Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 104 of 210
Found at i:35241419 original size:43 final size:43
Alignment explanation
Indices: 35241358--35241440 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
35241348 AATAAAAAAG
* **
35241358 TAGTCATGTAACCACACTTTAATGGTATTATCAATTCGAACAA
1 TAGTCATATAACCACACTTTAACAGTATTATCAATTCGAACAA
35241401 TAGTCATATAACCACACTTTAACAGTATTATCAATTCGAA
1 TAGTCATATAACCACACTTTAACAGTATTATCAATTCGAA
35241441 TCTACTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (43 bp):
TAGTCATATAACCACACTTTAACAGTATTATCAATTCGAACAA
Found at i:35246464 original size:45 final size:45
Alignment explanation
Indices: 35246397--35246514 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
35246387 TGGGCTGTAG
* * * *
35246397 ATACATAACAAAA-ATCCACAGATGAAATCTACCACTAGGTTGTGG
1 ATACACAACAAAATAT-CGCAGATAAAATCTACCACTAGGTTGTGA
* * * * *
35246442 GTGCACAGCAAAATATCGCAGATAAAATCTTCCACTGGGTTGTGA
1 ATACACAACAAAATATCGCAGATAAAATCTACCACTAGGTTGTGA
**
35246487 ATACACAACAAAATATCAAAGATAAAAT
1 ATACACAACAAAATATCGCAGATAAAAT
35246515 TTTCTACTAG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 56 0.97
46 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (45 bp):
ATACACAACAAAATATCGCAGATAAAATCTACCACTAGGTTGTGA
Found at i:35248398 original size:17 final size:18
Alignment explanation
Indices: 35248376--35248409 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
35248366 TTGAATTGAT
35248376 TTTATAAA-TTTTAAATA
1 TTTATAAACTTTTAAATA
35248393 TTTATAAACTTTTAAAT
1 TTTATAAACTTTTAAAT
35248410 TTAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATAAACTTTTAAATA
Found at i:35255128 original size:18 final size:17
Alignment explanation
Indices: 35255102--35255137 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35255092 TTTGGTTATA
35255102 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
35255120 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
35255137 T
1 T
35255138 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:35259407 original size:46 final size:44
Alignment explanation
Indices: 35259323--35259410 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
35259313 NNNNNNNNNN
35259323 ATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCATTCC
1 ATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCATTCC
*
35259367 ATTCAACCAAACA-ATTGAATTACTGATTACAGCTT-TATTCCATT
1 ATTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTCCATT
35259411 ACAGCTCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
43 1 0.03
44 16 0.41
45 4 0.10
46 16 0.41
47 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCATTCC
Found at i:35259413 original size:16 final size:16
Alignment explanation
Indices: 35259392--35259462 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
35259382 TGAATTACTG
*
35259392 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCA
*
35259408 ATTACAGCTCTATTCA
1 ATTACAGCTTTATTCA
* *
35259424 ATTACA-ATTCTATTTA
1 ATTACAGCTT-TATTCA
*
35259440 ATTACAGCTTTATTCT
1 ATTACAGCTTTATTCA
35259456 ATTACAG
1 ATTACAG
35259463 TGAACCAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 42 0.93
17 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTACAGCTTTATTCA
Found at i:35264116 original size:32 final size:32
Alignment explanation
Indices: 35264075--35264139 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
35264065 AGATGCTGGC
35264075 CATAAGTTTTAAAATTATTCCATACCCAGTAA
1 CATAAGTTTTAAAATTATTCCATACCCAGTAA
* * *
35264107 CATAAGTTTTAAAGTTGTTCCATACCTAGTAA
1 CATAAGTTTTAAAATTATTCCATACCCAGTAA
35264139 C
1 C
35264140 TATATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (32 bp):
CATAAGTTTTAAAATTATTCCATACCCAGTAA
Found at i:35278426 original size:21 final size:21
Alignment explanation
Indices: 35278402--35278443 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
35278392 CTTTTTGTTC
35278402 AATTAATT-ATCGAAACTTTAA
1 AATTAATTGA-CGAAACTTTAA
**
35278423 AATTTCTTGACGAAACTTTAA
1 AATTAATTGACGAAACTTTAA
35278444 TACTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
AATTAATTGACGAAACTTTAA
Found at i:35278955 original size:105 final size:105
Alignment explanation
Indices: 35278773--35278984 Score: 399
Period size: 105 Copynumber: 2.0 Consensus size: 105
35278763 GTTACAACTC
35278773 TCCCCCCTTTAGGGATTTTCGTCCCCAAAATCTTACCCAGAAGAAGTTACTTCCAACTCTCATGA
1 TCCCCCCTTTAGGGATTTTCGTCCCCAAAATCTTACCCAGAAGAAGTTACTTCCAACTCTCATGA
*
35278838 AACACTTTCACTAACTTTCTATGATCACTAATCAATTTAA
66 AACACTTTCACTAACTTTCCATGATCACTAATCAATTTAA
35278878 TCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTA-CCAGAAGAAGTTACTTCCAACTCTCATG
1 TCCCCCCTTTAGGGATTTTCGTCCCC-AAAATCTTACCCAGAAGAAGTTACTTCCAACTCTCATG
35278942 AAACACTTTCACTAACTTTCCATGATCACTAATCAATTTAA
65 AAACACTTTCACTAACTTTCCATGATCACTAATCAATTTAA
35278983 TC
1 TC
35278985 TCATATATCT
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 96 0.91
106 9 0.09
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (105 bp):
TCCCCCCTTTAGGGATTTTCGTCCCCAAAATCTTACCCAGAAGAAGTTACTTCCAACTCTCATGA
AACACTTTCACTAACTTTCCATGATCACTAATCAATTTAA
Found at i:35281615 original size:26 final size:24
Alignment explanation
Indices: 35281556--35281606 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
35281546 TTCGCATGCT
* *
35281556 ATTAGTTTATCCTTTTTTATATTC
1 ATTAGTTTGTCCTTTTTTACATTC
35281580 ATTAGTTTGTCCTTTTTTACATTC
1 ATTAGTTTGTCCTTTTTTACATTC
35281604 ATT
1 ATT
35281607 CATTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.61
Consensus pattern (24 bp):
ATTAGTTTGTCCTTTTTTACATTC
Found at i:35285488 original size:53 final size:54
Alignment explanation
Indices: 35285426--35285540 Score: 196
Period size: 53 Copynumber: 2.1 Consensus size: 54
35285416 TTTATACAAT
* * *
35285426 TTTTTTTTACTTTTTTTGTATACTGGTGCCGGCCATTTACACACCAAAAGT-AA
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACACACCAAAAGTAAA
35285479 TTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACACACCAAAAGTAAA
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACACACCAAAAGTAAA
35285533 TTTTTTTT
1 TTTTTTTT
35285541 GTATAAAAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
53 48 0.83
54 10 0.17
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (54 bp):
TTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACACACCAAAAGTAAA
Found at i:35285954 original size:105 final size:106
Alignment explanation
Indices: 35285479--35286015 Score: 493
Period size: 105 Copynumber: 5.1 Consensus size: 106
35285469 CCAAAAGTAA
* *****
35285479 TTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACACA-CCAAAAGT-AAATTTTTTTTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCC-AAAGTAAAAAAAAATTTG
* * *
35285542 TATAAAAGGGGTGCCAACCATTGCCTGGCCA-CCCCTAAAAT
65 TATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCTAAAAT
* ** *******
35285583 TTTTTTTTACGTTTTTCGTATACTGGTGCCGATCATTGACACA-CCAAAAGT-ATTTTTTTTTTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCC-AAAGTAAAAAAAAATTTG
* * * *
35285646 TTTTAAGGAGGTGCCAGCCATTGCCAGGCCACCCCCTCAAAT
65 TATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCTAAAAT
* * * **
35285688 TTTTTTTTACTTTTTTCGTATACTGGTGTCGGCCATTAACAGATTAAAAGTAGAAAAAAAATTTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCCAAAGTA-AAAAAAAATTTG
* * *
35285753 TATAAAGGGGGTGCC-GACTATTGACAAGCCA--CCC-AAAATCT
65 TATAAAGGGGGTGCCAG-CCATTGCCAGGCCACCCCCTAAAA--T
** * * * *
35285794 TTTTTTTTACTTTTTT-GTATACAAGTGCCAGACATTGACAAATCAAAAGTAAAAAAAAAATTTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCCAAAGT-AAAAAAAAATTTG
35285858 TATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCT-AAAT
65 TATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCTAAAAT
* *
35285899 TTTTTTTTACTTTTTTCGTATACTAGTGTCGGCCATTGACACATCCAAAGTAAAAAAAAAATTAT
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCCAAAGT-AAAAAAAAA-T-T
* ** * **
35285964 TGTAGAAAGGGGGTGCTGGCCATTGTCAGGCCACCCCAAAATAAT
63 TGTATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCTAA-AAT
35286009 TTTTTTT
1 TTTTTTT
35286016 ATTGTAGAAA
Statistics
Matches: 358, Mismatches: 58, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
104 85 0.24
105 135 0.38
106 58 0.16
107 35 0.10
108 34 0.09
109 1 0.00
110 10 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (106 bp):
TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACACATCCAAAGTAAAAAAAAATTTGT
ATAAAGGGGGTGCCAGCCATTGCCAGGCCACCCCCTAAAAT
Found at i:35286021 original size:54 final size:55
Alignment explanation
Indices: 35285960--35286213 Score: 164
Period size: 54 Copynumber: 4.5 Consensus size: 55
35285950 AAAAAAAAAA
35285960 TTATTGTAGAAAGGGGGTGCTGGCCATTGTCAGGCCACCCCAAAAT-AATTTTTT
1 TTATTGTAGAAAGGGGGTGCTGGCCATTGTCAGGCCACCCCAAAATAAATTTTTT
* * * * * *
35286014 TTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATCAACACC----TGAATTTTTT
1 TTATTGTAGAAAGGGGGTGCTGGCCATTGTCAG-GCCACCCCAAAATAAATTTTTT
* * * ****
35286066 TT-TCGTATAAAGGGGGTGCTGGCCTGTCAATGTC-GGCCATTGACACACCAAAAGTAAAAAAAA
1 TTATTGTAGAAAGGGGGTGCTGG-C---CATTGTCAGGCC----AC-C-CCAAAA-T-AAATTTT
**
35286129 AA
54 TT
* * *
35286131 CTATTGTAGAAAGGGGGTGCTGGCCATTGTCAGACCACCCCCAAAT-AATTTTTT
1 TTATTGTAGAAAGGGGGTGCTGGCCATTGTCAGGCCACCCCAAAATAAATTTTTT
*
35286185 TTATTGTAGAAAGGGGGTGCTGGCTATTG
1 TTATTGTAGAAAGGGGGTGCTGGCCATTG
35286214 ACAGATTAAC
Statistics
Matches: 146, Mismatches: 34, Indels: 40
0.66 0.15 0.18
Matches are distributed among these distances:
51 19 0.13
52 11 0.08
53 1 0.01
54 61 0.42
55 9 0.06
56 1 0.01
57 7 0.05
58 1 0.01
59 4 0.03
62 6 0.04
63 3 0.02
64 1 0.01
65 4 0.03
66 18 0.12
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
TTATTGTAGAAAGGGGGTGCTGGCCATTGTCAGGCCACCCCAAAATAAATTTTTT
Found at i:35286138 original size:171 final size:170
Alignment explanation
Indices: 35285925--35286259 Score: 609
Period size: 171 Copynumber: 2.0 Consensus size: 170
35285915 CGTATACTAG
*
35285925 TGTCGGCCATTGACACATCCAAAGTAAAAAAAAAATTATTGTAGAAAGGGGGTGCTGGCCATTGT
1 TGTCGGCCATTGACACATCCAAAGTAAAAAAAAAACTATTGTAGAAAGGGGGTGCTGGCCATTGT
*
35285990 CAGGCCACCCCAAAATAATTTTTTTTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATCAACAC
66 CAGACCACCCCAAAATAATTTTTTTTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATCAACAC
35286055 CTGAATTTTTTTTTCGTATAAAGGGGGTGCTGGCCTGTCAA
131 CT-AATTTTTTTTTCGTATAAAGGGGGTGCTGGCCTGTCAA
35286096 TGTCGGCCATTGACACA-CCAAAAGTAAAAAAAAAACTATTGTAGAAAGGGGGTGCTGGCCATTG
1 TGTCGGCCATTGACACATCC-AAAGTAAAAAAAAAACTATTGTAGAAAGGGGGTGCTGGCCATTG
* *
35286160 TCAGACCACCCCCAAATAATTTTTTTTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATTAACA
65 TCAGACCACCCCAAAATAATTTTTTTTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATCAACA
35286225 CCTAATTTTTTTTTCGTATAAAGGGGGTGCTGGCC
130 CCTAATTTTTTTTTCGTATAAAGGGGGTGCTGGCC
35286260 ATTGATAGGC
Statistics
Matches: 159, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
170 34 0.21
171 125 0.79
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (170 bp):
TGTCGGCCATTGACACATCCAAAGTAAAAAAAAAACTATTGTAGAAAGGGGGTGCTGGCCATTGT
CAGACCACCCCAAAATAATTTTTTTTATTGTAGAAAGGGGGTGCTGGCTATTGACAGATCAACAC
CTAATTTTTTTTTCGTATAAAGGGGGTGCTGGCCTGTCAA
Found at i:35286237 original size:54 final size:54
Alignment explanation
Indices: 35286132--35286279 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 54
35286122 AAAAAAAAAC
* * *
35286132 TATTGTAGAAAGGGGGTGCTGGCCATTGTCAGACCACCCCCAAATAATTTTTTT
1 TATTGTAGAAAGGGGGTGCTGGCCATTGACAGACCAACACCAAATAATTTTTTT
* **
35286186 TATTGTAGAAAGGGGGTGCTGGCTATTGACAGATTAACACC---TAATTTTTTT
1 TATTGTAGAAAGGGGGTGCTGGCCATTGACAGACCAACACCAAATAATTTTTTT
* * * * *
35286237 T-TCGTATAAAGGGGGTGCTGGCCATTGATAGGCCAGCACCAAA
1 TATTGTAGAAAGGGGGTGCTGGCCATTGACAGACCAACACCAAA
35286280 AAAAGTTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
50 31 0.40
51 11 0.14
54 35 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
TATTGTAGAAAGGGGGTGCTGGCCATTGACAGACCAACACCAAATAATTTTTTT
Found at i:35289359 original size:63 final size:63
Alignment explanation
Indices: 35289248--35289430 Score: 235
Period size: 63 Copynumber: 2.9 Consensus size: 63
35289238 CGAGTCATAT
*
35289248 CAGGACGCTCACAAAGAGCTGCGTTTGT-GTTTA-CAATATATGCAGGATCACAACCGAGCATAT
1 CAGGACGCTCACAAAGAGCTGCG---GTAG-TCAGCAATATATGCAGGATCACAACCGAGCATAT
35289311 AA
62 AA
* *
35289313 CCGGACGCTCACAAAGAGCTGCGGTAGTCAGCAATATATGCAGGATCACAACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGCGGTAGTCAGCAATATATGCAGGATCACAACCGAGCATATAA
* * * * * *
35289376 CAGGACGCTCACAAAGAGTTGCGGTAGTCCGCAACACATGCAAGATCACTACCGA
1 CAGGACGCTCACAAAGAGCTGCGGTAGTCAGCAATATATGCAGGATCACAACCGA
35289431 TCAGGATGCT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
62 4 0.04
63 80 0.75
65 22 0.21
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (63 bp):
CAGGACGCTCACAAAGAGCTGCGGTAGTCAGCAATATATGCAGGATCACAACCGAGCATATAA
Found at i:35290919 original size:12 final size:12
Alignment explanation
Indices: 35290902--35290927 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35290892 AATAATGAAT
35290902 AAATAAAATAAA
1 AAATAAAATAAA
35290914 AAATAAAATAAA
1 AAATAAAATAAA
35290926 AA
1 AA
35290928 TTGTGATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:35292784 original size:44 final size:44
Alignment explanation
Indices: 35292731--35292883 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
35292721 ATTCTAACCT
*
35292731 ACTGCAACTTTAGGG-GTATAGGAATTGTAGCTTCAATCTGCTCC
1 ACTGCAACTTTAGGGAG-ATAAGAATTGTAGCTTCAATCTGCTCC
* * * *
35292775 ACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCGATCTGCTCC
1 ACTGCAACTTTAGGGAGATAAGAATTGTAGCTTCAATCTGCTCC
* * * *
35292819 ACTGCAACTTTAGAGAGAT-AG-ATTCGTAGTTTTAATCTGCTTC
1 ACTGCAACTTTAGGGAGATAAGAATT-GTAGCTTCAATCTGCTCC
* * *
35292862 ACTACAGCTTCAGGGAGATAAG
1 ACTGCAACTTTAGGGAGATAAG
35292884 GTTCGCTATG
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
42 2 0.02
43 31 0.35
44 55 0.62
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTTAGGGAGATAAGAATTGTAGCTTCAATCTGCTCC
Found at i:35292880 original size:43 final size:43
Alignment explanation
Indices: 35292757--35293212 Score: 149
Period size: 44 Copynumber: 10.0 Consensus size: 43
35292747 TATAGGAATT
** *
35292757 GTAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTT
1 GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AGATTC
* * * *
35292801 GTAGCTTCGATCTGCTCCACTGCAACTTTAGAGAGATAGATTC
1 GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAGATTC
* * * * *
35292844 GTAGTTTTAATCTGCTTCACTACAGCTTCAGGGAGATAAGGTTCGC
1 GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AGATT--C
* ** * *
35292890 TATGGTAGATTCAATCCAAC-CCACTACAACTTCAAGGTTATAGGATTTGTAGTT-
1 ----GTAGCTTCAAT-CTGCTCCACTACAACTTC-AGG---GA-GA-TAG-A-TTC
* ** * *
35292944 GTAGCTTCATTCCAACT-CACTGCAACTTCAGGG-GTATAGGAAAT-
1 GTAGCTTCAAT-CTGCTCCACTACAACTTCAGGGAG-ATA-G-ATTC
* * * *
35292988 GTAGTTTC-ATCTTGCTCTACTGCAACTTCATGGAGATAGGATTC
1 GTAGCTTCAATC-TGCTCCACTACAACTTCAGGGAGATA-GATTC
* * * *
35293032 GTTGTTGTAGCTTCATTCTAAC-CCACTGCAACTTTAGGG-GTATAGAAATT-
1 ------GTAGCTTCAATCT-GCTCCACTACAACTTCAGGGAG-ATAG--ATTC
* *
35293082 GTAGCTTCAATCTGCTCCATTACAACTTCAAGGAGATAAGATTC
1 GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AGATTC
* * * * *
35293126 GTAACTTCAA-CTTGCTCCACTGCAATTTCAAGGAGATGAGGTTC
1 GTAGCTTCAATC-TGCTCCACTACAACTTCAGGGAGAT-AGATTC
* * *
35293170 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AGATT
35293213 TGTTATGGTG
Statistics
Matches: 310, Mismatches: 62, Indels: 80
0.69 0.14 0.18
Matches are distributed among these distances:
42 1 0.00
43 44 0.14
44 163 0.53
45 8 0.03
46 1 0.00
49 5 0.02
50 70 0.23
51 11 0.04
54 1 0.00
55 3 0.01
56 1 0.00
57 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
GTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAGATTC
Found at i:35292958 original size:50 final size:50
Alignment explanation
Indices: 35292894--35292993 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
35292884 GTTCGCTATG
* **
35292894 GTAGATTCAATCCAACCCACTACAACTTCAAGGTTATAGGATTTGTAGTT
1 GTAGATTCAATCCAACCCACTACAACTTCAAGGGTATAGGAAATGTAGTT
* * * * *
35292944 GTAGCTTCATTCCAACTCACTGCAACTTCAGGGGTATAGGAAATGTAGTT
1 GTAGATTCAATCCAACCCACTACAACTTCAAGGGTATAGGAAATGTAGTT
35292994 TCATCTTGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (50 bp):
GTAGATTCAATCCAACCCACTACAACTTCAAGGGTATAGGAAATGTAGTT
Found at i:35293041 original size:94 final size:94
Alignment explanation
Indices: 35292910--35293128 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 94
35292900 TCAATCCAAC
** * *
35292910 CCACTACAACTTCAAGGTTATAGGATTTGTAGTTGTAGCTTCATTCCAACTCACTGCAACTTCAG
1 CCACTACAACTTCAAGGAGATAGGATTCGTAGTTGTAGCTTCATTCCAACCCACTGCAACTTCAG
*
35292975 GGGTATAGGAAA-TGTAGTTTC-ATCTTGCT
66 GGGTATA-GAAATTGTAGCTTCAATC-TGCT
* * * * * *
35293004 CTACTGCAACTTCATGGAGATAGGATTCGTTGTTGTAGCTTCATTCTAACCCACTGCAACTTTAG
1 CCACTACAACTTCAAGGAGATAGGATTCGTAGTTGTAGCTTCATTCCAACCCACTGCAACTTCAG
35293069 GGGTATAGAAATTGTAGCTTCAATCTGCT
66 GGGTATAGAAATTGTAGCTTCAATCTGCT
* *
35293098 CCATTACAACTTCAAGGAGATAAGATTCGTA
1 CCACTACAACTTCAAGGAGATAGGATTCGTA
35293129 ACTTCAACTT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
93 4 0.04
94 99 0.93
95 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (94 bp):
CCACTACAACTTCAAGGAGATAGGATTCGTAGTTGTAGCTTCATTCCAACCCACTGCAACTTCAG
GGGTATAGAAATTGTAGCTTCAATCTGCT
Found at i:35293135 original size:44 final size:44
Alignment explanation
Indices: 35293086--35293212 Score: 157
Period size: 44 Copynumber: 2.9 Consensus size: 44
35293076 GAAATTGTAG
* *
35293086 CTTCAATCTGCTCCATTACAACTTCAAGGAGATAAGATTCGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGTAA
* * * *
35293130 CTTCAA-CTTGCTCCACTGCAATTTCAAGGAGATGAGGTTCGTAG
1 CTTCAATC-TGCTCCACTGCAACTTCAAGGAGATAAGATTCGTAA
* * *
35293174 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
35293213 TGTTATGGTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.97
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGTAA
Found at i:35293526 original size:30 final size:29
Alignment explanation
Indices: 35293472--35293565 Score: 113
Period size: 29 Copynumber: 3.2 Consensus size: 29
35293462 ATTTTTAAAA
35293472 AAAATTA-ATTTTGACCCC-AAACTTTCTC
1 AAAATTACATTTT-ACCCCTAAACTTTCTC
35293500 AAAATTACATTTCTACCCCTAAACTTT-TC
1 AAAATTACATTT-TACCCCTAAACTTTCTC
* * *
35293529 TAAATTACATTTTAACCCTAAAATTTTCTC
1 AAAATTACATTTTACCCCT-AAACTTTCTC
35293559 AAAATTA
1 AAAATTA
35293566 TGTTTTGGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
28 13 0.23
29 28 0.49
30 16 0.28
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTACCCCTAAACTTTCTC
Found at i:35293556 original size:28 final size:28
Alignment explanation
Indices: 35293473--35293557 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
35293463 TTTTTAAAAA
* * *
35293473 AAATTA-ATTTTGACCCCAAACTTTCTCA
1 AAATTACATTTTAACCCTAAACTTT-TCT
*
35293501 AAATTACATTTCTACCCCTAAACTTTTCT
1 AAATTACATTT-TAACCCTAAACTTTTCT
*
35293530 AAATTACATTTTAACCCTAAAATTTTCT
1 AAATTACATTTTAACCCTAAACTTTTCT
35293558 CAAAATTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.43
29 17 0.35
30 11 0.22
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.40
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAAACTTTTCT
Found at i:35294608 original size:19 final size:19
Alignment explanation
Indices: 35294584--35294620 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35294574 AATACGCCAT
35294584 TTTCGTGTTTTCAAAAAAA
1 TTTCGTGTTTTCAAAAAAA
35294603 TTTCGTGTTTTCAAAAAA
1 TTTCGTGTTTTCAAAAAA
35294621 TATTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTCGTGTTTTCAAAAAAA
Found at i:35294704 original size:19 final size:20
Alignment explanation
Indices: 35294623--35294711 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 20
35294613 TCAAAAAATA
35294623 TTCAAAAAA-ATT-TCGTGTT
1 TTCAAAAAATATTCTCGTG-T
* * * *
35294642 TTCGAATAA-ATTCCCTTGT
1 TTCAAAAAATATTCTCGTGT
35294661 TTC--AAAAT-TT-TCGTGT
1 TTCAAAAAATATTCTCGTGT
35294677 CTTCAAAAAATATTCTCGTGT
1 -TTCAAAAAATATTCTCGTGT
35294698 TTCAAAAAATATTC
1 TTCAAAAAATATTC
35294712 GTATTTTCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.07
17 8 0.14
19 19 0.34
20 19 0.34
21 6 0.11
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (20 bp):
TTCAAAAAATATTCTCGTGT
Found at i:35294719 original size:19 final size:18
Alignment explanation
Indices: 35294664--35294724 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
35294654 CCCTTGTTTC
* *
35294664 AAAATTTTCGTGTCTTCAA
1 AAAATATTCGT-TTTTCAA
*
35294683 AAAATATTCTCGTGTTTCAA
1 AAAATA-T-TCGTTTTTCAA
35294703 AAAATATTCGTATTTTCGAA
1 AAAATATTCGT-TTTTC-AA
35294723 AA
1 AA
35294725 GAAGGCAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 16 0.47
21 4 0.12
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
AAAATATTCGTTTTTCAA
Found at i:35294852 original size:18 final size:17
Alignment explanation
Indices: 35294829--35295043 Score: 143
Period size: 17 Copynumber: 12.2 Consensus size: 17
35294819 AAAAAATGGG
35294829 AAAATTTTCGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* *
35294847 AAAA-TTTCGATG-ATAA
1 AAAATTTTCG-TGTTTCA
35294863 AAAATTTTTCGTGTTTTCTA
1 AAAA-TTTTCGTG-TTTC-A
* *
35294883 AAAACTTCCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
35294900 AAAATTTTCGTGTCCTCA
1 AAAATTTTCGTGT-TTCA
* **
35294918 AAAA-TTTCGAGGAT-A
1 AAAATTTTCGTGTTTCA
**
35294933 AATTTTTTTTCGTGTTTTCTA
1 AA--AATTTTCGTG-TTTC-A
*
35294954 AAAACTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
35294971 AAAATTTT-ATGTTTTCA
1 AAAATTTTCGTG-TTTCA
35294988 AAAATTTTCGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* *
35295006 ACAATTCTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
* *
35295023 CAAATTTTCGCGTTTCA
1 AAAATTTTCGTGTTTCA
35295040 AAAA
1 AAAA
35295044 AAATAATTGT
Statistics
Matches: 152, Mismatches: 30, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
15 3 0.02
16 9 0.06
17 67 0.44
18 50 0.33
19 15 0.10
20 5 0.03
21 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:35294997 original size:71 final size:71
Alignment explanation
Indices: 35294829--35294994 Score: 253
Period size: 71 Copynumber: 2.4 Consensus size: 71
35294819 AAAAAATGGG
*
35294829 AAAATTTTCGTGTTTTCAAAAATTTCGATGATAAAAAATTTTTCGTGTTTTCTAAAAACTTCCGT
1 AAAATTTTCGTGTTTTCAAAAATTTCGAGGATAAAAAATTTTTCGTGTTTTCTAAAAACTTCCGT
35294894 GTTTCA
66 GTTTCA
** *** *
35294900 AAAATTTTCGTGTCCTCAAAAATTTCGAGGATAAATTTTTTTTCGTGTTTTCTAAAAACTTTCGT
1 AAAATTTTCGTGTTTTCAAAAATTTCGAGGATAAAAAATTTTTCGTGTTTTCTAAAAACTTCCGT
35294965 GTTTCA
66 GTTTCA
*
35294971 AAAATTTT-ATGTTTTCAAAAATTT
1 AAAATTTTCGTGTTTTCAAAAATTT
35294995 TCGTGTTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 13 0.15
71 72 0.85
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (71 bp):
AAAATTTTCGTGTTTTCAAAAATTTCGAGGATAAAAAATTTTTCGTGTTTTCTAAAAACTTCCGT
GTTTCA
Found at i:35295005 original size:35 final size:35
Alignment explanation
Indices: 35294829--35295078 Score: 115
Period size: 35 Copynumber: 7.1 Consensus size: 35
35294819 AAAAAATGGG
* * *
35294829 AAAATTTT-CGTGTTTTCAAAAA-TTTCGATG-ATAA
1 AAAATTTTATGTG-TTTCAAAAATTTTCG-TGTTTCA
* *
35294863 AAAATTTT-TCGTGTTTTCTAAAAACTTCCGTGTTTCA
1 AAAATTTTAT-GTG-TTTC-AAAAATTTTCGTGTTTCA
* * * **
35294900 AAAATTTT-CGTGTCCTCAAAAA-TTTCGAGGAT-A
1 AAAATTTTATGTGT-TTCAAAAATTTTCGTGTTTCA
** * *
35294933 AATTTTTTTTCGTGTTTTCTAAAAACTTTCGTGTTTCA
1 AAAATTTTAT-GTG-TTTC-AAAAATTTTCGTGTTTCA
35294971 AAAATTTTATGT-TTTCAAAAATTTTCGTGTTTTCA
1 AAAATTTTATGTGTTTCAAAAATTTTCGTG-TTTCA
* * * * *
35295006 ACAATTCT-CGTGTTTCACAAATTTTCGCGTTTCAA
1 AAAATTTTATGTGTTTCAAAAATTTTCGTGTTTC-A
** * * *
35295041 AAAAAATAAT-TGTTTCAAAAATCTTCGTGTTTTA
1 AAAATTTTATGTGTTTCAAAAATTTTCGTGTTTCA
35295075 AAAA
1 AAAA
35295079 ATTCGTATTT
Statistics
Matches: 165, Mismatches: 36, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
33 7 0.04
34 37 0.22
35 72 0.44
36 18 0.11
37 23 0.14
38 8 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (35 bp):
AAAATTTTATGTGTTTCAAAAATTTTCGTGTTTCA
Found at i:35295071 original size:17 final size:16
Alignment explanation
Indices: 35294829--35295084 Score: 102
Period size: 17 Copynumber: 14.7 Consensus size: 16
35294819 AAAAAATGGG
*
35294829 AAAATTTTCGTGTTTTC
1 AAAAATTTCGTG-TTTC
* *
35294846 AAAAATTTCGATG-ATA
1 AAAAATTTCG-TGTTTC
35294862 AAAAATTTTTCGTGTTTTC
1 AAAAA--TTTCGTG-TTTC
*
35294881 TAAAAACTTCCGTGTTTC
1 -AAAAA-TTTCGTGTTTC
*
35294899 AAAAATTTTCGTGTCCTC
1 AAAAA-TTTCGTGT-TTC
* **
35294917 AAAAATTTCGAGGAT-
1 AAAAATTTCGTGTTTC
**
35294932 AAATTTTTTTTCGTGTTTTC
1 AAA---AATTTCGTG-TTTC
35294952 TAAAAACTTTCGTGTTTC
1 -AAAAA-TTTCGTGTTTC
**
35294970 AAAAATTTTATGTTTTC
1 AAAAATTTCGTG-TTTC
35294987 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTG-TTTC
*
35295005 AACAATTCTCGTGTTTC
1 AAAAATT-TCGTGTTTC
* *
35295022 ACAAATTTTCGCGTTTC
1 A-AAAATTTCGTGTTTC
* ***
35295039 AAAAAAAATAATTGTTTC
1 --AAAAATTTCGTGTTTC
*
35295057 AAAAATCTTCGTGTTTT
1 AAAAAT-TTCGTGTTTC
*
35295074 AAAAAATTCGT
1 AAAAATTTCGT
35295085 ATTTTGATCG
Statistics
Matches: 178, Mismatches: 40, Indels: 43
0.68 0.15 0.16
Matches are distributed among these distances:
15 3 0.02
16 22 0.12
17 69 0.39
18 60 0.34
19 16 0.09
20 5 0.03
21 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:35303050 original size:75 final size:75
Alignment explanation
Indices: 35302947--35303885 Score: 984
Period size: 75 Copynumber: 12.3 Consensus size: 75
35302937 CAAGAATTAT
* *
35302947 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGCGAGTTGAGCCTCGGG-CAC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
35303011 ACGCCAAGGTA
65 ACGCCGAGGTA
* * * * * *
35303022 GTTTTCAATTGCAGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCAGGTCGC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
35303087 ACGCTGAGGTA
65 ACGCCGAGGTA
* * * * *
35303098 TTTT-AAGTTTCTGTTTTTCAAAACTCAACTCATATTGCTAGAAGTGAGTTAAGCCTCGGGTCAT
1 TTTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* **
35303162 ATGTAGAGGTA
65 ACGCCGAGGTA
* **
35303173 TTTTCAATTTCTAG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTGTCGT
1 TTTTCAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
**
35303237 ACGCTAAGGTA
65 ACGCCGAGGTA
* * **
35303248 TTTT-AAGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGTCGA
1 TTTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-A
*
35303312 -ACGCTGAGGTA
64 CACGCCGAGGTA
* *
35303323 TTTT-AATTTTTTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
35303387 ATGCCGAGGTA
65 ACGCCGAGGTA
* * *
35303398 TTTTCAATTTCTGTTTTTCAAAAAAATCAATTCATATTGCGAG-GGATGAGTTGAGCCTTGGGTT
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTCGGGTC
* *
35303462 ACATGCCAAGGTATTTA
63 ACACGCCGAGG----TA
* *
35303479 TTTTCAATTTTTGTTTTT-AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
35303543 TGCCGAGGGA
66 CGCCGAGGTA
*
35303553 TTTTCAATTTCTGTTTTTCAAAAAACTCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
35303618 CAAGCCGAGGTGTTTA
64 CACGCCGA-G-G--TA
* *
35303634 TTTTCAATTTCTATTTTT-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
**
35303698 CGTTGAGGTA
66 CGCCGAGGTA
* * *
35303708 TTTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGAGT
1 --T-TTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* * *
35303773 CGCATGCTGAGGTA
62 CACACGCCGAGGTA
* * * * *
35303787 TTTTTTTTTAAATTCTATTTTTCAAAAATCAA--C-TATTGCGAGAGGTGAGTTGAGTCTCGGAT
1 ----TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
35303849 CCCACGCCGAGCTA
62 CACACGCCGAGGTA
* *
35303863 TTCTCGAATTTCTGCTTTTCAAA
1 TTTTC-AATTTCTGTTTTTCAAA
35303886 TAAAAAGAAA
Statistics
Matches: 737, Mismatches: 94, Indels: 67
0.82 0.10 0.07
Matches are distributed among these distances:
72 3 0.00
73 14 0.02
74 26 0.04
75 304 0.41
76 71 0.10
77 97 0.13
78 99 0.13
79 77 0.10
80 6 0.01
81 40 0.05
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCCGAGGTA
Found at i:35304054 original size:30 final size:30
Alignment explanation
Indices: 35304020--35304095 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
35304010 TTTTGACCCC
*
35304020 AAACTTTCTCAAAATTACATTTAT-ATCC-A
1 AAACTTTCTCAAAATTACATTT-TGAGCCTA
35304049 TAAACTTTACT--AAATTACATTTTGAGCCTA
1 -AAACTTT-CTCAAAATTACATTTTGAGCCTA
*
35304079 AAATTTTCTCAAAATTA
1 AAACTTTCTCAAAATTA
35304096 TGTTTTGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 3 0.08
29 20 0.51
30 14 0.36
31 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (30 bp):
AAACTTTCTCAAAATTACATTTTGAGCCTA
Found at i:35304824 original size:19 final size:18
Alignment explanation
Indices: 35304799--35304841 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
35304789 AGCAGACCAG
35304799 AAAAAAGAGAAGAAA-AAA
1 AAAAAAGAGAA-AAAGAAA
35304817 AGAAAAAGAGAAAAAGAAA
1 A-AAAAAGAGAAAAAGAAA
35304836 AAAAAA
1 AAAAAA
35304842 TTATTTGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGAAAAAGAAA
Found at i:35304825 original size:14 final size:14
Alignment explanation
Indices: 35304799--35304841 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
35304789 AGCAGACCAG
*
35304799 AAAAAAG-AGAAGA
1 AAAAAAGAAAAAGA
35304812 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
*
35304826 GAAAAAGAAAAA-A
1 AAAAAAGAAAAAGA
35304839 AAA
1 AAA
35304842 TTATTTGCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:35305363 original size:18 final size:18
Alignment explanation
Indices: 35305340--35305486 Score: 115
Period size: 18 Copynumber: 8.3 Consensus size: 18
35305330 AAAAAATAGG
35305340 AAAATTTTCGTGTTTT-A
1 AAAATTTTCGTGTTTTCA
* * *
35305357 AAAAATTCCGATG--ATCA
1 AAAATTTTCG-TGTTTTCA
* *
35305374 AAATTTTTTTGTGTTTTCTA
1 AAA-ATTTTCGTGTTTTC-A
* *
35305394 AAAACTTCCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
* *
35305411 AAAATTTTCATGTTGTCA
1 AAAATTTTCGTGTTTTCA
35305429 AAAATTTTCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
* *
35305447 ACAATTCTCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
* *
35305464 CAAATTTTCGTGTTTTGA
1 AAAATTTTCGTGTTTTCA
35305482 AAAAT
1 AAAAT
35305487 AAGGCAACGA
Statistics
Matches: 97, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.01
17 38 0.39
18 47 0.48
19 7 0.07
20 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:35305424 original size:17 final size:17
Alignment explanation
Indices: 35305340--35305478 Score: 109
Period size: 17 Copynumber: 7.9 Consensus size: 17
35305330 AAAAAATAGG
*
35305340 AAAATTTTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
* * *
35305357 AAAAATTCCGATG-ATCA
1 AAAATTTTCG-TGTTTCA
* *
35305374 AAATTTTTTTGTGTTTTCTA
1 AAA-ATTTTCGTG-TTTC-A
* *
35305394 AAAACTTCCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
35305411 AAAATTTTCATGTTGTCA
1 AAAATTTTCGTGTT-TCA
35305429 AAAATTTTCGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* *
35305447 ACAATTCTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
35305464 CAAATTTTCGTGTTT
1 AAAATTTTCGTGTTT
35305479 TGAAAAATAA
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
17 44 0.47
18 36 0.39
19 9 0.10
20 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:35305462 original size:53 final size:54
Alignment explanation
Indices: 35305379--35305486 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 54
35305369 GATCAAAATT
*
35305379 TTTTTGTGTTTTCTAAAAACTTCCGTGTTTCAAAAATTTTCATGTTGTCAAAAA
1 TTTTCGTGTTTTCTAAAAACTTCCGTGTTTCAAAAATTTTCATGTTGTCAAAAA
* * * * *
35305433 TTTTCGTGTTTTC-AACAA-TTCTCGTGTTTCACAAATTTTCGTGTTTTGAAAAA
1 TTTTCGTGTTTTCTAAAAACTTC-CGTGTTTCAAAAATTTTCATGTTGTCAAAAA
35305486 T
1 T
35305487 AAGGCAACGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 3 0.06
53 32 0.68
54 12 0.26
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (54 bp):
TTTTCGTGTTTTCTAAAAACTTCCGTGTTTCAAAAATTTTCATGTTGTCAAAAA
Found at i:35305479 original size:35 final size:36
Alignment explanation
Indices: 35305393--35305486 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 36
35305383 TGTGTTTTCT
* * *
35305393 AAAAACTTCCGTG-TTTCAAAAATTTTCATGTTGTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCATGTTGTC
* *
35305428 AAAAATTTTCGTGTTTTCAACAATTCTCGTGTT-TC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCATGTTGTC
* *
35305463 ACAAATTTTCGTGTTTTGAAAAAT
1 AAAAATTTTCGTGTTTTCAAAAAT
35305487 AAGGCAACGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
35 34 0.68
36 16 0.32
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTCTCATGTTGTC
Found at i:35305653 original size:37 final size:37
Alignment explanation
Indices: 35305594--35305724 Score: 150
Period size: 35 Copynumber: 3.7 Consensus size: 37
35305584 AATAGGAAAA
*
35305594 TTTTCGTG-TTT-TAAAAAATTCCGATGATCAAAATT
1 TTTTCGTGTTTTCTAAAAACTTCCGATGATCAAAATT
* *
35305629 TTTTTGTGTTTTCTAAAAACTTCCG-TGTTTCAAAA-T
1 TTTTCGTGTTTTCTAAAAACTTCCGATG-ATCAAAATT
**
35305665 TTTTCGTGTCCTC-AAAAA-TTCCGATGATC-AAATAT
1 TTTTCGTGTTTTCTAAAAACTTCCGATGATCAAAAT-T
35305700 TTTTCGTGTTTTCTAAAAACTTCCG
1 TTTTCGTGTTTTCTAAAAACTTCCG
35305725 TGTTTCAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
33 3 0.04
34 7 0.09
35 26 0.33
36 21 0.27
37 22 0.28
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTTCGTGTTTTCTAAAAACTTCCGATGATCAAAATT
Found at i:35305661 original size:250 final size:251
Alignment explanation
Indices: 35305200--35305684 Score: 864
Period size: 250 Copynumber: 1.9 Consensus size: 251
35305190 TTAAAAATTT
35305200 TTCTCGTGTTTCAAAAAATATTCGTGTTTTCAAAAACAAGGCAACGAATCGATTTAACACTAATT
1 TTCTCGTGTTTCAAAAAATATTCGTGTTTTCAAAAACAAGGCAACGAATCGATTTAACACTAATT
*
35305265 CGTTGATTTCATTGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGCTTAAT
66 CGTTCATTTCATTGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGCTTAAT
35305330 AAAAAATAGGAAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAA
131 AAAAAATAGGAAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAA
**
35305395 AAACTTCCGTGTTTCAAAAATTTTCATGTTGTCAAAAATTTTCGTGTTTTCAACAA
196 AAACTTCCGTGTTTCAAAAATTTTCATGTCCTCAAAAATTTTCGTGTTTTCAACAA
* * * * *
35305451 TTCTCGTGTTTC-ACAAATTTTCGTGTTTTGAAAAATAAGGCAACGAATCGATTTGACACTAATT
1 TTCTCGTGTTTCAAAAAATATTCGTGTTTTCAAAAACAAGGCAACGAATCGATTTAACACTAATT
*
35305515 CGTTCATTTTATTGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGCTTAAT
66 CGTTCATTTCATTGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGCTTAAT
35305580 AAAAAATAGGAAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAA
131 AAAAAATAGGAAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAA
* *
35305645 AAACTTCCGTGTTTCAAAATTTTTCGTGTCCTCAAAAATT
196 AAACTTCCGTGTTTCAAAAATTTTCATGTCCTCAAAAATT
35305685 CCGATGATCA
Statistics
Matches: 223, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
250 211 0.95
251 12 0.05
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (251 bp):
TTCTCGTGTTTCAAAAAATATTCGTGTTTTCAAAAACAAGGCAACGAATCGATTTAACACTAATT
CGTTCATTTCATTGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGCTTAAT
AAAAAATAGGAAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAA
AAACTTCCGTGTTTCAAAAATTTTCATGTCCTCAAAAATTTTCGTGTTTTCAACAA
Found at i:35305733 original size:37 final size:36
Alignment explanation
Indices: 35305590--35305748 Score: 161
Period size: 36 Copynumber: 4.5 Consensus size: 36
35305580 AAAAAATAGG
*
35305590 AAAA-TTTTCGTG-TTT-TAAAAAATTCCGATGATC
1 AAAATTTTTCGTGTTTTCTAAAAACTTCCGATGATC
* *
35305623 AAAATTTTTTTGTGTTTTCTAAAAACTTCCG-TGTTTC
1 AAAA-TTTTTCGTGTTTTCTAAAAACTTCCGATG-ATC
**
35305660 AAAATTTTTCGTGTCCTC-AAAAA-TTCCGATGATC
1 AAAATTTTTCGTGTTTTCTAAAAACTTCCGATGATC
*
35305694 AAATATTTTTCGTGTTTTCTAAAAACTTCCG-TGTTTC
1 AAA-ATTTTTCGTGTTTTCTAAAAACTTCCGATG-ATC
* *
35305731 AAAAATTTTCATGTTTTC
1 AAAATTTTTCGTGTTTTC
35305749 AAACATTTTC
Statistics
Matches: 104, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
33 4 0.04
34 10 0.10
35 27 0.26
36 36 0.35
37 27 0.26
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (36 bp):
AAAATTTTTCGTGTTTTCTAAAAACTTCCGATGATC
Found at i:35305748 original size:18 final size:18
Alignment explanation
Indices: 35305590--35305805 Score: 110
Period size: 17 Copynumber: 12.2 Consensus size: 18
35305580 AAAAAATAGG
35305590 AAAATTTTCGTGTTTT-A
1 AAAATTTTCGTGTTTTCA
* * *
35305607 AAAAATTCCGATG--ATCA
1 AAAATTTTCG-TGTTTTCA
* *
35305624 AAATTTTTTTGTGTTTTCTA
1 AAA-ATTTTCGTGTTTTC-A
* *
35305644 AAAACTTCCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
* **
35305661 AAATTTTTCGTGTCCTCA
1 AAAATTTTCGTGTTTTCA
* *
35305679 AAAA-TTCCGATG--ATCA
1 AAAATTTTCG-TGTTTTCA
*
35305695 AATATTTTTCGTGTTTTCTA
1 AA-AATTTTCGTGTTTTC-A
* *
35305715 AAAACTTCCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
*
35305732 AAAATTTTCATGTTTTCA
1 AAAATTTTCGTGTTTTCA
*
35305750 AACATTTTCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
* * *
35305768 ACAATTCTAGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
* *
35305785 CAAATTTTCGCG-TTTCA
1 AAAATTTTCGTGTTTTCA
35305802 AAAA
1 AAAA
35305806 AAATAATTGT
Statistics
Matches: 144, Mismatches: 41, Indels: 28
0.68 0.19 0.13
Matches are distributed among these distances:
16 6 0.04
17 61 0.42
18 54 0.38
19 16 0.11
20 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:35305751 original size:71 final size:71
Alignment explanation
Indices: 35305590--35305751 Score: 254
Period size: 71 Copynumber: 2.3 Consensus size: 71
35305580 AAAAAATAGG
* *
35305590 AAAATTTTCGTGTTTTAAAAAATTCCGATGATCAAAATTTTTTTGTGTTTTCTAAAAACTTCCGT
1 AAAATTTTCGTGTTTTCAAAAATTCCGATGATCAAAATTTTTTCGTGTTTTCTAAAAACTTCCGT
35305655 GTTTCA
66 GTTTCA
* **
35305661 AAATTTTTCGTGTCCTCAAAAATTCCGATGATC-AAATATTTTTCGTGTTTTCTAAAAACTTCCG
1 AAAATTTTCGTGTTTTCAAAAATTCCGATGATCAAAAT-TTTTTCGTGTTTTCTAAAAACTTCCG
35305725 TGTTTCA
65 TGTTTCA
*
35305732 AAAATTTTCATGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
35305752 CATTTTCGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 4 0.05
71 77 0.95
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (71 bp):
AAAATTTTCGTGTTTTCAAAAATTCCGATGATCAAAATTTTTTCGTGTTTTCTAAAAACTTCCGT
GTTTCA
Found at i:35305767 original size:36 final size:34
Alignment explanation
Indices: 35305700--35305805 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 34
35305690 GATCAAATAT
* * *
35305700 TTTTCGTGTTTTCTAAAAACTTCCGTGTTTCAAAAA
1 TTTTCATGTTTTC--AAAATTTTCGTGTTTCAAAAA
*
35305736 TTTTCATGTTTTCAAACATTTTCGTGTTTTCAACAA
1 TTTTCATGTTTTCAAA-ATTTTCGTG-TTTCAAAAA
* *
35305772 TTCT-A-GTGTTTCACAAATTTTCGCGTTTCAAAAA
1 TTTTCATGT-TTTCA-AAATTTTCGTGTTTCAAAAA
35305806 AAATAATTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
34 13 0.22
35 21 0.36
36 25 0.42
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.45
Consensus pattern (34 bp):
TTTTCATGTTTTCAAAATTTTCGTGTTTCAAAAA
Found at i:35318971 original size:3 final size:3
Alignment explanation
Indices: 35318963--35319017 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
35318953 CAACAAAAAT
35318963 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35319011 ATA ATA A
1 ATA ATA A
35319018 GGCAAAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35323701 original size:14 final size:12
Alignment explanation
Indices: 35323667--35323706 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 12
35323657 TTCGTCCTAC
35323667 TGCTTATTATTTT
1 TGCTT-TTATTTT
35323680 TGCTTTTATTTT
1 TGCTTTTATTTT
35323692 TGCCCTTTTATTTT
1 TG--CTTTTATTTT
35323706 T
1 T
35323707 TTTGTGCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.36
13 5 0.20
14 11 0.44
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.70
Consensus pattern (12 bp):
TGCTTTTATTTT
Found at i:35325089 original size:14 final size:12
Alignment explanation
Indices: 35325055--35325094 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 12
35325045 TTCGTCCTAC
35325055 TGCTTATTATTTT
1 TGCTT-TTATTTT
35325068 TGCTTTTATTTT
1 TGCTTTTATTTT
35325080 TGCCCTTTTATTTT
1 TG--CTTTTATTTT
35325094 T
1 T
35325095 TTTGTGCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.36
13 5 0.20
14 11 0.44
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.70
Consensus pattern (12 bp):
TGCTTTTATTTT
Found at i:35325623 original size:12 final size:12
Alignment explanation
Indices: 35325606--35325630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35325596 CTTTTTTTAT
35325606 TTTATTTATTCA
1 TTTATTTATTCA
35325618 TTTATTTATTCA
1 TTTATTTATTCA
35325630 T
1 T
35325631 CTATCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:35327355 original size:27 final size:26
Alignment explanation
Indices: 35327294--35327355 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
35327284 TTCTATTTAG
35327294 GGAGATTTACATATAAATAATTAATA
1 GGAGATTTACATATAAATAATTAATA
* *
35327320 GGGGAATTTATATATAAATAATTTATATA
1 GGAG-ATTTACATATAAATAA-TTA-ATA
35327349 -GAGATTT
1 GGAGATTT
35327356 TTCATATCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.10
27 19 0.63
28 5 0.17
29 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.39
Consensus pattern (26 bp):
GGAGATTTACATATAAATAATTAATA
Found at i:35328065 original size:29 final size:28
Alignment explanation
Indices: 35328031--35328094 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 28
35328021 AATAAACACC
*
35328031 AAAAATTTATTTTAAAAATAAAAAAATTA
1 AAAAATATATTTTAAAAATAAAAAAA-TA
*
35328060 AAAAATATATTTTAAAATTAAAAAAATA
1 AAAAATATATTTTAAAAATAAAAAAATA
35328088 AAAAATA
1 AAAAATA
35328095 AAAATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATATATTTTAAAAATAAAAAAATA
Found at i:35329427 original size:29 final size:28
Alignment explanation
Indices: 35329395--35329486 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 28
35329385 AATAAAAATA
35329395 AAAATTACATTTTGACCCTTGAATTTTTC
1 AAAATTACATTTTGACCCTT-AATTTTTC
* *
35329424 AAAATTACATTTT-AACCTTCAATTTTTT
1 AAAATTACATTTTGACCCTT-AATTTTTC
*
35329452 AAAATTACATTTTGGCCC-TATATTTTTC
1 AAAATTACATTTTGACCCTTA-ATTTTTC
35329480 TAAAATT
1 -AAAATT
35329487 GTGATTTTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.02
28 32 0.59
29 21 0.39
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTTAATTTTTC
Found at i:35329455 original size:28 final size:29
Alignment explanation
Indices: 35329395--35329465 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
35329385 AATAAAAATA
* *
35329395 AAAATTACATTTTGACCCTTGAATTTTTC
1 AAAATTACATTTTGAACCTTCAATTTTTC
*
35329424 AAAATTACATTTT-AACCTTCAATTTTTT
1 AAAATTACATTTTGAACCTTCAATTTTTC
35329452 AAAATTACATTTTG
1 AAAATTACATTTTG
35329466 GCCCTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 25 0.66
29 13 0.34
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTACATTTTGAACCTTCAATTTTTC
Found at i:35329726 original size:12 final size:12
Alignment explanation
Indices: 35329701--35329740 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
35329691 GGGGGATTCG
35329701 AAAAAAAA-CAA
1 AAAAAAAAGCAA
35329712 AAAAAAGAAGCAA
1 AAAAAA-AAGCAA
*
35329725 AAAAAAAATCAA
1 AAAAAAAAGCAA
35329737 AAAA
1 AAAA
35329741 CCGAACAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.23
12 11 0.42
13 9 0.35
ACGTcount: A:0.85, C:0.07, G:0.05, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGCAA
Found at i:35330028 original size:16 final size:16
Alignment explanation
Indices: 35330005--35330050 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
35329995 AGAGAAAGAG
35330005 AGAA-GGAAAGAAAAA
1 AGAAGGGAAAGAAAAA
*
35330020 AGAAGGGAAAGAAGAA
1 AGAAGGGAAAGAAAAA
*
35330036 AGAAGAGAAA-AAAAA
1 AGAAGGGAAAGAAAAA
35330051 GAAAAGGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AGAAGGGAAAGAAAAA
Found at i:35330029 original size:28 final size:28
Alignment explanation
Indices: 35329992--35330069 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
35329982 TTGTCGAAAT
*
35329992 AGAAGAGAAAGAGAGAAGGAA-AGAAAAA
1 AGAAGAGAAAGA-AGAAAGAAGAGAAAAA
*
35330020 AGAAGGGAAAGAAGAAAGAAGAGAAAAA
1 AGAAGAGAAAGAAGAAAGAAGAGAAAAA
35330048 A-AAGA-AAAGGAGAGAAAGAAGA
1 AGAAGAGAAA-GA-AGAAAGAAGA
35330070 CGGAGGAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.07
27 12 0.27
28 29 0.66
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
AGAAGAGAAAGAAGAAAGAAGAGAAAAA
Found at i:35330162 original size:15 final size:15
Alignment explanation
Indices: 35330142--35330211 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 15
35330132 TAGGGTTTGA
35330142 AAAGAAGAAGAAAAG
1 AAAGAAGAAGAAAAG
35330157 AAAGAA-AAGAAAA-
1 AAAGAAGAAGAAAAG
35330170 AGAAGAA-AA-AAAAG
1 A-AAGAAGAAGAAAAG
* *
35330184 AAAAAAGGAA-AAAGG
1 AAAGAA-GAAGAAAAG
35330199 AAA-AAGAAGAAAA
1 AAAGAAGAAGAAAA
35330212 AAAAATAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 12 0.26
14 20 0.43
15 15 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAAAG
Found at i:35330171 original size:26 final size:25
Alignment explanation
Indices: 35330141--35330216 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
35330131 CTAGGGTTTG
35330141 AAAAGAAGAAGAAAAGAAAGAAAAGA
1 AAAAGAAGAAGAAAAGAAA-AAAAGA
* *
35330167 AAAAGAAGAAAAAAAAGAAAAAAGGA
1 AAAAGAAG-AAGAAAAGAAAAAAAGA
*
35330193 AAAAGGAAAAAGAAGAA-AAAAAAA
1 AAAA-GAAGAAGAA-AAGAAAAAAA
35330217 TAACATAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 27 0.64
27 15 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (25 bp):
AAAAGAAGAAGAAAAGAAAAAAAGA
Found at i:35330176 original size:23 final size:23
Alignment explanation
Indices: 35330146--35330216 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
35330136 GTTTGAAAAG
35330146 AAGAAGAAAAGAAAGAAAAGAAA
1 AAGAAGAAAAGAAAGAAAAGAAA
*
35330169 AAGAAGAAAAAAAAGAAAAAAGGAAA
1 AAGAAGAAAAGAAAG--AAAA-GAAA
*
35330195 AAGGA-AAAAG-AAGAAAA-AAA
1 AAGAAGAAAAGAAAGAAAAGAAA
35330215 AA
1 AA
35330217 TAACATAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 5 0.12
22 4 0.10
23 14 0.33
24 3 0.07
25 8 0.19
26 8 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AAGAAGAAAAGAAAGAAAAGAAA
Found at i:35330187 original size:9 final size:9
Alignment explanation
Indices: 35330141--35330215 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
35330131 CTAGGGTTTG
35330141 AAAAGAAGAA
1 AAAAGAA-AA
*
35330151 GAAAAGAAAG
1 -AAAAGAAAA
35330161 AAAAGAAAA
1 AAAAGAAAA
*
35330170 AGAAGAAAA
1 AAAAGAAAA
35330179 AAAAG--AA
1 AAAAGAAAA
*
35330186 AAAAG-GAA
1 AAAAGAAAA
*
35330194 AAAGGAAAA
1 AAAAGAAAA
*
35330203 AGAAGAAAA
1 AAAAGAAAA
35330212 AAAA
1 AAAA
35330216 ATAACATAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.13
8 6 0.11
9 32 0.60
10 1 0.02
11 7 0.13
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:35331353 original size:21 final size:20
Alignment explanation
Indices: 35331324--35331362 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
35331314 AACAAGATAG
*
35331324 AAAAACATTCGTCACCAAAC
1 AAAAACATTCATCACCAAAC
*
35331344 AAAAATCATTTATCACCAA
1 AAAAA-CATTCATCACCAA
35331363 GCTTTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAACATTCATCACCAAAC
Found at i:35337104 original size:104 final size:104
Alignment explanation
Indices: 35336920--35337175 Score: 289
Period size: 104 Copynumber: 2.5 Consensus size: 104
35336910 CGTTTGATTC
* * * * * *
35336920 TCACAATTGATTTTATTAAGGTTAGCTTATTTAAAATCGCAGTCTCTGATCATGTGAGTTAGTTA
1 TCACAACTGATTTTATTAAGGCTAGCTAATTTAAAATCGCAGCCTCCGATCATGTGAGTTAGCTA
* * * * *
35336985 ATTTAAGATTACAACTCCTAACAGCTTATTGACCTACGT
66 ATTTAAGATCACAACTCCTAACAGCTCACTGACATACAT
* * * * *
35337024 TCACAACTGATTTTACTAAGGCTAGCTGATTTAAGATCGCAACCTCCGATTAT-TCGAGTTAGCT
1 TCACAACTGATTTTATTAAGGCTAGCTAATTTAAAATCGCAGCCTCCGATCATGT-GAGTTAGCT
* * * * * *
35337088 GATTTAAGATCGCAACTCTTTATAGCTCGCTGACATACAT
65 AATTTAAGATCACAACTCCTAACAGCTCACTGACATACAT
*
35337128 TCACAGCTGATTTTATTAAGGCTAGCTAATTTAAAATCGCAGCCTCCG
1 TCACAACTGATTTTATTAAGGCTAGCTAATTTAAAATCGCAGCCTCCG
35337176 GTTTTTCGTA
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
103 1 0.01
104 124 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (104 bp):
TCACAACTGATTTTATTAAGGCTAGCTAATTTAAAATCGCAGCCTCCGATCATGTGAGTTAGCTA
ATTTAAGATCACAACTCCTAACAGCTCACTGACATACAT
Found at i:35341257 original size:28 final size:29
Alignment explanation
Indices: 35341199--35341257 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
35341189 CAGCAAAATT
* *
35341199 TCCAATGTGGTATCTATAATTTCAATTTG
1 TCCAAAGTGGTACCTATAATTTCAATTTG
* *
35341228 TCCAAAGTGGTACCT-TACTTTCATTTTG
1 TCCAAAGTGGTACCTATAATTTCAATTTG
35341256 TC
1 TC
35341258 TATCTATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (29 bp):
TCCAAAGTGGTACCTATAATTTCAATTTG
Found at i:35342083 original size:14 final size:13
Alignment explanation
Indices: 35342049--35342085 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
35342039 AGAGAAGATT
35342049 ATTAAAATTGAAA
1 ATTAAAATTGAAA
35342062 ATTGAAAATTGAAA
1 ATT-AAAATTGAAA
35342076 ATGTAAAATT
1 AT-TAAAATT
35342086 AATTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (13 bp):
ATTAAAATTGAAA
Found at i:35342100 original size:7 final size:7
Alignment explanation
Indices: 35342052--35342077 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35342042 GAAGATTATT
35342052 AAAATTG
1 AAAATTG
35342059 AAAATTG
1 AAAATTG
35342066 AAAATTG
1 AAAATTG
35342073 AAAAT
1 AAAAT
35342078 GTAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:35351879 original size:50 final size:53
Alignment explanation
Indices: 35351772--35351882 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
35351762 GTGTACATTG
* *
35351772 ATATATATTATGAAAATGTATGTATGTATATATATAACAATTTGAAATATAAT
1 ATATATATTATGAAAATGTATGTATATATATATATAACAAGTTGAAATATAAT
** *
35351825 ATATATATATATGAGTATGTATGTATATATATATA-AATAAGTTGTAAA-A-AAT
1 ATATATAT-TATGAAAATGTATGTATATATATATATAACAAGTTG-AAATATAAT
35351877 ATATAT
1 ATATAT
35351883 GTGTACATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 9 0.18
53 16 0.31
54 26 0.51
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (53 bp):
ATATATATTATGAAAATGTATGTATATATATATATAACAAGTTGAAATATAAT
Found at i:35351929 original size:121 final size:122
Alignment explanation
Indices: 35351715--35351942 Score: 440
Period size: 121 Copynumber: 1.9 Consensus size: 122
35351705 GAAAGGGATG
35351715 TGAGTATGTATGTATATATATATAAATAAGTTGTAAAAAATATATATGTGTACATTGATATATAT
1 TGAGTATGTATGTATATATATATAAATAAGTTGTAAAAAATATATATGTGTACATTGATATATAT
35351780 TATGAAAATGTATGTATGTATATATATAAC-AATTTGAAATATAATATATATATATA
66 TATGAAAATGTATGTATGTATATATATAACAAATTTGAAATATAATATATATATATA
35351836 TGAGTATGTATGTATATATATATAAATAAGTTGTAAAAAATATATATGTGTACATTGATATATAT
1 TGAGTATGTATGTATATATATATAAATAAGTTGTAAAAAATATATATGTGTACATTGATATATAT
35351901 TATGAAAATGTATGTATGTATATATATAACTAAATTTGAAAT
66 TATGAAAATGTATGTATGTATATATATAAC-AAATTTGAAAT
35351943 TAAAAGAGGT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
121 95 0.90
123 10 0.10
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (122 bp):
TGAGTATGTATGTATATATATATAAATAAGTTGTAAAAAATATATATGTGTACATTGATATATAT
TATGAAAATGTATGTATGTATATATATAACAAATTTGAAATATAATATATATATATA
Found at i:35361334 original size:26 final size:26
Alignment explanation
Indices: 35361305--35361384 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
35361295 ATGGATGCGA
35361305 AAAATTTACTTATTTAAAAGATATTT
1 AAAATTTACTTATTTAAAAGATATTT
* ****
35361331 AAAATTTACTTATTTAAATGGATGCCA
1 AAAATTTACTTATTTAAA-AGATATTT
35361358 AAAATTTACTTATTTAAAAGATATTT
1 AAAATTTACTTATTTAAAAGATATTT
35361384 A
1 A
35361385 GCTATCTCAG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (26 bp):
AAAATTTACTTATTTAAAAGATATTT
Found at i:35361334 original size:27 final size:27
Alignment explanation
Indices: 35361304--35361384 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
35361294 AATGGATGCG
35361304 AAAAATTTACTTATTTAAAAGATATTT
1 AAAAATTTACTTATTTAAAAGATATTT
* ***
35361331 -AAAATTTACTTATTTAAATGGAT-GCC
1 AAAAATTTACTTATTTAAA-AGATATTT
35361357 AAAAATTTACTTATTTAAAAGATATTT
1 AAAAATTTACTTATTTAAAAGATATTT
35361384 A
1 A
35361385 GCTATCTCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (27 bp):
AAAAATTTACTTATTTAAAAGATATTT
Found at i:35361346 original size:15 final size:15
Alignment explanation
Indices: 35361305--35361348 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
35361295 ATGGATGCGA
35361305 AAAATTTACTTATTT
1 AAAATTTACTTATTT
*
35361320 AAAA--GA--TATTT
1 AAAATTTACTTATTT
35361331 AAAATTTACTTATTT
1 AAAATTTACTTATTT
35361346 AAA
1 AAA
35361349 TGGATGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 9 0.39
13 2 0.09
15 12 0.52
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (15 bp):
AAAATTTACTTATTT
Found at i:35363433 original size:7 final size:7
Alignment explanation
Indices: 35363421--35363446 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35363411 TAGTCGATTG
35363421 GTATTTA
1 GTATTTA
35363428 GTATTTA
1 GTATTTA
35363435 GTATTTA
1 GTATTTA
35363442 GTATT
1 GTATT
35363447 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:35364701 original size:21 final size:22
Alignment explanation
Indices: 35364668--35366267 Score: 1472
Period size: 21 Copynumber: 74.2 Consensus size: 22
35364658 GATATATAAT
*
35364668 TTAA-TTAACAAACCTTAAACCC
1 TTAACTTAA-AAACCCTAAACCC
*
35364690 -TAACTTCAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* * *
35364710 TTAAATTTAAAACTCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35364732 TTAACTTAAAAACCATAAA-CC
1 TTAACTTAAAAACCCTAAACCC
* *
35364753 TTCAACTTCAAAACCCTAACCCTAACCA
1 TT-AACTTAAAAACCCT-A----AACCC
*
35364781 TTAAATTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35364802 TTAATTTAAAAACCATAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35364824 GTAACTTAAAAACCCT-AATCC
1 TTAACTTAAAAACCCTAAACCC
35364845 TTAA-TTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35364865 TTAAATTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
* *
35364886 TTAACTTAATAACCCT-AACTC
1 TTAACTTAAAAACCCTAAACCC
35364907 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* * *
35364928 TTAAATTTAAAACCTTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35364950 TTAACTTCAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35364971 TTAAATTTAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35364993 TTAACTTAAAAACCATAAA-CC
1 TTAACTTAAAAACCCTAAACCC
* *
35365014 TTCAACTTCAAAACCCTAACCCTAACCA
1 TT-AACTTAAAAACCCT-A----AACCC
*
35365042 TTAAATTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365063 TTAATTTAAAAACCATAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365085 GTAACTTAAAAACCCT-AATCC
1 TTAACTTAAAAACCCTAAACCC
35365106 TTAA-TTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365126 TTAAATTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
* *
35365147 TTAACTTAATAACCCT-AACTC
1 TTAACTTAAAAACCCTAAACCC
35365168 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* * *
35365189 TTAAATTTAAAACCTTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365211 TTAACTTCAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* * *
35365232 TTAAATTTAAAACTCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365254 TTAACTTAAAAACCATAAACCT
1 TTAACTTAAAAACCCTAAACCC
35365276 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
** *
35365297 -TAACCTTAACCATTAA-ATTAAAAATCC
1 TTAA-CTTAA--A--AACCCT--AAACCC
*
35365324 TAAACCTTATATTAAAAACCCT-AACCC
1 TTAA-CTT-----AAAAACCCTAAACCC
* *
35365351 TTAACTTTAAAACTCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365372 TTAAATTAAAAACCAT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365393 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365414 TTAACTTAATAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365435 TTACCTTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365457 TTAAATTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
* *
35365478 TTAACTTAATAATCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365499 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* * **
35365520 TTAAATTTAAAACCCT-AACTA
1 TTAACTTAAAAACCCTAAACCC
* **
35365541 TTAAATTAAAAACAATAAA-CC
1 TTAACTTAAAAACCCTAAACCC
*
35365562 TTAAATTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365583 TTAACTTAAAAACACT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365604 TTAA-TTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365624 TTAACTTAAAAACACT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365645 TTAA-TTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365665 TTAACTTAAAAACCCTAACACTAACC
1 TTAACTTAAAAACCCTAA-AC---CC
*
35365691 ATTGAA-TTAAAAACACTAAA-CC
1 -TT-AACTTAAAAACCCTAAACCC
* *
35365713 TTAAATTAAAAACCCT-AACCT
1 TTAACTTAAAAACCCTAAACCC
35365734 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365755 TTAAATTAAAATCCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
*
35365776 TTAACTTAATAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365797 TTAACTTAAAAACCATAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365819 TTAAATTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
35365840 TTAACTT---AACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35365858 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35365879 TTAAATTAAAAACCCT-AATCC
1 TTAACTTAAAAACCCTAAACCC
*
35365900 TTAACTTAAAAACTCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35365921 TTAA-TT-AAAACCCT-AACCT
1 TTAACTTAAAAACCCTAAACCC
* *
35365940 TTAAATTAAAAACCGTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
*
35365961 TTAACTTAATAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
35365982 TTAACTTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
*
35366004 TTAACTTAAAAACACT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35366025 TTAACTTAAAAACCCTAAACCT
1 TTAACTTAAAAACCCTAAACCC
*
35366047 TTAACTTAAAAACCCTAATCCTAACCA
1 TTAACTTAAAAACCCT-A----AACCC
*
35366074 TTAAATTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
*
35366095 TTAAATTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
* *
35366116 TTAACTTAAAAAGCCT-AACTC
1 TTAACTTAAAAACCCTAAACCC
* ***
35366137 TTAACTT---AACCATTAAATTA
1 TTAACTTAAAAACC-CTAAACCC
**
35366157 AAAACATTAAAAACCCTAAA-CC
1 TTAAC-TTAAAAACCCTAAACCC
* *
35366179 TTAAATTAAAAGCCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35366200 TTAACTTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35366221 TTAAATTAAAAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
*
35366242 TTAACTTAATAACCCT-AACCC
1 TTAACTTAAAAACCCTAAACCC
35366263 TTAAC
1 TTAAC
35366268 CCTAAAACCT
Statistics
Matches: 1323, Mismatches: 171, Indels: 169
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.00
18 18 0.01
19 16 0.01
20 112 0.08
21 784 0.59
22 275 0.21
23 10 0.01
24 5 0.00
25 2 0.00
26 7 0.01
27 72 0.05
28 14 0.01
29 2 0.00
30 1 0.00
31 1 0.00
33 2 0.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACCC
Found at i:35364856 original size:63 final size:64
Alignment explanation
Indices: 35364670--35366312 Score: 1682
Period size: 63 Copynumber: 25.8 Consensus size: 64
35364660 TATATAATTT
* * * * *
35364670 AATTAACAAACCTTAAACCC-TAACTTCAAAACCCTAACCCTTAAATTTAAAACTCTAAACCCTT
1 AATTAA-AAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTT
35364734 A
64 A
* * *
35364735 ACTTAAAAACCATAAA-CCTTCAACTTCAAAACCCTAACCCTAACCATTAAATTAAAAACCCTAA
1 AATTAAAAACCATAAACCCTT-AACTT--AAA----AACCCTAACCCTTAACTTAAAAACCCTAA
35364799 CCCTTA
59 CCCTTA
* * *
35364805 ATTTAAAAACCATAAACCCGTAACTTAAAAACCCTAATCCTTAA-TTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * *
35364868 AATTAAAAACCCTAAA-CCTTAACTTAATAACCCTAACTCTTAACTTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * * * *
35364931 AATTTAAAACCTTAAACCCTTAACTTCAAAACCCTAACCCTTAAATTTAAAACCCTAAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTA
* * *
35364996 ACTTAAAAACCATAAA-CCTTCAACTTCAAAACCCTAACCCTAACCATTAAATTAAAAACCCTAA
1 AATTAAAAACCATAAACCCTT-AACTT--AAA----AACCCTAACCCTTAACTTAAAAACCCTAA
35365060 CCCTTA
59 CCCTTA
* * *
35365066 ATTTAAAAACCATAAACCCGTAACTTAAAAACCCTAATCCTTAA-TTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * *
35365129 AATTAAAAACCCTAAA-CCTTAACTTAATAACCCTAACTCTTAACTTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * * * * *
35365192 AATTTAAAACCTTAAACCCTTAACTTCAAAACCCTAACCCTTAAATTTAAAACTCTAAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTA
* *
35365257 ACTTAAAAACCATAAACCTTTAACTTAAAAACCCTAACCC-TAACCTT---AA-CC--A---TTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAA-CTTAAAAACCCTAACCCTTA
* *
35365312 AATTAAAAATCC-TAAA-CCTTATA-TTAAAAACCCTAACCCTTAACTTTAAAACTCTAACCCTT
1 AATTAAAAA-CCATAAACCCTTA-ACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTT
35365374 A
64 A
*
35365375 AATTAAAAACCAT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAATAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
** * * * * *
35365438 CCTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCTTAACTTAATAATCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * * * ** * ** *
35365502 ACTTAAAAACCCT-AACCCTTAAATTTAAAACCCTAACTATTAAATTAAAAACAATAAACCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* *
35365565 AATTAAAAACCCT-AACCCTTAACTTAAAAACACTAACCCTTAA-TTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
*
35365627 ACTTAAAAA-CACT-AACCCTTAA-TTAAAAACCCTAACCCTTAACTTAAAAACCCTAACACTAA
1 AATTAAAAACCA-TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-A-AC---
*
35365689 CCATTG
60 CC-TTA
* *
35365695 AATTAAAAA-CACTAAA-CCTTAAATTAAAAACCCTAACCTTTAACTTAAAAACCCTAACCCTTA
1 AATTAAAAACCA-TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * * *
35365758 AATTAAAATCCCTAAA-CCTTAACTTAATAACCCTAACCCTTAACTTAAAAACCATAAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTA
*
35365822 AATTAAAAACCCTAAA-CCTTAACTT---AACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * * *
35365882 AATTAAAAACCCT-AATCCTTAACTTAAAAACTCTAACCCTTAA-TT-AAAACCCTAACCTTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* * *
35365943 AATTAAAAACCGTAAA-CCTTAACTTAATAACCCTAAACCTTAACTTAAAAACCCTAAACCCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTA
* *
35366007 ACTTAAAAA-CACT-AACCCTTAACTTAAAAACCCTAAACCTTTAACTTAAAAACCCTAATCCTA
1 AATTAAAAACCA-TAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAA--C--
35366070 ACCATTA
60 -CC-TTA
* * * *
35366077 AATTAAAAACCCTAAA-CCTTAAATTAAAAACCCTAACCCTTAACTTAAAAAGCCTAACTCTTA
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* ***** * * *
35366140 ACTT---AACCATTAAATTAAAAACATTAAAAACCCTAAACCTTAAATTAAAAGCCCTAACCCTT
1 AATTAAAAACCA-TAAACCCTTAAC-TTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTT
35366202 A
64 A
* * * *
35366203 ACTTAAAAACCCT-AACCCTTAAATTAAAAACCCTAACCCTTAACTTAATAACCCTAACCC---
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
* *
35366263 --TT---AACCCTAAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
1 AATTAAAAACCATAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACC
35366313 TTAAGGTTTT
Statistics
Matches: 1354, Mismatches: 145, Indels: 166
0.81 0.09 0.10
Matches are distributed among these distances:
54 23 0.02
55 25 0.02
56 21 0.02
57 20 0.01
58 4 0.00
59 2 0.00
60 35 0.03
61 102 0.08
62 106 0.08
63 429 0.32
64 246 0.18
65 101 0.07
66 5 0.00
67 9 0.01
68 27 0.02
69 56 0.04
70 85 0.06
71 58 0.04
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (64 bp):
AATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
Found at i:35364916 original size:42 final size:42
Alignment explanation
Indices: 35364668--35366312 Score: 1661
Period size: 42 Copynumber: 38.8 Consensus size: 42
35364658 GATATATAAT
* *
35364668 TTAA-TTAACAAACCTTAAACCC-TAACTTCAAAACCCTAACCC
1 TTAACTTAA-AAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* * * * *
35364710 TTAAATTTAAAACTCTAAACCCTTAACTTAAAAACCATAAACC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* *
35364753 TTCAACTTCAAAACCCTAACCCTAACCATTAAATTAAAAACCCTAACCC
1 TT-AACTT--AAA----AACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * *
35364802 TTAATTTAAAAACCATAAACCCGTAACTTAAAAACCCTAATCC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* *
35364845 TTAA-TTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35364886 TTAACTTAATAACCCTAACTCTTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * *
35364928 TTAAATTTAAAACCTTAAACCCTTAACTTCAAAACCCTAACCC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* * * *
35364971 TTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCATAAACC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* *
35365014 TTCAACTTCAAAACCCTAACCCTAACCATTAAATTAAAAACCCTAACCC
1 TT-AACTT--AAA----AACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * *
35365063 TTAATTTAAAAACCATAAACCCGTAACTTAAAAACCCTAATCC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* *
35365106 TTAA-TTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35365147 TTAACTTAATAACCCTAACTCTTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * *
35365189 TTAAATTTAAAACCTTAAACCCTTAACTTCAAAACCCTAACCC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* * * * *
35365232 TTAAATTTAAAACTCTAAACCCTTAACTTAAAAACCATAAACCT
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCT-AACCC
35365276 TTAACTTAAAAACCCTAACCC-TAACCTT---AA-CC--A---
1 TTAACTTAAAAACCCTAACCCTTAA-CTTAAAAACCCTAACCC
* * *
35365309 TTAAATTAAAAATCCTAAACCTTATA-TTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTA-ACTTAAAAACCCTAACCC
* * * *
35365351 TTAACTTTAAAACTCTAACCCTTAAATTAAAAACCATAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
35365393 TTAACTTAAAAACCCTAACCCTTAACTTAATAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * *
35365435 TTACCTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
* *
35365478 TTAACTTAATAATCCTAACCCTTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * ** * ** *
35365520 TTAAATTTAAAACCCTAACTATTAAATTAAAAACAATAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35365562 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACACTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
35365604 TTAA-TTAAAAACCCTAACCCTTAACTTAAAAACACTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
35365645 TTAA-TTAAAAACCCTAACCCTTAACTTAAAAACCCTAACACTAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-A-AC---CC
* * * *
35365691 ATTGAA-TTAAAAACACTAAACCTTAAATTAAAAACCCTAACCT
1 -TT-AACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * *
35365734 TTAACTTAAAAACCCTAACCCTTAAATTAAAATCCCTAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35365776 TTAACTTAATAACCCTAACCCTTAACTTAAAAACCATAAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCC
* *
35365819 TTAAATTAAAAACCCTAAACCTTAACTT---AACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35365858 TTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAATCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35365900 TTAACTTAAAAACTCTAACCCTTAA-TT-AAAACCCTAACCT
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * * *
35365940 TTAAATTAAAAACCGTAAACCTTAACTTAATAACCCTAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
35365982 TTAACTTAAAAACCCTAAACCCTTAACTTAAAAACACTAACCC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCC
*
35366025 TTAACTTAAAAACCCTAAACCTTTAACTTAAAAACCCTAATCCTAACC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAA--C---CC
* * *
35366073 ATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCC
1 -TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* * * *
35366116 TTAACTTAAAAAGCCTAACTCTTAACTT---AACCATTAA--A
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACC-CTAACCC
* * *
35366154 TTAAAAACATTAAAAACCCTAAACCTTAAATTAAAAGCCCTAACCC
1 TT---AAC-TTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
35366200 TTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
* *
35366242 TTAACTTAATAACCCTAA-CC----CTT---AACCCTAAAACC
1 TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCC
35366277 TTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
1 TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACC
35366313 TTAAGGTTTT
Statistics
Matches: 1349, Mismatches: 176, Indels: 154
0.80 0.10 0.09
Matches are distributed among these distances:
33 20 0.01
34 8 0.01
35 20 0.01
36 5 0.00
37 6 0.00
38 2 0.00
39 36 0.03
40 42 0.03
41 141 0.10
42 540 0.40
43 338 0.25
44 32 0.02
45 4 0.00
46 17 0.01
47 3 0.00
48 61 0.05
49 63 0.05
50 11 0.01
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (42 bp):
TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
Found at i:35365669 original size:27 final size:27
Alignment explanation
Indices: 35365639--35365716 Score: 62
Period size: 27 Copynumber: 3.1 Consensus size: 27
35365629 TTAAAAACAC
35365639 TAACCCTTAATTAAAAACCCTAACCCT
1 TAACCCTTAATTAAAAACCCTAACCCT
*
35365666 TAA--C----TTAAAAACCCTAACAC-
1 TAACCCTTAATTAAAAACCCTAACCCT
* * *
35365686 TAACCATTGAATTAAAAACACTAAACCT
1 TAACCCTT-AATTAAAAACCCTAACCCT
35365714 TAA
1 TAA
35365717 ATTAAAAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
20 3 0.08
21 15 0.39
25 1 0.03
27 16 0.42
28 3 0.08
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (27 bp):
TAACCCTTAATTAAAAACCCTAACCCT
Found at i:35366293 original size:22 final size:22
Alignment explanation
Indices: 35366265--35366312 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
35366255 CCTAACCCTT
35366265 AACCCTAAAACCTTAACTTAAA
1 AACCCTAAAACCTTAACTTAAA
*
35366287 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAAACCTTAACTTAAA
35366309 AACC
1 AACC
35366313 TTAAGGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCTAAAACCTTAACTTAAA
Found at i:35366520 original size:114 final size:114
Alignment explanation
Indices: 35366320--35366704 Score: 662
Period size: 114 Copynumber: 3.4 Consensus size: 114
35366310 ACCTTAAGGT
* * *
35366320 TTTTACTAACCATTAACACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGAAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
* *
35366385 AAATGTTTTGACTAGTACTAACAATTAATAATTTGATATAATTCGATAA
66 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTCGATAA
*
35366434 TTTTACTAACCATTAATACAATTATTAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
*
35366499 AAATATTTTGACTGGCACTAACAATTAATAATTTGATATAATTCGATAA
66 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTCGATAA
* *
35366548 TTTTACTAACCATTAATACAATTATTACTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
*
35366613 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTCGATAA
*
35366662 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTTTACA
35366705 AATATAATTT
Statistics
Matches: 258, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
114 239 0.93
115 19 0.07
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (114 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTCGATAA
Found at i:35369852 original size:125 final size:124
Alignment explanation
Indices: 35369534--35369926 Score: 669
Period size: 124 Copynumber: 3.2 Consensus size: 124
35369524 CCCAAACATG
*
35369534 CTACTGTAGCAAAAGTGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
35369599 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
* *
35369658 GTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35369723 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGGAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGAC
* * *
35369783 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35369848 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
*
35369907 CTGCTGTAGCAAAAGTGCGT
1 CTACTGTAGCAAAAGTGCGT
35369927 ACATGTGGAT
Statistics
Matches: 251, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 136 0.54
125 115 0.46
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
Found at i:35370334 original size:3 final size:3
Alignment explanation
Indices: 35370300--35370422 Score: 99
Period size: 3 Copynumber: 41.0 Consensus size: 3
35370290 ATAATGATGT
* * * * *
35370300 TAA TAG TAA TAA -AA TAG CAA TAA -AA CTAA TAA TAA TAC TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
*
35370344 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA -AA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *** *
35370392 TTA GCT TAA TAA TAA TAA TAAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
35370423 CGAGACTAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
2 6 0.06
3 81 0.86
4 7 0.07
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:35373586 original size:24 final size:24
Alignment explanation
Indices: 35373542--35373596 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35373532 AAGCTTATGC
* * *
35373542 GAGCCAATAACGGGTAGCTCCGAA
1 GAGCCATTAACGGGAAACTCCGAA
*
35373566 GAGCCATTAACGGGAAACTCCGGA
1 GAGCCATTAACGGGAAACTCCGAA
*
35373590 TAGCCAT
1 GAGCCAT
35373597 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGCCATTAACGGGAAACTCCGAA
Found at i:35373673 original size:26 final size:26
Alignment explanation
Indices: 35373622--35373720 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
35373612 AGCGAGCCGT
* * *
35373622 ATCGGGAAGCTC-TGGAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCCTTTA
* *
35373647 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACGAAGAGCCTTTA
* * *
35373673 ACCGGGAAGCTTATGAAGAGCCTTTA
1 ATCGGGAAGCTCACGAAGAGCCTTTA
35373699 ATCGGGAAGCTCACGAAGAGCC
1 ATCGGGAAGCTCACGAAGAGCC
35373721 ATATATCGAG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
25 11 0.18
26 49 0.82
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.18
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCCTTTA
Found at i:35373728 original size:26 final size:26
Alignment explanation
Indices: 35373499--35373737 Score: 83
Period size: 26 Copynumber: 9.6 Consensus size: 26
35373489 ATCCGGGTTG
* *
35373499 TATAACGGGAAGCTCA-TAAGAGCCA
1 TATATCGGGAAGCTCACGAAGAGCCA
* * * *
35373524 TA-ATTGGGAAGCTTATG-CGAGCCA
1 TATATCGGGAAGCTCACGAAGAGCCA
* *
35373548 -ATAACGGGTAGCTC-CGAAGAGCCA
1 TATATCGGGAAGCTCACGAAGAGCCA
* * * *
35373572 T-TAACGGGAAACTC-CGGATAGCCA
1 TATATCGGGAAGCTCACGAAGAGCCA
*** * * *
35373596 TATATCAAAAAGTTCAAG-CGAGCC-
1 TATATCGGGAAGCTCACGAAGAGCCA
* * *
35373620 -GTATCGGGAAGCTC-TGGAGAGCCA
1 TATATCGGGAAGCTCACGAAGAGCCA
* *
35373644 T-TAATCAGGAAGCTCACAAAGAGCC-
1 TAT-ATCGGGAAGCTCACGAAGAGCCA
* * * *
35373669 TTTAACCGGGAAGCTTATGAAGAGCC-
1 TAT-ATCGGGAAGCTCACGAAGAGCCA
*
35373695 TTTAATCGGGAAGCTCACGAAGAGCCA
1 TAT-ATCGGGAAGCTCACGAAGAGCCA
* *
35373722 TATATCGAGACGCTCA
1 TATATCGGGAAGCTCA
35373738 TAAGAGCTAT
Statistics
Matches: 155, Mismatches: 46, Indels: 25
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.01
23 16 0.10
24 51 0.33
25 25 0.16
26 60 0.39
27 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (26 bp):
TATATCGGGAAGCTCACGAAGAGCCA
Found at i:35387044 original size:11 final size:11
Alignment explanation
Indices: 35387030--35387092 Score: 78
Period size: 11 Copynumber: 5.9 Consensus size: 11
35387020 ACTTTTTTAA
35387030 TTTTAAAATAT
1 TTTTAAAATAT
35387041 TTTTAAAATAT
1 TTTTAAAATAT
35387052 TTTTAAAATACT
1 TTTTAAAATA-T
**
35387064 TTTTTTAAT-T
1 TTTTAAAATAT
35387074 TTTT-AAA-AT
1 TTTTAAAATAT
35387083 TTTTAAAATA
1 TTTTAAAATA
35387093 AAAATGGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
9 7 0.16
10 8 0.18
11 22 0.49
12 8 0.18
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:35387085 original size:42 final size:41
Alignment explanation
Indices: 35387000--35387092 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 41
35386990 TTTTTTTTAA
* *
35387000 TTTTAAAATATTTTTTACATACTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTAAAATAT
*
35387041 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAA-AT
1 TTTTAAAATATTTTTAAAATAC-TTTTTTAA-TTTTAAAATAT
35387083 TTTTAAAATA
1 TTTTAAAATA
35387093 AAAATGGGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
41 20 0.43
42 20 0.43
43 7 0.15
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (41 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAATTTTAAAATAT
Found at i:35387524 original size:17 final size:17
Alignment explanation
Indices: 35387502--35387534 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35387492 TATTTAATTC
35387502 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
35387519 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
35387535 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:35405388 original size:44 final size:44
Alignment explanation
Indices: 35405282--35405760 Score: 254
Period size: 44 Copynumber: 11.0 Consensus size: 44
35405272 AATATTAGAG
*
35405282 ATCTTATCTCCCTG-AGATTACGGTGGAGCAGATC---G-CATCAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-CAA
* * * * *
35405323 GTCTTAACTCCCTG-AGATTACAGAGGAGCAGATCGGAGCCACAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * * *
35405367 ACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * * * *
35405411 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA---CAA
* * * * * *
35405457 ATCTTATCTTCCTGAGGTTATAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * *
35405501 ATCTTATCTTCCTG-AGTTTACAGCGGAGCAGATCGAAGACAC-T
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * *
35405544 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATA-AA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * * * * *
35405586 GGATCTTATCTCTCTGAATTTATAGTAGAGTAGATC---G-CATCAG
1 --ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA-CAA
* * * ** *
35405629 GTCTTATCTCCCTGATA-TTACAATGGAGCAGACCGAAGGATTTCAG
1 ATCTTATCTCCCTGA-AGTTACAGTGGAGCAGATCGAA-GA-CACAA
* * * * * *
35405675 ATCTTATCTCCCTGAGGTTACAGTGGAACAGATTGAAGCCAGAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* *
35405719 ATCTTATCTCCCTG-AGATTGCAGCGGAGCAGATCGAAGACAC
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAC
35405761 TATCCTATCC
Statistics
Matches: 327, Mismatches: 85, Indels: 49
0.71 0.18 0.11
Matches are distributed among these distances:
41 56 0.17
42 5 0.02
43 30 0.09
44 162 0.50
45 6 0.02
46 67 0.20
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
Found at i:35405522 original size:134 final size:133
Alignment explanation
Indices: 35405324--35405571 Score: 300
Period size: 134 Copynumber: 1.9 Consensus size: 133
35405314 TCGCATCAAG
*
35405324 TCTTAACTCCCTGAGATTACAGAGGAGCAGATCGGAGCCACAAACCTTATCTCCCTGAAGTTACA
1 TCTTAACTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTACA
* * * * * * * *
35405389 GTGGGGCAGGTTGAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
66 GCGGAGCAGATCGAAGACACAA-TCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTT
35405454 CAGA
130 CAGA
* * * * * * * * *
35405458 TCTTATCTTCCTGAGGTTATAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTG-AGTTTAC
1 TCTTAACTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAG-TTAC
*
35405522 AGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAG
65 AGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAG
35405572 CGGATTAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
133 27 0.29
134 67 0.71
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
TCTTAACTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTACA
GCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTC
AGA
Found at i:35407604 original size:17 final size:17
Alignment explanation
Indices: 35407582--35407614 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35407572 TATTTAATTC
35407582 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
35407599 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
35407615 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:35415365 original size:45 final size:45
Alignment explanation
Indices: 35415301--35415785 Score: 335
Period size: 45 Copynumber: 10.8 Consensus size: 45
35415291 TAGTGAAACC
**
35415301 ACAAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* ** *
35415346 ACAAATCTTATCTCTCTGAAGTTGCAGTATAGCGGATTGAAGATA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
35415391 GCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTACATA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATA
* * *
35415440 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAG-TT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
35415484 ACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACT--A-A-A
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** ** * * *
35415525 ACTAAATCCTATAC-CTCTGAAGTTATAGTGG-GTTGGATTAAATCAAGTC
1 AC-AAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAA--GA-TA
* * * *
35415574 ACAAATCTTATCTCCCTGAAGTTACAATGAAGCAGATTGAAGCT-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
35415618 ACAAACCTCATCTCCCTAAAGTTGCAATGTG-GCAGATTGAAGATA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTGAAGATA
* * * * * * *
35415663 GCGAATATTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGCT-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* **
35415707 ACAAATCTTATTTCCCTGAAGTTTG-AGTGGATTAGATTGAAGATA
1 ACAAATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGATA
*** *
35415752 GTGAATCTTATCTCCCTGAAGTTGCAGTGCAGCA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
35415786 AACTGAAGCA
Statistics
Matches: 340, Mismatches: 77, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
41 3 0.01
42 25 0.07
43 1 0.00
44 107 0.31
45 135 0.40
47 2 0.01
48 27 0.08
49 40 0.12
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:35415631 original size:44 final size:44
Alignment explanation
Indices: 35415574--35415777 Score: 178
Period size: 44 Copynumber: 4.6 Consensus size: 44
35415564 AAATCAAGTC
*
35415574 ACAAATCTTATCTCCCTGAAGTTACAATGAAGCAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCT
* * * ** *
35415618 ACAAACCTCATCTCCCTAAAGTTGCAATGTGGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCT
* * * * *
35415662 AGCGAATATTATCTCTCTGAAGTTGCAGT-AGAGTAGATTGAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAATGA-AGCAGATTGAAGCT
* * * ** *
35415707 ACAAATCTTATTTCCCTGAAGTTTG-AGTGGATTAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAG-TTGCAATGAAGCAGATTGAAGCT
**
35415751 AGTGAATCTTATCTCCCTGAAGTTGCA
1 A-CAAATCTTATCTCCCTGAAGTTGCA
35415778 GTGCAGCAAA
Statistics
Matches: 126, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
44 73 0.58
45 53 0.42
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCT
Found at i:35415744 original size:89 final size:89
Alignment explanation
Indices: 35415304--35415779 Score: 362
Period size: 89 Copynumber: 5.3 Consensus size: 89
35415294 TGAAACCACA
** * * *
35415304 AATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCT-ACAAATCTTATCTCCCTGAAGTT
** * *
35415369 GCAGTATAGCGGATTGAAGATAGCG
65 GCAGTGGATCAGATTGAAGATAGCG
* * *
35415394 AATCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTACATAACAAATCTTATCTCCCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG---C-T-ACAAATCTTATCTCCCTGA
* * *
35415459 AGTTGTAGTGGAACAGATTGAAGTTA-C-
61 AGTTGCAGTGGATCAGATTGAAGATAGCG
* * * * * * * *
35415486 AAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAACT--AAATCCTATAC-CTCTGAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAGT
** * ** *
35415548 TATAGTGGGTTGGATT-AA-ATCAAGTCACA
64 TGCAGTGGATCAGATTGAAGAT--AG---CG
* * * * *
35415577 AATCTTATCTCCCTGAAGTTACAAT-GAAGCAGATTGAAGCTACAAACCTCATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
35415641 GCAATGTGG--CAGATTGAAGATAGCG
65 GC-A-GTGGATCAGATTGAAGATAGCG
* * * *
35415666 AATATTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAG-TT
* *
35415731 G-AGTGGATTAGATTGAAGATAGTG
65 GCAGTGGATCAGATTGAAGATAGCG
35415755 AATCTTATCTCCCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
35415780 GCAGCAAACT
Statistics
Matches: 304, Mismatches: 57, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
84 1 0.00
85 2 0.01
86 28 0.09
87 5 0.02
88 1 0.00
89 91 0.30
90 71 0.23
91 3 0.01
92 22 0.07
93 34 0.11
94 46 0.15
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
CAGTGGATCAGATTGAAGATAGCG
Found at i:35419324 original size:12 final size:13
Alignment explanation
Indices: 35419302--35419330 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35419292 TTTTCTAAGT
35419302 AAAAACGCAAAAA
1 AAAAACGCAAAAA
35419315 AAAAAC-CAAAAA
1 AAAAACGCAAAAA
35419327 AAAA
1 AAAA
35419331 GAGTGAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAACGCAAAAA
Found at i:35422304 original size:19 final size:19
Alignment explanation
Indices: 35422280--35422319 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
35422270 ATGTGGGAAT
35422280 AACATAT-AGATTTATTTTA
1 AACATATGA-ATTTATTTTA
35422299 AACATATGAATTTATTTTA
1 AACATATGAATTTATTTTA
35422318 AA
1 AA
35422320 GGTATTCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
AACATATGAATTTATTTTA
Found at i:35429575 original size:26 final size:26
Alignment explanation
Indices: 35429546--35429598 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35429536 TCTTTGTTTC
35429546 TTCTTCGATTTACTCATAAACTAACT
1 TTCTTCGATTTACTCATAAACTAACT
35429572 TTCTTCGATTTACTCATAAACTAACT
1 TTCTTCGATTTACTCATAAACTAACT
35429598 T
1 T
35429599 AGTCCCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (26 bp):
TTCTTCGATTTACTCATAAACTAACT
Found at i:35432781 original size:30 final size:31
Alignment explanation
Indices: 35432745--35432814 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
35432735 CAAATGATAA
*
35432745 TCATGTATAAAATTGCACA-AAAATCTAAGT
1 TCATGTATAAAATTGCACATAAAATCAAAGT
* * **
35432775 TCATGTATTACATTGCACATTGAATCAAAGT
1 TCATGTATAAAATTGCACATAAAATCAAAGT
35432806 TCATGTATA
1 TCATGTATA
35432815 GTTTTGATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (31 bp):
TCATGTATAAAATTGCACATAAAATCAAAGT
Found at i:35438669 original size:60 final size:59
Alignment explanation
Indices: 35438586--35438818 Score: 207
Period size: 60 Copynumber: 3.9 Consensus size: 59
35438576 TGTAAGCATC
* * * *
35438586 TAATTAAAATTTTTATAATTTTTGAGGGGTTTAATGAGAATTTTTTAAATTTTTAGGGTT
1 TAATTAAAATTTTTA-AAATTTTGAGAGGTTTAATGAAAATTTTTAAAATTTTTAGGGTT
* ** * * * *
35438646 TAATTAAAACTTTTAAGAATTTTGAGAGAATTAATGAAAATTTCTAAAACTTATAGAGCTT
1 TAATTAAAATTTTTAA-AATTTTGAGAGGTTTAATGAAAATTTTTAAAATTTTTAG-GGTT
* * * * * * * *
35438707 TAATTAAAATTTTTAAAACTTTTG-TAGGTTTAATTAAAATTCTAAAAAATTTAAGAGTC
1 TAATTAAAATTTTTAAAA-TTTTGAGAGGTTTAATGAAAATTTTTAAAATTTTTAGGGTT
* * *
35438766 TAATTAAAATTTTTCAAAATTTTGAAAGGTTTAATGAAACTCTTTTTAAATTT
1 TAATTAAAATTTTT-AAAATTTTGAGAGGTTTAATGAAAAT-TTTTAAAATTT
35438819 GTAAGGCTCC
Statistics
Matches: 135, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
59 21 0.16
60 84 0.62
61 30 0.22
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (59 bp):
TAATTAAAATTTTTAAAATTTTGAGAGGTTTAATGAAAATTTTTAAAATTTTTAGGGTT
Found at i:35438710 original size:30 final size:30
Alignment explanation
Indices: 35438676--35438753 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
35438666 TTTGAGAGAA
*
35438676 TTAATGAAAATTTCTAAAACTTATAG-AGCT
1 TTAATTAAAATTTCTAAAACTT-TAGTAGCT
* * *
35438706 TTAATTAAAATTTTTAAAACTTTTGTAGGT
1 TTAATTAAAATTTCTAAAACTTTAGTAGCT
35438736 TTAATTAAAA-TTCTAAAA
1 TTAATTAAAATTTCTAAAA
35438754 AATTTAAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.21
30 33 0.79
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (30 bp):
TTAATTAAAATTTCTAAAACTTTAGTAGCT
Found at i:35438784 original size:29 final size:29
Alignment explanation
Indices: 35438707--35438787 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
35438697 TATAGAGCTT
* *
35438707 TAATTAAAATTTTTAAAACTTTTGTAGGTT
1 TAATTAAAATTTTTAAAA-TTTAGTAGGTC
**
35438737 TAATTAAAATTCTAAAAAATTTA--AGAGTC
1 TAATTAAAATT-TTTAAAATTTAGTAG-GTC
35438766 TAATTAAAATTTTTCAAAATTT
1 TAATTAAAATTTTT-AAAATTT
35438788 TGAAAGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.07
29 20 0.48
30 14 0.33
31 5 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAATTTAGTAGGTC
Found at i:35440053 original size:26 final size:26
Alignment explanation
Indices: 35440017--35440066 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
35440007 TAAATATTTA
35440017 TTTTTTATTTTTTA-TTTTAAAATAC
1 TTTTTTATTTTTTATTTTTAAAATAC
35440042 TTTTTTATTTTTTATTTTTAAAATA
1 TTTTTTATTTTTTATTTTTAAAATA
35440067 AAATTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTTATTTTTTATTTTTAAAATAC
Found at i:35440061 original size:6 final size:7
Alignment explanation
Indices: 35440013--35440060 Score: 51
Period size: 7 Copynumber: 6.3 Consensus size: 7
35440003 ATAATAAATA
35440013 TTTATTT
1 TTTATTT
35440020 TTTATTT
1 TTTATTT
35440027 TTTATTT
1 TTTATTT
*
35440034 TAAAATACTTT
1 T---TTA-TTT
35440045 TTTATTT
1 TTTATTT
35440052 TTTATTT
1 TTTATTT
35440059 TT
1 TT
35440061 AAAATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
7 27 0.77
8 2 0.06
10 2 0.06
11 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATTT
Found at i:35440073 original size:26 final size:25
Alignment explanation
Indices: 35440019--35440073 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
35440009 AATATTTATT
***
35440019 TTTTATTTTTTATTTTAAAATACTT
1 TTTTATTTTTTATTTTAAAATAAAA
35440044 TTTTATTTTTTATTTTTAAAATAAAA
1 TTTTATTTTTTA-TTTTAAAATAAAA
35440070 TTTT
1 TTTT
35440074 GGTGTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATTTTTTATTTTAAAATAAAA
Found at i:35440668 original size:24 final size:25
Alignment explanation
Indices: 35440633--35440680 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
35440623 TACTAATAAT
*
35440633 TTAATAACTTTAGGTATAATTTATC
1 TTAATAACTTTAGGTAAAATTTATC
*
35440658 TTAAT-ACTTTATGTAAAATTTAT
1 TTAATAACTTTAGGTAAAATTTAT
35440681 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (25 bp):
TTAATAACTTTAGGTAAAATTTATC
Found at i:35440864 original size:3 final size:3
Alignment explanation
Indices: 35440856--35440904 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
35440846 CATCCTACAT
35440856 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35440904 A
1 A
35440905 ACCGTTAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35441135 original size:16 final size:17
Alignment explanation
Indices: 35441114--35441150 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35441104 TTTGGTTCGC
*
35441114 TGTATT-GGATTAGAGG
1 TGTATTGGGACTAGAGG
35441130 TGTATTGGGACTAGAGG
1 TGTATTGGGACTAGAGG
35441147 TGTA
1 TGTA
35441151 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.24, C:0.03, G:0.38, T:0.35
Consensus pattern (17 bp):
TGTATTGGGACTAGAGG
Found at i:35441407 original size:18 final size:17
Alignment explanation
Indices: 35441386--35441420 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35441376 TTATTATTAA
*
35441386 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
35441404 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35441421 TCTNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35447047 original size:31 final size:31
Alignment explanation
Indices: 35447012--35447199 Score: 376
Period size: 31 Copynumber: 6.1 Consensus size: 31
35447002 CATGCAGTGG
35447012 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447043 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447074 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447105 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447136 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447167 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
35447198 CA
1 CA
35447200 CAACATATAT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.19
Consensus pattern (31 bp):
CATCTATGCCAACACTACATAACCACTCAAC
Found at i:35450913 original size:29 final size:27
Alignment explanation
Indices: 35450848--35450913 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
35450838 ATTTAGGGGG
* *
35450848 ATTTACATATAAATAATTAATAGAATA
1 ATTTTCATATAAATAATCAATAGAATA
35450875 ATTTAT-ATATAAATAATACATATAGAGA-A
1 ATTT-TCATATAAATAAT-CA-ATAGA-ATA
35450904 ATTTTCATAT
1 ATTTTCATAT
35450914 CGAAAGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
27 15 0.47
28 2 0.06
29 14 0.44
30 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (27 bp):
ATTTTCATATAAATAATCAATAGAATA
Found at i:35453679 original size:26 final size:25
Alignment explanation
Indices: 35453650--35453707 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
35453640 CCATGATCGA
35453650 TAAGCTCATTC-CGAGCTAATGAACGG
1 TAAGCTCATTCTCGAGCTAA--AACGG
*
35453676 TAAGCTC--TCTCGAGCTGAAACGG
1 TAAGCTCATTCTCGAGCTAAAACGG
35453699 TAAGCTCAT
1 TAAGCTCAT
35453708 AAGAGCTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 12 0.43
24 2 0.07
25 7 0.25
26 7 0.25
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
TAAGCTCATTCTCGAGCTAAAACGG
Found at i:35457607 original size:22 final size:20
Alignment explanation
Indices: 35457585--35457636 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
35457575 AAATTAAATC
35457585 TCTAAGATTACAAAATCATA-
1 TCTAAGATTA-AAAATCATAT
* *
35457605 TCTAAGATTATATATCATATT
1 TCTAAGATTAAAAATCATA-T
35457626 ATCTAAGATTA
1 -TCTAAGATTA
35457637 TATATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
22 10 0.37
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (20 bp):
TCTAAGATTAAAAATCATAT
Found at i:35457691 original size:19 final size:19
Alignment explanation
Indices: 35457585--35457697 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 19
35457575 AAATTAAATC
* *
35457585 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
**
35457605 TCTAAGATTATATATCATATTA
1 TCTAAGATTGCATATC--A-TA
35457627 TCTAAGATT--ATAT-AT-
1 TCTAAGATTGCATATCATA
35457642 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
35457663 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
35457682 TCTAAGATTGCTTATC
1 TCTAAGATTGCATATC
35457698 CTCAAAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
15 9 0.11
16 1 0.01
17 1 0.01
19 30 0.38
20 16 0.20
21 11 0.14
22 11 0.14
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35458653 original size:2 final size:2
Alignment explanation
Indices: 35458646--35458674 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35458636 AGCTATATTT
35458646 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
35458675 TGTTATAGAA
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:35458968 original size:6 final size:6
Alignment explanation
Indices: 35458957--35459006 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
35458947 TCTTGTATCA
* * *
35458957 ATATGT ATATGT ATATGT ATATGT ATATAT ATATAT ATATAT ATAT-T
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
35459004 ATA
1 ATA
35459007 AATTTGTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:35458987 original size:2 final size:2
Alignment explanation
Indices: 35458957--35459006 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
35458947 TCTTGTATCA
* * * *
35458957 AT AT GT AT AT GT AT AT GT AT AT GT 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
35458999 AT AT -T AT A
1 AT AT AT AT A
35459007 AATTTGTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35459408 original size:16 final size:16
Alignment explanation
Indices: 35459384--35459414 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35459374 AATGATGATT
35459384 ACCAACAACAACCATC
1 ACCAACAACAACCATC
*
35459400 ACCAGCAACAACCAT
1 ACCAACAACAACCAT
35459415 ATAATTGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.42, G:0.03, T:0.06
Consensus pattern (16 bp):
ACCAACAACAACCATC
Found at i:35483220 original size:44 final size:42
Alignment explanation
Indices: 35483148--35483274 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 42
35483138 TAGGATTCTG
* * * *
35483148 ATATATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCGTC
1 ATATAAGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
*
35483190 GATTTAAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 -ATATAAGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
35483234 ATATATGATTTCATGTAAGACCCTGTCTGGGACAGTGGCAT
1 ATATAAGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
35483275 TGTTATTTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 27 0.37
43 18 0.25
44 28 0.38
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
ATATAAGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:35483316 original size:43 final size:43
Alignment explanation
Indices: 35483161--35483320 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 43
35483151 TATGATTTCG
* * *
35483161 TGTAAGACCACGTCTGGGACGTTGGCGTCG--ATTTAAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATTGTTATTT--GA-TTACA
* * ** * *
35483205 TGTAAGACCATGTCTGGGACATTGGCA-TCATATATGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGTTATTTGATTACA
35483247 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGTTATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTGTTATTTGATTACA
*
35483290 TGTAAGACCACGTCTAGGACGTTGGCATTGT
1 TGTAAGACCACGTCTGGGACGTTGGCATTGT
35483321 ACGAGCTTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 27 0.29
43 39 0.41
44 25 0.27
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGTTATTTGATTACA
Found at i:35492647 original size:15 final size:14
Alignment explanation
Indices: 35492623--35492693 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 14
35492613 AAACTAAATT
35492623 TTAATATTTTTATC
1 TTAATATTTTTATC
*
35492637 TTAATTATTTTATATAATAT
1 TTAA-TA-TTT-T-T-AT-C
35492657 TTAATATTTTTATC
1 TTAATATTTTTATC
35492671 TTAATTATTTTTAT-
1 TTAA-TATTTTTATC
*
35492685 ATAATATTT
1 TTAATATTT
35492694 AATATTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
13 5 0.11
14 11 0.23
15 13 0.28
16 4 0.09
17 2 0.04
18 4 0.09
19 4 0.09
20 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAATATTTTTATC
Found at i:35492690 original size:35 final size:35
Alignment explanation
Indices: 35492622--35492723 Score: 179
Period size: 35 Copynumber: 2.9 Consensus size: 35
35492612 AAAACTAAAT
35492622 TTTAATATTTTTATCTTAATTA-TTTTATATAATA
1 TTTAATATTTTTATCTTAATTATTTTTATATAATA
35492656 TTTAATATTTTTATCTTAATTATTTTTATATAATA
1 TTTAATATTTTTATCTTAATTATTTTTATATAATA
*
35492691 TTTAATATTTTTATCTTAATTATTATTTTTATA
1 TTTAATATTTTTATCTTAATTATT-TTTATATA
35492724 TAATTACATT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 22 0.34
35 36 0.55
36 7 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (35 bp):
TTTAATATTTTTATCTTAATTATTTTTATATAATA
Found at i:35494169 original size:18 final size:17
Alignment explanation
Indices: 35494126--35494170 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
35494116 ATATTAAAAA
35494126 TATATTTTTTATATTTT
1 TATATTTTTTATATTTT
35494143 TATACTTTTTTAATTATTTT
1 TATA-TTTTTT-A-TATTTT
35494163 TA-ATTTTT
1 TATATTTTT
35494171 AAAAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 2 0.08
20 8 0.32
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TATATTTTTTATATTTT
Found at i:35494211 original size:49 final size:49
Alignment explanation
Indices: 35494100--35494220 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 49
35494090 ATTTAATTAA
*
35494100 TTTTTAAAATTTAAAAATATTAAAAATATATTTTTTATATTTTTATACT
1 TTTTTAAAATTTTAAAATATTAAAAATATATTTTTTATATTTTTATACT
* * * * * **
35494149 TTTTTAATTATTTTTAATTTTTAAAAATA-ATTTTTTATATTTTTGTTGGT
1 TTTTTAA-AATTTTAAAATATTAAAAATATATTTTTTATATTTTT-ATACT
35494199 TTTTTAAAATTTTAAAA-ATTAA
1 TTTTTAAAATTTTAAAATATTAA
35494221 TTAAATATTG
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
48 4 0.07
49 29 0.50
50 25 0.43
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (49 bp):
TTTTTAAAATTTTAAAATATTAAAAATATATTTTTTATATTTTTATACT
Done.