Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 195 of 226
Found at i:58751945 original size:28 final size:27
Alignment explanation
Indices: 58751905--58751962 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
58751895 TTCAATTTAT
* *
58751905 TGTCATTTCAAATAAAAATAAAAATTGA
1 TGTCAATTAAAATAAAAAT-AAAATTGA
* * *
58751933 TGTCAATTAAAATTAAGATAAATTTGA
1 TGTCAATTAAAATAAAAATAAAATTGA
58751960 TGT
1 TGT
58751963 ATTTTAAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTCAATTAAAATAAAAATAAAATTGA
Found at i:58753074 original size:3 final size:3
Alignment explanation
Indices: 58753066--58753108 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
58753056 AGCTTCTATA
58753066 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58753109 TGTCTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58760797 original size:10 final size:10
Alignment explanation
Indices: 58760763--58760801 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
58760753 ATTGTCCATT
58760763 TTTAATATAA
1 TTTAATATAA
*
58760773 TCT-ATATATA
1 TTTAATATA-A
58760783 TTTAATATAA
1 TTTAATATAA
58760793 TTTAATATA
1 TTTAATATA
58760802 GACATCCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATATAA
Found at i:58769163 original size:46 final size:46
Alignment explanation
Indices: 58769088--58769180 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
58769078 CATGGCAAAG
** *
58769088 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGT
*
58769134 TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGT
58769180 T
1 T
58769181 ATAGCAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGT
Found at i:58778538 original size:15 final size:15
Alignment explanation
Indices: 58778518--58778547 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58778508 AGCTTACATC
58778518 ATGATTTTAAAATAT
1 ATGATTTTAAAATAT
*
58778533 ATGATTTTTAAATAT
1 ATGATTTTAAAATAT
58778548 TAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
ATGATTTTAAAATAT
Found at i:58795184 original size:14 final size:14
Alignment explanation
Indices: 58795165--58795194 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58795155 AAAATCAATA
*
58795165 ATATACAGATATAT
1 ATATACACATATAT
58795179 ATATACACATATAT
1 ATATACACATATAT
58795193 AT
1 AT
58795195 GAAAGTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATACACATATAT
Found at i:58801597 original size:124 final size:123
Alignment explanation
Indices: 58801468--58801875 Score: 534
Period size: 124 Copynumber: 3.3 Consensus size: 123
58801458 AAACGATGCC
* * * * *
58801468 GTTTCACTACA-GGAAGTAAGTTTTTTAGTAGCGTTTTGATTGAAAATGCCGCAAAGGTGATACA
1 GTTTCACTACAGGGAATTAAG-TTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACA
* * * * *
58801532 TTAGTGGCGTTTTTTATAAACGCCGCAAAATTGCAATACCAATTCGAGTTAAACATCGTT
65 TTAGTGGC-TTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
* * * *
58801592 GTTTCACTACA-GAACATTAAATTTTTAGTGGCATTTTGACTGAAAACGCTGCAAAGGTTATACA
1 GTTTCACTACAGGGA-ATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACA
* * *
58801656 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATTCAAATTTGACTTAAACGGT-GTT
65 TTAGTGGCTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAAC-GTCGTT
* * *
58801715 GTTTCACTACAGGGAATTAAGGTTTTAGTGGCGTTTTGACCGAAAACGCCGCAAAGGTTATACAA
1 GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACAT
* * *
58801780 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTC
66 TAGTGGC-TTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
*
58801839 GTTTCACTATAGGGAATTAAGTTTTTAGTGGCGTTTT
1 GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTT
58801876 TCATAAACGC
Statistics
Matches: 247, Mismatches: 32, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
123 104 0.42
124 139 0.56
125 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (123 bp):
GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACAT
TAGTGGCTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
Found at i:58801902 original size:84 final size:85
Alignment explanation
Indices: 58801780--58801959 Score: 317
Period size: 84 Copynumber: 2.1 Consensus size: 85
58801770 GGTTATACAA
58801780 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
1 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
58801845 CTATAGGGAATTAAG-TTTT
66 CTATAGGGAATTAAGTTTTT
* * * *
58801864 TAGTGGCGTTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGTCGTCGTTTCA
1 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
58801929 CTATAGGGAATTAAGTTTTT
66 CTATAGGGAATTAAGTTTTT
58801949 TAGTGGCATTT
1 TAGTGGCATTT
58801960 GGCTTGAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
84 76 0.84
85 14 0.16
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (85 bp):
TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
CTATAGGGAATTAAGTTTTT
Found at i:58801909 original size:208 final size:207
Alignment explanation
Indices: 58801656--58802046 Score: 563
Period size: 208 Copynumber: 1.9 Consensus size: 207
58801646 AGGTTATACA
* *
58801656 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATTCAAATTTGACTTAAACGGT-GTTGTTTC
1 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATACAAATTTGACTTAAAC-GTCGTCGTTTC
*
58801720 ACTACAGGGAATTAAG-GTTTTAGTGGCGTTTTGAC-CGAAAACGCCGCAAAGGTTATACAATAG
65 ACTACAGGGAATTAAGTGTTTTAGTGGC-ATTTGACTCGAAAACGCCGCAAAGGTTATACAATAG
*
58801783 TGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCACTA
129 -GGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTCGTTTCACTA
58801848 TAGGGAATTAAGTTT
193 TAGGGAATTAAGTTT
* * *
58801863 TTAGTGGCGTTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGTCGTCGTTTC
1 TTAGTGGC-ATTTTCATAAACGCCGCAAAATTACAATACAAATTTGACTTAAACGTCGTCGTTTC
* * * * * * *
58801928 ACTATAGGGAATTAAGTTTTTTAGTGGCATTTGGCTTGAAAACGTCGCAAAGGTTATATATTAGG
65 ACTACAGGGAATTAAGTGTTTTAGTGGCATTTGACTCGAAAACGCCGCAAAGGTTATACAATAGG
* * * *
58801993 GCGTTTTTCGTAAACGCCGCAAAATTACAATACCAATTTGATTTAAACGACGTC
130 GCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTC
58802047 ATTTTGTTAG
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
207 10 0.06
208 118 0.73
209 34 0.21
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (207 bp):
TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATACAAATTTGACTTAAACGTCGTCGTTTCA
CTACAGGGAATTAAGTGTTTTAGTGGCATTTGACTCGAAAACGCCGCAAAGGTTATACAATAGGG
CATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTCGTTTCACTATAG
GGAATTAAGTTT
Found at i:58802283 original size:22 final size:22
Alignment explanation
Indices: 58802255--58802316 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
58802245 AGGTTCAATG
58802255 TTTAAGGTTTAGGGTTTAGAGT
1 TTTAAGGTTTAGGGTTTAGAGT
* *
58802277 TTTAAGGTTGAAGGTTTAGAGT
1 TTTAAGGTTTAGGGTTTAGAGT
* *
58802299 TTTAGGGTTTAGGATTTA
1 TTTAAGGTTTAGGGTTTA
58802317 TTTACGTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTTAAGGTTTAGGGTTTAGAGT
Found at i:58802285 original size:15 final size:15
Alignment explanation
Indices: 58802241--58802310 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
58802231 ATTTATGATT
* *
58802241 TTTAAGGTTCA-ATG
1 TTTAAGGTTTAGAGG
58802255 TTTAAGGTTTAG-GG
1 TTTAAGGTTTAGAGG
*
58802269 TTTAGAGTTTTA-AGG
1 TTTA-AGGTTTAGAGG
* *
58802284 TTGAAGGTTTAGAGT
1 TTTAAGGTTTAGAGG
*
58802299 TTTAGGGTTTAG
1 TTTAAGGTTTAG
58802311 GATTTATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
14 21 0.48
15 23 0.52
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.44
Consensus pattern (15 bp):
TTTAAGGTTTAGAGG
Found at i:58803103 original size:24 final size:25
Alignment explanation
Indices: 58803042--58803104 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
58803032 CGTCGACTGT
* * * *
58803042 CTCCTCTGCTGTATCGTCGTTGACC
1 CTCCTCTGCCGCATCGCCGTTGACA
*
58803067 CTCCTCTGTCGCATCGCCGTT-ACA
1 CTCCTCTGCCGCATCGCCGTTGACA
58803091 CTCCTCTGCCGCAT
1 CTCCTCTGCCGCAT
58803105 TGGCGTGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.47
25 17 0.53
ACGTcount: A:0.10, C:0.41, G:0.17, T:0.32
Consensus pattern (25 bp):
CTCCTCTGCCGCATCGCCGTTGACA
Found at i:58804296 original size:43 final size:44
Alignment explanation
Indices: 58804190--58804437 Score: 210
Period size: 43 Copynumber: 5.8 Consensus size: 44
58804180 ATGTTTTTGG
* * * *
58804190 GAAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTG-TGT
1 GAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGCATTTGTTGT
*** *
58804233 G-AAAGCGCCATTAAATGTCATGTTCTTTAGTGGCATTTGTTG-
1 GAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGCATTTGTTGT
* *
58804275 GAAAAGCGTTGCTAAAGGTCATGTTCTTTAGCGGC-TTATGTTG-
1 GAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGCATT-TGTTGT
* * * * *
58804318 GAAGAGTGATGCAAAAGGTCATGTTCTTTAGCT-ACATTTG-TGT
1 GAAAAGCGCTGCTAAAGGTCATGTTCTTTAG-TGGCATTTGTTGT
* * * * *
58804361 TAAAAGCGCTGCTAGAGGTTATGTTCTATAGTGGCGTTT-TTGT
1 GAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGCATTTGTTGT
*
58804404 GAGAAA-CGCTGCTAAAGGTCATG-TCTATAGTGGC
1 GA-AAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGC
58804438 GTTTTTCACA
Statistics
Matches: 165, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
42 49 0.30
43 111 0.67
44 5 0.03
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (44 bp):
GAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGCATTTGTTGT
Found at i:58804453 original size:42 final size:43
Alignment explanation
Indices: 58804367--58804454 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 43
58804357 GTGTTAAAAG
* * ***
58804367 CGCTGCTAGAGGTTATGTTCTATAGTGGCGTTTTTGTGAGAAA
1 CGCTGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAA
*
58804410 CGCTGCTAAAGGTCATG-TCTATAGTGGCGTTTTTCACATAAA
1 CGCTGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAA
58804452 CGC
1 CGC
58804455 CGCAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 24 0.62
43 15 0.38
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
CGCTGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAA
Found at i:58805991 original size:18 final size:17
Alignment explanation
Indices: 58805968--58806003 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58805958 ATAGTAGCAT
58805968 TTTTTTTTGACAATAAAA
1 TTTTTTTT-ACAATAAAA
*
58805986 TTTTTTTTATAATAAAA
1 TTTTTTTTACAATAAAA
58806003 T
1 T
58806004 AATAATTAAT
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:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTTTTTACAATAAAA
Found at i:58806042 original size:28 final size:27
Alignment explanation
Indices: 58806001--58806059 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
58805991 TTTATAATAA
**
58806001 AATAATAATTAATA-TAATATATAAACTT
1 AATAATAAAAAATACTAAT-TA-AAACTT
58806029 AATAATAAAAAATATCTAATTAAAACTT
1 AATAATAAAAAATA-CTAATTAAAACTT
58806057 AAT
1 AAT
58806060 TTAAATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 21 0.78
29 2 0.07
30 4 0.15
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (27 bp):
AATAATAAAAAATACTAATTAAAACTT
Found at i:58806230 original size:25 final size:27
Alignment explanation
Indices: 58806194--58806257 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 27
58806184 TAATTTACAC
*
58806194 AATA-AAACATTTATTATT-AAATA-T
1 AATATAAATATTTATTATTAAAATATT
* *
58806218 GATATATATATTTATTATTAAAATATT
1 AATATAAATATTTATTATTAAAATATT
58806245 AATATAAATATTT
1 AATATAAATATTT
58806258 CCAATAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 5 0.16
27 12 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATAAATATTTATTATTAAAATATT
Found at i:58809672 original size:13 final size:15
Alignment explanation
Indices: 58809654--58809685 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
58809644 AAACATTTTT
58809654 AATTAAA-TAAA-AA
1 AATTAAATTAAATAA
58809667 AATTAAATTAAATAA
1 AATTAAATTAAATAA
58809682 AATT
1 AATT
58809686 TCCCCCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 4 0.24
15 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAATTAAATAA
Found at i:58813934 original size:20 final size:20
Alignment explanation
Indices: 58813905--58813944 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58813895 CCCTAGCCCT
*
58813905 GCCACTGCCACGGTCACGTC
1 GCCACCGCCACGGTCACGTC
*
58813925 GCCACCGCCATGGTCACGTC
1 GCCACCGCCACGGTCACGTC
58813945 ACTGCCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.45, G:0.25, T:0.15
Consensus pattern (20 bp):
GCCACCGCCACGGTCACGTC
Found at i:58815428 original size:3 final size:3
Alignment explanation
Indices: 58815420--58815472 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
58815410 TTATTTTAAC
* * * * *
58815420 ATT ATT ATT ATT ATT ATT ATT ATT AGT GTT AAT ATT ATT GTT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58815468 ATT AT
1 ATT AT
58815473 ATTTCCATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:58817551 original size:27 final size:27
Alignment explanation
Indices: 58817498--58817553 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
58817488 ATATATATTC
* *
58817498 AATTATAAAAATGCAACACGCACTTTT
1 AATTATAAAAATACAACACACACTTTT
* * *
58817525 AATTATAAAAATATAACACATATTTTT
1 AATTATAAAAATACAACACACACTTTT
58817552 AA
1 AA
58817554 GCACTAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (27 bp):
AATTATAAAAATACAACACACACTTTT
Found at i:58817596 original size:15 final size:15
Alignment explanation
Indices: 58817569--58817598 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58817559 AAATAAATTT
58817569 AAATATTTAAAAAAC
1 AAATATTTAAAAAAC
58817584 AAATCATTTAAAAAA
1 AAAT-ATTTAAAAAA
58817599 ATGTGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATATTTAAAAAAC
Found at i:58820217 original size:30 final size:29
Alignment explanation
Indices: 58820181--58820250 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 29
58820171 CATATATTTA
*
58820181 ATTATAAAAATGCAATACACATTATTTTTT
1 ATTATAAAAATGCAATACACAAT-TTTTTT
* *
58820211 ATTATAAAAATGTAATACATAATTTTTTT
1 ATTATAAAAATGCAATACACAATTTTTTT
58820240 ATTATAAAAAT
1 ATTATAAAAAT
58820251 ATAACACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTATAAAAATGCAATACACAATTTTTTT
Found at i:58820238 original size:29 final size:29
Alignment explanation
Indices: 58820181--58820266 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
58820171 CATATATTTA
* * *
58820181 ATTATAAAAATGCAATACACATTATTTTTT
1 ATTATAAAAATGTAATACATAAT-TTTTTT
58820211 ATTATAAAAATGTAATACATAATTTTTTT
1 ATTATAAAAATGTAATACATAATTTTTTT
* * *
58820240 ATTATAAAAATATAACACATACTTTTT
1 ATTATAAAAATGTAATACATAATTTTT
58820267 AAGCACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 30 0.60
30 20 0.40
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTATAAAAATGTAATACATAATTTTTTT
Found at i:58822164 original size:32 final size:32
Alignment explanation
Indices: 58822127--58822189 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
58822117 GAATTTGAAT
* *
58822127 TTCGAGGTAA-TCGAATCAAGTTATTTGAGTTA
1 TTCGAGGTAACTCGAAT-AAATAATTTGAGTTA
*
58822159 TTCGAGTTAACTCGAATAAATAATTTGAGTT
1 TTCGAGGTAACTCGAATAAATAATTTGAGTT
58822190 CCGAGTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (32 bp):
TTCGAGGTAACTCGAATAAATAATTTGAGTTA
Found at i:58822358 original size:19 final size:20
Alignment explanation
Indices: 58822329--58822367 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
58822319 ATAACAAAAA
58822329 CAAAATAATTT-TCAAAAATT
1 CAAAATAATTTAT-AAAAATT
58822349 CAAAAT-ATTTATAAAAATT
1 CAAAATAATTTATAAAAATT
58822368 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAATAATTTATAAAAATT
Found at i:58822381 original size:17 final size:18
Alignment explanation
Indices: 58822342--58822393 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
58822332 AATAATTTTC
* * *
58822342 AAAAATTCAAAATATTTAT
1 AAAAATT-ATAATTTTTAA
58822361 AAAAATTAT-ATTTTTAA
1 AAAAATTATAATTTTTAA
58822378 AAAAATTATAATTTTT
1 AAAAATTATAATTTTT
58822394 TTATAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.52
18 7 0.24
19 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTATAATTTTTAA
Found at i:58825099 original size:18 final size:17
Alignment explanation
Indices: 58825066--58825104 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58825056 TTGTATAAAT
58825066 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58825084 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58825101 TGTG
1 TGTG
58825105 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58825222 original size:8 final size:8
Alignment explanation
Indices: 58825209--58825237 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
58825199 CACTAGAGAC
58825209 CAGTGTTA
1 CAGTGTTA
58825217 CAGTGTTA
1 CAGTGTTA
58825225 CAGTGTTA
1 CAGTGTTA
58825233 CAGTG
1 CAGTG
58825238 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:58825351 original size:23 final size:23
Alignment explanation
Indices: 58825324--58825399 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
58825314 AGTGTTATTG
58825324 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
58825347 TTCAGTGGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58825370 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58825393 ATCAGTG
1 ATCAGTG
58825400 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58826702 original size:334 final size:335
Alignment explanation
Indices: 58826092--58826761 Score: 1281
Period size: 334 Copynumber: 2.0 Consensus size: 335
58826082 ATGGTTTTTG
58826092 AAGTCCCCTGTTCTGACTTTGAAAAATCATTATAAATTGTACAGAAAGAATTATGGGTCATAATT
1 AAGTCCCCTGTTCTGACTTTGAAAAATCATTATAAATTGTACAGAAAGAATTATGGGTCATAATT
*
58826157 TATATGTGTAGATTTCTTAGTGAGTCTATTTTCAAAAGAAAAAAAACGATAACCTTATATGTATT
66 TATATGTGTAGATTTCTTAGTGAGTCTATTTTCAAAAGAAAAAAAACAATAACCTTATATGTATT
58826222 CTGTACAAAGAGATAATTGATTTTTAGTGCCGAGAGGTCAGATCTGTCGAGCTGTGAAACAGGGG
131 CTGTACAAAGAGATAATTGATTTTTAGTGCCGAGAGGTCAGATCTGTCGAGCTGTGAAACAGGGG
58826287 ATACTTTAATGAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTGAAAATTTTATGGTAAGTA
196 ATACTTTAATGAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTGAAAATTTTATGGTAAGTA
58826352 GTAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAGTTCTGTAACTCGAGTTA
261 GTAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAGTTCTGTAACTCGAGTTA
58826417 TAATTAAATT
326 TAATTAAATT
*
58826427 AAGTCCCCTGTTCTGACTTT-AGAAAATCATTATAAATTGTACAGAAATAATTATGGGTCATAAT
1 AAGTCCCCTGTTCTGACTTTGA-AAAATCATTATAAATTGTACAGAAAGAATTATGGGTCATAAT
58826491 TTATATGTGTAGATTTCTTAGTGAGTCTATTTTCAAAAG-AAAAAAACAATAACCTTATATGTAT
65 TTATATGTGTAGATTTCTTAGTGAGTCTATTTTCAAAAGAAAAAAAACAATAACCTTATATGTAT
58826555 TCTGTACAAAGAGATAATTGATTTTTAGTGCCGAGAGGTCAGATCTGTCGAGCTGTGAAACAGGG
130 TCTGTACAAAGAGATAATTGATTTTTAGTGCCGAGAGGTCAGATCTGTCGAGCTGTGAAACAGGG
*
58826620 GATACTTTAATGAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTGAAAATTTTATGGTGAGT
195 GATACTTTAATGAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTGAAAATTTTATGGTAAGT
*
58826685 ATTAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAGTTCTGTAACTCGAGTT
260 AGTAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAGTTCTGTAACTCGAGTT
58826750 ATAATTAAATT
325 ATAATTAAATT
58826761 A
1 A
58826762 GTGAAAGTCA
Statistics
Matches: 330, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
334 230 0.70
335 100 0.30
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (335 bp):
AAGTCCCCTGTTCTGACTTTGAAAAATCATTATAAATTGTACAGAAAGAATTATGGGTCATAATT
TATATGTGTAGATTTCTTAGTGAGTCTATTTTCAAAAGAAAAAAAACAATAACCTTATATGTATT
CTGTACAAAGAGATAATTGATTTTTAGTGCCGAGAGGTCAGATCTGTCGAGCTGTGAAACAGGGG
ATACTTTAATGAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTGAAAATTTTATGGTAAGTA
GTAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAGTTCTGTAACTCGAGTTA
TAATTAAATT
Found at i:58832771 original size:18 final size:17
Alignment explanation
Indices: 58832738--58832776 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58832728 TTGTATAAAT
58832738 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58832756 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58832773 TGTG
1 TGTG
58832777 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58832894 original size:8 final size:8
Alignment explanation
Indices: 58832881--58832909 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
58832871 CACTAGAGAC
58832881 CAGTGTTA
1 CAGTGTTA
58832889 CAGTGTTA
1 CAGTGTTA
58832897 CAGTGTTA
1 CAGTGTTA
58832905 CAGTG
1 CAGTG
58832910 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:58833022 original size:23 final size:23
Alignment explanation
Indices: 58832995--58833070 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
58832985 AGTGTTATTG
58832995 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
58833018 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58833041 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58833064 ATCAGTG
1 ATCAGTG
58833071 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58834696 original size:15 final size:16
Alignment explanation
Indices: 58834671--58834703 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58834661 TATCCCTTTC
*
58834671 TTTATATTTTATTATA
1 TTTATATTTTATGATA
58834687 TTTA-ATTTTATGATA
1 TTTATATTTTATGATA
58834702 TT
1 TT
58834704 ATTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATATTTTATGATA
Found at i:58835584 original size:113 final size:112
Alignment explanation
Indices: 58835411--58835687 Score: 297
Period size: 113 Copynumber: 2.5 Consensus size: 112
58835401 AAATCTCAAG
* * * ** ** *
58835411 ACCAAAACGCATCGTTTTTGTCTTGATGTATACTAGAATTAGTGGCGATTATGAGCAAACGCCGC
1 ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCAC
* ** ** *
58835476 TAAAGCAAGTATTAGCGGCGCATTGTGGGAAGCGCCGCAAAA-A-ACTCC
66 TAAAACAAGTATTAGCGGCGC-TTACGAAAAGCGCCGCAAAATAGA-T-A
* * *
58835524 ACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCAC
1 ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCAC
* *
58835589 TAAAACAAGTCTTAGTGGCGCTTACGAAAAGCGCCGCAAAATATGATA
66 TAAAACAAGTATTAGCGGCGCTTACGAAAAGCGCCGCAAAATA-GATA
** * *
58835637 ACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGGTGCTTA
1 ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA
58835688 TTAGAAGTGC
Statistics
Matches: 135, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
112 16 0.12
113 117 0.87
114 1 0.01
115 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (112 bp):
ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCAC
TAAAACAAGTATTAGCGGCGCTTACGAAAAGCGCCGCAAAATAGATA
Found at i:58835775 original size:75 final size:75
Alignment explanation
Indices: 58835600--58835775 Score: 210
Period size: 75 Copynumber: 2.3 Consensus size: 75
58835590 AAAACAAGTC
* * * *
58835600 TTAGTGGCGCTTACGAAAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATG
1 TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
* *
58835665 TATATTAGAA
66 TATAATACAA
** * * * * *
58835675 TTAGTGGTGCTTATTAGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGTGTTTTGGTCTTGATG
1 TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
58835740 TATAATACAA
66 TATAATACAA
*
58835750 TTAGTGGTG-TTAGGGAAAAACGCCGC
1 TTAGTGGTGCTTA-GGAAAAGCGCCGC
58835776 TAAAGCATAA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 3 0.04
75 80 0.96
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (75 bp):
TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
TATAATACAA
Found at i:58836024 original size:115 final size:115
Alignment explanation
Indices: 58835690--58836306 Score: 608
Period size: 115 Copynumber: 5.4 Consensus size: 115
58835680 GGTGCTTATT
* * * * *
58835690 AGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGTGTTTTGGTCTTGATGTATAATACAATTAGT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* * ** *
58835755 GGTG-TTA-GGGAAAAACGCCGCTAAAGCATAAC-ATTAGCGGCGATTTTTT
66 GGCGCTTACGAG-AAAACGCCGCTAAAGCAT-ACTATTAGCGGCGCGTTTTG
* * * * *
58835804 AAAAGCGCCGCAAAATATCTTAACCAAAAAGCAGAG-TTTGATCTTGAAGTATACTAGAATTAGT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
*** * *
58835868 GGCGAAAACGA-AAAACGCCGCTAAAGCGTACTATTAGCGGCGCGTTTAG
66 GGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTG
* * * * *
58835917 AGAAGCACCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* ** * *
58835982 GGCGCTTACTAGAAAACGCCGCTAAATAATAGTATTAGCGGCGC-TTTGCG
66 GGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTT-TG
* * * * * *
58836032 ATAAGCGCCGCAAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTTGAGGTGTATTAGAATTA
1 AGAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* * * *
58836094 GTGGTGCTTATG-GAAAAACGCTGCTAAAGCATACTATTAGCGGCGCGTTTTT
64 GTGGCGCTTACGAG-AAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTG
* * ** * *
58836146 AGAAGCGCCGCAAAATATATTAACCAAAACGCTGCGTTTAAGTCTTGATGTATACTGGAATTAGC
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* * ** * *
58836211 GGCGCTCACGAGAAATCGGTGCTAAAGCATATTATTAGCGGCGCTTTTTG
66 GGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTG
* *
58836261 GGAAGCGCCACAAAATATCTTAACCAAAACGCA-CAGTTTTGGTCTT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGC-GTTTTGGTCTT
58836307 AACCATGCAT
Statistics
Matches: 405, Mismatches: 83, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
112 2 0.00
113 87 0.21
114 156 0.39
115 158 0.39
116 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (115 bp):
AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
GGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTG
Found at i:58836076 original size:114 final size:113
Alignment explanation
Indices: 58835690--58836306 Score: 536
Period size: 114 Copynumber: 5.4 Consensus size: 113
58835680 GGTGCTTATT
* * * * *
58835690 AGAAGTGCCGCAAAA-AATCTTAACCAAAACGCAGTGTTTTGGTCTTGATGTATAATACAATTAG
1 AGAAGCGCCGCAAAATATTC-TAACCAAAACGCAGAG-TTTGGTCTTGATGTATACTAGAATTAG
* * * *
58835754 TGGTG-TTA-GGGAAAAACGCCGCTAAAGCATAAC-ATTAGCGGCGATTTTTT
64 TGGCGCTTACGAG-AAAACGCCGCTAAAGCAT-ACTATTAGCGGCG-CTTTTG
* * * *
58835804 AAAAGCGCCGCAAAATA-TCTTAACCAAAAAGCAGAGTTTGATCTTGAAGTATACTAGAATTAGT
1 AGAAGCGCCGCAAAATATTC-TAACCAAAACGCAGAGTTTGGTCTTGATGTATACTAGAATTAGT
*** * *
58835868 GGCGAAAACGA-AAAACGCCGCTAAAGCGTACTATTAGCGGCGCGTTTAG
65 GGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
* * * * *
58835917 AGAAGCACCGCTAAAT-TTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAG
1 AGAAGCGCCGCAAAATATTC-TAACCAAAACGCAGAG-TTTGGTCTTGATGTATACTAGAATTAG
* ** * *
58835981 TGGCGCTTACTAGAAAACGCCGCTAAATAATAGTATTAGCGGCGCTTTGCG
64 TGGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCTTT-TG
* * * * * *
58836032 ATAAGCGCCGCAAGATATGC-ACACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGT
1 AGAAGCGCCGCAAAATATTCTA-ACCAAAACGCAGAGTTTGGTCTTGATGTATACTAGAATTAGT
* * * *
58836096 GGTGCTTATG-GAAAAACGCTGCTAAAGCATACTATTAGCGGCGCGTTTTT
65 GGCGCTTACGAG-AAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
* * * *
58836146 AGAAGCGCCGCAAAATATAT-TAACCAAAACGCTGCGTTTAAGTCTTGATGTATACTGGAATTAG
1 AGAAGCGCCGCAAAATAT-TCTAACCAAAACGCAGAGTTT-GGTCTTGATGTATACTAGAATTAG
* * * ** *
58836210 CGGCGCTCACGAGAAATCGGTGCTAAAGCATATTATTAGCGGCGCTTTTTG
64 TGGCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
* * *
58836261 GGAAGCGCCACAAAATA-TCTTAACCAAAACGCACAGTTTTGGTCTT
1 AGAAGCGCCGCAAAATATTC-TAACCAAAACGCAGAG-TTTGGTCTT
58836307 AACCATGCAT
Statistics
Matches: 404, Mismatches: 79, Indels: 39
0.77 0.15 0.07
Matches are distributed among these distances:
112 2 0.00
113 88 0.22
114 157 0.39
115 151 0.37
116 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (113 bp):
AGAAGCGCCGCAAAATATTCTAACCAAAACGCAGAGTTTGGTCTTGATGTATACTAGAATTAGTG
GCGCTTACGAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTG
Found at i:58836249 original size:229 final size:227
Alignment explanation
Indices: 58835697--58836299 Score: 600
Period size: 229 Copynumber: 2.6 Consensus size: 227
58835687 ATTAGAAGTG
* * * ** * * * * *
58835697 CCGCAAAAAATCTTAACCAAAACGCAGTGTTTTGGTCTTGATGTATAATACAATTAGTGGTG-TT
1 CCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAGCGGCGCTC
* * * ***
58835761 A-GGGAAAAACGCCGCTAAAGCATAACATTAGCGGCGATTTTTTAAAAGCGCCGCAAAATATCTT
66 ACGAG-AAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTGCGAAAAGCGCCGCAAAATATC-T
58835825 AACCAAAAAGCAGAGTTTGATCTTGAAGTATACTAGAATTAGTGGCGAAAACGAAAAACGCCGCT
129 AACCAAAAAGCAGAGTTTGATCTTGAAGTATACTAGAATTAGTGGCGAAAACGAAAAACGCCGCT
*
58835890 AAAGCGTACTATTAGCGGCGCGTTTAGAGAAGCA
194 AAAGCATACTATTAGCGGCGCGTTTAGAGAAGCA
* * * * ** * * *
58835924 CCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTT
1 CCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAGCGGCGCTC
* ** * * *
58835989 ACTAGAAAACGCCGCTAAATAATAGTATTAGCGGCGCTTTGCGATAAGCGCCGCAAGATATGC-A
66 ACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTGCGAAAAGCGCCGCAAAATAT-CTA
* * * * * * ** ** *
58836053 CACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGTGCTTATGGAAAAACGCTGC
130 -ACCAAAAAGCAGAGTTTGATCTTGAAGTATACTAGAATTAGTGGCG-AAAACGAAAAACGCCGC
** *
58836118 TAAAGCATACTATTAGCGGCGCGTTTTTAGAAGCG
193 TAAAGCATACTATTAGCGGCGCGTTTAGAGAAGCA
* *
58836153 CCGCAAAATATATTAACCAAAACGCTGCGTTTAAGTCTTGATGTATACTGGAATTAGCGGCGCTC
1 CCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAGCGGCGCTC
* ** * ** ** *
58836218 ACGAGAAATCGGTGCTAAAGCATATTATTAGCGGCGCTTTTTGGGAAGCGCCACAAAATATCTTA
66 ACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTGCGAAAAGCGCCGCAAAATATC-TA
* *
58836283 ACCAAAACGCACAGTTT
130 ACCAAAAAGCAGAGTTT
58836300 TGGTCTTAAC
Statistics
Matches: 309, Mismatches: 60, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
227 55 0.18
228 90 0.29
229 163 0.53
230 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (227 bp):
CCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAGCGGCGCTC
ACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTGCGAAAAGCGCCGCAAAATATCTAA
CCAAAAAGCAGAGTTTGATCTTGAAGTATACTAGAATTAGTGGCGAAAACGAAAAACGCCGCTAA
AGCATACTATTAGCGGCGCGTTTAGAGAAGCA
Found at i:58838819 original size:70 final size:70
Alignment explanation
Indices: 58838733--58838886 Score: 290
Period size: 70 Copynumber: 2.2 Consensus size: 70
58838723 GTAGCTCAAG
58838733 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
1 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
58838798 AAAAC
66 AAAAC
58838803 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
1 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
58838868 AAAAC
66 AAAAC
58838873 ATATATGAATAATT
1 ATATA--AATAATT
58838887 AACTAGCATG
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 75 0.91
72 7 0.09
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.29
Consensus pattern (70 bp):
ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
AAAAC
Found at i:58842363 original size:1 final size:1
Alignment explanation
Indices: 58842357--58842383 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
58842347 CTTAATTGCG
58842357 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
58842384 ACAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:58844017 original size:17 final size:18
Alignment explanation
Indices: 58843987--58844032 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
58843977 ATTTAAATTG
58843987 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
58844005 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
58844021 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
58844033 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:58861389 original size:27 final size:26
Alignment explanation
Indices: 58861341--58861406 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
58861331 TTTTTTAAAT
*
58861341 TTTTTTTTCTTTTTTTAAGTTTTATA
1 TTTTTTTTATTTTTTTAAGTTTTATA
* *
58861367 TTTTTTCTTATTTTATTT-TGTTTATTTA
1 TTTTTT-TTATTTT-TTTAAGTTT-TATA
*
58861395 TTTATTTTATTT
1 TTTTTTTTATTT
58861407 ATTGTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 6 0.18
27 16 0.48
28 11 0.33
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (26 bp):
TTTTTTTTATTTTTTTAAGTTTTATA
Found at i:58861390 original size:9 final size:9
Alignment explanation
Indices: 58861378--58861420 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
58861368 TTTTTCTTAT
*
58861378 TTTATTTTG
1 TTTATTTTA
58861387 TTTA-TTTA
1 TTTATTTTA
58861395 TTTATTTTA
1 TTTATTTTA
58861404 TTTATTGTTA
1 TTTATT-TTA
*
58861414 TTAATTT
1 TTTATTT
58861421 AAAAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.23
9 15 0.50
10 8 0.27
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:58861474 original size:46 final size:42
Alignment explanation
Indices: 58861424--58861531 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
58861414 TTAATTTAAA
* * * *
58861424 AAAATTTGAAATGTATATTTGAAATGTTTTATAATATATATTTTTT
1 AAAATTTTAAATATATATTTGAAA--TTTT-GAATAT-TATTTGTT
*
58861470 AAAATTTTAAATAT-TATTTTTAAATTTTGAATATTATTTGTT
1 AAAATTTTAAATATATA-TTTGAAATTTTGAATATTATTTGTT
58861512 AAAATTTTAAATATATATTT
1 AAAATTTTAAATATATATTT
58861532 TTAATAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 24 0.44
43 7 0.13
44 4 0.07
45 2 0.04
46 18 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (42 bp):
AAAATTTTAAATATATATTTGAAATTTTGAATATTATTTGTT
Found at i:58861490 original size:22 final size:23
Alignment explanation
Indices: 58861450--58861533 Score: 113
Period size: 20 Copynumber: 3.8 Consensus size: 23
58861440 ATTTGAAATG
58861450 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATATATATTTTTTAAAA
58861474 TTTTAAATAT-TA-TTTTT-AAA
1 TTTTAAATATATATTTTTTAAAA
* *
58861494 TTTTGAATAT-TATTTGTTAAAA
1 TTTTAAATATATATTTTTTAAAA
58861516 TTTTAAATATATATTTTT
1 TTTTAAATATATATTTTT
58861534 AATAATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.26
21 9 0.17
22 14 0.26
23 11 0.21
24 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAAATATATATTTTTTAAAA
Found at i:58861550 original size:42 final size:42
Alignment explanation
Indices: 58861456--58861550 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 42
58861446 AATGTTTTAT
* * *
58861456 AATATATATTTTTTAAAATTTTAAATATTATTTTTAAATTTTG
1 AATA-ATATTTGTTAAAATTTTAAATATTATTTTTAAAATATG
*
58861499 AATATTATTTGTTAAAATTTTAAATATATATTTTTAATAATAT-
1 AATAATATTTGTTAAAATTTTAAATAT-TATTTTTAA-AATATG
58861542 AA-AATATTT
1 AATAATATTT
58861551 AAATATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 27 0.60
43 15 0.33
44 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (42 bp):
AATAATATTTGTTAAAATTTTAAATATTATTTTTAAAATATG
Found at i:58862041 original size:20 final size:19
Alignment explanation
Indices: 58861987--58862041 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
58861977 AATTTATTTA
58861987 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATT-AAAAGT
* *
58862008 AAAAATTTAAATTAAAAGTT
1 AAAAATATATATTAAAAG-T
58862028 AAAAATATATATTA
1 AAAAATATATATTA
58862042 TAAGATCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 20 0.69
21 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATATATTAAAAGT
Found at i:58862511 original size:20 final size:20
Alignment explanation
Indices: 58862488--58862552 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
58862478 ATAATTTTTT
58862488 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
58862508 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
58862528 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
58862548 AATTT
1 AATTT
58862553 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:58862523 original size:40 final size:41
Alignment explanation
Indices: 58862479--58862563 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
58862469 GTGTTGGTTA
*
58862479 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
*
58862519 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
58862560 TAAT
1 TAAT
58862564 ATATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:58862574 original size:40 final size:40
Alignment explanation
Indices: 58862487--58862574 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
58862477 TATAATTTTT
* * *
58862487 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
*
58862527 TAATTTTAGTACACATTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
58862567 TATTTTTA
1 TAATTTTA
58862575 ATAGATAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:58862717 original size:13 final size:15
Alignment explanation
Indices: 58862689--58862717 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58862679 TAATATATTT
58862689 AATATATTTTTAAAA
1 AATATATTTTTAAAA
58862704 AATATA-TTTTAAAA
1 AATATATTTTTAAAA
58862718 TGTTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:58864938 original size:30 final size:30
Alignment explanation
Indices: 58864902--58865049 Score: 179
Period size: 30 Copynumber: 4.9 Consensus size: 30
58864892 GTCGCAGAGC
* * **
58864902 AGTTCATATCACTCGGACATTTCCGGTTAA
1 AGTTCATATCACCCAGACATAGCCGGTTAA
* *
58864932 AGTTCATATCACCCAGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGCCGGTTAA
* * *
58864962 AGTTCATATCACCCAGACATAGGCAGTTCA
1 AGTTCATATCACCCAGACATAGCCGGTTAA
* * *
58864992 AGTTCATATCACCCAGACATAGGCAGTTCA
1 AGTTCATATCACCCAGACATAGCCGGTTAA
*
58865022 AGTTCATATCACCCAGACATAGGCGGTT
1 AGTTCATATCACCCAGACATAGCCGGTT
58865050 CGAGTTTATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 110 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGCCGGTTAA
Found at i:58865064 original size:30 final size:30
Alignment explanation
Indices: 58864931--58865064 Score: 223
Period size: 30 Copynumber: 4.5 Consensus size: 30
58864921 TTTCCGGTTA
*
58864931 AAGTTCATATCACCCAGACATAGGCGGTTC
1 AAGTTCATATCACCCAGACATAGGCAGTTC
58864961 AAGTTCATATCACCCAGACATAGGCAGTTC
1 AAGTTCATATCACCCAGACATAGGCAGTTC
58864991 AAGTTCATATCACCCAGACATAGGCAGTTC
1 AAGTTCATATCACCCAGACATAGGCAGTTC
*
58865021 AAGTTCATATCACCCAGACATAGGCGGTTC
1 AAGTTCATATCACCCAGACATAGGCAGTTC
* * *
58865051 GAGTTTATTTCACC
1 AAGTTCATATCACC
58865065 AAGAGCAACC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (30 bp):
AAGTTCATATCACCCAGACATAGGCAGTTC
Found at i:58868464 original size:12 final size:13
Alignment explanation
Indices: 58868410--58868464 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
58868400 AAACGTTTGA
58868410 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
58868424 A-ATTTTAAAATT
1 ATATTTTAAAATT
58868436 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
58868453 ATA-TTTAAAATT
1 ATATTTTAAAATT
58868465 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:58868471 original size:9 final size:10
Alignment explanation
Indices: 58868453--58868502 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
58868443 TATAAAAATT
58868453 ATATTT-AAA
1 ATATTTAAAA
58868462 AT-TTTAAAA
1 ATATTTAAAA
58868471 ATATTTAAAAAA
1 ATATTT--AAAA
58868483 ATATTTAAAA
1 ATATTTAAAA
58868493 A-ATTATAAAA
1 ATATT-TAAAA
58868503 CAAATAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.08
9 10 0.28
10 13 0.36
12 10 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:58868481 original size:11 final size:11
Alignment explanation
Indices: 58868459--58868495 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
58868449 AATTATATTT
58868459 AAAAT-TTT-A
1 AAAATATTTAA
58868468 AAAATATTTAAA
1 AAAATATTT-AA
58868480 AAAATATTTAA
1 AAAATATTTAA
58868491 AAAAT
1 AAAAT
58868496 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.20
10 3 0.12
11 7 0.28
12 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:58868482 original size:12 final size:12
Alignment explanation
Indices: 58868467--58868494 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58868457 TTAAAATTTT
58868467 AAAAATATTTAA
1 AAAAATATTTAA
58868479 AAAAATATTTAA
1 AAAAATATTTAA
58868491 AAAA
1 AAAA
58868495 TTATAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAATATTTAA
Found at i:58868488 original size:23 final size:23
Alignment explanation
Indices: 58868460--58868508 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
58868450 ATTATATTTA
58868460 AAAT-TTTAAAAATATT-TAAAA-
1 AAATATTTAAAAA-ATTATAAAAC
58868481 AAATATTTAAAAAATTATAAAAC
1 AAATATTTAAAAAATTATAAAAC
58868504 AAATA
1 AAATA
58868509 ATAAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATTTAAAAAATTATAAAAC
Found at i:58868513 original size:22 final size:22
Alignment explanation
Indices: 58868466--58868513 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
58868456 TTTAAAATTT
*
58868466 TAAAAATATTTAAAAAAATATT
1 TAAAAATATTTAAAAAAATATA
58868488 TAAAAA-ATTATAAAACAAATA-A
1 TAAAAATATT-TAAAA-AAATATA
58868510 TAAA
1 TAAA
58868514 TTTGAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAATATTTAAAAAAATATA
Found at i:58868561 original size:24 final size:24
Alignment explanation
Indices: 58868530--58868609 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
58868520 AGGTCATATC
*
58868530 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATA-ATTTAAAATAA
*
58868555 TTTAAAAATCATAATTTAAAATAA
1 TTTAAAAATAATAATTTAAAATAA
* * *
58868579 TTTAAAATTCAT-ATTTAAAAAAA
1 TTTAAAAATAATAATTTAAAATAA
58868602 TTATAAAA
1 TT-TAAAA
58868610 CAAATTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 12 0.24
24 26 0.52
25 12 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAAAATAATAATTTAAAATAA
Found at i:58868568 original size:14 final size:14
Alignment explanation
Indices: 58868551--58868599 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
58868541 TATATTTTAA
58868551 ATAATTTAAAAATC
1 ATAATTTAAAAATC
58868565 ATAATTT--AAA--
1 ATAATTTAAAAATC
*
58868575 ATAATTTAAAATTC
1 ATAATTTAAAAATC
58868589 AT-ATTTAAAAA
1 ATAATTTAAAAA
58868600 AATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 7 0.24
12 5 0.17
13 8 0.28
14 9 0.31
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:58868580 original size:10 final size:10
Alignment explanation
Indices: 58868565--58868643 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 10
58868555 TTTAAAAATC
58868565 ATAATTTAAA
1 ATAATTTAAA
58868575 ATAATTTAAA
1 ATAATTTAAA
58868585 ATTCATATTTAAA
1 A-T-A-ATTTAAA
*
58868598 AAAATTATAAA
1 ATAATT-TAAA
* *
58868609 ACAAATTAAAA
1 A-TAATTTAAA
58868620 TATACATTTAAA
1 -ATA-ATTTAAA
58868632 AT-ATTATAAA
1 ATAATT-TAAA
58868642 AT
1 AT
58868644 TACTAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
9 3 0.05
10 20 0.35
11 13 0.23
12 13 0.23
13 8 0.14
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAATTTAAA
Found at i:58868585 original size:23 final size:23
Alignment explanation
Indices: 58868534--58868633 Score: 89
Period size: 24 Copynumber: 4.2 Consensus size: 23
58868524 CATATCTTTA
* *
58868534 AAAATAATATATTTTAAATAATTT
1 AAAATCATA-ATTTAAAATAATTT
58868558 AAAAATCATAATTTAAAATAATTT
1 -AAAATCATAATTTAAAATAATTT
*
58868582 AAAATTCAT-ATTTAAAAAAATTAT
1 AAAA-TCATAATTTAAAATAATT-T
*
58868606 AAAA-CA-AATTAAAATATACATTT
1 AAAATCATAATTTAAA-ATA-ATTT
58868629 AAAAT
1 AAAAT
58868634 ATTATAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.12
23 23 0.36
24 25 0.39
25 8 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATCATAATTTAAAATAATTT
Found at i:58868594 original size:13 final size:12
Alignment explanation
Indices: 58868542--58868598 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
58868532 TAAAAATAAT
*
58868542 ATATTTTAAAT-
1 ATATTTAAAATC
58868553 A-ATTTAAAAATC
1 ATATTT-AAAATC
58868565 ATAATTTAAAAT-
1 AT-ATTTAAAATC
58868577 A-ATTTAAAATTC
1 ATATTTAAAA-TC
58868589 ATATTTAAAA
1 ATATTTAAAA
58868599 AAATTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
10 12 0.32
11 6 0.16
12 3 0.08
13 13 0.34
14 4 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTTAAAATC
Found at i:58868714 original size:21 final size:20
Alignment explanation
Indices: 58868690--58868752 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
58868680 TTAAATGTTT
58868690 ATATTATTAAAAATATATTTA
1 ATATT-TTAAAAATATATTTA
58868711 ATA-TTTATAAAATAATATTTA
1 ATATTTTA-AAAAT-ATATTTA
58868732 A-ATTTTTAAACAATA-ATTTA
1 ATA-TTTTAAA-AATATATTTA
58868752 A
1 A
58868753 AAATAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 14 0.38
22 7 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTTAAAAATATATTTA
Found at i:58868739 original size:22 final size:20
Alignment explanation
Indices: 58868696--58868748 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
58868686 GTTTATATTA
58868696 TTAAAAAT-ATATTTAATAT
1 TTAAAAATAATATTTAATAT
*
58868715 TTATAAAATAATATTTAAATTT
1 TTA-AAAATAATATTT-AATAT
58868737 TTAAACAATAAT
1 TTAAA-AATAAT
58868749 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 8 0.28
22 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAATAATATTTAATAT
Found at i:58868750 original size:20 final size:20
Alignment explanation
Indices: 58868693--58868753 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
58868683 AATGTTTATA
58868693 TTATTAAAAATATATTTAATAT
1 TTATTAAAAATA-ATTTAA-AT
*
58868715 TTATAAAATAAT-ATTTAAAT
1 TTATTAAA-AATAATTTAAAT
58868735 TT-TTAAACAATAATTTAAA
1 TTATTAAA-AATAATTTAAA
58868754 AATAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 11 0.32
21 6 0.18
22 7 0.21
23 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTAAAAATAATTTAAAT
Found at i:58868769 original size:34 final size:33
Alignment explanation
Indices: 58868713--58868813 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 33
58868703 TATATTTAAT
* *
58868713 ATTTATAAAATAATATTTAAATTTTTA-AACAATA
1 ATTTA-AAAATAATATTTAAA-ATTTAGAAAAATA
58868747 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
* *
58868780 ATTTCAAATATATATATTTAAAAATTA-AAAAATA
1 ATTT-AAAAATA-ATATTTAAAATTTAGAAAAATA
58868814 TATATTATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 4 0.07
33 25 0.42
34 18 0.30
35 13 0.22
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:58868969 original size:16 final size:15
Alignment explanation
Indices: 58868940--58868974 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
58868930 GACAAAAGTT
58868940 AAAAAAAAAGTAAAA
1 AAAAAAAAAGTAAAA
*
58868955 AAAAAACAAATTAAAA
1 AAAAAA-AAAGTAAAA
58868971 AAAA
1 AAAA
58868975 TAGAAGCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAGTAAAA
Found at i:58869241 original size:14 final size:14
Alignment explanation
Indices: 58869222--58869297 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
58869212 TTTTATTTTG
58869222 TTTAAAAATATATT
1 TTTAAAAATATATT
58869236 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
58869248 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
58869264 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
58869277 TTCAAAAATATATT
1 TTTAAAAATATATT
58869291 TTTAAAA
1 TTTAAAA
58869298 TGTATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 23 0.50
15 1 0.02
16 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:58869339 original size:21 final size:20
Alignment explanation
Indices: 58869313--58869354 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
58869303 AAGACATAAT
*
58869313 TTTAAAAAATAATATTTAAAA
1 TTTAAAAAATAAT-TTAAAAA
58869334 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
58869354 T
1 T
58869355 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:58869446 original size:9 final size:9
Alignment explanation
Indices: 58869432--58869465 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
58869422 TTAATAACAA
58869432 AAAATAAAT
1 AAAATAAAT
58869441 AAAATAAAT
1 AAAATAAAT
58869450 AAACA-AAAT
1 AAA-ATAAAT
58869459 AAAATAA
1 AAAATAA
58869466 GAAAAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:58869449 original size:13 final size:13
Alignment explanation
Indices: 58869419--58869461 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
58869409 AAATTTTTTA
* *
58869419 AAATTAATAACAAA
1 AAATAAATAA-AAT
58869433 AAATAAATAAAAT
1 AAATAAATAAAAT
*
58869446 AAATAAACAAAAT
1 AAATAAATAAAAT
58869459 AAA
1 AAA
58869462 ATAAGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:58869465 original size:23 final size:23
Alignment explanation
Indices: 58869417--58869461 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58869407 TCAAATTTTT
*
58869417 TAAAATTAATAACAAAAAATAAA
1 TAAAATAAATAACAAAAAATAAA
*
58869440 TAAAATAAATAA-ACAAAATAAA
1 TAAAATAAATAACAAAAAATAAA
58869462 ATAAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAAATAAATAACAAAAAATAAA
Found at i:58869497 original size:19 final size:18
Alignment explanation
Indices: 58869475--58869546 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 18
58869465 AGAAAAGTAT
*
58869475 AAAACTTAAAAAAAAAGA
1 AAAAATTAAAAAAAAAGA
*
58869493 AAAAATTTAAAGAAAAAGA
1 AAAAA-TTAAAAAAAAAGA
* * *
58869512 CAAAAGT--AAAAAAAGT
1 AAAAATTAAAAAAAAAGA
58869528 AAAAA-TAAAAATAAAAGA
1 AAAAATTAAAAA-AAAAGA
58869546 A
1 A
58869547 GGGTGTCAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 11 0.26
17 3 0.07
18 11 0.26
19 16 0.38
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.12
Consensus pattern (18 bp):
AAAAATTAAAAAAAAAGA
Found at i:58890848 original size:34 final size:35
Alignment explanation
Indices: 58890800--58890883 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 35
58890790 ATTTTTTTTT
* *
58890800 TAAAATAATTAAATTA-GATTTTTGGGGTTTTAA-A
1 TAAATTAATTAAATTAGGATTTAT-GGGTTTTAAGA
*
58890834 TAAATTAATTAAATTAGGATTTATGGTTTTTAAGA
1 TAAATTAATTAAATTAGGATTTATGGGTTTTAAGA
58890869 -AAATTAATTAAATTA
1 TAAATTAATTAAATTA
58890884 TGGTTTAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 38 0.84
35 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (35 bp):
TAAATTAATTAAATTAGGATTTATGGGTTTTAAGA
Found at i:58891180 original size:126 final size:128
Alignment explanation
Indices: 58890954--58891223 Score: 372
Period size: 126 Copynumber: 2.1 Consensus size: 128
58890944 ACTTTTGTTT
* *
58890954 TTTTTCTACAGTAGTT-TCTAAAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTAAA
1 TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTGAAAAAATAATGTAAA
*
58891018 AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCCACGTGGACGCTC
66 AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTAC-GAAAAAAAGCTCCCACGTGGACGCTA
* *
58891081 TTTTTCTACAGTAGTTCT-TAAAAAAA-TAAATTTGAGAAGACGGTTCT-AAACAAATAGTGTTA
1 TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTGAAA-AAATAATGTAA
* * * * * *
58891143 AAAATGCTTCAAGT-AGGATTCACTGTCAGTAAAATTACGAAAAAAAGCTCCTATGTGGACGCTA
65 AAAACGCTTCAA-TCAAGATGCACTGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGACGCTA
58891207 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
58891224 CTATTTGGCC
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
125 4 0.03
126 98 0.77
127 25 0.20
128 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (128 bp):
TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTGAAAAAATAATGTAAA
AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGACGCTA
Found at i:58894229 original size:9 final size:9
Alignment explanation
Indices: 58894206--58894236 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
58894196 ATTTATATTT
58894206 TATTAAAAA
1 TATTAAAAA
58894215 TA-TAAAAA
1 TATTAAAAA
58894223 TATTAAAAA
1 TATTAAAAA
58894232 TATTA
1 TATTA
58894237 TCTTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:58894312 original size:24 final size:23
Alignment explanation
Indices: 58894257--58894312 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
58894247 AAGAACTTCT
58894257 ATTTTATTAAAAATATAAAATAA
1 ATTTTATTAAAAATATAAAATAA
*
58894280 ATTACTATT-AAAATATTAAAAATAA
1 ATT-TTATTAAAAATA-T-AAAATAA
*
58894305 CTTTTATT
1 ATTTTATT
58894313 TTATTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 9 0.33
24 9 0.33
25 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAATAA
Found at i:58894391 original size:95 final size:95
Alignment explanation
Indices: 58894273--58894444 Score: 308
Period size: 95 Copynumber: 1.8 Consensus size: 95
58894263 TTAAAAATAT
* * *
58894273 AAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAACAATATAGAAAT
1 AAAATAAATTAATATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAT
58894338 AGTTTGTACAAATATATTAAAAATATAAAA
66 AGTTTGTACAAATATATTAAAAATATAAAA
*
58894368 AAAATAAATTAATATTAAAATATTTAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAT
1 AAAATAAATTAATATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAT
58894433 AGTTTGTACAAA
66 AGTTTGTACAAA
58894445 CAACATAGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (95 bp):
AAAATAAATTAATATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAT
AGTTTGTACAAATATATTAAAAATATAAAA
Found at i:58894782 original size:18 final size:18
Alignment explanation
Indices: 58894756--58894797 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58894746 GACTAGAAAA
* *
58894756 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
58894774 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
58894792 AGGATA
1 AGGATA
58894798 TGCACATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:58895396 original size:7 final size:7
Alignment explanation
Indices: 58895386--58895418 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
58895376 TTATATACAT
58895386 AATACTA
1 AATACTA
58895393 AATACTA
1 AATACTA
58895400 AATACTA
1 AATACTA
58895407 AATACTA
1 AATACTA
58895414 AATAC
1 AATAC
58895419 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:58895618 original size:18 final size:18
Alignment explanation
Indices: 58895575--58895618 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
58895565 GCATACAATT
*
58895575 ATATTTTAAATCTATGTA
1 ATATTTTAAATCTATATA
*
58895593 ATAATTTAAATCTAATATA
1 ATATTTTAAATCT-ATATA
58895612 A-ATTTTA
1 ATATTTTA
58895619 CCTCGTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATTTTAAATCTATATA
Found at i:58897787 original size:24 final size:24
Alignment explanation
Indices: 58897759--58897811 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
58897749 TTTCTAGAAG
58897759 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
*
58897783 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGTATTTATTAGTATAATAT
58897807 ATTTA
1 ATTTA
58897812 ACTTACTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:58899664 original size:14 final size:14
Alignment explanation
Indices: 58899645--58899674 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58899635 AACTCTCATC
58899645 TTTATAAATAAATA
1 TTTATAAATAAATA
58899659 TTTATAAATAAATA
1 TTTATAAATAAATA
58899673 TT
1 TT
58899675 CATTTACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTATAAATAAATA
Found at i:58903233 original size:43 final size:44
Alignment explanation
Indices: 58903185--58903327 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 44
58903175 GGTGATAACA
*
58903185 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TATGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTACG
*
58903228 TGTAAGACCATGTCT-----ATTGGCATCGT-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTACG
* * * * * *
58903266 TATAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTACG
*
58903309 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
58903328 TATGGTATTG
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
37 1 0.01
38 32 0.40
43 48 0.59
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTACG
Found at i:58903260 original size:38 final size:38
Alignment explanation
Indices: 58903205--58903280 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
58903195 TGTCTGGGAC
* *
58903205 ATTGGCATTGTATTATGATTACGTGTAAGACCATGTCT
1 ATTGGCATCGTATTATGATTACGTATAAGACCATGTCT
* *
58903243 ATTGGCATCGT-TATATGATTTCGTATAAGACCCTGTCT
1 ATTGGCATCGTAT-TATGATTACGTATAAGACCATGTCT
58903281 GGGACAGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (38 bp):
ATTGGCATCGTATTATGATTACGTATAAGACCATGTCT
Found at i:58911042 original size:9 final size:9
Alignment explanation
Indices: 58911025--58911320 Score: 106
Period size: 9 Copynumber: 34.9 Consensus size: 9
58911015 TAAGTATAAT
*
58911025 TAAGCTATG
1 TAAGTTATG
58911034 TAAGTTATG
1 TAAGTTATG
*
58911043 TAAGTTATA
1 TAAGTTATG
*
58911052 TAAGTTGTG
1 TAAGTTATG
*
58911061 T-A-TAATG
1 TAAGTTATG
58911068 TAAGTTATG
1 TAAGTTATG
*
58911077 AAAGTTATG
1 TAAGTTATG
58911086 T-A-TTATG
1 TAAGTTATG
*
58911093 TAAGTTATT
1 TAAGTTATG
*
58911102 TAAGTTGTG
1 TAAGTTATG
*
58911111 T-A-TTATA
1 TAAGTTATG
*
58911118 TAAGTCATG
1 TAAGTTATG
* * *
58911127 TAGGCTATA
1 TAAGTTATG
*
58911136 TAAGTTTATATA
1 TAAG--T-TATG
58911148 TAAGTTATG
1 TAAGTTATG
58911157 TAAGTTA--
1 TAAGTTATG
58911164 T-A--TATG
1 TAAGTTATG
58911170 TAAGTTATG
1 TAAGTTATG
*
58911179 T--GTTGTG
1 TAAGTTATG
*
58911186 TAAGTTTATATA
1 TAAG--T-TATG
*
58911198 TAAATTTTAT-
1 T-AA-GTTATG
58911208 TCAAGTTATG
1 T-AAGTTATG
58911218 --A---ATG
1 TAAGTTATG
58911222 TAAGTTATG
1 TAAGTTATG
*
58911231 TAAGTTGTG
1 TAAGTTATG
*
58911240 T--GTAATG
1 TAAGTTATG
58911247 TAAGTTATG
1 TAAGTTATG
58911256 T-A-TTATG
1 TAAGTTATG
*
58911263 TAAGTTATT
1 TAAGTTATG
*
58911272 TAAGTTGTG
1 TAAGTTATG
58911281 T-A-TTATG
1 TAAGTTATG
*
58911288 TAAGTCATG
1 TAAGTTATG
* *
58911297 TAGGCTATG
1 TAAGTTATG
*
58911306 T--GTTACG
1 TAAGTTATG
58911313 TAAGTTAT
1 TAAGTTAT
58911321 TATAAGTAAG
Statistics
Matches: 208, Mismatches: 44, Indels: 70
0.65 0.14 0.22
Matches are distributed among these distances:
4 5 0.02
6 3 0.01
7 44 0.21
8 10 0.05
9 124 0.60
10 4 0.02
11 4 0.02
12 12 0.06
13 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:58911072 original size:25 final size:25
Alignment explanation
Indices: 58911038--58911122 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
58911028 GCTATGTAAG
58911038 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
* *
58911063 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTGTGTA
*
58911088 TTATGTAAGTTATTTAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
*
58911113 TTATATAAGT
1 TTATGTAAGT
58911123 CATGTAGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 51 0.98
26 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTGTGTA
Found at i:58911171 original size:13 final size:13
Alignment explanation
Indices: 58911153--58911177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58911143 ATATATAAGT
58911153 TATGTAAGTTATA
1 TATGTAAGTTATA
58911166 TATGTAAGTTAT
1 TATGTAAGTTAT
58911178 GTGTTGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:58911173 original size:22 final size:21
Alignment explanation
Indices: 58911136--58911179 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
58911126 GTAGGCTATA
58911136 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
58911157 TAAGTTATATATGTAAGTTATG
1 TAAGTT-TATATATAAGTTATG
58911179 T
1 T
58911180 GTTGTGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:58911249 original size:16 final size:16
Alignment explanation
Indices: 58911228--58911270 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
58911218 AATGTAAGTT
* *
58911228 ATGTAAGTTGTGTGTA
1 ATGTAAGTTATGTATA
*
58911244 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATA
58911260 ATGTAAGTTAT
1 ATGTAAGTTAT
58911271 TTAAGTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATA
Found at i:58911275 original size:25 final size:25
Alignment explanation
Indices: 58911247--58911327 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
58911237 GTGTGTAATG
58911247 TAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATTATGTAAGTTATT
* * *
58911272 TAAGTTGTGTATTATGTAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATT
* * * *
58911297 TAGGCTATGTGTTACGTAAGTTATT
1 TAAGTTATGTATTATGTAAGTTATT
58911322 ATAAGT
1 -TAAGT
58911328 AAGTTATGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 40 0.93
26 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATT
Found at i:58911367 original size:32 final size:31
Alignment explanation
Indices: 58911313--58911480 Score: 110
Period size: 32 Copynumber: 5.2 Consensus size: 31
58911303 ATGTGTTACG
* *
58911313 TAAGTTATTATAAGTAAGTTATGAAAGTTATATA
1 TAAGTT-TTAT-A-TAAATTATGTAAGTTATATA
* *
58911347 TAAGTTTATATATAAATTATGTAAGTTATTGTG
1 TAAGTTT-TATATAAATTATGTAAGTTA-TATA
* * *
58911380 TAAG--TTATGT--GTTGTGTAAGTTTATATA
1 TAAGTTTTATATAAATTATGTAAG-TTATATA
* *
58911408 TAAATTTTATTTAAATTATGTATGTAAGTTATATA
1 TAAGTTTTATAT-AA--AT-TATGTAAGTTATATA
* *
58911443 TAAGTTTATATATAAGTTATGTAAGTTATATG
1 TAAGTTT-TATATAAATTATGTAAGTTATATA
58911475 TAAGTT
1 TAAGTT
58911481 ATGTGTTGTG
Statistics
Matches: 105, Mismatches: 17, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
28 13 0.12
29 3 0.03
30 9 0.09
31 1 0.01
32 34 0.32
33 9 0.09
34 9 0.09
35 16 0.15
36 11 0.10
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (31 bp):
TAAGTTTTATATAAATTATGTAAGTTATATA
Found at i:58911435 original size:36 final size:36
Alignment explanation
Indices: 58911394--58911465 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
58911384 TTATGTGTTG
*
58911394 TGTAAGTTTATATATAAATTT-TATTTAAATTATGTA
1 TGTAAG-TTATATATAAATTTATATATAAATTATGTA
* *
58911430 TGTAAGTTATATATAAGTTTATATATAAGTTATGTA
1 TGTAAGTTATATATAAATTTATATATAAATTATGTA
58911466 AGTTATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (36 bp):
TGTAAGTTATATATAAATTTATATATAAATTATGTA
Found at i:58911438 original size:96 final size:94
Alignment explanation
Indices: 58911332--58911538 Score: 324
Period size: 96 Copynumber: 2.2 Consensus size: 94
58911322 ATAAGTAAGT
* *
58911332 TATGAAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATTGTGTAAGTTATGTGTTGTGT
1 TATGTAAGTTATATATAAGTTTATATATAAATTATGTAAGTTA-TATGTAAGTTATGTGTTGTGT
*
58911397 AAGTTTATATATAAATTTTATTTAAATTATG
65 AAGTTTATATATAAA-TTTATATAAATTATG
*
58911428 TATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATGTAAGTTATGTGTTGTGTA
1 TATGTAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATATGTAAGTTATGTGTTGTGTA
**
58911493 AGTTTATATATAAATTTATATATGTTATG
66 AGTTTATATATAAATTTATATAAATTATG
*
58911522 TATGTAAATTATGATAT
1 TATGTAAGTTAT-ATAT
58911539 GATTGATAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 23 0.22
95 39 0.38
96 41 0.40
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (94 bp):
TATGTAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATATGTAAGTTATGTGTTGTGTA
AGTTTATATATAAATTTATATAAATTATG
Found at i:58911448 original size:11 final size:11
Alignment explanation
Indices: 58911432--58911482 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
58911422 ATTATGTATG
58911432 TAAGTTATATA
1 TAAGTTATATA
58911443 TAAGTTTATATA
1 TAAG-TTATATA
*
58911455 TAAG-T-TATG
1 TAAGTTATATA
*
58911464 TAAGTTATATG
1 TAAGTTATATA
58911475 TAAGTTAT
1 TAAGTTAT
58911483 GTGTTGTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 7 0.19
10 2 0.06
11 16 0.44
12 11 0.31
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (11 bp):
TAAGTTATATA
Found at i:58911453 original size:12 final size:12
Alignment explanation
Indices: 58911396--58911460 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
58911386 ATGTGTTGTG
58911396 TAAGTTTATATA
1 TAAGTTTATATA
* *
58911408 TAAATTT-TATT
1 TAAGTTTATATA
* * *
58911419 TAAATTATGTATG
1 TAAGTT-TATATA
58911432 TAAG-TTATATA
1 TAAGTTTATATA
58911443 TAAGTTTATATA
1 TAAGTTTATATA
58911455 TAAGTT
1 TAAGTT
58911461 ATGTAAGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
11 17 0.39
12 21 0.48
13 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (12 bp):
TAAGTTTATATA
Found at i:58911473 original size:20 final size:21
Alignment explanation
Indices: 58911443--58911484 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
58911433 AAGTTATATA
58911443 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
58911464 TAAG-TTATATGTAAGTTATG
1 TAAGTTTATATATAAGTTATG
58911484 T
1 T
58911485 GTTGTGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:58911583 original size:19 final size:18
Alignment explanation
Indices: 58911544--58911610 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 18
58911534 GATATGATTG
*
58911544 ATAAATTTTTCAAATATAT
1 ATAAAATTTT-AAATATAT
58911563 ATAAAATTTTAATATATAT
1 ATAAAATTTTAA-ATATAT
58911582 ATTAAAACTGTATATAAATATAT
1 A-TAAAA-T-T-T-TAAATATAT
58911605 ATAAAA
1 ATAAAA
58911611 GATGTTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 2 0.05
19 16 0.39
20 5 0.12
21 1 0.02
22 6 0.15
23 8 0.20
24 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATAAAATTTTAAATATAT
Found at i:58911583 original size:21 final size:22
Alignment explanation
Indices: 58911555--58911610 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
58911545 TAAATTTTTC
* *
58911555 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
*
58911576 ATATATAT-TAAAACTGTATAT
1 AAATATATATAAAACTGTATAT
58911597 AAATATATATAAAA
1 AAATATATATAAAA
58911611 GATGTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:58914310 original size:21 final size:21
Alignment explanation
Indices: 58914244--58914310 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
58914234 TATGTTTCAT
58914244 TAAAA-TTTTAAGTAAATAATTA
1 TAAAAGTTTTAAGT-AA-AATTA
* *
58914266 TTAAAGTTTTAAGTAATATT-
1 TAAAAGTTTTAAGTAAAATTA
*
58914286 TAAAAGTTTT-TGATAAAATTA
1 TAAAAGTTTTAAG-TAAAATTA
58914307 TAAA
1 TAAA
58914311 TTTTAGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 7 0.19
22 6 0.16
23 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
TAAAAGTTTTAAGTAAAATTA
Found at i:58914343 original size:21 final size:20
Alignment explanation
Indices: 58914317--58914360 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
58914307 TAAATTTTAG
58914317 TTTTTTATTTCCTTT-TTATAT
1 TTTTTTATTT--TTTCTTATAT
58914338 TTTTTTATTTTTTCTTATAT
1 TTTTTTATTTTTTCTTATAT
58914358 TTT
1 TTT
58914361 GGTCCTGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTATTTTTTCTTATAT
Found at i:58915410 original size:63 final size:63
Alignment explanation
Indices: 58915331--58915466 Score: 227
Period size: 63 Copynumber: 2.1 Consensus size: 63
58915321 CCGAATTACT
* *
58915331 AACCCATAACCTCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTA
1 AACCC-TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
*
58915395 AACCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTA
1 AACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
*
58915458 AACTCTAAC
1 AACCCTAAC
58915467 TTAACACCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
63 63 0.93
64 5 0.07
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (63 bp):
AACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
Found at i:58915447 original size:89 final size:89
Alignment explanation
Indices: 58915264--58915447 Score: 194
Period size: 89 Copynumber: 2.1 Consensus size: 89
58915254 TAAATATTAT
* **
58915264 TTAATATATAAATTAAAAAAATACTAATTAATCTAAATCCTAAACCCTAACCCGACTCCGAATTA
1 TTAATATATAAATTAAAAAAACACTAATTAATCTAAATCCTAAACCCTAACCC-ACTCAAAATTA
* * ** * *
58915329 CTAACCCATAACCTCTAAACATTAT
65 CTAACACATAAACTAAAAACACTAA
58915354 TTAATATATAAATT-AAAAAACACTAATTAATCTAAATCCTAAACCCTAACCC-CT-AAACATTA
1 TTAATATATAAATTAAAAAAACACTAATTAATCTAAATCCTAAACCCTAACCCACTCAAA-ATTA
* * * *
58915416 TTTAATATATAAATTAAAATACACTAA
65 -CTAACACATAAACTAAAA-ACACTAA
58915443 TTAAT
1 TTAAT
58915448 CTAAACCCTA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
86 1 0.01
87 6 0.08
88 10 0.13
89 47 0.60
90 14 0.18
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (89 bp):
TTAATATATAAATTAAAAAAACACTAATTAATCTAAATCCTAAACCCTAACCCACTCAAAATTAC
TAACACATAAACTAAAAACACTAA
Found at i:58915578 original size:14 final size:15
Alignment explanation
Indices: 58915561--58915593 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
58915551 ATTAAATCAG
58915561 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
58915575 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
58915590 AATC
1 AATC
58915594 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:58916064 original size:40 final size:41
Alignment explanation
Indices: 58915979--58916251 Score: 273
Period size: 41 Copynumber: 6.7 Consensus size: 41
58915969 AAAAGTTTTT
* * *
58915979 GCGGTGCTTTTTCAAAAACGTCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * * *
58916020 GCGGCGCTTTTCTATAAACGCCGCTAAAGATTTGAGTA-TC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* ** * *
58916060 GCGGCGATTTTGGAAAAATGCCGATAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
58916101 GCGGCGCTTCTCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
58916142 G-GGTGCTTCTT-AAAAAACGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
58916182 GCGGCACTTTTACAAAAACGCCTCTAAAGATCTGGGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* ***
58916223 GCGACGCGTTTTTTTAAAACGCCGCTAAA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAA
58916252 TCCCCGAATG
Statistics
Matches: 188, Mismatches: 39, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
40 66 0.35
41 105 0.56
42 17 0.09
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:58916127 original size:81 final size:81
Alignment explanation
Indices: 58915992--58916223 Score: 261
Period size: 81 Copynumber: 2.9 Consensus size: 81
58915982 GTGCTTTTTC
* * * * * *
58915992 AAAAACGTCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCTATAAACGCCGCTAAAGATTTGAGT
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
* *
58916057 A-TCGCGGCGATT-TTGG
66 ATTAG-GGCGATTCTT-A
* * *
58916073 AAAAATGCCGATAAAGATCTGAGCATTAGCGGCGCTTCTCCAAAAATGCCGCTAAAGATCTGAGC
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
* *
58916138 ATTAGGGTGCTTCTTA
66 ATTAGGGCGATTCTTA
* * * * * *
58916154 AAAAACGCTGCTAAAGATCTGAGCATTAGCGGCACTTTTACAAAAACGCCTCTAAAGATCTGGGC
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
58916219 ATTAG
66 ATTAG
58916224 CGACGCGTTT
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 123 0.97
82 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (81 bp):
AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
ATTAGGGCGATTCTTA
Found at i:58916333 original size:39 final size:40
Alignment explanation
Indices: 58916290--58916383 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
58916280 GTCTTAGGTT
* *
58916290 TTTTTTGCGGCGTTTGGAAAAAAACA-CCGCTAATGCAC-A
1 TTTTTAGCGGCGTTT-CAAAAAAACAGCCGCTAATGCACAA
* * *
58916329 TTTTTAGCGGCGATTCAAAAAAATAGCCGCTAATGCTCAA
1 TTTTTAGCGGCGTTTCAAAAAAACAGCCGCTAATGCACAA
*
58916369 TTTTTAACGGCGTTT
1 TTTTTAGCGGCGTTT
58916384 TTTGTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 8 0.17
39 24 0.52
40 14 0.30
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTCAAAAAAACAGCCGCTAATGCACAA
Found at i:58920779 original size:15 final size:14
Alignment explanation
Indices: 58920759--58920788 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
58920749 AGCTTCTTGG
58920759 TTTCTTCTACTTGTT
1 TTTCTTCTAC-TGTT
58920774 TTTCTTCTACTGTT
1 TTTCTTCTACTGTT
58920788 T
1 T
58920789 CCCATAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTCTACTGTT
Found at i:58921467 original size:24 final size:24
Alignment explanation
Indices: 58921422--58921467 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
58921412 CAATAATAAA
* *
58921422 ATAAAATGCAATTAAATTTAATGC
1 ATAAAATGAAATTAAATATAATGC
58921446 ATAAAATGAAATTTAAA-ATAAT
1 ATAAAATGAAA-TTAAATATAAT
58921468 ATCTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAAAATGAAATTAAATATAATGC
Found at i:58925480 original size:2 final size:2
Alignment explanation
Indices: 58925473--58925503 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58925463 GTGAATCGTA
58925473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58925504 AATTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58929865 original size:16 final size:17
Alignment explanation
Indices: 58929836--58929868 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
58929826 ATTTCATAGT
58929836 TTTTATATATATTTATA
1 TTTTATATATATTTATA
58929853 TTTTATA-ATATTTATA
1 TTTTATATATATTTATA
58929869 CATTTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATATATATTTATA
Found at i:58931361 original size:10 final size:10
Alignment explanation
Indices: 58931346--58931372 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
58931336 CCGCCGGCTA
58931346 CCACCGTCTG
1 CCACCGTCTG
58931356 CCACCGTCTG
1 CCACCGTCTG
58931366 CCACCGT
1 CCACCGT
58931373 ACACGGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.52, G:0.19, T:0.19
Consensus pattern (10 bp):
CCACCGTCTG
Found at i:58932330 original size:72 final size:72
Alignment explanation
Indices: 58932244--58932379 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
58932234 CTCAGGGAGA
*
58932244 TAGGACTCGTTGCCTTCAACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCC
1 TAGGACTCGCTGCCTTCAACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCC
58932309 AATGAGG
66 AATGAGG
* * *
58932316 TAGGACTCGCTGCCTTCTACTTTAATCCGCTCTACTTCAGCTTTAATCTATTCCACTGCAATGC
1 TAGGACTCGCTGCCTTCAACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGC
58932380 TAGGGAAACA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (72 bp):
TAGGACTCGCTGCCTTCAACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCC
AATGAGG
Found at i:58932398 original size:72 final size:72
Alignment explanation
Indices: 58932247--58932414 Score: 203
Period size: 72 Copynumber: 2.3 Consensus size: 72
58932237 AGGGAGATAG
* * *
58932247 GACTCGTTGCCTTCAACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAAT
1 GACTCGCTGCCTTCTACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAAG
*** *
58932312 GAGGTAG
66 GAAACAA
* * * *
58932319 GACTCGCTGCCTTCTACTTTAATCCGCTCTACTTCAGCTTTAATCTATTCCACTGCAATGCTAGG
1 GACTCGCTGCCTTCTACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAAG
58932384 GAAACAA
66 GAAACAA
* *
58932391 GATTCGCTACCTT-TAGCTTTAATC
1 GACTCGCTGCCTTCTA-CTTTAATC
58932415 TGTTCCACTG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 2 0.02
72 80 0.98
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (72 bp):
GACTCGCTGCCTTCTACTTTAATCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAAG
GAAACAA
Found at i:58932547 original size:21 final size:21
Alignment explanation
Indices: 58932523--58932566 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
58932513 GACTCGTTGC
*
58932523 CTTCAGCTTTAATCCACTCCA
1 CTTCAACTTTAATCCACTCCA
* *
58932544 CTTCAACTTTAATCTATTCCA
1 CTTCAACTTTAATCCACTCCA
58932565 CT
1 CT
58932567 GCAATGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (21 bp):
CTTCAACTTTAATCCACTCCA
Found at i:58932556 original size:194 final size:193
Alignment explanation
Indices: 58932269--58932622 Score: 548
Period size: 194 Copynumber: 1.8 Consensus size: 193
58932259 TCAACTTTAA
* * * *
58932269 TCCACTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAATGAGGTAGGACTCGCTGCCTTCT
1 TCCACTCAACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAGATAGGACTCGCTGCCTTCT
* * * *
58932334 ACTTTAATCCGCTCTACTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCT
66 ACTTTAATCCACTCCACTTCAACTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCT
*
58932399 ACCTTTAGCTTTAATCTGTTCCACTGCAAATTCTGAGAGATAAAGTTGGTATCTTCAACCTGC
131 ACCTTTAGCTTTAATCTGTTCCACTACAAATTCTGAGAGATAAAGTTGGTATCTTCAACCTGC
* * ** *
58932462 TCCACTACAACTTTAGCTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGACTCGTTGCCTTC
1 TCCACT-CAACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAGATAGGACTCGCTGCCTTC
58932527 -AGCTTTAATCCACTCCACTTCAACTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCG
65 TA-CTTTAATCCACTCCACTTCAACTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCG
*
58932591 CTATCTTTAGCTTTAATCTGTTCCACTACAAA
129 CTACCTTTAGCTTTAATCTGTTCCACTACAAA
58932623 GCCAAGGAAA
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
193 7 0.05
194 137 0.95
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (193 bp):
TCCACTCAACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAGATAGGACTCGCTGCCTTCT
ACTTTAATCCACTCCACTTCAACTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCT
ACCTTTAGCTTTAATCTGTTCCACTACAAATTCTGAGAGATAAAGTTGGTATCTTCAACCTGC
Done.