices: 29306359--29306390 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
29306349 AGCTATTACG
29306359 TGGGAATAAAATGAGA
1 TGGGAATAAAAT-AGA
29306375 TGGGAATAAAATAGA
1 TGGGAATAAAATAGA
29306390 T
1 T
29306391 TAGGTATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (15 bp):
TGGGAATAAAATAGA
Found at i:29306623 original size:22 final size:22
Alignment explanation
Indices: 29306548--29306625 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
29306538 TATTTTATTT
* *
29306548 TATTTTATTTTTTAAATATTAA
1 TATTTTATTTATAAAATATTAA
*
29306570 TATTTTATTTAT--AAT-CTAA
1 TATTTTATTTATAAAATATTAA
* *
29306589 TCA-TTAACATTATAAAATATTAA
1 T-ATTTTA-TTTATAAAATATTAA
29306612 TATTTTATTTATAA
1 TATTTTATTTATAA
29306626 TTTAAATGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
19 7 0.16
20 8 0.19
22 21 0.49
23 7 0.16
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTATTTATAAAATATTAA
Found at i:29306632 original size:26 final size:26
Alignment explanation
Indices: 29306603--29306658 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
29306593 TAACATTATA
*
29306603 AAATATTAATAT-TTTATTTATAATTT
1 AAATATTAATATGATTATTTAT-ATTT
* * *
29306629 AAATGTTATTATGATTATTTATTTTT
1 AAATATTAATATGATTATTTATATTT
29306655 AAAT
1 AAAT
29306659 TATTTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
AAATATTAATATGATTATTTATATTT
Found at i:29306677 original size:15 final size:16
Alignment explanation
Indices: 29306642--29306674 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29306632 TGTTATTATG
29306642 ATTA-TTTATTTTTAA
1 ATTATTTTATTTTTAA
29306657 ATTATTTTATTTTTAA
1 ATTATTTTATTTTTAA
29306673 AT
1 AT
29306675 ATTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATTTTATTTTTAA
Found at i:29311625 original size:17 final size:17
Alignment explanation
Indices: 29311603--29311639 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
29311593 ACCAACTCTC
*
29311603 TCTCTCTTTCTCTCCCT
1 TCTCTCTATCTCTCCCT
*
29311620 TCTCTCTATCTCTCTCT
1 TCTCTCTATCTCTCCCT
29311637 TCT
1 TCT
29311640 TCCCTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.43, G:0.00, T:0.54
Consensus pattern (17 bp):
TCTCTCTATCTCTCCCT
Found at i:29320654 original size:17 final size:18
Alignment explanation
Indices: 29320632--29320670 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
29320622 AGATAATTTA
*
29320632 ATTAAAA-TAGTTTAATT
1 ATTAAAATTAATTTAATT
29320649 ATTAAAATTAATTTAATT
1 ATTAAAATTAATTTAATT
29320667 -TTAA
1 ATTAA
29320671 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTAAAATTAATTTAATT
Found at i:29320673 original size:21 final size:19
Alignment explanation
Indices: 29320625--29320682 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
29320615 ATTTTTAAGA
*
29320625 TAATTTAATTAAAATAGTT
1 TAATTTAATTAAAATAATT
29320644 TAA-TT-ATTAAAATTAATT
1 TAATTTAATTAAAA-TAATT
*
29320662 TAATTTTAATTAAAAAAATT
1 TAA-TTTAATTAAAATAATT
29320682 T
1 T
29320683 TAATCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 7 0.21
18 9 0.27
19 3 0.09
20 7 0.21
21 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATTTAATTAAAATAATT
Found at i:29320835 original size:23 final size:24
Alignment explanation
Indices: 29320796--29320853 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
29320786 AATATTTATC
* *
29320796 TTATTTATT-ATAATTTTTTGTTA
1 TTATTTATTAATAATTTTATATTA
*
29320819 TTATTT-TTAATATTTTTATATTA
1 TTATTTATTAATAATTTTATATTA
29320842 TTAATTTATTAA
1 TT-ATTTATTAA
29320854 AAAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 19 0.66
24 4 0.14
25 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTTATTAATAATTTTATATTA
Found at i:29321006 original size:22 final size:22
Alignment explanation
Indices: 29320981--29321024 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
29320971 CGATTCAATA
29320981 TTAACTATATTTAAATA-TAAAT
1 TTAACTA-ATTTAAATATTAAAT
* *
29321003 TTAATTAATTTAATTATTAAAT
1 TTAACTAATTTAAATATTAAAT
29321025 ATTTAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAACTAATTTAAATATTAAAT
Found at i:29326804 original size:17 final size:15
Alignment explanation
Indices: 29326782--29326816 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
29326772 GTTGGAAAAG
29326782 TTTTATATTATATTATA
1 TTTTATA-TATA-TATA
29326799 TTTTATATATATATA
1 TTTTATATATATATA
29326814 TTT
1 TTT
29326817 GAGTTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 4 0.22
17 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTATATATATATA
Found at i:29331907 original size:54 final size:53
Alignment explanation
Indices: 29331842--29332009 Score: 134
Period size: 54 Copynumber: 3.2 Consensus size: 53
29331832 CACTTGATCG
29331842 CAAGCTTTATCGCTCATTCTTTGACCATATAATTCATCACTCATATTTCAGCCA
1 CAAGCTTTATCGCTCATTCTTTGACCATATAATTCATCACTCATATTT-AGCCA
* *** * *
29331896 CAAGCTTTATCGCGT--TTACTTTG-GC-TATAACGTT-ATTGTTGC--ATTTAGTCG
1 CAAGCTTTATCGC-TCATT-CTTTGACCATATAA--TTCATCACT-CATATTTAGCCA
** *
29331947 TGAGCTTTATCACTCATTCTTTGACCATATAATTCATCACTCATATTTTAGCCA
1 CAAGCTTTATCGCTCATTCTTTGACCATATAATTCATCACTCATA-TTTAGCCA
*
29332001 TAAGCTTTA
1 CAAGCTTTA
29332010 ACGTTCATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
50 1 0.01
51 21 0.25
52 15 0.18
53 12 0.14
54 35 0.41
55 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (53 bp):
CAAGCTTTATCGCTCATTCTTTGACCATATAATTCATCACTCATATTTAGCCA
Found at i:29331963 original size:105 final size:105
Alignment explanation
Indices: 29331777--29332009 Score: 344
Period size: 105 Copynumber: 2.2 Consensus size: 105
29331767 AAGAGAGAAG
* ** *
29331777 TCATATTTCAACTGCAAGCTTTATCGCTCTTACTTTGGCTATAATGTTATTGTTGCACTTGATCG
1 TCATATTTCAGCCACAAGCTTTATCGCTCTTACTTTGGCTATAACGTTATTGTTGCACTTGATCG
*
29331842 CAAGCTTTATCGCTCATTCTTTGACCATATAATTCATCAC
66 CAAGCTTTATCACTCATTCTTTGACCATATAATTCATCAC
*
29331882 TCATATTTCAGCCACAAGCTTTATCGCGT-TTACTTTGGCTATAACGTTATTGTTGCA-TTTAGT
1 TCATATTTCAGCCACAAGCTTTATCGC-TCTTACTTTGGCTATAACGTTATTGTTGCACTTGA-T
**
29331945 CGTGAGCTTTATCACTCATTCTTTGACCATATAATTCATCAC
64 CGCAAGCTTTATCACTCATTCTTTGACCATATAATTCATCAC
* *
29331987 TCATATTTTAGCCATAAGCTTTA
1 TCATATTTCAGCCACAAGCTTTA
29332010 ACGTTCATAA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
104 3 0.03
105 112 0.97
106 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (105 bp):
TCATATTTCAGCCACAAGCTTTATCGCTCTTACTTTGGCTATAACGTTATTGTTGCACTTGATCG
CAAGCTTTATCACTCATTCTTTGACCATATAATTCATCAC
Found at i:29332080 original size:105 final size:104
Alignment explanation
Indices: 29331843--29332073 Score: 270
Period size: 105 Copynumber: 2.2 Consensus size: 104
29331833 ACTTGATCGC
* *
29331843 AAGCTTTATCGCTCATTCTTTGACCATATAATTCATCACTCATATTTCAGCCACAAGCTTTATCG
1 AAGCTTTATCACTCATTCTTTGACCATATAATTCATCACTCATATTTCAGCCACAAGCTTTA-CA
* * * * *
29331908 CGTTTACTTTGGCTATAACGTTATTGTTGCATTTAGTCGT
65 CGTTTAATTTGGCTATAACGATACTGATGCATTTAGCCGT
* * *
29331948 GAGCTTTATCACTCATTCTTTGACCATATAATTCATCACTCATATTTTAGCCATAAGCTTTA-AC
1 AAGCTTTATCACTCATTCTTTGACCATATAATTCATCACTCATATTTCAGCCACAAGCTTTACAC
* * *
29332012 GTTCATAATTTGGTTATAATGATACT-ATGC-TATTGGCCGT
66 GTT--TAATTTGGCTATAACGATACTGATGCAT-TTAGCCGT
29332052 AAGCTTTTATCACTCACTTCTT
1 AAGC-TTTATCACTCA-TTCTT
29332074 GGCCATAGCT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
103 5 0.05
104 12 0.11
105 85 0.79
106 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (104 bp):
AAGCTTTATCACTCATTCTTTGACCATATAATTCATCACTCATATTTCAGCCACAAGCTTTACAC
GTTTAATTTGGCTATAACGATACTGATGCATTTAGCCGT
Found at i:29333835 original size:27 final size:26
Alignment explanation
Indices: 29333805--29333879 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
29333795 AAGAGAGTTC
29333805 CAAGCGCGAAAACGCCTTAGGGTGTTT
1 CAAGCGCGAAAACGCC-TAGGGTGTTT
* * * *
29333832 CAAGTGTGAAAACATCCAAGGGTGTTT
1 CAAGCGCGAAAAC-GCCTAGGGTGTTT
* *
29333859 TAAGCGCGAAAGCGCCTAGGG
1 CAAGCGCGAAAACGCCTAGGG
29333880 GAATTCTAAG
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
26 6 0.16
27 29 0.78
28 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (26 bp):
CAAGCGCGAAAACGCCTAGGGTGTTT
Found at i:29333889 original size:27 final size:27
Alignment explanation
Indices: 29333849--29333978 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
29333839 GAAAACATCC
* * *
29333849 AAGGGTGTTTTAAGCGCGAAAGCGCCT
1 AAGGGAGTTCTAAGCGCGAAAGAGCCT
* * * *
29333876 AGGGGAATTCTAAGCGCGGAAGAGCCC
1 AAGGGAGTTCTAAGCGCGAAAGAGCCT
* *
29333903 ATGGGAGTTCTAAGCGAGGAAA-AGCCT
1 AAGGGAGTTCTAAGCG-CGAAAGAGCCT
*
29333930 AAGGGAGTTCTAAGCGAGGAAA-AGCCT
1 AAGGGAGTTCTAAGCG-CGAAAGAGCCT
* *
29333957 AAGGGAGTTCCAATCGCGAAAG
1 AAGGGAGTTCTAAGCGCGAAAG
29333979 TACCCAAGGA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.05
27 78 0.92
28 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (27 bp):
AAGGGAGTTCTAAGCGCGAAAGAGCCT
Found at i:29333917 original size:54 final size:54
Alignment explanation
Indices: 29333847--29333978 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
29333837 GTGAAAACAT
* * * * * *
29333847 CCAAGGGTGTTTTAAGCGCGAAAGCGCCTAGGGGAATTCTAAGCGCGGAAGAGC
1 CCAAGGGAGTTCTAAGCGCGAAAGAGCCTAAGGGAATTCTAAGCGAGGAAAAGC
* * *
29333901 CCATGGGAGTTCTAAGCGAGGAAA-AGCCTAAGGGAGTTCTAAGCGAGGAAAAGC
1 CCAAGGGAGTTCTAAGCG-CGAAAGAGCCTAAGGGAATTCTAAGCGAGGAAAAGC
* * *
29333955 CTAAGGGAGTTCCAATCGCGAAAG
1 CCAAGGGAGTTCTAAGCGCGAAAG
29333979 TACCCAAGGA
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
53 4 0.06
54 54 0.87
55 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (54 bp):
CCAAGGGAGTTCTAAGCGCGAAAGAGCCTAAGGGAATTCTAAGCGAGGAAAAGC
Found at i:29334344 original size:27 final size:26
Alignment explanation
Indices: 29334314--29334397 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
29334304 CCTAAGGCCA
29334314 TTCCCAGCGCAGAAGCACCTCGAGTCG
1 TTCCCAGCGCAGAAGCACC-CGAGTCG
* *
29334341 TTCCAAGCGCAAAAAAGC-CCCGAGTCG
1 TTCCCAGCGC--AGAAGCACCCGAGTCG
* *
29334368 TT-CCAACTCAGAAG-AGCCCCGAGTCG
1 TTCCCAGCGCAGAAGCA--CCCGAGTCG
29334394 TTCC
1 TTCC
29334398 AAGTGTGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.09
26 15 0.33
27 19 0.42
28 2 0.04
29 5 0.11
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (26 bp):
TTCCCAGCGCAGAAGCACCCGAGTCG
Found at i:29334392 original size:26 final size:27
Alignment explanation
Indices: 29334334--29334400 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 27
29334324 AGAAGCACCT
29334334 CGAGTCGTTCCAAGCGCAAAAAAGCCC
1 CGAGTCGTTCCAAGCGCAAAAAAGCCC
* * *
29334361 CGAGTCGTTCCAA-CTCAGAAGAGCCC
1 CGAGTCGTTCCAAGCGCAAAAAAGCCC
29334387 CGAGTCGTTCCAAG
1 CGAGTCGTTCCAAG
29334401 TGTGGAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 23 0.64
27 13 0.36
ACGTcount: A:0.28, C:0.33, G:0.24, T:0.15
Consensus pattern (27 bp):
CGAGTCGTTCCAAGCGCAAAAAAGCCC
Found at i:29353069 original size:39 final size:39
Alignment explanation
Indices: 29353026--29353121 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 39
29353016 TATTTTCTGT
* *
29353026 TTTGGTTTAATCATATGATAAAGATTGATTTATGAATGA
1 TTTGGTTTATTCATATGATAAACATTGATTTATGAATGA
* *
29353065 TTTGGTTTATTCATATGATGAACATTGATTTATGAATGT
1 TTTGGTTTATTCATATGATAAACATTGATTTATGAATGA
*
29353104 TTTGGTTTATTTATATGA
1 TTTGGTTTATTCATATGA
29353122 CGAATGTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.49
Consensus pattern (39 bp):
TTTGGTTTATTCATATGATAAACATTGATTTATGAATGA
Found at i:29353135 original size:39 final size:39
Alignment explanation
Indices: 29353026--29353136 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 39
29353016 TATTTTCTGT
* ** * **
29353026 TTTGGTTTAATCATATGATAAAGATTGATTTATGAATGA
1 TTTGGTTTATTCATATGACGAACATCAATTTATGAATGA
* ** *
29353065 TTTGGTTTATTCATATGATGAACATTGATTTATGAATGT
1 TTTGGTTTATTCATATGACGAACATCAATTTATGAATGA
* **
29353104 TTTGGTTTATTTATATGACGAATGTCAATTTAT
1 TTTGGTTTATTCATATGACGAACATCAATTTAT
29353137 AAATAAAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (39 bp):
TTTGGTTTATTCATATGACGAACATCAATTTATGAATGA
Found at i:29353860 original size:28 final size:28
Alignment explanation
Indices: 29353820--29353879 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
29353810 TAAAATAGAA
29353820 TTATCAATATGACTTCAATTGTGGATTT
1 TTATCAATATGACTTCAATTGTGGATTT
* *
29353848 TTATCAGTATGACTTCAATTTTGGATTT
1 TTATCAATATGACTTCAATTGTGGATTT
29353876 TTAT
1 TTAT
29353880 AAGTTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (28 bp):
TTATCAATATGACTTCAATTGTGGATTT
Found at i:29354682 original size:17 final size:17
Alignment explanation
Indices: 29354649--29354682 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29354639 TTACAAGGAT
*
29354649 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
29354666 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
29354683 ATAAAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:29355217 original size:15 final size:16
Alignment explanation
Indices: 29355189--29355220 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29355179 ATTATTAATG
29355189 TTTAAAAATAAAATAA
1 TTTAAAAATAAAATAA
29355205 TTTAAAAAT-AAATAA
1 TTTAAAAATAAAATAA
29355220 T
1 T
29355221 CATAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTAAAAATAAAATAA
Found at i:29355292 original size:16 final size:16
Alignment explanation
Indices: 29355271--29355302 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29355261 ATAATTTAAT
29355271 TATTAATATTATAAAA
1 TATTAATATTATAAAA
*
29355287 TATTAATATTTTAAAA
1 TATTAATATTATAAAA
29355303 AATAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAATATTATAAAA
Found at i:29356287 original size:40 final size:39
Alignment explanation
Indices: 29356145--29356295 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 39
29356135 ATTTCATCTT
* * * * ** *
29356145 ATTCATAAATCAATATCCTTCATATAAATAAACTGCAAC
1 ATTCATAAATCAATCTTCATCATATAAATAAATTAAAAA
* *
29356184 ATTCATAAACCAATCTTCATCATATAAATAAATTAAAAC
1 ATTCATAAATCAATCTTCATCATATAAATAAATTAAAAA
** * * * *
29356223 ATTTGTAAATCAATATTTATCATATGAATAAGTTAAAAAA
1 ATTCATAAATCAATCTTCATCATATAAATAAATT-AAAAA
* *
29356263 ATTCATAAATCAACCTTCACCATATAAATAAAT
1 ATTCATAAATCAATCTTCATCATATAAATAAAT
29356296 CAGAACAGAA
Statistics
Matches: 88, Mismatches: 23, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
39 59 0.67
40 29 0.33
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (39 bp):
ATTCATAAATCAATCTTCATCATATAAATAAATTAAAAA
Found at i:29361533 original size:19 final size:19
Alignment explanation
Indices: 29361496--29361539 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
29361486 TCTTATCTTA
*
29361496 TTTTCTAAATATTGAAAAC
1 TTTTCTAAATATTCAAAAC
*
29361515 TTTTCTAAATCTTCCAAACAC
1 TTTTCTAAATATT-CAAA-AC
29361536 TTTT
1 TTTT
29361540 GGTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 3 0.14
21 6 0.29
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTCTAAATATTCAAAAC
Found at i:29366740 original size:61 final size:62
Alignment explanation
Indices: 29366652--29366767 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 62
29366642 GTTATCAAAA
* * *
29366652 AGAAAGGTCCCAATAGAATATTGTGATTCACTTCTAGGCCCCAGCATCA-CCTTTATCTAGC
1 AGAAAGGTCCCAATAGAATATTATGATTCACTTCCAAGCCCCAGCATCATCCTTTATCTAGC
* *
29366713 AGAAAGGTCCCAATTGAATATTATGATTCACTTCCAAGCCCCAGCCTCATCCTTT
1 AGAAAGGTCCCAATAGAATATTATGATTCACTTCCAAGCCCCAGCATCATCCTTT
29366768 TATTGCAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 44 0.90
62 5 0.10
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (62 bp):
AGAAAGGTCCCAATAGAATATTATGATTCACTTCCAAGCCCCAGCATCATCCTTTATCTAGC
Found at i:29380087 original size:24 final size:25
Alignment explanation
Indices: 29380037--29380089 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
29380027 CTTATATGAT
*
29380037 TTTTCTTTCTCTTTCTTCTTCTCTA
1 TTTTCTTTCTCTTTCTCCTTCTCTA
*
29380062 TTTTCTGTTC-CTTT-TCCTTCTGTA
1 TTTTCT-TTCTCTTTCTCCTTCTCTA
29380086 TTTT
1 TTTT
29380090 TTTAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 10 0.40
26 3 0.12
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTCTTTCTCTTTCTCCTTCTCTA
Found at i:29380572 original size:21 final size:21
Alignment explanation
Indices: 29380548--29380589 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29380538 AGACAGAATA
**
29380548 CTCTTAGTTGACTAAATGCCT
1 CTCTTAGTCAACTAAATGCCT
29380569 CTCTTAGTCAACTAAATGCCT
1 CTCTTAGTCAACTAAATGCCT
29380590 ACTGTCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (21 bp):
CTCTTAGTCAACTAAATGCCT
Found at i:29388957 original size:20 final size:20
Alignment explanation
Indices: 29388932--29388977 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
29388922 TTTTGACCCC
29388932 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
29388952 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
29388972 ATTTGA
1 ATTTGA
29388978 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:29391949 original size:17 final size:18
Alignment explanation
Indices: 29391917--29391950 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29391907 TTCATAAAAC
29391917 TCATGTGCCACACTTGTG
1 TCATGTGCCACACTTGTG
*
29391935 TCATGTGGC-CACTTGT
1 TCATGTGCCACACTTGT
29391951 CTTGTTACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (18 bp):
TCATGTGCCACACTTGTG
Found at i:29394074 original size:16 final size:16
Alignment explanation
Indices: 29394035--29394074 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
29394025 AAAATTAAAA
*
29394035 ATAAAAATTATAATTT
1 ATAAAATTTATAATTT
*
29394051 ATATAATTTATAATTT
1 ATAAAATTTATAATTT
*
29394067 TTAAAATT
1 ATAAAATT
29394075 AATGAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAAATTTATAATTT
Found at i:29409006 original size:16 final size:15
Alignment explanation
Indices: 29408985--29409019 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
29408975 ATTATAAATT
29408985 AAAAGAAAAAAATGAA
1 AAAAGAAAAAAAT-AA
*
29409001 AAAAGAGAAAAATAA
1 AAAAGAAAAAAATAA
29409016 AAAA
1 AAAA
29409020 TATGATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAAATAA
Found at i:29409775 original size:18 final size:19
Alignment explanation
Indices: 29409752--29409790 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29409742 GGATAAAAAA
29409752 ATAAATT-TACTTTTTATT
1 ATAAATTATACTTTTTATT
* *
29409770 ATAAATTATATTTTTTCTT
1 ATAAATTATACTTTTTATT
29409789 AT
1 AT
29409791 TCTTTTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAAATTATACTTTTTATT
Found at i:29409935 original size:22 final size:23
Alignment explanation
Indices: 29409879--29409960 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
29409869 ATTTATATTT
29409879 TTTAAATA-TAATAATTATAATA
1 TTTAAATATTAATAATTATAATA
*
29409901 TTTAAAATGTTAATAATTGAT-A-A
1 TTT-AAATATTAATAATT-ATAATA
* *
29409924 TTTAAATATTAATATTTTATTATAA
1 TTTAAATATTAATA-ATTATAAT-A
29409949 TTT-AATATTAAT
1 TTTAAATATTAAT
29409961 GTGATTAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
22 15 0.30
23 11 0.22
24 18 0.36
25 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAAATATTAATAATTATAATA
Found at i:29415201 original size:22 final size:22
Alignment explanation
Indices: 29415143--29415201 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
29415133 AATCACTGTG
* *
29415143 TGACTAGTTTTTTTAGGCATTACG
1 TGACTAG--TTTTTAGACATTACA
*
29415167 TGACTAGTGTTTAGACATTACA
1 TGACTAGTTTTTAGACATTACA
29415189 TGACT-GATTTTTA
1 TGACTAG-TTTTTA
29415202 AGCAATGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 22 0.73
24 7 0.23
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (22 bp):
TGACTAGTTTTTAGACATTACA
Found at i:29415240 original size:23 final size:23
Alignment explanation
Indices: 29415212--29415353 Score: 99
Period size: 26 Copynumber: 5.8 Consensus size: 23
29415202 AGCAATGTCT
* *
29415212 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAA
** * *
29415235 TGGTCACGTAATGTCTTACTAAA
1 AAGTCACGCAATGCCTTACTAAA
29415258 AAGTCACGCAATGCCTTA-TCAGAA
1 AAGTCACGCAATGCCTTACT-A-AA
*
29415282 ATTAGTCACGCAATGCCTTATCAAAA
1 A--AGTCACGCAATGCCTTA-CTAAA
*
29415308 ACTAGTCACGTAATGCCTTA-TCAGAA
1 A--AGTCACGCAATGCCTTACT-A-AA
29415334 ATTAGTCACGCAATGCCTTA
1 A--AGTCACGCAATGCCTTA
29415354 TCAAAAACTA
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.01
23 32 0.34
24 3 0.03
25 1 0.01
26 57 0.60
27 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAA
Found at i:29415323 original size:52 final size:52
Alignment explanation
Indices: 29415259--29415454 Score: 259
Period size: 52 Copynumber: 4.0 Consensus size: 52
29415249 CTTACTAAAA
*
29415259 AGTCACGCAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
29415311 AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
* * * *
29415363 AATCACG-AATG---T-TCA-AAGTCAGTTACGCAATGCC-TATC---AACT
1 AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
* *
29415405 AGTCACGTAATGCCTTATCAGAAACTAATCACGCAATGCCTTATCAAAAA
1 AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAA
29415455 TTAATCAAAC
Statistics
Matches: 123, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
42 10 0.08
43 4 0.03
45 4 0.03
46 17 0.14
47 6 0.05
48 15 0.12
49 4 0.03
51 4 0.03
52 59 0.48
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
AGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAACT
Found at i:29415415 original size:94 final size:96
Alignment explanation
Indices: 29415285--29415488 Score: 297
Period size: 94 Copynumber: 2.1 Consensus size: 96
29415275 ATCAGAAATT
* *
29415285 AGTCACGCAATGCCTTATCAAAAACTAGTCACGTAATGCCTTATCAGAAATTAGTCACGCAATGC
1 AGTCACGCAATGCCTTATC--AAACTAGTCACGTAATGCCTTATCAGAAACTAATCACGCAATGC
**
29415350 CTTATCAAAAACTAATC-ACGAATGTTCAAAGTC
64 CTTATCAAAAACTAATCAAC-AATGCCCAAAGTC
*
29415383 AGTTACGCAATGCC-TATC-AACTAGTCACGTAATGCCTTATCAGAAACTAATCACGCAATGCCT
1 AGTCACGCAATGCCTTATCAAACTAGTCACGTAATGCCTTATCAGAAACTAATCACGCAATGCCT
*
29415446 TATCAAAAATTAATCAAACAATGCCCAAAGTC
66 TATCAAAAACTAATC-AACAATGCCCAAAGTC
29415478 AGTCACGCAAT
1 AGTCACGCAAT
29415489 ATCCAAAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
94 57 0.59
95 21 0.22
96 2 0.02
97 4 0.04
98 13 0.13
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (96 bp):
AGTCACGCAATGCCTTATCAAACTAGTCACGTAATGCCTTATCAGAAACTAATCACGCAATGCCT
TATCAAAAACTAATCAACAATGCCCAAAGTC
Found at i:29415461 original size:26 final size:26
Alignment explanation
Indices: 29415259--29415454 Score: 214
Period size: 26 Copynumber: 7.9 Consensus size: 26
29415249 CTTACTAAAA
* *
29415259 AGTCACGCAATGCCTTATCAGAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
29415285 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* * *
29415311 AGTCACGTAATGCCTTATCAGAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
29415337 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* **
29415363 AATCACG-AATG---T-TCAAAGTC-
1 AGTCACGCAATGCCTTATCAAAAACT
*
29415383 AGTTACGCAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
29415405 AGTCACGTAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
29415431 AATCACGCAATGCCTTATCAAAAA
1 AGTCACGCAATGCCTTATCAAAAA
29415455 TTAATCAAAC
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
20 5 0.04
21 11 0.08
22 13 0.09
23 5 0.04
24 2 0.01
25 4 0.03
26 101 0.72
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAACT
Found at i:29415467 original size:26 final size:26
Alignment explanation
Indices: 29415413--29415470 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
29415403 CTAGTCACGT
* **
29415413 AATGCCTTATCAGAAACTAATCACGC
1 AATGCCTTATCAAAAACTAATCAAAC
*
29415439 AATGCCTTATCAAAAATTAATCAAAC
1 AATGCCTTATCAAAAACTAATCAAAC
29415465 AATGCC
1 AATGCC
29415471 CAAAGTCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (26 bp):
AATGCCTTATCAAAAACTAATCAAAC
Found at i:29415488 original size:21 final size:21
Alignment explanation
Indices: 29415464--29415511 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29415454 ATTAATCAAA
*
29415464 CAATGCCCAAAGTCAGTCACG
1 CAATACCCAAAGTCAGTCACG
*
29415485 CAATATCCAAAGTCAGTCACG
1 CAATACCCAAAGTCAGTCACG
*
29415506 TAATAC
1 CAATAC
29415512 TTAAAAACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.19
Consensus pattern (21 bp):
CAATACCCAAAGTCAGTCACG
Found at i:29422652 original size:2 final size:2
Alignment explanation
Indices: 29422645--29422685 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
29422635 GAAAAATGGA
*
29422645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
29422686 AGGCACCTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:29426431 original size:3 final size:3
Alignment explanation
Indices: 29426423--29426447 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29426413 AGTGATTTAG
29426423 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
29426448 TTGGCAGCTA
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:29437544 original size:15 final size:16
Alignment explanation
Indices: 29437526--29437560 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29437516 ATATTAATAT
*
29437526 ATAAAT-TATTTTTTG
1 ATAAATCTACTTTTTG
29437541 ATAAATCTACTTTTTG
1 ATAAATCTACTTTTTG
29437557 ATAA
1 ATAA
29437561 TATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (16 bp):
ATAAATCTACTTTTTG
Found at i:29437605 original size:11 final size:12
Alignment explanation
Indices: 29437578--29437608 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29437568 ATATTATTTT
29437578 TTTAAAAAATTA
1 TTTAAAAAATTA
29437590 TTTAAAAAATTA
1 TTTAAAAAATTA
29437602 -TTAAAAA
1 TTTAAAAA
29437609 TAAAATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAAAAAATTA
Found at i:29437674 original size:2 final size:2
Alignment explanation
Indices: 29437667--29437771 Score: 146
Period size: 2 Copynumber: 54.5 Consensus size: 2
29437657 CAAGATGAAG
* *
29437667 AT AT AT AT AT AT AT AA AT AT AA 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
* *
29437709 AT AT AT AN AG AT AT AT AT AT AT AT A- AT A- AT A- 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
29437748 AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29437772 CATGGTTTGC
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
1 4 0.04
2 88 0.96
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:29440683 original size:61 final size:61
Alignment explanation
Indices: 29440588--29440819 Score: 320
Period size: 61 Copynumber: 3.8 Consensus size: 61
29440578 CAGCTCATGT
* * *
29440588 GCATCATTACCGGTATATACACTGCCCTCTACGCACATGCACGGTTGTAAATATCACGACA
1 GCATCATTACCGGTATATGCACTACCCTCTACGCACATGCACGATTGTAAATATCACGACA
* *
29440649 GCATCATTACCGGCATATGCACTACCCTCTACGCACATGCACGATTGTAAATATCACCACA
1 GCATCATTACCGGTATATGCACTACCCTCTACGCACATGCACGATTGTAAATATCACGACA
* * * * * * * *
29440710 GCATCGTTACCGGGATGTGCACTGCCCTCTCCACACATACATGATTGTAAATATCACGACA
1 GCATCATTACCGGTATATGCACTACCCTCTACGCACATGCACGATTGTAAATATCACGACA
* * *
29440771 GCATCATTACCGGTATGTGCACTACCCTCTCCGCACATGCACGGTTGTA
1 GCATCATTACCGGTATATGCACTACCCTCTACGCACATGCACGATTGTA
29440820 TCAATTATAC
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 150 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (61 bp):
GCATCATTACCGGTATATGCACTACCCTCTACGCACATGCACGATTGTAAATATCACGACA
Found at i:29441888 original size:33 final size:32
Alignment explanation
Indices: 29441846--29441911 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
29441836 CAAAAACAAG
* *
29441846 AATTCTTACCATTTCTTGCTTGAATCACCAAA
1 AATTCTTACCATTCCTTGCTCGAATCACCAAA
29441878 NAATTCTTACCATTCCTTGCTCGAATCACCAAA
1 -AATTCTTACCATTCCTTGCTCGAATCACCAAA
29441911 A
1 A
29441912 CTAAGGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.33
Consensus pattern (32 bp):
AATTCTTACCATTCCTTGCTCGAATCACCAAA
Found at i:29446106 original size:22 final size:22
Alignment explanation
Indices: 29446078--29446147 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 22
29446068 AATATTATTG
29446078 ATAATTAAATTATTAA-TTTTA
1 ATAATTAAATTATTAATTTTTA
*
29446099 TATAATTAAATATATAAAATTATTTA
1 -ATAATTAAAT-TAT-TAATT-TTTA
29446125 ATTAATTAAAATTATTAATTTTT
1 A-TAATT-AAATTATTAATTTTT
29446148 TTGACCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
22 10 0.25
23 3 0.08
24 5 0.12
25 6 0.15
26 12 0.30
27 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATTAAATTATTAATTTTTA
Found at i:29450887 original size:2 final size:2
Alignment explanation
Indices: 29450880--29450907 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29450870 GTAGAATTTG
29450880 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
29450908 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29451159 original size:2 final size:2
Alignment explanation
Indices: 29451152--29451180 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29451142 NNNNTTTAGT
29451152 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
29451181 TGGGAATCAG
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:29454075 original size:198 final size:198
Alignment explanation
Indices: 29453737--29454133 Score: 776
Period size: 198 Copynumber: 2.0 Consensus size: 198
29453727 GTGTTTGTAC
*
29453737 ATATATTCTTCTACTCCTAGATGGTTCAAACCCTTTCTTACGATCCAAAGGAGGGATCATTCTTG
1 ATATATTCTTCTACTCCTAGATGGTTCAAACCCTTTCTTACGATCCAAAGGAGAGATCATTCTTG
29453802 CATCTACCTTGATAATTTTTTTTTTCAATCCACAATATTTTATGGGAGTGGCTATTAAAATTGAC
66 CATCTACCTTGATAATTTTTTTTTTCAATCCACAATATTTTATGGGAGTGGCTATTAAAATTGAC
29453867 CAGGAGCTATTCGAGGTCCTTTCTTTAATTTGGTGTTTGAGGAAGGGAAAACGTTTTTTGCAGAT
131 CAGGAGCTATTCGAGGTCCTTTCTTTAATTTGGTGTTTGAGGAAGGGAAAACGTTTTTTGCAGAT
29453932 GGG
196 GGG
*
29453935 ATATATTCTTCTACTCCTAGATGGTTCAAACCCTTTCTTATGATCCAAAGGAGAGATCATTCTTG
1 ATATATTCTTCTACTCCTAGATGGTTCAAACCCTTTCTTACGATCCAAAGGAGAGATCATTCTTG
29454000 CATCTACCTTGATAATTTTTTTTTTCAATCCACAATATTTTATGGGAGTGGCTATTAAAATTGAC
66 CATCTACCTTGATAATTTTTTTTTTCAATCCACAATATTTTATGGGAGTGGCTATTAAAATTGAC
29454065 CAGGAGCTATTCGAGGTCCTTTCTTTAATTTGGTGTTTGAGGAAGGGAAAACGTTTTTTGCAGAT
131 CAGGAGCTATTCGAGGTCCTTTCTTTAATTTGGTGTTTGAGGAAGGGAAAACGTTTTTTGCAGAT
29454130 GGG
196 GGG
29454133 A
1 A
29454134 CATCTGTTTT
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 197 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (198 bp):
ATATATTCTTCTACTCCTAGATGGTTCAAACCCTTTCTTACGATCCAAAGGAGAGATCATTCTTG
CATCTACCTTGATAATTTTTTTTTTCAATCCACAATATTTTATGGGAGTGGCTATTAAAATTGAC
CAGGAGCTATTCGAGGTCCTTTCTTTAATTTGGTGTTTGAGGAAGGGAAAACGTTTTTTGCAGAT
GGG
Found at i:29455714 original size:130 final size:130
Alignment explanation
Indices: 29455481--29455735 Score: 456
Period size: 130 Copynumber: 2.0 Consensus size: 130
29455471 AAAAAGGAAG
* *
29455481 AGAGAGAACCAAATTGCTGAAGCTAAATGAAAACTGTATTATGTTTGAAGTTCACAAGTAGGTAC
1 AGAGAGAACCAAATTGCTGAAACTAAATGAAAACTGTATTATGTTTGAAGTTCACAAGTAGGCAC
*
29455546 TTGGAGACCCTATATTTGGTGCTAAATTATGTGATCTTTACGTAGATGGACAGTTTTGCAAAGGA
66 TTGGAGACCCTATATTTGGTGCTAAATTAGGTGATCTTTACGTAGATGGACAGTTTTGCAAAGGA
*
29455611 AGAGAGAATCAAATTGCTGAAACTAAATGAAAACTGTATTATGTTTGAAGTTCACAAGTAGGCAC
1 AGAGAGAACCAAATTGCTGAAACTAAATGAAAACTGTATTATGTTTGAAGTTCACAAGTAGGCAC
* *
29455676 TTGGAGACCCTATATTTGGTGCTAAATTCGGTGATCTTTACTTAGATGGACAGTTTTGCA
66 TTGGAGACCCTATATTTGGTGCTAAATTAGGTGATCTTTACGTAGATGGACAGTTTTGCA
29455736 GGACAGTGAT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 119 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (130 bp):
AGAGAGAACCAAATTGCTGAAACTAAATGAAAACTGTATTATGTTTGAAGTTCACAAGTAGGCAC
TTGGAGACCCTATATTTGGTGCTAAATTAGGTGATCTTTACGTAGATGGACAGTTTTGCAAAGGA
Found at i:29456252 original size:185 final size:186
Alignment explanation
Indices: 29455924--29456293 Score: 501
Period size: 185 Copynumber: 2.0 Consensus size: 186
29455914 TAATGAACAA
** *
29455924 TGTCATGTTTTTCTGTTGTACTTTGGAAGGATTTCCTTTTCTTATCTTTGATGAGTTGGTGGTTT
1 TGTCATGTTTTTCCATTGTACTTTGGAAAGATTTCCTTTTCTTATCTTTGATGAGTTGGTGGTTT
*** * * * * *
29455989 CTTTCCATTTATTGCTCTGCCCTTTTTTCTTGCAATTCTTCCTTTCTTTTTGTGGACTTGATGTT
66 CTTTCCACCCATTGCTCTACCCTTTTTTCTCGCAATTCTTCATTTCTTTGTGTGGACCTGATGTT
* *
29456054 TGGGGAATTGACATGGGATGCAAGTGAAAGGGGAAATCTGACCAAAGCATGATTTC
131 TGGGGAATTGACATGGGATGCAAGGGAAAGGGAAAATCTGACCAAAGCATGATTTC
* *
29456110 TGTCATGTTTTTCCATTGTGCTTT-GAAAGTTTTGCCTTTTCTTATC-TTGATGAGTTGGTGGTT
1 TGTCATGTTTTTCCATTGTACTTTGGAAAGATTT-CCTTTTCTTATCTTTGATGAGTTGGTGGTT
* ** * *
29456173 TCTTTCCACCCATTGCTTTACCCTTTTTTCTCGCTTTTCTTCATTTCTTTGTGTGGTCCTGGTGT
65 TCTTTCCACCCATTGCTCTACCCTTTTTTCTCGCAATTCTTCATTTCTTTGTGTGGACCTGATGT
* * **
29456238 TTTGGGAGTTGACATGGGATGCAAGGGAAAGGGAAAATCTGACTGAAGCATGATTT
130 TTGGGGAATTGACATGGGATGCAAGGGAAAGGGAAAATCTGACCAAAGCATGATTT
29456294 TCTTTATGTT
Statistics
Matches: 159, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
185 126 0.79
186 33 0.21
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.44
Consensus pattern (186 bp):
TGTCATGTTTTTCCATTGTACTTTGGAAAGATTTCCTTTTCTTATCTTTGATGAGTTGGTGGTTT
CTTTCCACCCATTGCTCTACCCTTTTTTCTCGCAATTCTTCATTTCTTTGTGTGGACCTGATGTT
TGGGGAATTGACATGGGATGCAAGGGAAAGGGAAAATCTGACCAAAGCATGATTTC
Found at i:29464028 original size:25 final size:25
Alignment explanation
Indices: 29463991--29464041 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
29463981 AATACATTAT
*
29463991 TAATTATTAATATTAATTAATTTAA
1 TAATTATTAATATTAATTAATATAA
* *
29464016 TAATTTTTTATATTAATTAATATAA
1 TAATTATTAATATTAATTAATATAA
29464041 T
1 T
29464042 TTCTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATTATTAATATTAATTAATATAA
Found at i:29469874 original size:17 final size:17
Alignment explanation
Indices: 29469848--29469881 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29469838 TTATTTTTTC
29469848 ATTTT-AAAAATAAAAA
1 ATTTTAAAAAATAAAAA
29469864 ATTTGTAAAAAATAAAAA
1 ATTT-TAAAAAATAAAAA
29469882 TGATGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 1 0.06
18 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
ATTTTAAAAAATAAAAA
Found at i:29472120 original size:5 final size:5
Alignment explanation
Indices: 29472085--29472113 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
29472075 TAAAAATATA
29472085 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
29472114 AATAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:29476642 original size:2 final size:2
Alignment explanation
Indices: 29476637--29476669 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
29476627 AGCTTTGACT
29476637 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
29476670 TATCATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:29497821 original size:149 final size:147
Alignment explanation
Indices: 29497368--29497821 Score: 463
Period size: 149 Copynumber: 3.0 Consensus size: 147
29497358 ATCAAATTCA
* * * *
29497368 ATCTTCCAGACTATTTTATAAAGTTAT-AAAATTAATCTTTGATTGAATCAAATTTAATCCTTTT
1 ATCTTCCAAAATATTTTATAAAGTTATAAAAATTAGTCTTTGATTGAATCAAATTCAATCCTTTT
* * ** *
29497432 ACCTATATTCTCTAACATTCATTTTACTTGATTTTT--AATATTTTATAACGT-TATCTTTTTAC
66 ACCTATATTCTATAACATTCATTTTACCTGATTTTTCAAATATTTTATAACGTATATAATATT--
* *
29497494 TTATATTCTGTAACGTTCATTTTACCTA
129 TTAT-TT-T-T-A--TT--TTTT-CTTG
* *
29497522 ATCTTCCAAAATATTTTATAAAATTATAAAAATTAGTCTTTGATTGAATCAAATTCAATCCTTTC
1 ATCTTCCAAAATATTTTATAAAGTTATAAAAATTAGTCTTTGATTGAATCAAATTCAATCCTTTT
* **
29497587 ACCTATATTCTGTAACATTCATTTTACCTGATTTTTCAAAATATTTTATAACGT-TATCCT-TTT
66 ACCTATATTCTATAACATTCATTTTACCTGATTTTTC-AAATATTTTATAACGTATATAATATTT
* ****
29497650 CCCTATCTTCTATAACGT-TTG
130 ---TAT-TTTTATTTTTTCTTG
* * *
29497671 ATCTTCTAAAATATTTTATAAAGTTATAAAAATTAGTCTTTGATTGAATTAAATTCAATACTTTT
1 ATCTTCCAAAATATTTTATAAAGTTATAAAAATTAGTCTTTGATTGAATCAAATTCAATCCTTTT
* *
29497736 ACCTATATTCTATAACATTCATTTTACCTGATTTTTCAGAATATTTTATAATGTGATAGAATATT
66 ACCTATATTCTATAACATTCATTTTACCTGATTTTTCA-AATATTTTATAACGT-ATATAATATT
29497801 TTATTTTTATTTTTTCTTG
129 TTATTTTTATTTTTTCTTG
29497820 AT
1 AT
29497822 TCTCTCTCAT
Statistics
Matches: 256, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
148 7 0.03
149 119 0.46
151 4 0.02
152 3 0.01
153 1 0.00
154 24 0.09
155 70 0.27
156 1 0.00
157 2 0.01
158 25 0.10
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (147 bp):
ATCTTCCAAAATATTTTATAAAGTTATAAAAATTAGTCTTTGATTGAATCAAATTCAATCCTTTT
ACCTATATTCTATAACATTCATTTTACCTGATTTTTCAAATATTTTATAACGTATATAATATTTT
ATTTTTATTTTTTCTTG
Found at i:29499327 original size:18 final size:19
Alignment explanation
Indices: 29499306--29499357 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
29499296 AAAATATTTA
**
29499306 AATATTATTTAATAT-ACT
1 AATATTATTTAATATAAAG
29499324 AATATTATTTAACTATAAAG
1 AATATTATTTAA-TATAAAG
29499344 AATATTATTTAATA
1 AATATTATTTAATA
29499358 ATATTATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 5 0.17
20 13 0.43
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
AATATTATTTAATATAAAG
Found at i:29499398 original size:62 final size:61
Alignment explanation
Indices: 29499332--29499457 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 61
29499322 CTAATATTAT
29499332 TTAACTATAAAGAATATTATTTAATAATATTATTTGAATATAATAAATGTAATAAAAAATA
1 TTAACTATAAAGAATATTATTTAATAATATTATTTGAATATAATAAATGTAATAAAAAATA
* * *
29499393 NTTAACTATAAAGATTATTATTTAATATTATTATTTGAATATAATAAATGTAATAAAGAATA
1 -TTAACTATAAAGAATATTATTTAATAATATTATTTGAATATAATAAATGTAATAAAAAATA
29499455 TTA
1 TTA
29499458 TTCAGTATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 3 0.05
62 58 0.95
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (61 bp):
TTAACTATAAAGAATATTATTTAATAATATTATTTGAATATAATAAATGTAATAAAAAATA
Found at i:29499424 original size:13 final size:14
Alignment explanation
Indices: 29499406--29499434 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29499396 AACTATAAAG
29499406 ATTATTATTT-AAT
1 ATTATTATTTGAAT
29499419 ATTATTATTTGAAT
1 ATTATTATTTGAAT
29499433 AT
1 AT
29499435 AATAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTATTATTTGAAT
Done.