Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 194 of 213
Found at i:58177144 original size:19 final size:19
Alignment explanation
Indices: 58177089--58177196 Score: 144
Period size: 19 Copynumber: 5.5 Consensus size: 19
58177079 AAATTAAATC
*
58177089 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
58177109 TCTTCTAAAATTGCATATCATA
1 ---TCTAAGATTACATATCATA
58177131 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
58177150 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
58177169 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
58177188 TCTAAGATT
1 TCTAAGATT
58177197 GTATATCCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 62 0.79
22 7 0.09
23 9 0.12
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:58177162 original size:38 final size:38
Alignment explanation
Indices: 58177089--58177203 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
58177079 AAATTAAATC
* *
58177089 TCTAAGATTACAAAATCATATCTTCTAAAATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
58177131 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
58177169 TCTAAGATTACATATCATATCTAAGATTGTATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
58177204 CTTGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 52 0.74
41 7 0.10
42 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:58177202 original size:19 final size:19
Alignment explanation
Indices: 58177112--58177203 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
58177102 AATCATATCT
*
58177112 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58177131 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
58177150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58177169 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
58177188 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
58177204 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58177460 original size:27 final size:28
Alignment explanation
Indices: 58177421--58177479 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
58177411 TTCAAATTTC
* *
58177421 TTTTGTATTTATA-TTATTTATTTTGAAA
1 TTTTGTATGTATATTTATTGA-TTTGAAA
58177449 TTTT-TATGTATATTTTATTGATTTGAAA
1 TTTTGTATGTATA-TTTATTGATTTGAAA
58177477 TTT
1 TTT
58177480 CCCGCCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
28 14 0.52
29 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.64
Consensus pattern (28 bp):
TTTTGTATGTATATTTATTGATTTGAAA
Found at i:58177659 original size:18 final size:17
Alignment explanation
Indices: 58177632--58177675 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
58177622 GATTATTGCT
*
58177632 ATTATGTGTAATATATTG
1 ATTATTTGT-ATATATTG
* *
58177650 TTTATTTGTATTTATTG
1 ATTATTTGTATATATTG
58177667 ATTATTTGT
1 ATTATTTGT
58177676 CGTTCATTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (17 bp):
ATTATTTGTATATATTG
Found at i:58181147 original size:12 final size:12
Alignment explanation
Indices: 58181130--58181193 Score: 65
Period size: 12 Copynumber: 5.1 Consensus size: 12
58181120 TGTTCATTTA
*
58181130 TTCATCAAGTCT
1 TTCATCAAGTTT
58181142 TTCATCAAGTGTTT
1 TTCATCAA--GTTT
58181156 TTCATCAAGTTT
1 TTCATCAAGTTT
* *
58181168 TTAAGCAAGTTT
1 TTCATCAAGTTT
*
58181180 TTAATCAAGCTTT
1 TTCATCAAG-TTT
58181193 T
1 T
58181194 ATCTTTTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
12 30 0.67
13 4 0.09
14 11 0.24
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.47
Consensus pattern (12 bp):
TTCATCAAGTTT
Found at i:58181160 original size:14 final size:13
Alignment explanation
Indices: 58181130--58181169 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
58181120 TGTTCATTTA
*
58181130 TTCATCAAG-TCT
1 TTCATCAAGTTTT
58181142 TTCATCAAGTGTTT
1 TTCATCAAGT-TTT
58181156 TTCATCAAGTTTT
1 TTCATCAAGTTTT
58181169 T
1 T
58181170 AAGCAAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 9 0.36
13 4 0.16
14 12 0.48
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (13 bp):
TTCATCAAGTTTT
Found at i:58190337 original size:30 final size:30
Alignment explanation
Indices: 58190303--58190367 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
58190293 AAGGGCAGAG
* * *
58190303 ACACGGGCATGTGTGTCATCCGTGTGTGAC
1 ACACGGGCATGTGTCTCAGCCGTATGTGAC
58190333 ACACGGGCATGTGTCTCAGCCGTATGTGAC
1 ACACGGGCATGTGTCTCAGCCGTATGTGAC
58190363 ACACG
1 ACACG
58190368 ACCAGGTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (30 bp):
ACACGGGCATGTGTCTCAGCCGTATGTGAC
Found at i:58190589 original size:67 final size:66
Alignment explanation
Indices: 58190431--58190617 Score: 239
Period size: 67 Copynumber: 2.8 Consensus size: 66
58190421 AGCCTCAAAT
* * * * * *
58190431 GGCCTAGCACACAGGCGTTTGACTTGGCAGTGTGACACAAGTCAGTATACCCACTATTTTTCACA
1 GGCCTAGCACACAGGCGTTTGGCTTGGCCGTGTGACATAAGTCAGTATGCTCACCATTTTTCACA
58190496 C
66 C
** * * *
58190497 ATCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCATAAGTCAGTATGCTCACCATTTTTTCAC
1 GGCCTAGCACACAGGCGTTTGGCTTGGCCGTGTGACATAAGTCAGTATGCTCACCA-TTTTTCAC
58190562 AC
65 AC
* * *
58190564 GGCCTAGCACACAAGCGTTTGGCTTGGCCGTGTGACCTAAGTCAGTAAGCTCAC
1 GGCCTAGCACACAGGCGTTTGGCTTGGCCGTGTGACATAAGTCAGTATGCTCAC
58190618 GGGCTAGGAC
Statistics
Matches: 101, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
66 45 0.45
67 56 0.55
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (66 bp):
GGCCTAGCACACAGGCGTTTGGCTTGGCCGTGTGACATAAGTCAGTATGCTCACCATTTTTCACA
C
Found at i:58193743 original size:39 final size:39
Alignment explanation
Indices: 58193690--58193805 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
58193680 GCGTGTTCCG
*
58193690 AGTGGATCATCTCTTATGAGCTTCTGTTGGTGTGTTTCA
1 AGTGGATCAGCTCTTATGAGCTTCTGTTGGTGTGTTTCA
* * * * *
58193729 GGTGGACCAGCTCTTATGAGCTTCTATTTGGAGTATTTCA
1 AGTGGATCAGCTCTTATGAGCTTCT-GTTGGTGTGTTTCA
* *
58193769 ATTGGATAAGCTCTTATGAGCTTCTGTCTGGTGTGTT
1 AGTGGATCAGCTCTTATGAGCTTCTGT-TGGTGTGTT
58193806 CGGTTGATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 23 0.37
40 39 0.63
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (39 bp):
AGTGGATCAGCTCTTATGAGCTTCTGTTGGTGTGTTTCA
Found at i:58196674 original size:5 final size:5
Alignment explanation
Indices: 58196658--58196765 Score: 207
Period size: 5 Copynumber: 21.4 Consensus size: 5
58196648 GAATTAAGTG
58196658 TATAT ATATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
58196709 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
58196759 TATAT TA
1 TATAT TA
58196766 AAATAAATAA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 97 0.95
6 5 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:58197801 original size:37 final size:40
Alignment explanation
Indices: 58197703--58197804 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 40
58197693 TTTGACTTCG
* *
58197703 AGTCAATGAGACACTGGGTGTCAAATTATTACTTCGGATAT
1 AGTCGATGAGACACTGGGTG-CCAATTATTACTTCGGATAT
* * * *
58197744 ATTCGATGAGGCACTAGGTGCCAA-T-TTACTTCGG-TTT
1 AGTCGATGAGACACTGGGTGCCAATTATTACTTCGGATAT
58197781 AGTCGATGAGACACTGGGTGCCAA
1 AGTCGATGAGACACTGGGTGCCAA
58197805 ACTGGTGTGT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 23 0.44
38 9 0.17
39 1 0.02
40 3 0.06
41 16 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
AGTCGATGAGACACTGGGTGCCAATTATTACTTCGGATAT
Found at i:58199516 original size:17 final size:17
Alignment explanation
Indices: 58199483--58199516 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58199473 TAATATTAAT
* *
58199483 GCTAAATATTTTTGAAA
1 GCTAAATAGTTTGGAAA
58199500 GCTAAATAGTTTGGAAA
1 GCTAAATAGTTTGGAAA
58199517 CTATGCACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
GCTAAATAGTTTGGAAA
Found at i:58201702 original size:145 final size:145
Alignment explanation
Indices: 58201439--58201731 Score: 568
Period size: 145 Copynumber: 2.0 Consensus size: 145
58201429 AAGTATTCTT
58201439 AACCATTCTTCTATTTTGAAATGATACCAGGTTTATTGCTATTAATTACCTCAATGATACAAAGA
1 AACCATTCTTCTATTTTGAAATGATACCAGGTTTATTGCTATTAATTACCTCAATGATACAAAGA
*
58201504 TTACAAAACATTATTGCCAACCTCCTATTCCATATTGTTTTTTTTCCTTTTCACCTCTGGAGAAC
66 TTACAAAACATTATTGCCAACCTCCTATTCCATATTGTTTTTTTCCCTTTTCACCTCTGGAGAAC
58201569 CCACTTGCTTCAACA
131 CCACTTGCTTCAACA
58201584 AACCATTCTTCTATTTTGAAATGATACCAGGTTTATTGCTATTAATTACCTCAATGATACAAAGA
1 AACCATTCTTCTATTTTGAAATGATACCAGGTTTATTGCTATTAATTACCTCAATGATACAAAGA
*
58201649 TTACAAAACATTATTGCCAACCTCCTATTCCATATTGTTTTTTTCCCTTTTCACCTTTGGAGAAC
66 TTACAAAACATTATTGCCAACCTCCTATTCCATATTGTTTTTTTCCCTTTTCACCTCTGGAGAAC
58201714 CCACTTGCTTCAACA
131 CCACTTGCTTCAACA
58201729 AAC
1 AAC
58201732 ACAACATTTT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.38
Consensus pattern (145 bp):
AACCATTCTTCTATTTTGAAATGATACCAGGTTTATTGCTATTAATTACCTCAATGATACAAAGA
TTACAAAACATTATTGCCAACCTCCTATTCCATATTGTTTTTTTCCCTTTTCACCTCTGGAGAAC
CCACTTGCTTCAACA
Found at i:58202741 original size:4 final size:4
Alignment explanation
Indices: 58202732--58202820 Score: 169
Period size: 4 Copynumber: 22.2 Consensus size: 4
58202722 TAACTTCAAA
58202732 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
58202780 ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
58202821 TTAAATAGGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 83 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:58206551 original size:132 final size:132
Alignment explanation
Indices: 58206196--58206824 Score: 681
Period size: 132 Copynumber: 4.8 Consensus size: 132
58206186 TGCAACGCCA
* * * * ** * * *** * *
58206196 GGGAA-ATAAAATTCGCTGTCTTCGATCCGCTCTACTACTGCTCAAGGAGATGTGATCTGCAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTACATTC
* * * * *
58206260 TTCAACCTACTCTACTACTGCTTAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCTCTACTACC
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58206325 TT
131 TT
* * * * * ** * * * **
58206327 GGAAAGATAAAATTCGCCATTTTTTTTATCTACTCCACTACTGCTTAGGGACATAAGATCTACAT
1 GGGAAGATAAGATTCACC--GTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTACAT
* * * * *
58206392 TCTTCAACCTACTCCATTAG-TGTTCAGGCAGAT-GTGATTAGTAGCCTAAATCTGCTTCCCTAC
64 TCTTCAACCTACTCCACT-GCTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTAC
58206455 TACCTT
127 TACCTT
* * *
58206461 AGGAAGATAAGATTCACCGTGTTCGATCTGCTCCGCTACTGTTTAGGGAGACCAGATCTACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTACATTC
*
58206526 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58206591 TT
131 TT
* * *
58206593 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGTTACTACTTAGGGAGACCAGATCCACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTACATTC
* * * * * *
58206658 TTCAACCTTCTCCACTACTGCTCAGGGAAATAGGAATGGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58206723 TT
131 TT
* * * * * *
58206725 GGGAAGATAAGACTCAACTTCTTCGATCTGCTCCGCTACTGCTTAGAGAGA-CAGGATCTATAAT
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCA-GATCTACATT
* *
58206789 ATTCAACCTACTCCACTGCTGCTCAGGGAAATAGGA
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
58206825 CTTGTTATCT
Statistics
Matches: 421, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
131 7 0.02
132 311 0.74
133 2 0.00
134 101 0.24
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTACATTC
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
TT
Found at i:58218705 original size:15 final size:14
Alignment explanation
Indices: 58218685--58218734 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
58218675 TTATAAAAAT
58218685 ATAATAACAATAGTA
1 ATAATAA-AATAGTA
* *
58218700 ATAATAATAATATTG
1 ATAATAA-AATAGTA
58218715 ATAATAGAAATAGTA
1 ATAATA-AAATAGTA
58218730 ATAAT
1 ATAAT
58218735 GAAGATAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 28 0.97
16 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (14 bp):
ATAATAAAATAGTA
Found at i:58220787 original size:132 final size:132
Alignment explanation
Indices: 58220432--58221060 Score: 690
Period size: 132 Copynumber: 4.8 Consensus size: 132
58220422 TGCAACGCCA
* * * * * * * *** * *
58220432 GGGAA-ATAAAATTCGCTGTCTTCGATCCGCTCTACTACTGCTCAAGGAGATGTGATCTGCAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * *
58220496 TTCAACCTACTCTACTACTGCTTAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCTCTACTACC
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58220561 TT
131 TT
* * * * ** * * **
58220563 GGAAAGATAAAATTCACCATTTTTTTTATCTACTCCACTACTGCTTAGGGACATAAGATCTACAT
1 GGGAAGATAAGATTCACC--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACAT
* * * * *
58220628 TCTTCAACCTACTCCATTAG-TGTTCAGGCAGAT-GTGATTAGTAGCCTAAATCTGCTTCCCTAC
64 TCTTCAACCTACTCCACT-GCTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTAC
58220691 TACCTT
127 TACCTT
* * *
58220697 AGGAAGATAAGATTCACCGTGTTCGATCTGCTCCACTACTGTTTAGGGAGACCAGATCTACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
*
58220762 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58220827 TT
131 TT
** * *
58220829 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGTTACTACTTAGGGAGACCAGATCCACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * * *
58220894 TTCAACCTTCTCCACTACTGCTCAGGGAAATAGGAATGGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58220959 TT
131 TT
* * * * * * *
58220961 GGGAAGATAAGACTCAACTTCTTCGATCTGCTCCGCTACTGCTTAGAGAGA-CAGGATCTATAAT
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCA-GATCTACATT
* *
58221025 ATTCAACCTACTCCACTGCTGCTCAGGGAAATAGGA
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
58221061 CTTGTTATCT
Statistics
Matches: 421, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
131 7 0.02
132 310 0.74
133 2 0.00
134 102 0.24
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
TT
Found at i:58233255 original size:15 final size:14
Alignment explanation
Indices: 58233235--58233284 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
58233225 TTATAAAAAT
58233235 ATAATAACAATAGTA
1 ATAATAA-AATAGTA
* *
58233250 ATAATAATAATATTG
1 ATAATAA-AATAGTA
58233265 ATAATAGAAATAGTA
1 ATAATA-AAATAGTA
58233280 ATAAT
1 ATAAT
58233285 GAAGATAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 28 0.97
16 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (14 bp):
ATAATAAAATAGTA
Found at i:58235355 original size:132 final size:132
Alignment explanation
Indices: 58235000--58235628 Score: 690
Period size: 132 Copynumber: 4.8 Consensus size: 132
58234990 TGCAACGCCA
* * * * * * * *** * *
58235000 GGGAA-ATAAAATTCGCTGTCTTCGATCCGCTCTACTACTGCTCAAGGAGATGTGATCTGCAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * *
58235064 TTCAACCTACTCTACTACTGCTTAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCTCTACTACC
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58235129 TT
131 TT
* * * * ** * * **
58235131 GGAAAGATAAAATTCACCATTTTTTTTATCTACTCCACTACTGCTTAGGGACATAAGATCTACAT
1 GGGAAGATAAGATTCACC--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACAT
* * * * *
58235196 TCTTCAACCTACTCCATTAG-TGTTCAGGCAGAT-GTGATTAGTAGCCTAAATCTGCTTCCCTAC
64 TCTTCAACCTACTCCACT-GCTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTAC
58235259 TACCTT
127 TACCTT
* * *
58235265 AGGAAGATAAGATTCACCGTGTTCGATCTGCTCCACTACTGTTTAGGGAGACCAGATCTACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
*
58235330 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58235395 TT
131 TT
** * *
58235397 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGTTACTACTTAGGGAGACCAGATCCACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * * *
58235462 TTCAACCTTCTCCACTACTGCTCAGGGAAATAGGAATGGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58235527 TT
131 TT
* * * * * * *
58235529 GGGAAGATAAGACTCAACTTCTTCGATCTGCTCCGCTACTGCTTAGAGAGA-CAGGATCTATAAT
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCA-GATCTACATT
* *
58235593 ATTCAACCTACTCCACTGCTGCTCAGGGAAATAGGA
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
58235629 CTTGTTATCT
Statistics
Matches: 421, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
131 7 0.02
132 310 0.74
133 2 0.00
134 102 0.24
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
TT
Found at i:58247830 original size:15 final size:14
Alignment explanation
Indices: 58247810--58247859 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
58247800 TTATAAAAAT
58247810 ATAATAACAATAGTA
1 ATAATAA-AATAGTA
* *
58247825 ATAATAATAATATTG
1 ATAATAA-AATAGTA
58247840 ATAATAGAAATAGTA
1 ATAATA-AAATAGTA
58247855 ATAAT
1 ATAAT
58247860 GAAGATAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 28 0.97
16 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (14 bp):
ATAATAAAATAGTA
Found at i:58249925 original size:132 final size:132
Alignment explanation
Indices: 58249570--58250198 Score: 690
Period size: 132 Copynumber: 4.8 Consensus size: 132
58249560 TGCAACGCCA
* * * * * * * *** * *
58249570 GGGAA-ATAAAATTCGCTGTCTTCGATCCGCTCTACTACTGCTCAAGGAGATGTGATCTGCAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * *
58249634 TTCAACCTACTCTACTACTGCTTAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCTCTACTACC
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58249699 TT
131 TT
* * * * ** * * **
58249701 GGAAAGATAAAATTCACCATTTTTTTTATCTACTCCACTACTGCTTAGGGACATAAGATCTACAT
1 GGGAAGATAAGATTCACC--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACAT
* * * * *
58249766 TCTTCAACCTACTCCATTAG-TGTTCAGGCAGAT-GTGATTAGTAGCCTAAATCTGCTTCCCTAC
64 TCTTCAACCTACTCCACT-GCTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTAC
58249829 TACCTT
127 TACCTT
* * *
58249835 AGGAAGATAAGATTCACCGTGTTCGATCTGCTCCACTACTGTTTAGGGAGACCAGATCTACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
*
58249900 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58249965 TT
131 TT
** * *
58249967 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGTTACTACTTAGGGAGACCAGATCCACATTC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
* * * * * *
58250032 TTCAACCTTCTCCACTACTGCTCAGGGAAATAGGAATGGTGGCTTAAATCTGCTTCCCTACTACT
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
58250097 TT
131 TT
* * * * * * *
58250099 GGGAAGATAAGACTCAACTTCTTCGATCTGCTCCGCTACTGCTTAGAGAGA-CAGGATCTATAAT
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCA-GATCTACATT
* *
58250163 ATTCAACCTACTCCACTGCTGCTCAGGGAAATAGGA
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
58250199 CTTGTTATCT
Statistics
Matches: 421, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
131 7 0.02
132 310 0.74
133 2 0.00
134 102 0.24
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACCAGATCTACATTC
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACC
TT
Found at i:58262711 original size:20 final size:20
Alignment explanation
Indices: 58262651--58262712 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
58262641 AGATTGAAGG
*
58262651 AATAATA-ATAAATGAAAAT
1 AATAATAGATAAATGAAAAA
* * * *
58262670 AATTATAGTTAAACGAATAA
1 AATAATAGATAAATGAAAAA
*
58262690 AATAATAGATAAATAAAAAA
1 AATAATAGATAAATGAAAAA
58262710 AAT
1 AAT
58262713 GCCTTGGATT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (20 bp):
AATAATAGATAAATGAAAAA
Found at i:58263413 original size:18 final size:19
Alignment explanation
Indices: 58263390--58263430 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
58263380 TTCGTTTAAA
*
58263390 AAAAT-AAATGAAAAAAAC
1 AAAATAAAATAAAAAAAAC
*
58263408 AAAATAAAATAAAAAAAAT
1 AAAATAAAATAAAAAAAAC
58263427 AAAA
1 AAAA
58263431 AGGCACTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAATAAAATAAAAAAAAC
Found at i:58268741 original size:26 final size:25
Alignment explanation
Indices: 58268710--58268783 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 25
58268700 ATAAGCCTTT
58268710 ATTATAATTTAAGTTTATATATTTC
1 ATTATAATTTAAGTTTATATATTTC
*
58268735 ATATATAA--TAA-TATTA-ATTACTTTT
1 AT-TATAATTTAAGT-TTATA-TA-TTTC
*
58268760 ATTATAATTTAAGTCTATATATTT
1 ATTATAATTTAAGTTTATATATTT
58268784 TATAGTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
23 2 0.05
24 13 0.33
25 10 0.26
26 12 0.31
27 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (25 bp):
ATTATAATTTAAGTTTATATATTTC
Found at i:58269323 original size:30 final size:28
Alignment explanation
Indices: 58269263--58269323 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
58269253 TATTTACTTC
*
58269263 TATAGTTTATTTATTTAGATTTGCTAAA
1 TATAGTTTATTTATTTAGATTTGATAAA
*
58269291 TATAGTTTAATTTGATTTCAG-TTTTATAAA
1 TATAGTTT-ATTT-ATTT-AGATTTGATAAA
58269321 TAT
1 TAT
58269324 TTTCTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 4 0.14
30 14 0.50
31 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (28 bp):
TATAGTTTATTTATTTAGATTTGATAAA
Found at i:58284007 original size:20 final size:19
Alignment explanation
Indices: 58283982--58284035 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
58283972 AAACATGTTT
**
58283982 TAAATGTGTTTTAATTTATC
1 TAAATGT-TTTTAATCAATC
58284002 TAAATGTTTTTGAATCAATC
1 TAAATGTTTTT-AATCAATC
58284022 TAAAATGTTTTTAA
1 T-AAATGTTTTTAA
58284036 GTGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 16 0.53
21 10 0.33
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (19 bp):
TAAATGTTTTTAATCAATC
Found at i:58284913 original size:21 final size:22
Alignment explanation
Indices: 58284881--58284922 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
58284871 TGTGTTTAAA
*
58284881 ATATTAAATATTATCATATTTG
1 ATATTAAATATTATAATATTTG
*
58284903 ATATT-AATATTTTAATATTT
1 ATATTAAATATTATAATATTT
58284923 TTAACTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTAAATATTATAATATTTG
Found at i:58285279 original size:21 final size:22
Alignment explanation
Indices: 58285232--58285282 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
58285222 TGTGAAGTCT
58285232 TATAAAATAATAAATAATTATA
1 TATAAAATAATAAATAATTATA
* *
58285254 AATAAAAT-ATATAA-ACTTATA
1 TATAAAATAATA-AATAATTATA
58285275 TATAAAAT
1 TATAAAAT
58285283 CAAAACACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TATAAAATAATAAATAATTATA
Found at i:58289098 original size:18 final size:19
Alignment explanation
Indices: 58289075--58289112 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
58289065 TTTTTTAAAA
58289075 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
58289093 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
58289112 T
1 T
58289113 TGTAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:58292510 original size:17 final size:17
Alignment explanation
Indices: 58292458--58292511 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
58292448 TTGATTTAGT
58292458 TTATTTGTTTATTTCTCA
1 TTATTT-TTTATTTCTCA
**
58292476 TTA---TTTATTTCTTT
1 TTATTTTTTATTTCTCA
58292490 TTATTTTTTATTTCTCA
1 TTATTTTTTATTTCTCA
58292507 TTATT
1 TTATT
58292512 CCTTATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 12 0.41
17 14 0.48
18 3 0.10
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTTTATTTCTCA
Found at i:58292517 original size:17 final size:15
Alignment explanation
Indices: 58292465--58292511 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
58292455 AGTTTATTTG
58292465 TTTATTTCTCATTA-
1 TTTATTTCTCATTAT
**
58292479 TTTATTTCTTTTTATTT
1 TTTATTTCTCATTA--T
58292496 TTTATTTCTCATTAT
1 TTTATTTCTCATTAT
58292511 T
1 T
58292512 CCTTATAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
17 12 0.46
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTCTCATTAT
Found at i:58302506 original size:16 final size:15
Alignment explanation
Indices: 58302481--58302510 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58302471 TAAGGTTATC
58302481 TAATTAAAATTTTAA
1 TAATTAAAATTTTAA
58302496 TAATATAAAATTTTA
1 TAAT-TAAAATTTTA
58302511 GAAAGAGATT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTTTAA
Found at i:58307636 original size:6 final size:6
Alignment explanation
Indices: 58307627--58307652 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
58307617 AAAAGTTAAA
58307627 GAAGAG GAAGAG GAAGAG GAAGAG GA
1 GAAGAG GAAGAG GAAGAG GAAGAG GA
58307653 GAGCAGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:58324551 original size:20 final size:19
Alignment explanation
Indices: 58324517--58324580 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
58324507 GACATGCTTA
58324517 AAAACAATTTAACTT-ATTG
1 AAAA-AATTTAACTTGATTG
58324536 ACAAAAATTCTAACTTGATTG
1 A-AAAAATT-TAACTTGATTG
* *
58324557 AAATAATTTTAACTTGATTT
1 AAA-AAATTTAACTTGATTG
58324577 AAAA
1 AAAA
58324581 GTTGATTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.15
20 24 0.62
21 9 0.23
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (19 bp):
AAAAAATTTAACTTGATTG
Found at i:58326268 original size:50 final size:51
Alignment explanation
Indices: 58326210--58326367 Score: 190
Period size: 50 Copynumber: 3.3 Consensus size: 51
58326200 CTTACGTATG
* *
58326210 ATCACTTGTCACTTGTCCCTGATCAAATAAGTGTAGCT-AAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
* * *
58326260 ATCACTTGTCACTTGTCACTGATCAGATAAGTTTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
*
58326311 ATCACTTGTCAC-TGATCA--GAT---A-AA-TGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTG-TCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
58326355 ATCACTTGTCACT
1 ATCACTTGTCACT
58326368 GATCAGAAAT
Statistics
Matches: 99, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
44 31 0.31
45 2 0.02
46 1 0.01
49 3 0.03
50 37 0.37
51 25 0.25
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
Found at i:58326317 original size:44 final size:44
Alignment explanation
Indices: 58326263--58326374 Score: 197
Period size: 44 Copynumber: 2.5 Consensus size: 44
58326253 ACCACTTATC
* * *
58326263 ACTTGTCACTTGTCACTGATCAGATAAGTTTAGCTGAAGCTACT
1 ACTTATCACTTGTCACTGATCAGATAAATGTAGCTGAAGCTACT
58326307 ACTTATCACTTGTCACTGATCAGATAAATGTAGCTGAAGCTACT
1 ACTTATCACTTGTCACTGATCAGATAAATGTAGCTGAAGCTACT
58326351 ACTTATCACTTGTCACTGATCAGA
1 ACTTATCACTTGTCACTGATCAGA
58326375 AATACTCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
ACTTATCACTTGTCACTGATCAGATAAATGTAGCTGAAGCTACT
Found at i:58333465 original size:20 final size:20
Alignment explanation
Indices: 58333442--58333480 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58333432 TTCTGACATG
*
58333442 TTTA-AAAATATTTTAACTTC
1 TTTACAAAA-ATTCTAACTTC
58333462 TTTACAAAAATTCTAACTT
1 TTTACAAAAATTCTAACTT
58333481 GATTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTACAAAAATTCTAACTTC
Found at i:58354053 original size:32 final size:32
Alignment explanation
Indices: 58354012--58354078 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
58354002 GTACGCCAGG
58354012 GCACGATCAGTCATTCATTCTATGAAAACCAA
1 GCACGATCAGTCATTCATTCTATGAAAACCAA
58354044 GCACGATCAGTCATTCATTCTATGAAAACCAA
1 GCACGATCAGTCATTCATTCTATGAAAACCAA
58354076 GCA
1 GCA
58354079 GGGGCGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (32 bp):
GCACGATCAGTCATTCATTCTATGAAAACCAA
Found at i:58358997 original size:21 final size:21
Alignment explanation
Indices: 58358967--58359010 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
58358957 TTTTTAGTTT
*
58358967 ATTTTATGTATTATATTTTTA
1 ATTTTATGTATAATATTTTTA
* *
58358988 ATTTTTTGTATAATTTTTTTA
1 ATTTTATGTATAATATTTTTA
58359009 AT
1 AT
58359011 ATGGGCGGGT
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:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
ATTTTATGTATAATATTTTTA
Found at i:58365880 original size:18 final size:18
Alignment explanation
Indices: 58365857--58365892 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58365847 GGAATCGTAA
58365857 GAGTCTCAGTTTTAGTGG
1 GAGTCTCAGTTTTAGTGG
58365875 GAGTCTCAGTTTTAGTGG
1 GAGTCTCAGTTTTAGTGG
58365893 AGAGATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.33, T:0.39
Consensus pattern (18 bp):
GAGTCTCAGTTTTAGTGG
Found at i:58367151 original size:34 final size:34
Alignment explanation
Indices: 58367108--58367175 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
58367098 AGAAACCTAA
58367108 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
1 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
58367142 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
1 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
58367176 TTCATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (34 bp):
GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
Found at i:58368872 original size:13 final size:13
Alignment explanation
Indices: 58368854--58368878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58368844 AAATTGTTCA
58368854 ATTAAAGAATTTG
1 ATTAAAGAATTTG
58368867 ATTAAAGAATTT
1 ATTAAAGAATTT
58368879 TCTTGAAAAT
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:58368961 original size:19 final size:19
Alignment explanation
Indices: 58368933--58368972 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
58368923 ATTAATTTTG
58368933 ATTAAGCAAAATTAATT-AA
1 ATTAAGC-AAATTAATTGAA
*
58368952 ATTAATCAAATTAATTGAA
1 ATTAAGCAAATTAATTGAA
58368971 AT
1 AT
58368973 AAATATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTAAGCAAATTAATTGAA
Found at i:58369565 original size:61 final size:58
Alignment explanation
Indices: 58369482--58369597 Score: 128
Period size: 61 Copynumber: 1.9 Consensus size: 58
58369472 AGTGATTATC
* *
58369482 TTAATATTAAAATAAATTTAATA-TGTATCTTGTAGATAAATATT-TAATTAATTTAATAGAT
1 TTAACATTAAAATAAATCTAATACT-TATC-T-T-GATAAATATTAT-ATTAATTTAATAGAT
* * *
58369543 TTAACATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAACATTAAAATAAATCTAATACTTATCTTGATAAATATTATATTAATTTAATA
58369598 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
58 21 0.44
59 2 0.04
60 1 0.02
61 23 0.48
62 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (58 bp):
TTAACATTAAAATAAATCTAATACTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:58372236 original size:21 final size:21
Alignment explanation
Indices: 58372210--58372260 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
58372200 ATTAGAGAAG
58372210 AAAAATAAATTTAAAAAAAAT
1 AAAAATAAATTTAAAAAAAAT
*** *
58372231 AAAAATAAATTTCCTAAAATT
1 AAAAATAAATTTAAAAAAAAT
58372252 AAAAATAAA
1 AAAAATAAA
58372261 AAAATTCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATAAATTTAAAAAAAAT
Found at i:58376079 original size:9 final size:9
Alignment explanation
Indices: 58376065--58376094 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
58376055 TCATATTAGG
58376065 GTTATAATT
1 GTTATAATT
58376074 GTTATAATT
1 GTTATAATT
*
58376083 GTCATAATT
1 GTTATAATT
58376092 GTT
1 GTT
58376095 TCAGATTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (9 bp):
GTTATAATT
Found at i:58379586 original size:26 final size:26
Alignment explanation
Indices: 58379550--58379601 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
58379540 CAATCCCTAG
*
58379550 TTCGCAACTTACCTGGCGAACCCCAA
1 TTCGCAACTTAACTGGCGAACCCCAA
* *
58379576 TTCGTAACTTAACTGGCGAGCCCCAA
1 TTCGCAACTTAACTGGCGAACCCCAA
58379602 CTTACCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (26 bp):
TTCGCAACTTAACTGGCGAACCCCAA
Found at i:58381149 original size:31 final size:30
Alignment explanation
Indices: 58381114--58381173 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58381104 GGAGGTGGGA
*
58381114 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
58381145 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
58381174 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:58381409 original size:9 final size:9
Alignment explanation
Indices: 58381395--58381449 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
58381385 TATAGTTTGA
58381395 TATTCGAAT
1 TATTCGAAT
58381404 TATTCGAAT
1 TATTCGAAT
*
58381413 TATTCGAGT
1 TATTCGAAT
58381422 TATTCGAAT
1 TATTCGAAT
*
58381431 TATTCGACT
1 TATTCGAAT
58381440 TATTCGAAT
1 TATTCGAAT
58381449 T
1 T
58381450 TGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58384983 original size:110 final size:110
Alignment explanation
Indices: 58384808--58385031 Score: 340
Period size: 110 Copynumber: 2.0 Consensus size: 110
58384798 GGAAGATAGC
* * * *
58384808 GAGTATCAACCAATTGATTAGTTAATTAGAGGCCAAGAGGTAATAATTTATTAATTGATAGCTAA
1 GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAAGAGGTAATAATTGATTAATCGATAACTAA
* * *
58384873 TCCACTCTAAAACCCTAATTTGAAGTTAGTTACAAACCCTGAAGT
66 TCCACCCTAAAACCCTAATTCGAAGTTAGTTACAAACCCTAAAGT
* * * *
58384918 GAGTATCGACTAATTGATGAGTTAATTAGAGGCCGAGAGGTAATAATTGGTTAATCGATAACTAA
1 GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAAGAGGTAATAATTGATTAATCGATAACTAA
*
58384983 TCCACCCTAAAACCCTAATTCGAAGTTATTTACAAACCCTAAAGT
66 TCCACCCTAAAACCCTAATTCGAAGTTAGTTACAAACCCTAAAGT
58385028 GAGT
1 GAGT
58385032 TAATCTTCCT
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (110 bp):
GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAAGAGGTAATAATTGATTAATCGATAACTAA
TCCACCCTAAAACCCTAATTCGAAGTTAGTTACAAACCCTAAAGT
Found at i:58387529 original size:29 final size:29
Alignment explanation
Indices: 58387491--58387547 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
58387481 AAAATATTTT
*
58387491 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAA-TAAATTG
58387520 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATAAATT
58387548 AAGAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATAAATTG
Found at i:58387619 original size:8 final size:8
Alignment explanation
Indices: 58387608--58387660 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
58387598 ATGAGTAAAA
*
58387608 TATTTTAT
1 TATTATAT
*
58387616 TATTTTAT
1 TATTATAT
*
58387624 TATTTTAT
1 TATTATAT
*
58387632 ATATTAAAT
1 -TATTATAT
58387641 TGATTATAT
1 T-ATTATAT
58387650 TATTATAT
1 TATTATAT
58387658 TAT
1 TAT
58387661 GAAATAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
8 27 0.68
9 13 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TATTATAT
Found at i:58387638 original size:123 final size:123
Alignment explanation
Indices: 58387480--58387727 Score: 460
Period size: 123 Copynumber: 2.0 Consensus size: 123
58387470 AAATTAATCA
58387480 TAAAATATTTTATTATTTTATTATATTATAAATTAAATTGATTATATTATTATATTATGAAATAA
1 TAAAATATTTTATTATTTTATTATATTATAAATTAAATTGATTATATTATTATATTATGAAATAA
*
58387545 ATTAAGAAAAGAGAAGTGTAAGGTAAAAATAAAATACAAATGTATTAATTTAAATGAG
66 ATTAAGAAAAGACAAGTGTAAGGTAAAAATAAAATACAAATGTATTAATTTAAATGAG
* *
58387603 TAAAATATTTTATTATTTTATTATTTTATATATTAAATTGATTATATTATTATATTATGAAATAA
1 TAAAATATTTTATTATTTTATTATATTATAAATTAAATTGATTATATTATTATATTATGAAATAA
*
58387668 ATTAAGAAAAGACAAGTGTAAGGTAAAAATAAAATACAAGTGTATTAATTTAAATGAG
66 ATTAAGAAAAGACAAGTGTAAGGTAAAAATAAAATACAAATGTATTAATTTAAATGAG
58387726 TA
1 TA
58387728 CATTTGTATT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (123 bp):
TAAAATATTTTATTATTTTATTATATTATAAATTAAATTGATTATATTATTATATTATGAAATAA
ATTAAGAAAAGACAAGTGTAAGGTAAAAATAAAATACAAATGTATTAATTTAAATGAG
Found at i:58387668 original size:29 final size:29
Alignment explanation
Indices: 58387614--58387670 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
58387604 AAAATATTTT
* * *
58387614 ATTATTTTATTATTTTATATATTAAATTG
1 ATTATATTATTATATTATATAATAAATTG
58387643 ATTATATTATTATATTATGA-AATAAATT
1 ATTATATTATTATATTAT-ATAATAAATT
58387671 AAGAAAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (29 bp):
ATTATATTATTATATTATATAATAAATTG
Found at i:58387771 original size:33 final size:32
Alignment explanation
Indices: 58387729--58387800 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
58387719 AAATGAGTAC
58387729 ATTTGTATTATTTATATA-TAATTAGTAAAAAGAT
1 ATTT-TATTATTTAT-TACTAATTAGT-AAAAGAT
58387763 ATTTTATTATTTATTACTAATTAGTAAAAGAT
1 ATTTTATTATTTATTACTAATTAGTAAAAGAT
58387795 -TTTTAT
1 ATTTTAT
58387801 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 9 0.24
33 18 0.49
34 4 0.11
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTATTATTTATTACTAATTAGTAAAAGAT
Found at i:58388951 original size:18 final size:17
Alignment explanation
Indices: 58388924--58388977 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
58388914 AGTGAATGAA
*
58388924 AAAGTTAATTTGATATTG
1 AAAGTAAATTTGA-ATTG
*
58388942 AAAGTAAATTTTGAAATG
1 AAAGTAAA-TTTGAATTG
*
58388960 AAAGTGAATTTGAATTG
1 AAAGTAAATTTGAATTG
58388977 A
1 A
58388978 GAATTGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (17 bp):
AAAGTAAATTTGAATTG
Found at i:58389118 original size:41 final size:37
Alignment explanation
Indices: 58389072--58389172 Score: 103
Period size: 37 Copynumber: 2.6 Consensus size: 37
58389062 CCTCGAGTCG
**
58389072 ATGAGACACTGGGTGTCACTATTTTACTTCAGATAGATTCA
1 ATGAGACACTGGGTGTCAC---TTTACTTCAGATAG-GCCA
* * * *
58389113 ATGAGATACTGGGTATCACTTTACTTCGGCTAGGCCA
1 ATGAGACACTGGGTGTCACTTTACTTCAGATAGGCCA
58389150 ATGAGACACTGGGTGTCAACTTT
1 ATGAGACACTGGGTGTC-ACTTT
58389173 GTTTCGAACT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
37 17 0.33
38 17 0.33
41 17 0.33
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (37 bp):
ATGAGACACTGGGTGTCACTTTACTTCAGATAGGCCA
Found at i:58391817 original size:21 final size:21
Alignment explanation
Indices: 58391793--58391835 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
58391783 TTGGTTGTTA
58391793 AATAAGATTATTTTGTAAAGT
1 AATAAGATTATTTTGTAAAGT
58391814 AATAAGATTATTTTGTAAAGT
1 AATAAGATTATTTTGTAAAGT
58391835 A
1 A
58391836 GTTTTTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (21 bp):
AATAAGATTATTTTGTAAAGT
Found at i:58395331 original size:17 final size:17
Alignment explanation
Indices: 58395309--58395364 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
58395299 ATCATCGGTG
*
58395309 AATAATTGTATTTAAAA
1 AATAATTGTATTTAGAA
* *
58395326 AATAATTTTTTTTAGAA
1 AATAATTGTATTTAGAA
58395343 AATAATTGTATTTAGAA
1 AATAATTGTATTTAGAA
58395360 AATAA
1 AATAA
58395365 AAGAAAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
AATAATTGTATTTAGAA
Found at i:58403239 original size:12 final size:12
Alignment explanation
Indices: 58403222--58403247 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58403212 AGTTTTGAGT
58403222 GAATGCTCTCAA
1 GAATGCTCTCAA
58403234 GAATGCTCTCAA
1 GAATGCTCTCAA
58403246 GA
1 GA
58403248 CTTCTATTAC
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:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (12 bp):
GAATGCTCTCAA
Found at i:58403395 original size:22 final size:24
Alignment explanation
Indices: 58403366--58403416 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58403356 AAAAGCTATC
58403366 TACA-AATCAAATC-TCT-AAGAT
1 TACATAATCAAATCTTCTAAAGAT
**
58403387 TACATAATCGTATCTTCTAAAGAT
1 TACATAATCAAATCTTCTAAAGAT
58403411 TACATA
1 TACATA
58403417 TCTTTGTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 7 0.28
23 3 0.12
24 11 0.44
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (24 bp):
TACATAATCAAATCTTCTAAAGAT
Found at i:58409281 original size:61 final size:59
Alignment explanation
Indices: 58409213--58409359 Score: 165
Period size: 61 Copynumber: 2.5 Consensus size: 59
58409203 AATTAATCAC
* * * *
58409213 ATTAATATTCAATTAATAAAATATTATTTAGATAATTATTAAATTAAATTTAATATCTCAT
1 ATTAATATTCAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAAT-T-TAAT
* * ** *
58409274 ATTAATATTAAATTAATAAAATACTATCTAAATAAATATTTTATTTAATTTAATTTAAT
1 ATTAATATTCAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATTTAAT
58409333 ATTAA-ATTC-ATTAA-AACAATATTATCT
1 ATTAATATTCAATTAATAA-AATATTATCT
58409360 TTGGAAAAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 2 0.03
57 14 0.19
58 3 0.04
59 8 0.11
60 1 0.01
61 46 0.62
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTAATATTCAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATTTAAT
Found at i:58411411 original size:179 final size:178
Alignment explanation
Indices: 58411084--58411444 Score: 555
Period size: 179 Copynumber: 2.0 Consensus size: 178
58411074 AATTTAAATT
* * * *
58411084 CTCTCTGCATGCAAATGAATTATGGTTTTCTTACATTTGAAAGCCTTCTTTTTTATATTGATATG
1 CTCTCCGCATGCAAATGAATTATGATTTTCTTACATTTAAAAGCCATCTTTTTTATATTGATATG
* **
58411149 ATTATTATGTTTAGCTAATCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAGGTGTA
66 ATTATTATGTTTAGCTAACCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATGTA
* *
58411214 ATCGGTACCTACTTTCAGGTATTTTGCTGGTGAGTTTCTAAACTCAAA
131 ATCAGTACCTACTTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
* *
58411262 CTCTCCGCATGCAAATGAATTATGATTTTCTTACATTTAAAATCCATCTTTTTTTATCTTGATAT
1 CTCTCCGCATGCAAATGAATTATGATTTTCTTACATTTAAAAGCCATC-TTTTTTATATTGATAT
*
58411327 GATTATTATGTTTAGCTAACCGAG-AGTGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGTAAATG
65 GATTATTATGTTTAGCTAACCGAGAAG-GAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATG
* *
58411391 TAATTAGTACC-ACATTTCAGGTATTTTTCTGGTGAGTTTCTAAAATCAAA
129 TAATCAGTACCTAC-TTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
58411441 CTCT
1 CTCT
58411445 ATGTGGTTGT
Statistics
Matches: 166, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
178 47 0.28
179 119 0.72
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (178 bp):
CTCTCCGCATGCAAATGAATTATGATTTTCTTACATTTAAAAGCCATCTTTTTTATATTGATATG
ATTATTATGTTTAGCTAACCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATGTA
ATCAGTACCTACTTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
Found at i:58413540 original size:38 final size:38
Alignment explanation
Indices: 58413484--58413559 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
58413474 TGAATCCGTA
*
58413484 TGCATGACAACCCGTCGGACTTGTTCTTTGTGTTTCAT
1 TGCATGACAACCCATCGGACTTGTTCTTTGTGTTTCAT
58413522 TGCATGACAACCCATCGGACTTGTTCTTTGTGTTTCAT
1 TGCATGACAACCCATCGGACTTGTTCTTTGTGTTTCAT
58413560 GAAAAAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (38 bp):
TGCATGACAACCCATCGGACTTGTTCTTTGTGTTTCAT
Found at i:58417369 original size:17 final size:17
Alignment explanation
Indices: 58417335--58417371 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
58417325 CAAAATTAGG
58417335 TATTTTTTAATTTCTTT
1 TATTTTTTAATTTCTTT
58417352 TATTTCTTTAATTT-TTT
1 TATTT-TTTAATTTCTTT
58417369 TAT
1 TAT
58417372 ATTTATCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTAATTTCTTT
Found at i:58419466 original size:19 final size:19
Alignment explanation
Indices: 58419439--58419508 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
58419429 TACACTTTAT
58419439 AGAAAATGATAAAAATTTG
1 AGAAAATGATAAAAATTTG
* * **
58419458 AGCAAATGATACACCTTAT-
1 AGAAAATGATAAAAATT-TG
58419477 AGAAAATGATAAAAAATTTG
1 AGAAAATGAT-AAAAATTTG
*
58419497 AGTAAATGATAA
1 AGAAAATGATAA
58419509 GGCACATTGC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
AGAAAATGATAAAAATTTG
Found at i:58419480 original size:38 final size:39
Alignment explanation
Indices: 58419429--58419507 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 39
58419419 AAATATGTCC
*
58419429 TACACTTTATAGAAAATGAT-AAAAATTTGAGCAAATGA
1 TACACCTTATAGAAAATGATAAAAAATTTGAGCAAATGA
*
58419467 TACACCTTATAGAAAATGATAAAAAATTTGAGTAAATGA
1 TACACCTTATAGAAAATGATAAAAAATTTGAGCAAATGA
58419506 TA
1 TA
58419508 AGGCACATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 19 0.50
39 19 0.50
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (39 bp):
TACACCTTATAGAAAATGATAAAAAATTTGAGCAAATGA
Found at i:58420648 original size:11 final size:11
Alignment explanation
Indices: 58420632--58420657 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58420622 TCTCGTTTGA
58420632 TTTTTTTTCTT
1 TTTTTTTTCTT
58420643 TTTTTTTTCTT
1 TTTTTTTTCTT
58420654 TTTT
1 TTTT
58420658 CTCTGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:58421412 original size:23 final size:22
Alignment explanation
Indices: 58421360--58421414 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
58421350 ATAAACCTAA
**
58421360 TTTTATTATGGCTTATATTATTT
1 TTTTA-TATGGCTTATATTAAGT
*
58421383 TTATTATATGGCGTTATCTTAAGT
1 TT-TTATATGGC-TTATATTAAGT
58421407 TTTTATAT
1 TTTTATAT
58421415 ATTATTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (22 bp):
TTTTATATGGCTTATATTAAGT
Found at i:58421474 original size:16 final size:16
Alignment explanation
Indices: 58421450--58421489 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
58421440 TCTATTTTTG
* *
58421450 ATATTTTCATATATAC
1 ATATATTCATATACAC
*
58421466 ATATATTCATATACAT
1 ATATATTCATATACAC
58421482 ATATATTC
1 ATATATTC
58421490 GTTGGGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATTCATATACAC
Found at i:58423384 original size:18 final size:18
Alignment explanation
Indices: 58423354--58423389 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
58423344 AAATATAAAA
58423354 TTTATTTTAAATAATTTTT
1 TTTATTTTAAAT-ATTTTT
58423373 TTTATTTT-AATATTTTT
1 TTTATTTTAAATATTTTT
58423390 CTTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTAAATATTTTT
Found at i:58425050 original size:22 final size:22
Alignment explanation
Indices: 58424981--58425047 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
58424971 ACACAACGCA
*
58424981 TTGTGGATAAACCACCAATAAT
1 TTGTGGATAAACCACCAGTAAT
** *
58425003 TTGTAAATAAACTACCAGTAAAAT
1 TTGTGGATAAACCACCAGT--AAT
58425027 TTGTGGATAAAACCACCAGTA
1 TTGTGGAT-AAACCACCAGTA
58425048 TTTTCAGATA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 15 0.43
23 1 0.03
24 9 0.26
25 10 0.29
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.27
Consensus pattern (22 bp):
TTGTGGATAAACCACCAGTAAT
Found at i:58427882 original size:20 final size:18
Alignment explanation
Indices: 58427859--58427898 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
58427849 GAAAATAGTA
*
58427859 AAAAATTATATAAAATTATT
1 AAAAATAATA-AAAATT-TT
58427879 AAAAATAATAAAAATTTT
1 AAAAATAATAAAAATTTT
58427897 AA
1 AA
58427899 GATTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAATAAAAATTTT
Found at i:58431184 original size:15 final size:16
Alignment explanation
Indices: 58431154--58431192 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
58431144 TAATAAAAAT
58431154 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
58431171 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
58431186 ATAATTT
1 ATAATTT
58431193 TTAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:58435480 original size:29 final size:29
Alignment explanation
Indices: 58435447--58435507 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
58435437 TCGTGAAGAT
58435447 GACGTCAATACTGACACATAAAACTGGAG
1 GACGTCAATACTGACACATAAAACTGGAG
58435476 GACGTCAATACTGACACATAAAACTGGAG
1 GACGTCAATACTGACACATAAAACTGGAG
58435505 GAC
1 GAC
58435508 TAACACTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (29 bp):
GACGTCAATACTGACACATAAAACTGGAG
Found at i:58436559 original size:27 final size:27
Alignment explanation
Indices: 58436495--58436559 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
58436485 GGTTCATTAA
* *
58436495 TGTGTTGGCGAGCTGGGGTTCGCTAGTT
1 TGTG-TGGCGAGCTGGGGTTCGCCAATT
* * *
58436523 TGTTTAGCGAGTTGGGGTTCGCCAATT
1 TGTGTGGCGAGCTGGGGTTCGCCAATT
58436550 TGTGTGGCGA
1 TGTGTGGCGA
58436560 ACTGAGTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.11, C:0.14, G:0.40, T:0.35
Consensus pattern (27 bp):
TGTGTGGCGAGCTGGGGTTCGCCAATT
Found at i:58439686 original size:22 final size:24
Alignment explanation
Indices: 58439650--58439696 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
58439640 CCCCTCAAAA
*
58439650 TCGAAGATCTTTATTTAATTTCTT
1 TCGAAGATCTTTATTGAATTTCTT
*
58439674 TCGAAG-T-TTTATTGAGTTTCTT
1 TCGAAGATCTTTATTGAATTTCTT
58439696 T
1 T
58439697 ATGTCTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (24 bp):
TCGAAGATCTTTATTGAATTTCTT
Found at i:58446437 original size:41 final size:41
Alignment explanation
Indices: 58446376--58446470 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
58446366 ATTGAAATTT
* *
58446376 GTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCG
58446417 GTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCG
58446458 GTGATCTGAATCA
1 GTGATCTGAATCA
58446471 AAGGAACGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCG
Found at i:58446697 original size:41 final size:41
Alignment explanation
Indices: 58446640--58446815 Score: 298
Period size: 41 Copynumber: 4.3 Consensus size: 41
58446630 GTTTGGAATT
*
58446640 GGTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
58446681 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
58446722 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
58446763 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
58446804 GGTGATCTGAAT
1 GGTGATCTGAAT
58446816 ATGTCAAATT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:58449236 original size:43 final size:43
Alignment explanation
Indices: 58449189--58449288 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
58449179 AGAGTAATAC
*
58449189 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGA-CTAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATC-AGGGT
58449232 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
*
58449275 CTTTAGTGGCGTTT
1 CTTTAGCGGCGTTT
58449289 GTGACCGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
43 53 0.98
44 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:58449753 original size:21 final size:20
Alignment explanation
Indices: 58449703--58449757 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
58449693 TTTTGACGCT
58449703 GCTCTGCTTCCCTCGCTGTA
1 GCTCTGCTTCCCTCGCTGTA
* *
58449723 GCTCTACTTCCCTCGCTTTA
1 GCTCTGCTTCCCTCGCTGTA
58449743 GCCTCTGCTTCCCTC
1 G-CTCTGCTTCCCTC
58449758 TTAGCAGCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.05, C:0.44, G:0.15, T:0.36
Consensus pattern (20 bp):
GCTCTGCTTCCCTCGCTGTA
Found at i:58449788 original size:21 final size:21
Alignment explanation
Indices: 58449764--58449807 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58449754 CCTCTTAGCA
*
58449764 GCCTGTACTTCTCTCGCTGCC
1 GCCTCTACTTCTCTCGCTGCC
*
58449785 GCCTCTACTTCTCTTGCTGCC
1 GCCTCTACTTCTCTCGCTGCC
58449806 GC
1 GC
58449808 ATCTGCTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.43, G:0.18, T:0.34
Consensus pattern (21 bp):
GCCTCTACTTCTCTCGCTGCC
Found at i:58449876 original size:66 final size:66
Alignment explanation
Indices: 58449792--58449932 Score: 178
Period size: 66 Copynumber: 2.1 Consensus size: 66
58449782 GCCGCCTCTA
* * * *
58449792 CTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTTGTTGAACCT
1 CTTCTCTCGCTGCCGCATCTGCTCTAAACTG-TAGCTGGAGTTCTTCATATCTTCT-TTGAACAT
58449855 CAG
64 CAG
* * * *
58449858 CTTCTCTCGCTGCTGCATCTGCTTTAAATTGTAGTTGGAGTTCTTCATATCTTCTTTGAACATCA
1 CTTCTCTCGCTGCCGCATCTGCTCTAAACTGTAGCTGGAGTTCTTCATATCTTCTTTGAACATCA
58449923 G
66 G
58449924 CTTCTCTCG
1 CTTCTCTCG
58449933 ATGTTGCCTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 60 0.92
67 4 0.06
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (66 bp):
CTTCTCTCGCTGCCGCATCTGCTCTAAACTGTAGCTGGAGTTCTTCATATCTTCTTTGAACATCA
G
Found at i:58449948 original size:66 final size:66
Alignment explanation
Indices: 58449827--58449955 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
58449817 AAGCTGCTGC
* * * *
58449827 TGGAGTTCTTCATACTTTTGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAATTGTAG
1 TGGAGTTCTTCATACTTCTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGTAG
58449892 T
66 T
* * *
58449893 TGGAGTTCTTCATATCTTCT-TTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 TGGAGTTCTTCATA-CTTCTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGT
58449956 GTAATTTGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 51 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
TGGAGTTCTTCATACTTCTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGTAG
T
Found at i:58455426 original size:9 final size:9
Alignment explanation
Indices: 58455408--58455775 Score: 186
Period size: 9 Copynumber: 42.7 Consensus size: 9
58455398 TATTATGCTT
58455408 TAAGTTATG
1 TAAGTTATG
*
58455417 TAAGTAATG
1 TAAGTTATG
58455426 T-A-TTATG
1 TAAGTTATG
*
58455433 TAAGTTGTG
1 TAAGTTATG
*
58455442 T-A-TAATG
1 TAAGTTATG
*
58455449 TTAGTTATG
1 TAAGTTATG
58455458 TAAGTTATG
1 TAAGTTATG
58455467 TAAGTTATG
1 TAAGTTATG
58455476 T-A---A-G
1 TAAGTTATG
58455480 TAAGTTATG
1 TAAGTTATG
*
58455489 TAAGTTATC
1 TAAGTTATG
* *
58455498 AAAGTAATG
1 TAAGTTATG
*
58455507 TATGTTATG
1 TAAGTTATG
58455516 TAAG-T-TG
1 TAAGTTATG
58455523 TAAGTTAT-
1 TAAGTTATG
*
58455531 TATGTATTATG
1 TAAG--TTATG
*
58455542 TAAGTTAAG
1 TAAGTTATG
* *
58455551 -ATGGATTACG
1 TA-AG-TTATG
58455561 TAAGTTATG
1 TAAGTTATG
58455570 TAAGTTAAATG
1 TAAGTT--ATG
58455581 T-A-TTATG
1 TAAGTTATG
58455588 TAAG-T-TG
1 TAAGTTATG
58455595 TAAGTTAGATG
1 TAAGTT--ATG
58455606 T-A-TTATG
1 TAAGTTATG
58455613 TAAG-T-TG
1 TAAGTTATG
58455620 TAAGTTAGATG
1 TAAGTT--ATG
58455631 T-A-TTATG
1 TAAGTTATG
58455638 TAAG-T-TG
1 TAAGTTATG
58455645 TAAGTTAT-
1 TAAGTTATG
*
58455653 TATGTATTATG
1 TAAG--TTATG
58455664 TAAGTTATG
1 TAAGTTATG
58455673 TAAGTTAAATG
1 TAAGTT--ATG
58455684 T-A-TTATG
1 TAAGTTATG
58455691 -AAGGTTATG
1 TAA-GTTATG
*
58455700 TAAGTTGTG
1 TAAGTTATG
** *
58455709 TAAGAGATT
1 TAAGTTATG
58455718 TAAGTTATG
1 TAAGTTATG
* *
58455727 TGAGTTTTG
1 TAAGTTATG
58455736 T-A-TTATG
1 TAAGTTATG
58455743 TAAGTTATG
1 TAAGTTATG
* *
58455752 TAGGTTATT
1 TAAGTTATG
*
58455761 TAGGTTATG
1 TAAGTTATG
58455770 TAAGTT
1 TAAGTT
58455776 TTGAGTTGTT
Statistics
Matches: 274, Mismatches: 39, Indels: 92
0.68 0.10 0.23
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
7 54 0.20
8 26 0.09
9 150 0.55
10 19 0.07
11 21 0.08
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:58455443 original size:25 final size:26
Alignment explanation
Indices: 58455408--58455775 Score: 269
Period size: 25 Copynumber: 14.2 Consensus size: 26
58455398 TATTATGCTT
58455408 TAAGTTATGTAAG-TAATGTATTATG
1 TAAGTTATGTAAGTTAATGTATTATG
*
58455433 TAAGTTGTGT-A--TAATGTTAGTTATG
1 TAAGTTATGTAAGTTAATG-TA-TTATG
58455458 TAAGTTATGTAAGTT-ATGTA--A-G
1 TAAGTTATGTAAGTTAATGTATTATG
*
58455480 TAAGTTATGTAAGTTATCAAAGTA--ATG
1 TAAGTTATGTAAG-T-T-AATGTATTATG
*
58455507 TATGTTATGTAAGTTGTAA-GTTATTATG
1 TAAGTTATGTAAG-T-TAATG-TATTATG
* *
58455535 T-A-TTATGTAAGTTAAGATGGATTACG
1 TAAGTTATGTAAGTT-A-ATGTATTATG
58455561 TAAGTTATGTAAGTTAAATGTATTATG
1 TAAGTTATGTAAGTT-AATGTATTATG
58455588 TAAG-T-TGTAAGTTAGATGTATTATG
1 TAAGTTATGTAAGTTA-ATGTATTATG
58455613 TAAG-T-TGTAAGTTAGATGTATTATG
1 TAAGTTATGTAAGTTA-ATGTATTATG
58455638 TAAG-T-TGTAAGTTATTATGTATTATG
1 TAAGTTATGTAAGTTA--ATGTATTATG
58455664 TAAGTTATGTAAGTTAAATGTATTATG
1 TAAGTTATGTAAGTT-AATGTATTATG
* ** *
58455691 -AAGGTTATGTAAGTT-GTGTAAGAGATT
1 TAA-GTTATGTAAGTTAATGT-A-TTATG
* *
58455718 TAAGTTATGTGAGTT-TTGTATTATG
1 TAAGTTATGTAAGTTAATGTATTATG
* *
58455743 TAAGTTATGTAGGTT-ATTTAGGTTATG
1 TAAGTTATGTAAGTTAATGTA--TTATG
58455770 TAAGTT
1 TAAGTT
58455776 TTGAGTTGTT
Statistics
Matches: 290, Mismatches: 24, Indels: 56
0.78 0.06 0.15
Matches are distributed among these distances:
22 14 0.05
23 7 0.02
24 6 0.02
25 104 0.36
26 47 0.16
27 83 0.29
28 28 0.10
29 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.45
Consensus pattern (26 bp):
TAAGTTATGTAAGTTAATGTATTATG
Found at i:58455482 original size:13 final size:13
Alignment explanation
Indices: 58455466--58455493 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58455456 TGTAAGTTAT
58455466 GTAAGTTATGTAA
1 GTAAGTTATGTAA
58455479 GTAAGTTATGTAA
1 GTAAGTTATGTAA
58455492 GT
1 GT
58455494 TATCAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (13 bp):
GTAAGTTATGTAA
Found at i:58455482 original size:22 final size:22
Alignment explanation
Indices: 58455457--58455546 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
58455447 TGTTAGTTAT
58455457 GTAAGTTATGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
58455479 GTAAGTTATGTAAGTTATCAAAGTAA
1 GTAAGTTATGTAAGTTAT----GTAA
*
58455505 TGTATGTTATGTAAG-T-TGTAA
1 -GTAAGTTATGTAAGTTATGTAA
*
58455526 GTTA-TTATGT-A-TTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
58455545 GT
1 GT
58455547 TAAGATGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.03
19 13 0.22
20 2 0.03
21 4 0.07
22 18 0.31
25 1 0.02
26 5 0.09
27 13 0.22
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (22 bp):
GTAAGTTATGTAAGTTATGTAA
Found at i:58455543 original size:19 final size:19
Alignment explanation
Indices: 58455521--58455671 Score: 62
Period size: 19 Copynumber: 8.5 Consensus size: 19
58455511 TTATGTAAGT
58455521 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
** *
58455540 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATTATGTATTA
*
58455559 CGTAAG---TTATGTA--A
1 TGTAAGTTATTATGTATTA
* *
58455573 -GTTAAATGTATTATGTAAGT-
1 TG-TAAGT-TATTATGT-ATTA
*
58455593 TGTAAGTTA-GATGTATTA
1 TGTAAGTTATTATGTATTA
* *
58455611 TGTAAGTT-GTAAG--TTA
1 TGTAAGTTATTATGTATTA
* *
58455627 -G-ATG-TATTATGTAAGT-
1 TGTAAGTTATTATGT-ATTA
58455643 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
58455662 TGTAAGTTAT
1 TGTAAGTTAT
58455672 GTAAGTTAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 38
0.62 0.13 0.25
Matches are distributed among these distances:
13 2 0.02
14 9 0.10
15 1 0.01
16 7 0.07
17 4 0.04
18 24 0.26
19 42 0.45
20 4 0.04
21 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:58455742 original size:43 final size:43
Alignment explanation
Indices: 58455695--58455778 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
58455685 ATTATGAAGG
* *
58455695 TTATGTAAGTTGTGTAAGAGATTTAAGTTATGTGAGTTTTGTA
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
* ** *
58455738 TTATGTAAGTTATGTAGGTTATTTAGGTTATGTAAGTTTTG
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTG
58455779 AGTTGTTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
Found at i:58455924 original size:12 final size:11
Alignment explanation
Indices: 58455897--58455977 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
58455887 TGTTAAGTAC
58455897 AATTTAATAA-
1 AATTTAATAAT
58455907 AA--TAATATAT
1 AATTTAATA-AT
58455917 AATTTAATAA-
1 AATTTAATAAT
*
58455927 CATTACTAAT-AT
1 AATT--TAATAAT
58455939 AATTATTAATAAT
1 AA-T-TTAATAAT
58455952 -ATTTAATAAT
1 AATTTAATAAT
58455962 AATTTTAAT-AT
1 AA-TTTAATAAT
58455973 AATTT
1 AATTT
58455978 TATTATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 18 0.32
11 8 0.14
12 21 0.37
13 3 0.05
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:58458369 original size:40 final size:42
Alignment explanation
Indices: 58458320--58458401 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
58458310 TTGTCGATTC
*
58458320 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
58458360 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
58458402 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:58459101 original size:9 final size:9
Alignment explanation
Indices: 58459087--58459112 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58459077 TAACCCATAA
58459087 CCCCTAAAT
1 CCCCTAAAT
58459096 CCCCTAAAT
1 CCCCTAAAT
58459105 CCCCTAAA
1 CCCCTAAA
58459113 CCCTTAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (9 bp):
CCCCTAAAT
Found at i:58459140 original size:39 final size:40
Alignment explanation
Indices: 58459082--58459175 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 40
58459072 ATTCCTAACC
* * *
58459082 CATAACCCCTAAATCCCCTAAATC-CCCTAAACCCTTAAAG
1 CATAAACCATAAATCCCCTAAATCTCCCT-AACCCCTAAAG
58459122 CATAAACCATAAA-CCCCTAAATCTCCCTAACCCCTAAAG
1 CATAAACCATAAATCCCCTAAATCTCCCTAACCCCTAAAG
* *
58459161 CATAACCCCTAAATC
1 CATAAACCATAAATC
58459176 ATTCCAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 31 0.66
40 16 0.34
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.19
Consensus pattern (40 bp):
CATAAACCATAAATCCCCTAAATCTCCCTAACCCCTAAAG
Found at i:58460263 original size:22 final size:22
Alignment explanation
Indices: 58460238--58460294 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
58460228 CTTACCGTTC
58460238 AAACCCTAAACCAGAAATCCA-T
1 AAACCCTAAACCAGAAA-CCACT
**
58460260 AAACCCTAAACCCTAAACCACT
1 AAACCCTAAACCAGAAACCACT
58460282 AAACCCATAAACC
1 AAACCC-TAAACC
58460295 CTAAATCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 3 0.10
22 22 0.71
23 6 0.19
ACGTcount: A:0.49, C:0.37, G:0.02, T:0.12
Consensus pattern (22 bp):
AAACCCTAAACCAGAAACCACT
Found at i:58460271 original size:7 final size:7
Alignment explanation
Indices: 58460238--58460299 Score: 70
Period size: 7 Copynumber: 8.4 Consensus size: 7
58460228 CTTACCGTTC
58460238 AAACCCT
1 AAACCCT
**
58460245 AAACCAG
1 AAACCCT
*
58460252 AAATCCAT
1 AAA-CCCT
58460260 AAACCCT
1 AAACCCT
58460267 AAACCCT
1 AAACCCT
58460274 AAACCACT
1 AAACC-CT
58460282 AAACCCAT
1 AAACCC-T
58460290 AAACCCT
1 AAACCCT
58460297 AAA
1 AAA
58460300 TCTTAACTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 28 0.58
8 20 0.42
ACGTcount: A:0.50, C:0.35, G:0.02, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:58460283 original size:15 final size:14
Alignment explanation
Indices: 58460238--58460299 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 14
58460228 CTTACCGTTC
**
58460238 AAACCCTAAACCAG
1 AAACCCTAAACCCT
*
58460252 AAATCCATAAACCCT
1 AAA-CCCTAAACCCT
58460267 AAACCCTAAACCACT
1 AAACCCTAAACC-CT
58460282 AAACCCATAAACCCT
1 AAACCC-TAAACCCT
58460297 AAA
1 AAA
58460300 TCTTAACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.27
15 24 0.59
16 6 0.15
ACGTcount: A:0.50, C:0.35, G:0.02, T:0.13
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:58461011 original size:114 final size:113
Alignment explanation
Indices: 58460583--58461136 Score: 524
Period size: 114 Copynumber: 4.9 Consensus size: 113
58460573 AATCCCTGAT
* * * * * *
58460583 CATTAGCGGCGCTTTTCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTGC
1 CATTAGCGGCGC-TTTATAAAAACGCCGCTAAATCCCT-GAAAGCTCGGGAAACGACGTCGTTGC
58460648 GCTTAGTTTTTTTTGCGGCGC-TTTCCAAAAAACGCCGCTAAAGA-CTGAA-
64 GCTTAG-TTTTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCT-AAG
* * * * * *
58460697 CATTAGCGGCGCTTTACAAAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTATAAAAACGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACGTCGTTGCG
* ** * *
58460761 CTTAGGTTTTTTGCGGCGCTTTAAC-AAAAACGCCGCTAAAGACTTCAG
65 CTTAGTTTTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCTAAG
* * * * *
58460809 CATTAGCGGCGCTTTCTATAAAAGCGCCGCTAAATCCCTAAAAGCTCGGGAGACGACGTCATTGT
1 CATTAGCGGCGC-TT-TATAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
* * * * *
58460874 GC-TAGTTTTAAATAGCGGCGCTTTTCC-AGAAACGCTGCTAAAGACCTAAC
64 GCTTAGTTTT--TTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCTAAG
* * *
58460924 CATTAGCGGCGCTTTATAGAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGGG
1 CATTAGCGGCGCTTTATA-AAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGCG
* * *
58460989 CTTAGTTATTTTTGCGGCGC-TTTCCTAGAAACGCCGCTAAAG-CCTTGAG
65 CTTAGTT-TTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACC-TAAG
* * * *
58461038 CATTAGCGGCGC-TTACTGAAAAACGCCACTAAATCACC-GAATGCTGGGGAAACGGCGTCGTTG
1 CATTAGCGGCGCTTTA-T-AAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACGTCGTTG
*
58461101 CGC-TAGGTTTTTTGCGGCGC-TTTCTC-AAAAACGCCG
63 CGCTTAGTTTTTTTGCGGCGCTTTTC-CAAAAAACGCCG
58461137 GGAATGGTTA
Statistics
Matches: 371, Mismatches: 51, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
111 31 0.08
112 63 0.17
113 59 0.16
114 166 0.45
115 50 0.13
116 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (113 bp):
CATTAGCGGCGCTTTATAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGCGC
TTAGTTTTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCTAAG
Found at i:58475360 original size:28 final size:27
Alignment explanation
Indices: 58475322--58475375 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
58475312 TTTAAATTTA
* *
58475322 TTTTAATTTTTATGCTATTTTTATTAT
1 TTTTAATTTTTATACTATTATTATTAT
*
58475349 TTTTAATATTTTTTACTATTATTATTA
1 TTTTAAT-TTTTATACTATTATTATTA
58475376 CAATTACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTAATTTTTATACTATTATTATTAT
Found at i:58475434 original size:17 final size:17
Alignment explanation
Indices: 58475408--58475447 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
58475398 TATCATTGAG
*
58475408 TTTATTATTTT-TTTCTT
1 TTTATCATTTTATTT-TT
58475425 TTTATCATTTTATTTTT
1 TTTATCATTTTATTTTT
58475442 TTTATC
1 TTTATC
58475448 TTTCTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATCATTTTATTTTT
Found at i:58484891 original size:44 final size:44
Alignment explanation
Indices: 58484785--58485249 Score: 211
Period size: 44 Copynumber: 10.2 Consensus size: 44
58484775 TTCAGTCTAT
* * * *
58484785 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTTAATCTGC
* * * *
58484826 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCTGC
* * *
58484870 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTTAATCTGC
* * ** *
58484914 TCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA--TC--CTTT--A-CT--T-TAATCTGC
* * * *
58484968 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCTGC
* * *
58485012 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTTAATCTGC
* ** *
58485056 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA--TC---CTT-TA-CT--T-TAATCTGC
* * *
58485110 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCTGC
* * * * * *
58485154 TCTACTATAATCTCAAGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTTAATCTGC
* *
58485198 TCCGCTGTAATCTCAGGGAGATAAGAT--TTCTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTT-TA-CTTTAATCTGC
58485242 TCCACTGT
1 TCCACTGT
58485250 TGCTTAGGGA
Statistics
Matches: 323, Mismatches: 63, Indels: 73
0.70 0.14 0.16
Matches are distributed among these distances:
40 1 0.00
41 22 0.07
42 5 0.02
43 8 0.02
44 198 0.61
45 5 0.02
46 2 0.01
47 2 0.01
48 2 0.01
49 4 0.01
50 4 0.01
51 7 0.02
52 4 0.01
53 4 0.01
54 55 0.17
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTTAATCTGC
Found at i:58485068 original size:142 final size:142
Alignment explanation
Indices: 58484812--58485240 Score: 786
Period size: 142 Copynumber: 3.0 Consensus size: 142
58484802 GAGATAAGAC
*
58484812 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
58484877 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
58484942 TCTGGTTTCAAT
131 TCTGGCTTCAAT
58484954 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
58485019 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
58485084 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
58485096 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCTACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
58485161 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
58485226 TCTAGCTTCAAT
131 TCTGGCTTCAAT
58485238 CTG
1 CTG
58485241 CTCCACTGTT
Statistics
Matches: 278, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 278 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:58485131 original size:98 final size:97
Alignment explanation
Indices: 58485015--58485196 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
58485005 AATCCGCTCC
* * * *
58485015 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATA
1 ACTGTAATCTCAGAGAGATAAGATCT-CTA-CTTCAATCTGCTCCACTATAATCTCAAGGAGATA
* *
58485079 AGATTTCTGGCTTCAATCTGATGCGATCTACTCT
64 AGATTACTAGCTTCAATCTGATGCGATCTACTCT
* * * *
58485113 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCTACTATAATCTCAAGGAGATA
1 ACTGTAATC-TCAGAGAGATAAGAT-CTCTACTTCAATCTGCTCCACTATAATCTCAAGGAGATA
*
58485177 GGATTACTAGCTTCAATCTG
64 AGATTACTAGCTTCAATCTG
58485197 CTCCGCTGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 66 0.94
99 2 0.03
100 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (97 bp):
ACTGTAATCTCAGAGAGATAAGATCTCTACTTCAATCTGCTCCACTATAATCTCAAGGAGATAAG
ATTACTAGCTTCAATCTGATGCGATCTACTCT
Found at i:58485395 original size:131 final size:131
Alignment explanation
Indices: 58485231--58486102 Score: 1406
Period size: 131 Copynumber: 6.7 Consensus size: 131
58485221 AGATTTCTAG
* * ** *
58485231 CTTCAATCTGCTCCACTGTTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTACTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
* * * *
58485296 GTCAGGGACATAAGACGTGTGGCTTAAATCTGTTTCCCTACTCCCGGGGAAGATAAGATTCGCCA
66 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
58485361 T
131 T
* * * *
58485362 CTTCAATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTT-TCAACCTATTCCACTACT
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCT-AACCTATTCCACTGCT
* *
58485426 GGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCGTACTCTTGGGGAAGATAAGATTCGCC
65 GGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
58485491 GT
130 GT
* * *
58485493 CTTTGATCTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
* * * * * *
58485558 GTCAGGGACATAAGACGTGTGGCTTAAATCTGTTTCCCTACTCCCGGAGAAGATAAGATTCACCA
66 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
58485623 T
131 T
* *
58485624 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCCATTTCCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
* *
58485689 GTCAGGGACATAGGACTTGTGGCTTAAATCTATTTCCCTACTCTTGGGGAAGATAAGATTCGCCG
66 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
58485754 T
131 T
*
58485755 CTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
*
58485820 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCG
66 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
58485885 T
131 T
*
58485886 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
*
58485951 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCG
66 GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
58486016 T
131 T
*
58486017 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTC-ATTTCCAACCTATTCCACTGCT
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTG-CAATTTCTAACCTATTCCACTGCT
*
58486081 GGTCAAGGACATAGGACTTGTG
65 GGTCAGGGACATAGGACTTGTG
58486103 ATTTCACCGA
Statistics
Matches: 688, Mismatches: 50, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 685 1.00
132 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTG
GTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
T
Found at i:58488362 original size:14 final size:15
Alignment explanation
Indices: 58488338--58488378 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
58488328 TTTCGAAAAG
58488338 AGAAA-AAAAATA-A
1 AGAAAGAAAAATAGA
58488351 AGAAAGAAAAATAGA
1 AGAAAGAAAAATAGA
58488366 A-AAAG-AAAATAGA
1 AGAAAGAAAAATAGA
58488379 TATACCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.50
14 11 0.42
15 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (15 bp):
AGAAAGAAAAATAGA
Found at i:58489359 original size:37 final size:37
Alignment explanation
Indices: 58489294--58489439 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
58489284 TACGTATGAT
* *
58489294 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
58489329 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
58489366 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
58489403 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
58489440 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:58489456 original size:46 final size:46
Alignment explanation
Indices: 58489403--58489625 Score: 257
Period size: 52 Copynumber: 4.6 Consensus size: 46
58489393 TAAGTGTAGC
* *
58489403 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
58489449 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
58489495 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
58489547 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
58489599 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
58489626 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 14
0.88 0.05 0.08
Matches are distributed among these distances:
46 68 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 88 0.55
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:58489522 original size:52 final size:52
Alignment explanation
Indices: 58489446--58489619 Score: 267
Period size: 52 Copynumber: 3.3 Consensus size: 52
58489436 TAGCTAAAGC
* * *
58489446 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
58489499 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
58489551 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
58489603 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
58489620 ATCAGAAGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
52 94 0.84
53 18 0.16
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:58489525 original size:98 final size:100
Alignment explanation
Indices: 58489403--58489619 Score: 285
Period size: 104 Copynumber: 2.1 Consensus size: 100
58489393 TAAGTGTAGC
* * * *
58489403 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC-T-TTGTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTCTTGTCA
* *
58489466 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 CTTGATCAGATAAGTATAGCCAAAGCTACCACTTAT
*
58489502 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC-TT---CTTG
* *
58489567 TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
62 TCACTTGATCAGATAAGTATAGCCAAAGCTACCACTTAT
58489606 CACTTTATCACTTG
1 CACTTT-TCACTTG
58489620 ATCAGAAGTA
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
98 42 0.41
99 9 0.09
100 1 0.01
104 43 0.42
105 7 0.07
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (100 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTCTTGTCAC
TTGATCAGATAAGTATAGCCAAAGCTACCACTTAT
Found at i:58492286 original size:95 final size:95
Alignment explanation
Indices: 58492123--58492316 Score: 318
Period size: 95 Copynumber: 2.0 Consensus size: 95
58492113 AAGATCTAAA
**
58492123 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATTGGCTTTAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTTAATGTACTCCACTGTA
58492188 GTCACAGGGAGGTAAAATCTGCCATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
** * *
58492218 ATCTTCAATCTATTCTTCTGCCAATCAGGGAGATAGAATTATCAG-TTTCACTGTACTCCACTGT
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTT-AATGTACTCCACTGT
58492282 AGTCACAGGGAGGTAAAATCTGCCATCTTCG
65 AGTCACAGGGAGGTAAAATCTGCCATCTTCG
58492313 ATCT
1 ATCT
58492317 GCTTCGCTGC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 3 0.03
95 89 0.97
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTTAATGTACTCCACTGTA
GTCACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:58492474 original size:88 final size:88
Alignment explanation
Indices: 58492374--58494777 Score: 3518
Period size: 88 Copynumber: 27.3 Consensus size: 88
58492364 TTGCTGCCAG
* * * *
58492374 TGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAAAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58492439 TCTTCGACCTGCTTCACTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * * * *
58492462 TACAAGAAGGCAAAATCTATTGTCTTCAACTAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
58492527 TCTTCGACCTGCTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * * *
58492550 TACAGGAAGGAAAGATCTATTGTCTTCAACCAACTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
58492615 TCTTCGACCTGCTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * *
58492638 TACAAGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
* *
58492703 TCTTCGACCTACTTCGTTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * * * *
58492726 TACAAGAAGGCAAGATCTATTATCTTCAACCAGCTCCACCACAGCCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
**
58492791 TCTTCGACCTATTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * *
58492814 TACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58492879 TTTTCGACCTGCTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * * * *
58492902 TACAAGAAGGTAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGTAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
* *
58492967 TCTTCGACCTGCTTCGTTGTAAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * *
58492990 TACAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
* *
58493055 TATTCGACCTGCTTTGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * *
58493078 TACAGGAATGCAAGATCTATTGTCTTCAACCAACTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
*
58493142 GTCTTCGACCTACTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* * **
58493166 TGCAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58493231 TCTTCGACCTGCTTCGTTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * *
58493254 TGCAGGAAGGCAAAATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
58493319 TCTTCGACCTGCTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * * * *
58493342 TGTAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCACCACAACCGAGAGAGGTAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58493407 TCTTCGACCTACTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* *
58493430 TACAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
*
58493494 GTCTTCGATCTGCTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* *
58493518 TGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
* *
58493582 GCCTTCGACCTGCTTCGCAGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* * * *
58493606 TGCTGGAAGACAAGATCTTTTGTCTTCAACTAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58493671 CCTTCGACCTGCTTCGCTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* *
58493694 TGCAGGAAAGCAAGATCTTTTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
* * *
58493759 TCTTCGACTTTCTTCGTTGTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * *
58493782 TGCAGGAAGACAAGATCTTTTTTCTTCAACCAGCTCCA-TCACAACCGAGAGAGACAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
58493846 GTCTTCGACCTGCTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* * *
58493870 TGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCAAAACCGAGAGAGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58493935 TCTTCGACCTGCTTCGCTTTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
* * *
58493958 TGCAAGAAGGCAAGATCTTGTGTCTTCAACCAGCTCCA-TCACAACTGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
*
58494022 GTCTTCGACCTGCTTCACTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
*
58494046 TGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
* * *
58494110 GTATTCGACTTACTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* *
58494134 TGCAGCAAGGCAAGATCTTTTGTCTTCAACCAACTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
**
58494198 GTCTTTAACCTGCTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
58494222 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
58494286 GTCTTCGACCTGCTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* *
58494310 TGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGATTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
*
58494374 GTCTTCGACCTGCTTCACTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* *
58494398 TGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCACCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
*
58494462 GTCTTTGACCTGCTTCGCTGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* *
58494486 TGCAGGAAGGCAAGATCTTTTTTCTTCAACCAGCTCCA-TCACAACCGAGAAAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
* *
58494550 GTCTTCGAGCTGCTTCGCTATCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
*
58494574 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGTTCCA-TCACAACCGAGAGAGGCAAGGTTTGT
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT
* *
58494638 GTCTTCGAGCTGCTTCGCCGTCAA
65 GTCTTCGACCTGCTTCGCTGTCAA
* * * *
58494662 TGTAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATTACAACCGAGAGGGGCAAGGTTTGTG
1 TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
*
58494727 TCTTCGACCTGCTTCGCTTTCAA
66 TCTTCGACCTGCTTCGCTGTCAA
*
58494750 TGCAGGAAGACAAGATCTTTTGTCTTCA
1 TGCAGGAAGGCAAGATCTTTTGTCTTCA
58494778 CTGATCTGTT
Statistics
Matches: 2133, Mismatches: 175, Indels: 16
0.92 0.08 0.01
Matches are distributed among these distances:
88 2131 1.00
89 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (88 bp):
TGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
TCTTCGACCTGCTTCGCTGTCAA
Found at i:58501459 original size:15 final size:15
Alignment explanation
Indices: 58501433--58501473 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
58501423 AAATAGTTTC
58501433 GAAAAGAGAAAAAATA
1 GAAAA-AGAAAAAATA
58501449 -AAGAAAG-AAAAATA
1 GAA-AAAGAAAAAATA
58501463 GAAAAAGAAAA
1 GAAAAAGAAAA
58501474 TAGATATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.50
15 9 0.41
16 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAAAAATA
Found at i:58503085 original size:1 final size:1
Alignment explanation
Indices: 58503081--58503121 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
58503071 ATTTTTCATC
* * *
58503081 TTTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58503122 GAAATCAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:58503085 original size:10 final size:10
Alignment explanation
Indices: 58503081--58503121 Score: 75
Period size: 10 Copynumber: 4.2 Consensus size: 10
58503071 ATTTTTCATC
58503081 TTTTTTCTTT
1 TTTTTTCTTT
58503091 TTTTTTCTTT
1 TTTTTTCTTT
58503101 TTTTTTCTTT
1 TTTTTTCTTT
58503111 TTTTTT-TTT
1 TTTTTTCTTT
58503120 TT
1 TT
58503122 GAAATCAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 5 0.16
10 26 0.84
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:58503097 original size:20 final size:20
Alignment explanation
Indices: 58503072--58503116 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
58503062 TTCATTTTCA
58503072 TTTTTCATCTTTTTTCTTTT
1 TTTTTCATCTTTTTTCTTTT
* *
58503092 TTTTTCTTTTTTTTTCTTTT
1 TTTTTCATCTTTTTTCTTTT
58503112 TTTTT
1 TTTTT
58503117 TTTTTGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTCATCTTTTTTCTTTT
Found at i:58504001 original size:22 final size:24
Alignment explanation
Indices: 58503965--58504047 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
58503955 TTTTTCATAC
58503965 TTTTATTTTGAC-TTTGA-TTGAT
1 TTTTATTTTGACTTTTGACTTGAT
58503987 TTTTATTTTTG-CTTTTGACTTTGAT
1 TTTTA-TTTTGACTTTTGAC-TTGAT
*
58504012 TTTTCCTTTT--CTTTTTGATCTTGAT
1 TTTT-ATTTTGAC-TTTTGA-CTTGAT
*
58504037 TTTGATTTTGA
1 TTTTATTTTGA
58504048 TTATTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
22 6 0.12
23 10 0.20
24 5 0.10
25 27 0.55
26 1 0.02
ACGTcount: A:0.13, C:0.08, G:0.12, T:0.66
Consensus pattern (24 bp):
TTTTATTTTGACTTTTGACTTGAT
Found at i:58504035 original size:6 final size:6
Alignment explanation
Indices: 58503965--58504049 Score: 50
Period size: 6 Copynumber: 14.3 Consensus size: 6
58503955 TTTTTCATAC
* * * *
58503965 TTTT-A TTTTGA CTTTGA --TTGA TTTTTA TTTTTGC TTTTGA CTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA
** ** *
58504011 TTTTTCC TTTTCT TTTTGA TCTTGA TTTTGA TTTTGA TT
1 -TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT
58504050 ATTTTTTTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 46 0.75
7 7 0.11
ACGTcount: A:0.13, C:0.08, G:0.12, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:58504041 original size:31 final size:31
Alignment explanation
Indices: 58503987--58504045 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
58503977 TTTGATTGAT
* *
58503987 TTTTATTTTTGCTTTTGACTTTGATTTTTCC
1 TTTTATTTTTGATCTTGACTTTGATTTTTCC
* *
58504018 TTTTCTTTTTGATCTTGATTTTGATTTT
1 TTTTATTTTTGATCTTGACTTTGATTTT
58504046 GATTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (31 bp):
TTTTATTTTTGATCTTGACTTTGATTTTTCC
Found at i:58508634 original size:26 final size:26
Alignment explanation
Indices: 58508598--58508655 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
58508588 GAAAGAAAGG
*
58508598 AAATTATATATTAGAATAAATTTAAAAT
1 AAATAATATA-TAGAA-AAATTTAAAAT
* *
58508626 AAATAATATATATAAAAATTTGAAAT
1 AAATAATATATAGAAAAATTTAAAAT
58508652 AAAT
1 AAAT
58508656 TTTTAATACG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 14 0.52
27 4 0.15
28 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AAATAATATATAGAAAAATTTAAAAT
Done.