Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 15 of 141
Found at i:4516506 original size:41 final size:41
Alignment explanation
Indices: 4516262--4516493 Score: 331
Period size: 41 Copynumber: 5.7 Consensus size: 41
4516252 TTAATATAAA
* * * *
4516262 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
4516304 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
4516345 CAGTTCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
4516386 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
4516427 CAAATCACCGGCACTTAGCCTGCTACGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
4516468 TAG-TCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
4516494 TTTTAAAACC
Statistics
Matches: 169, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 22 0.13
41 143 0.85
42 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:4526666 original size:14 final size:14
Alignment explanation
Indices: 4526649--4526682 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4526639 CCCTTTTTCC
4526649 TTTTCTTTTATTTT
1 TTTTCTTTTATTTT
*
4526663 TTTTCTTTTCTTTT
1 TTTTCTTTTATTTT
*
4526677 TATTCT
1 TTTTCT
4526683 CCTCCTCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTTTTATTTT
Found at i:4526670 original size:26 final size:26
Alignment explanation
Indices: 4526610--4526671 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
4526600 ATTTTTCTAG
4526610 TTTTCCTTTTTCCTTTTCTTTTATTC
1 TTTTCCTTTTTCCTTTTCTTTTATTC
* *
4526636 TTTCCCTTTTTCCTTTTCTTTTATTT
1 TTTTCCTTTTTCCTTTTCTTTTATTC
*
4526662 TTTTTCTTTT
1 TTTTCCTTTT
4526672 CTTTTTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTCCTTTTTCCTTTTCTTTTATTC
Found at i:4529724 original size:69 final size:69
Alignment explanation
Indices: 4529634--4529771 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
4529624 TCGGGTTTTA
4529634 TCTTGCTATTATACTTAAAAAAATGCCTTAGTGGCTCATTCATGCATTTAATGTCTTAATGTCTT
1 TCTTGCTATTATACTTAAAAAAATGCCTTAGTGGCTCATTCATGCATTTAATGTCTTAATGTCTT
4529699 TTCC
66 TTCC
* * * * *
4529703 TCTTGTTATTGTAGTTAAAAAAATGCCTTAGTGGCTCTTTCATGCATTTAATGTCTTAATTTCTT
1 TCTTGCTATTATACTTAAAAAAATGCCTTAGTGGCTCATTCATGCATTTAATGTCTTAATGTCTT
4529768 TTCC
66 TTCC
4529772 CTACATTTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (69 bp):
TCTTGCTATTATACTTAAAAAAATGCCTTAGTGGCTCATTCATGCATTTAATGTCTTAATGTCTT
TTCC
Found at i:4532116 original size:28 final size:27
Alignment explanation
Indices: 4532056--4532132 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
4532046 ATTATTAACA
4532056 AATA-TTTAAATTA-AATATTTAAAAAT
1 AATATTTTAAATTATAAT-TTTAAAAAT
* *
4532082 AATATTTTAAATGATAATTTTTAAAAT
1 AATATTTTAAATTATAATTTTAAAAAT
* * *
4532109 TATCATTTGAATTTATAATTTTAA
1 AAT-ATTTTAAATTATAATTTTAA
4532133 TTGAAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.10
27 18 0.44
28 19 0.46
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
AATATTTTAAATTATAATTTTAAAAAT
Found at i:4534296 original size:49 final size:49
Alignment explanation
Indices: 4534203--4534298 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
4534193 ACTATTTAAT
* * *
4534203 ATTTTACCCTCCCGGATGGCCCAACAACGATAGTTTTTACAATTTTTAC
1 ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
* * *
4534252 ATTTTACCATCTCGGGTGGCCCATCAACGAT-GATTTTCAAAATTTTT
1 ATTTTACCATCCCGGATGGCCCAACAACGATAG-TTTTCAAAATTTTT
4534299 CTTATTCCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (49 bp):
ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
Found at i:4534809 original size:192 final size:193
Alignment explanation
Indices: 4534559--4534932 Score: 590
Period size: 193 Copynumber: 1.9 Consensus size: 193
4534549 ACTAAGACCA
* *
4534559 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCCGATCCTCTATCTCGATA-TCAAT
1 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCCAATCCACTATCTCGATATTCAAT
* *
4534623 ATCAATCACACCAATTCAATTCATACAATCATTATATACTCACCTCAATATTCAAA-CGTGCAAT
66 ATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATT-AAATCGTGCAAT
*
4534687 TAACATGTATATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
130 TAACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
** ** * * *
4534751 ATTCACAGTTTTGACATTCTGCACTGTCACAGAATTTAATTCAATCCACTATCTCGATATTCAAT
1 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCCAATCCACTATCTCGATATTCAAT
*
4534816 ATCAATCACACCAGTTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCGTGCAATT
66 ATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCGTGCAATT
* *
4534881 AACATGTACATGCAAACAATTAAATCGATTCCAAATCATAAAAGTACAAACC
131 AACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACC
4534933 AGGGTCTTGT
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
192 53 0.32
193 112 0.68
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (193 bp):
ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCCAATCCACTATCTCGATATTCAAT
ATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCGTGCAATT
AACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
Found at i:4535910 original size:14 final size:14
Alignment explanation
Indices: 4535891--4536018 Score: 114
Period size: 14 Copynumber: 9.1 Consensus size: 14
4535881 GACATTCTGT
*
4535891 ATCTATGAATCCAC
1 ATCTATGAATCCGC
*
4535905 ATCTATAAATCCGC
1 ATCTATGAATCCGC
* *
4535919 ATGTATGAATCTGC
1 ATCTATGAATCCGC
* * *
4535933 ATTTATAAATCTGC
1 ATCTATGAATCCGC
* *
4535947 ATGTATGAATCTGC
1 ATCTATGAATCCGC
*
4535961 ATCTATGAATCCAC
1 ATCTATGAATCCGC
* *
4535975 A-CGTATGGATCCGT
1 ATC-TATGAATCCGC
* *
4535989 ATCTATGAATTCAC
1 ATCTATGAATCCGC
4536003 ATCTATGAATCCGC
1 ATCTATGAATCCGC
4536017 AT
1 AT
4536019 GTGAGAGTTC
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
13 1 0.01
14 89 0.98
15 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (14 bp):
ATCTATGAATCCGC
Found at i:4536890 original size:14 final size:15
Alignment explanation
Indices: 4536871--4536900 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4536861 TAATTCAATG
4536871 TTTA-TTTAAAATTT
1 TTTATTTTAAAATTT
4536885 TTTATTTTAAAATTT
1 TTTATTTTAAAATTT
4536900 T
1 T
4536901 GCGTGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTTTAAAATTT
Found at i:4555154 original size:15 final size:15
Alignment explanation
Indices: 4555131--4555161 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4555121 AAAAGAGAAT
4555131 ATAAAACATGAATTA
1 ATAAAACATGAATTA
*
4555146 ATAATACATGAATTA
1 ATAAAACATGAATTA
4555161 A
1 A
4555162 ATGCTAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAAAACATGAATTA
Found at i:4555420 original size:20 final size:22
Alignment explanation
Indices: 4555397--4555443 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
4555387 TGAATAATGC
4555397 ATAA-GAAC-TTAAAATAAATA
1 ATAAGGAACTTTAAAATAAATA
*
4555417 ATAAAAGGAGCTTTAAAATAAATA
1 AT--AAGGAACTTTAAAATAAATA
4555441 ATA
1 ATA
4555444 TATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.09
22 3 0.14
23 3 0.14
24 14 0.64
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAAGGAACTTTAAAATAAATA
Found at i:4555472 original size:26 final size:26
Alignment explanation
Indices: 4555428--4555477 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4555418 TAAAAGGAGC
*
4555428 TTTAAAATAAATAATATATAAAATTT
1 TTTAAAATAAATAACATATAAAATTT
* *
4555454 TTTAAAATGAATTACATATAAAAT
1 TTTAAAATAAATAACATATAAAAT
4555478 AGTTTGAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TTTAAAATAAATAACATATAAAATTT
Found at i:4562989 original size:30 final size:30
Alignment explanation
Indices: 4562953--4563010 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
4562943 TTCGAGCCTT
4562953 GGGGCAAAAGT-ATAATTATGTAAAAGTTTA
1 GGGGCAAAA-TCATAATTATGTAAAAGTTTA
*
4562983 GGGGCAAAATCATAATTTTGTAAAAGTT
1 GGGGCAAAATCATAATTATGTAAAAGTT
4563011 AGATTCGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAATCATAATTATGTAAAAGTTTA
Found at i:4563458 original size:50 final size:50
Alignment explanation
Indices: 4563352--4563581 Score: 244
Period size: 50 Copynumber: 4.5 Consensus size: 50
4563342 GGGAATGAGA
* * * *
4563352 TCCCATGTAAGACCAGGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGG
* * * *
4563408 TCCTAGGTAAGACCATGTCTGAGACATGGCGTTGGCACCGGGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* **
4563458 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* * * * * *
4563508 TCCCCTGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAGC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
4563558 TCCCATGTAAGACCATATCTGGGA
1 TCCCATGTAAGACCATGTCTGGGA
4563582 TATGACATTG
Statistics
Matches: 148, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
50 114 0.77
53 2 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:4563534 original size:100 final size:101
Alignment explanation
Indices: 4563352--4563594 Score: 290
Period size: 100 Copynumber: 2.4 Consensus size: 101
4563342 GGGAATGAGA
* * * *
4563352 TCCCATGTAAGACCAGGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCTAGGTA
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGG---CATTGAG--TATGAGAGGTCCCAGGTA
* * * * *
4563417 AGACCATGTCTGAGACATGGCGTTGGCACCGGGATGAGAGG
61 AGACCATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
* **
4563458 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATTGAG-ATGAGAGGTCCCCTGTAAGACC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGAGTATGAGAGGTCCCAGGTAAGACC
* *
4563522 ATGTCTGGGACATAGCATGGGCACCGATATGAGAGC
66 ATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
* *
4563558 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
4563595 GTACAACAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
100 82 0.68
103 7 0.06
106 31 0.26
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (101 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGAGTATGAGAGGTCCCAGGTAAGACC
ATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
Found at i:4567771 original size:15 final size:15
Alignment explanation
Indices: 4567751--4567796 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
4567741 TGAAATTGAA
4567751 TATGTGTACTTAAAG
1 TATGTGTACTTAAAG
4567766 TATGTGTACTTAAAG
1 TATGTGTACTTAAAG
4567781 TATGTGTACTTAAAG
1 TATGTGTACTTAAAG
4567796 T
1 T
4567797 GTTGCTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (15 bp):
TATGTGTACTTAAAG
Found at i:4568799 original size:44 final size:44
Alignment explanation
Indices: 4568750--4568864 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
4568740 GTTTTAATCC
* * **
4568750 ACTCCACTGCTACTTCAGGGAGATAGGATTAATAGCTTCAATTT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
* * ** *
4568794 GCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
4568838 ACTCCACTGCAACTTCAGGGAGATAAG
1 ACTCCACTGCAACTTCAGGGAGATAAG
4568865 GTTTGTTATC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
Found at i:4568940 original size:51 final size:51
Alignment explanation
Indices: 4568885--4568987 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
4568875 TTCAGTCTTG
* * *
4568885 ATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTA
1 ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
* * * * * **
4568936 ATCTGTTCCACTGTAACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTTTA
1 ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
4568987 A
1 A
4568988 CGCCAGGGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (51 bp):
ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
Found at i:4568998 original size:36 final size:36
Alignment explanation
Indices: 4568949--4569023 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
4568939 TGTTCCACTG
* * *
4568949 TAACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTT
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
*
4568985 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAACTT
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
4569021 TAA
1 TAA
4569024 TATGCTCCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (36 bp):
TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
Found at i:4569038 original size:138 final size:136
Alignment explanation
Indices: 4568885--4569766 Score: 691
Period size: 123 Copynumber: 6.7 Consensus size: 136
4568875 TTCAGTCTTG
*
4568885 ATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* *
4568950 AACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTCGCT-CCTT
4569015 CAACTTTA
129 CAACTTTA
* * * * *
4569023 ATATGCTCCGCTGCAATGCTAGGGAAACAATATTTGCTACCTTTAGCTTTAATCTGTTCTACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * *
4569088 AACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCA--CA-A-CA-CTTCAGCT--TT-
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTC-GCTCCTTC
*
4569145 AA-TAT-
130 AACTTTA
* * * * * **
4569150 AT-T-CT--ACTGCAAAGCCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATCTTTTTCACTAC
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * * *
4569211 AAAGCC-AGAGAAACAAGATTCTCTGTCTTCAGCTTTAATGTCAGGGAGATAAGATTCACTGCCT
66 AACGCCAAG-GAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTCGCT-CCT
*
4569275 TCAGCTTTA
128 TCAACTTTA
* * * *
4569284 ATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * *
4569349 AACGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCC----------G-CTC-C-ACTTCA
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCGCTCCTTCA
4569401 ACTTTA
131 ACTTTA
** * * * * * *
4569407 ATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGC
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * *
4569472 AAAGCCAGGGAAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAAATTCGCTACCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTCGCT-CCTT
*
4569537 CATCTTTA
129 CAACTTTA
* * ** * *
4569545 ATCTACTCTGCTGCAATGCCAAAGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTGCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * *
4569610 AACACCAAGGAGATAGGATTCACTACCTTCAGC-TT------------T-A-ATTCGCTCCACTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCGCT-C-CTT
*
4569660 CAGCTTTA
129 CAACTTTA
** * * **
4569668 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTAC
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * *
4569733 AAAGCC-AGAGAAATAAAATTCGCTGTCTTCAGCT
66 AACGCCAAG-GAGATAAGATTCGCTGCCTTCAGCT
4569767 GCTCCACTGC
Statistics
Matches: 584, Mismatches: 123, Indels: 88
0.73 0.15 0.11
Matches are distributed among these distances:
122 12 0.02
123 259 0.44
124 5 0.01
125 3 0.01
126 4 0.01
127 4 0.01
128 5 0.01
129 5 0.01
130 2 0.00
131 2 0.00
132 4 0.01
133 6 0.01
134 3 0.01
135 4 0.01
136 3 0.01
137 6 0.01
138 256 0.44
139 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (136 bp):
ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCGCTCCTTCA
ACTTTA
Found at i:4569071 original size:87 final size:87
Alignment explanation
Indices: 4568899--4569074 Score: 190
Period size: 87 Copynumber: 2.0 Consensus size: 87
4568889 GCTCCGCTGC
* * * * * * *
4568899 AACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCTAAGGAGAT
1 AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
**
4568964 AAGATTCGCTGTCTTCAGCTTT
66 AAGATTCGCTACCTTCAGCTTT
* * * * * *
4568986 AACGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAATATGCTCCGCTGCAATGCTAGGGAAAC
1 AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
* * *
4569051 AATATTTGCTACCTTTAGCTTT
66 AAGATTCGCTACCTTCAGCTTT
4569073 AA
1 AA
4569075 TCTGTTCTAC
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
AAGATTCGCTACCTTCAGCTTT
Found at i:4569366 original size:261 final size:261
Alignment explanation
Indices: 4568895--4569766 Score: 1287
Period size: 261 Copynumber: 3.3 Consensus size: 261
4568885 ATCTGCTCCG
** * *
4568895 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCTA-AG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGA-
* *
4568959 GAGATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAA
65 GAAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAA
* * * *
4569024 TATGCTCCGCTGCAATGCTAGGGAAACAATATTTGCTACCTTTAGCTTTAATCTGTTCTACTGTA
130 TCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTA
* ** *
4569089 ACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCACAACACTTCAGCTTTAATATATTC
195 ACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTC
*
4569154 TA
260 CA
* * * *
4569156 CTGCAAAGCCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATCTTTTTCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
* * * * *
4569221 AAACAAGATTCTCTGTCTTCAGCTTTAATGTCAGGGAGATAAGATTCACTGCCTTCAGCTTTAAT
66 AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAAT
* * *
4569286 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGTAA
131 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
* * *
4569351 CGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAACTTTAATCTATTCC
196 CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
4569416 A
261 A
* * * * *
4569417 CTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
* * *
4569482 AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAAATTCGCTACCTTCATCTTTAAT
66 AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAAT
* * * ** * *
4569547 CTACTCTGCTGCAATGCCAAAGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTGCACTGTAA
131 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
* * *
4569612 CACCAAGGAGATAGGATTCACTACCTTCAGCTTTAATTCGCTCCACTTCAGCTTTAATCTATTCC
196 CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
4569677 A
261 A
4569678 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
*
4569743 AAATAAAATTCGCTGTCTTCAGCT
66 AAATAAGATTCGCTGTCTTCAGCT
4569767 GCTCCACTGC
Statistics
Matches: 542, Mismatches: 68, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
261 541 1.00
262 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (261 bp):
CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAAT
CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
A
Found at i:4569396 original size:51 final size:51
Alignment explanation
Indices: 4569255--4569402 Score: 127
Period size: 51 Copynumber: 2.9 Consensus size: 51
4569245 TTAATGTCAG
* * * * * *
4569255 GGAGATAAGATTCACTGCCTTCAGCTTTAATCTGCTCCGCTGCAATGCTAG
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAACGCCAA
* * ** * ** *
4569306 GGAAACAAGATTCGCCACCTTTAGCTTTAA-CCTATTCCACTGTAACGCCAA
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCC-GCTCCACTGCAACGCCAA
* * *
4569357 TGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAAC
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAAC
4569403 TTTAATCTAT
Statistics
Matches: 70, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
50 1 0.01
51 67 0.96
52 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (51 bp):
GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAACGCCAA
Found at i:4569457 original size:72 final size:72
Alignment explanation
Indices: 4569330--4569469 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 72
4569320 CCACCTTTAG
* * * * * *
4569330 CTTTAACCTATTCCACTGTAACGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCC
1 CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
4569395 ACTTCAA
66 ACTTCAA
* * * * * *
4569402 CTTTAATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCC
1 CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
4569467 ACT
66 ACT
4569470 GCAAAGCCAG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (72 bp):
CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
ACTTCAA
Found at i:4569508 original size:51 final size:51
Alignment explanation
Indices: 4569396--4569510 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 51
4569386 ATCCGCTCCA
* * *
4569396 CTTCAACTTTAATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTAC
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
* * * **
4569447 CTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGT
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
*
4569498 CTTCAGCTTTAAT
1 CTTCAACTTTAAT
4569511 GCCAGGGAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
Found at i:4569529 original size:36 final size:36
Alignment explanation
Indices: 4569475--4569546 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
4569465 CCACTGCAAA
* **
4569475 GCCAGGGAAATAAGATTCGCTGTCTTCAGCTTTAAT
1 GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
* *
4569511 GCCAGGGAGATAAAATTCGCTACCTTCATCTTTAAT
1 GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
4569547 CTACTCTGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (36 bp):
GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
Found at i:4569573 original size:87 final size:87
Alignment explanation
Indices: 4569438--4569597 Score: 212
Period size: 87 Copynumber: 1.8 Consensus size: 87
4569428 GGGAAACAAG
* ** ** **
4569438 ATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGTCTTCA
1 ATTCGCTACCTTCAACTTTAATCTACTCCACTGCAAAGCCAAAGAAATAAGATTCGCTACCTTCA
4569503 GCTTTAATGCCAGGGAGATAAA
66 GCTTTAATGCCAGGGAGATAAA
* ** * *
4569525 ATTCGCTACCTTCATCTTTAATCTACTCTGCTGCAATGCCAAAGAAATAAGATTCGCTACCTTTA
1 ATTCGCTACCTTCAACTTTAATCTACTCCACTGCAAAGCCAAAGAAATAAGATTCGCTACCTTCA
4569590 GCTTTAAT
66 GCTTTAAT
4569598 CTGTTGCACT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (87 bp):
ATTCGCTACCTTCAACTTTAATCTACTCCACTGCAAAGCCAAAGAAATAAGATTCGCTACCTTCA
GCTTTAATGCCAGGGAGATAAA
Found at i:4569679 original size:21 final size:21
Alignment explanation
Indices: 4569627--4569669 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4569617 AGGAGATAGG
*
4569627 ATTCACTAC-CTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
*
4569647 ATTCGCTCCACTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
4569668 AT
1 AT
4569670 CTATTCCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (21 bp):
ATTCACTCCACTTCAGCTTTA
Found at i:4569728 original size:51 final size:52
Alignment explanation
Indices: 4569646--4569756 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 52
4569636 CTTCAGCTTT
* * * *
4569646 AATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAA
1 AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
* * * *
4569698 GATTCGCTAC-CTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAGAAATAA
1 AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
4569749 AATTCGCT
1 AATTCGCT
4569757 GTCTTCAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 42 0.84
52 8 0.16
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (52 bp):
AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
Found at i:4569730 original size:72 final size:72
Alignment explanation
Indices: 4569576--4569720 Score: 175
Period size: 72 Copynumber: 2.0 Consensus size: 72
4569566 AAGAAATAAG
* * * * * * * *
4569576 ATTCGCTAC-CTTTAGCTTTAATCTGTTGCACTGTAACACCAAGGAGATAGGATTCACTACCTTC
1 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAAGGAAACAAGATTCACTACCTTC
4569640 AGCTTTA
66 AGCTTTA
* * * *
4569647 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTT
1 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAAGGAAACAAGATTCACTACCTTC
4569712 AGCTTTA
66 AGCTTTA
4569719 AT
1 AT
4569721 CTGTTCCACT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
71 8 0.13
72 53 0.87
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (72 bp):
ATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAAGGAAACAAGATTCACTACCTTC
AGCTTTA
Found at i:4571100 original size:5 final size:5
Alignment explanation
Indices: 4571090--4571128 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
4571080 GGCCTCTCCT
*
4571090 TTTTC TTTTC TTTT- TTTTC TTCTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
4571129 TTCATCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:4571102 original size:11 final size:11
Alignment explanation
Indices: 4571090--4571129 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4571080 GGCCTCTCCT
4571090 TTTTC-TTTTC
1 TTTTCTTTTTC
4571100 -TTT-TTTTTC
1 TTTTCTTTTTC
*
4571109 TTCTCTTTTTC
1 TTTTCTTTTTC
4571120 TTTTCTTTTT
1 TTTTCTTTTT
4571130 TCATCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:4571120 original size:20 final size:20
Alignment explanation
Indices: 4571095--4571148 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
4571085 CTCCTTTTTC
*
4571095 TTTTCTTTTTTTTCTTC-TCT
1 TTTTCTTTTTTTT-TTCATCA
4571115 TTTTCTTTTCTTTTTTCATCA
1 TTTTCTTTT-TTTTTTCATCA
4571136 TTTTCATTTTTTT
1 TTTTC-TTTTTTT
4571149 GAAATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.40
21 14 0.47
22 4 0.13
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTCATCA
Found at i:4572994 original size:4 final size:4
Alignment explanation
Indices: 4572985--4573018 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
4572975 TTATTGTAAT
* *
4572985 AATA AATA AATA AATA ATTA ATTA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
4573019 AACAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:4574894 original size:12 final size:12
Alignment explanation
Indices: 4574877--4574919 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4574867 CCTGCATTTT
*
4574877 ATTTTTATATCA
1 ATTTTTATATAA
*
4574889 ATTTTTTTATAAA
1 ATTTTTATAT-AA
*
4574902 ATTTTTAAATAA
1 ATTTTTATATAA
4574914 ATTTTT
1 ATTTTT
4574920 TCACTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:4582250 original size:19 final size:21
Alignment explanation
Indices: 4582211--4582250 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4582201 TCGATGCCTC
4582211 AGAGAGAAGGATGAAAGCAAGA
1 AGAGAGAAGGATG-AAGCAAGA
4582233 AGAGAGAA-GATG-AGCAAG
1 AGAGAGAAGGATGAAGCAAG
4582251 CACTTGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.53, C:0.05, G:0.38, T:0.05
Consensus pattern (21 bp):
AGAGAGAAGGATGAAGCAAGA
Found at i:4583493 original size:6 final size:6
Alignment explanation
Indices: 4583482--4583508 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4583472 TATTATAGAA
4583482 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
4583509 TTGTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:4585652 original size:22 final size:21
Alignment explanation
Indices: 4585610--4585654 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
4585600 AAGTTTGAGT
*
4585610 GAGAAATTAAGAGGGAATTGA
1 GAGAAATTAAGAGAGAATTGA
* *
4585631 GAGAAATTTGAGAGAGATTTGA
1 GAGAAA-TTAAGAGAGAATTGA
4585653 GA
1 GA
4585655 TTGTGAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (21 bp):
GAGAAATTAAGAGAGAATTGA
Found at i:4585663 original size:19 final size:19
Alignment explanation
Indices: 4585639--4585676 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4585629 GAGAGAAATT
*
4585639 TGAGAGAGATTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
4585658 TGAGAGAGAGTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
4585677 AATTGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (19 bp):
TGAGAGAGAGTTGAGATTG
Found at i:4585901 original size:41 final size:41
Alignment explanation
Indices: 4585850--4585959 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
4585840 CTTATGTGGC
* **
4585850 AAAAGTGCTTCTAGCTAGAAG-TGTTTTCCTGCAAAT-ATGCT
1 AAAAATGCTTCTAGCTAGAAGCACTTTT-CTGCAAATCA-GCT
4585891 AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATCAGCT
1 AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATCAGCT
*
4585932 GAAAATGCTTCTAGCTAGAAGCA-TTTTC
1 AAAAATGCTTCTAGCTAGAAGCACTTTTC
4585960 GTAAAATCGG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
40 5 0.08
41 53 0.84
42 5 0.08
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (41 bp):
AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATCAGCT
Found at i:4587148 original size:9 final size:9
Alignment explanation
Indices: 4587128--4587194 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
4587118 TTTGGTTAAA
*
4587128 AATTCACCG
1 AATTAACCG
*
4587137 AATTAACTG
1 AATTAACCG
*
4587146 AATTAACCA
1 AATTAACCG
*
4587155 AATTATCCG
1 AATTAACCG
4587164 AATTAACCG
1 AATTAACCG
4587173 AATT-ACCTG
1 AATTAACC-G
4587182 AATTAACCG
1 AATTAACCG
4587191 AATT
1 AATT
4587195 GAATCACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
8 3 0.06
9 43 0.88
10 3 0.06
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:4588861 original size:8 final size:8
Alignment explanation
Indices: 4588848--4588885 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
4588838 ATTTTGAAGA
4588848 AAAAATTG
1 AAAAATTG
4588856 AAAAATTG
1 AAAAATTG
4588864 AAAAATTG
1 AAAAATTG
4588872 AAAAATTG
1 AAAAATTG
4588880 AAAAAT
1 AAAAAT
4588886 AAAAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (8 bp):
AAAAATTG
Found at i:4588898 original size:14 final size:14
Alignment explanation
Indices: 4588856--4588892 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
4588846 GAAAAAATTG
4588856 AAAAATTGAAAAATT
1 AAAAATTGAAAAA-T
4588871 GAAAAATTGAAAAAT
1 -AAAAATTGAAAAAT
4588886 AAAAATT
1 AAAAATT
4588893 ATAAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (14 bp):
AAAAATTGAAAAAT
Found at i:4588899 original size:24 final size:24
Alignment explanation
Indices: 4588847--4588901 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
4588837 AATTTTGAAG
4588847 AAAAAATTGAAAAATTGAAAAATT
1 AAAAAATTGAAAAATTGAAAAATT
*
4588871 GAAAAATTGAAAAA-T-AAAAATT
1 AAAAAATTGAAAAATTGAAAAATT
4588893 ATAAAAATT
1 A-AAAAATT
4588902 CAAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (24 bp):
AAAAAATTGAAAAATTGAAAAATT
Found at i:4599989 original size:15 final size:15
Alignment explanation
Indices: 4599969--4599997 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4599959 TCTAACAAAG
4599969 TAAAATAAATAAAAA
1 TAAAATAAATAAAAA
4599984 TAAAATAAATAAAA
1 TAAAATAAATAAAA
4599998 GTTCCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:4600633 original size:106 final size:106
Alignment explanation
Indices: 4600448--4600871 Score: 803
Period size: 106 Copynumber: 4.0 Consensus size: 106
4600438 AACCCTCAGC
* * *
4600448 TACCTTAGATGATTAAACATGCACTGATTAAGTATCGTATCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
4600513 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
*
4600554 TACCTTAGATTATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
4600619 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
4600660 TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
4600725 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
*
4600766 TACCTTAGATTATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
4600831 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
4600872 GAATAATTTA
Statistics
Matches: 312, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 312 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (106 bp):
TACCTTAGATGATTAAACAGGCACTGATTAAGTACCGTGTCAATTAATTACAATTTCAATCCGTT
TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
Found at i:4606619 original size:52 final size:51
Alignment explanation
Indices: 4606535--4606673 Score: 189
Period size: 52 Copynumber: 2.7 Consensus size: 51
4606525 TCAGATACGG
* *
4606535 AAATAGAATTTAATTA--TTATTTAAAAGAGTTTTAGATAAATAG-TAATT
1 AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
4606583 AGAATAGAATTTAATTATTGTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
1 A-AATAGAATTTAATTATT-TTATTTAAAAGAGTTTTAAATAAAAAGATAATT
4606636 AAATAGAATTTAA--ATTATTATTTAAAAGAGGTTTTAAA
1 AAATAGAATTTAATTATT-TTATTTAAAAGA-GTTTTAAA
4606674 ATTCAAGATA
Statistics
Matches: 82, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
48 1 0.01
49 15 0.18
50 15 0.18
51 8 0.10
52 37 0.45
53 6 0.07
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (51 bp):
AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
Found at i:4611852 original size:664 final size:661
Alignment explanation
Indices: 4610584--4611919 Score: 1768
Period size: 664 Copynumber: 2.0 Consensus size: 661
4610574 TAATTTCATC
* *
4610584 GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTTTGAAACACTTGAC
1 GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTATGAAACACTTAAC
* * * *
4610649 ACGTGTAGTGTTAAATTATACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGG
66 AC--GTA-TGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGG
** *
4610714 GGTTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGTCTAAATGT
128 GGTTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGT
* * * * **
4610779 ATCCTACATCGATGATCTAGAGGCCATGGTTCTTTTATGATTAGTAGTTACTTTACACCAGGCTA
193 ATCCTACATAGATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATA
*** * * * * *
4610844 AGTATTTTGGCTTTGCATGTTAAATACTGAATAAGCAAATCTATATTTGGTAATTTGACAGTGAG
258 AGTATTTCAACTCTGCATATTAAATACTGAATAAGCAAATCTATATTTCGTAATTGGACAGTAAG
* * * ** * * *
4610909 ATTGTAAGTATAGGGTTTTTGAGGATTGTCAATGTTTGAAATGATAAGTAATTTGTATGTACAAA
323 ACTGTAACTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAA
* *
4610974 TTATTAATGGTGAAATTATGTTTCTAAGCAGTTGTTGCTACTGATTCATGATGATATCTGGATCT
388 GTATTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCT
* * * * **
4611039 GGAGTTTTGAATTGTAATAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
453 AGAGCTTTAAACTACAATAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
* * * *
4611104 TTTATACTGAAGCACATCTGTAGGAAAATTGATTAAACTATGAATCAGAAACCATGAAAAGTATA
518 TTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATA
* * *
4611169 GTATGAAAATGATATGTATGTGACTACATGAATGATTTCTAAAGAAAATTTATGAGCGTATGAGT
583 GTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCGTATGAAT
4611234 GTTTGTTGAGGATA
648 GTTTGTTGAGGATA
** * *
4611248 GTATTTATTAATAATTCTTTTGAAAA-CTGTAGGCCATTAAGAAGGCAAGTTATGAAACACTTAA
1 GTATTTATTAATAATTCTTTCAAAAATC-GTAGGCAATTAAGAAGGCAAATTATGAAACACTTAA
** *
4611312 CAC-T-TGTTAAATTACACTATGTAAGTAAAGTTATATATGTGTGAGAGATGAGTTCTAAGGGGG
65 CACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGGG
* * * *
4611375 TTCTTCTTTCTTTTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAACCCGGAATGTAT
130 TTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGTAT
* * *
4611440 TCTACATTAG-TGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTGCATCAGAATAA
195 CCTACA-TAGATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATAA
* *
4611504 GTATTTCAACTCTGCATATTAAGTACTGAATGAA-CAAATTTATATTTCGTAATTGGACA-TCAA
259 GTATTTCAACTCTGCATATTAAATACTGAAT-AAGCAAATCTATATTTCGTAATTGGACAGT-AA
* *
4611567 GACTGTAACTATAAGGTTTCTACATGGATTTTTCAAGGATTGAAATGATAAGTAATCTGTGTGTA
322 GACTGTAACTATAAGGTTT-TACA-GGA-TTGTCAAGGATTGAAATGATAAGTAATCTGTATGTA
* ** * * * ** * *
4611632 CAAGAGTATTAATGGTGAAATTGTGTTTCTAAGTTGTGGTTGTTATTGGTTTGTTATGGATATTT
384 CAA-AGTATTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGAT-GATATCT
* *
4611697 GGATCTAGAGCTTTAAACTACAGTAGGTGAGAATCAGGTGAGTTCCTATGCTGACTCATGCAAGT
447 GGATCTAGAGCTTTAAACTACAATAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGT
*
4611762 ATATTGTTTATACCGAAGCACATTTATAAGAAAATTGATCAAACTATGAATTCA-AAACCATGAA
512 ATATTGTTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAA-TCAGAAACCATGAA
* * *
4611826 ATGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAGGAAAATCTATGAGTG
576 AAGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCG
* *
4611891 TATGAATGTTTTTTGATGATA
641 TATGAATGTTTGTTGAGGATA
4611912 GTATTTAT
1 GTATTTAT
4611920 GTTTAGTATG
Statistics
Matches: 580, Mismatches: 82, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
658 1 0.00
659 226 0.39
660 6 0.01
661 4 0.01
662 34 0.06
663 43 0.07
664 263 0.45
665 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (661 bp):
GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTATGAAACACTTAAC
ACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGGGT
TCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGTATC
CTACATAGATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATAAGT
ATTTCAACTCTGCATATTAAATACTGAATAAGCAAATCTATATTTCGTAATTGGACAGTAAGACT
GTAACTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAAGTA
TTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCTAGA
GCTTTAAACTACAATAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTGTTT
ATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATAGTA
TGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCGTATGAATGTT
TGTTGAGGATA
Found at i:4612365 original size:27 final size:27
Alignment explanation
Indices: 4612333--4612388 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
4612323 GACAACTAAG
*
4612333 AAATAGCCTTTGTGGCGAACTTTAAAA
1 AAATAGCCTTTGTGGCGAACTCTAAAA
*
4612360 AAATAGCTTTTGTGGCGAACTCTAAAA
1 AAATAGCCTTTGTGGCGAACTCTAAAA
4612387 AA
1 AA
4612389 TAACTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (27 bp):
AAATAGCCTTTGTGGCGAACTCTAAAA
Found at i:4612386 original size:26 final size:26
Alignment explanation
Indices: 4612328--4612400 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
4612318 AAAACGACAA
* *
4612328 CTAAGAAATAGCCTTTGTGGCGAACT
1 CTAAAAAATAGCTTTTGTGGCGAACT
*
4612354 TTAAAAAAATAGCTTTTGTGGCGAACT
1 CT-AAAAAATAGCTTTTGTGGCGAACT
* *
4612381 CTAAAAAATAACTATTGTGG
1 CTAAAAAATAGCTTTTGTGG
4612401 TGTATTCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (26 bp):
CTAAAAAATAGCTTTTGTGGCGAACT
Found at i:4612410 original size:26 final size:26
Alignment explanation
Indices: 4612342--4612400 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
4612332 GAAATAGCCT
* * *
4612342 TTGTGGCGAACTTTAAAAAAATAGCTT
1 TTGTGGCGAACTCT-AAAAAATAACTA
4612369 TTGTGGCGAACTCTAAAAAATAACTA
1 TTGTGGCGAACTCTAAAAAATAACTA
4612395 TTGTGG
1 TTGTGG
4612401 TGTATTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (26 bp):
TTGTGGCGAACTCTAAAAAATAACTA
Found at i:4616958 original size:13 final size:13
Alignment explanation
Indices: 4616940--4616985 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
4616930 AAAATTCATT
4616940 TATTTTTATATAA
1 TATTTTTATATAA
*
4616953 TATTTTTATAAATA
1 TATTTTTATATA-A
*
4616967 TATTTTTACATAA
1 TATTTTTATATAA
4616980 T-TTTTT
1 TATTTTT
4616986 CACCTAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 11 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:4625585 original size:14 final size:14
Alignment explanation
Indices: 4625548--4625601 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
4625538 GTTCAGATTC
*
4625548 AATATAAAAAATCATC
1 AATA-AAAAAATCA-A
*
4625564 AATAAAAAAAACAA
1 AATAAAAAAATCAA
*
4625578 AATCAAAAAAATGAA
1 AAT-AAAAAAATCAA
4625593 AATAAAAAA
1 AATAAAAAA
4625602 GGAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.27
15 20 0.61
16 4 0.12
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:4625662 original size:13 final size:12
Alignment explanation
Indices: 4625567--4625668 Score: 60
Period size: 13 Copynumber: 7.4 Consensus size: 12
4625557 AATCATCAAT
*
4625567 AAAAAAAACAAA
1 AAAAAAAAGAAA
4625579 ATCAAAAAAATGAAA
1 A--AAAAAAA-GAAA
*
4625594 ATAAAAAAGGAAA
1 A-AAAAAAAGAAA
4625607 AAAAATAAAGAAA
1 AAAAA-AAAGAAA
*
4625620 AAAGAAAAAAAAA
1 AAA-AAAAAGAAA
4625633 TTAAAATCAAAATGAAA
1 --AAAA--AAAA-GAAA
4625650 AAAGAAAAAGAAA
1 AAA-AAAAAGAAA
4625663 AGAAAA
1 A-AAAA
4625669 GGAGAGGCCA
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
12 5 0.07
13 27 0.38
14 22 0.31
15 10 0.14
16 5 0.07
17 3 0.04
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.08
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:4627996 original size:45 final size:44
Alignment explanation
Indices: 4627945--4628039 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
4627935 TAAGCAGTAA
*** * * *
4627945 TAGAGCAGATCGAAGGTGGTGAATCTTATCTCCCTGAGGTTGCAG
1 TAGAGCAGATCGAAGCCAGT-AATCCTATCTCCCTAAAGTTGCAG
* *
4627990 TGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTGCAG
1 TAGAGCAGATCGAAGCCAGTAATCCTATCTCCCTAAAGTTGCAG
4628034 TAGAGC
1 TAGAGC
4628040 GGATTCAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 26 0.63
45 15 0.37
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TAGAGCAGATCGAAGCCAGTAATCCTATCTCCCTAAAGTTGCAG
Found at i:4628507 original size:218 final size:218
Alignment explanation
Indices: 4627956--4629191 Score: 1875
Period size: 218 Copynumber: 5.7 Consensus size: 218
4627946 AGAGCAGATC
* * *
4627956 GAAGGTGGTGAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * * *
4628021 CCTAAAGTTGCAGTAGAGCGGATTCAAATAATAGATCTTATCTCTCTAAAGTTGTAGTAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
4628086 ATCGCATCAAGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
4628151 CTGAAGTTGTAGTGGGGCAGACAT
196 CTGAAGTTGCAGTGGGGCAGAC-T
* * *
4628175 GAAGATGGTGAATCTTATCTACCTGAGTTTGTAGTGGAGCAGATTGAAGCTAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * *
4628240 CCTGAAGTTGCGGTGGAGCAAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
4628305 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGAAGCAGACCAAGAAAACAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
4628370 CTGAAGTTGCAGAGGGGCAGACT
196 CTGAAGTTGCAGTGGGGCAGACT
*
4628393 GAAGATGGTGAATCTTATCTTCCTGAGTTTGC-GATGGAG-ATTATTGAAGCCAGTAATCCTATC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAG-TGGAGCA-GATTGAAGCCAGTAATCCTATC
* * * * *
4628456 TCCCTCAAGTGGCAGTGGAGAGAATTCAAATAATAGATCTTATCTCTCTGAAGTAGCAGTAGAGC
64 TCCCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGT
* * *
4628521 GGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGCGGAGCAGACCAAGAAAGAAAGTCTTATCC
129 GGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCC
4628586 CCCTGAAGTTGCAGTGGGGCAGACT
194 CCCTGAAGTTGCAGTGGGGCAGACT
*
4628611 GAAGATGGTGAATCTTATCTTCCTGAGTTTACAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * *
4628676 CCTGAAGTGGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* * *
4628741 ATCGCATCAGGTCTAATCTCTCTGAGGTTGCAGCAGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
* *
4628806 CTGAAGTTGTAGTGAGGCAGACT
196 CTGAAGTTGCAGTGGGGCAGACT
* * *
4628829 GAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGCAGCACATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * * * *
4628894 CTTGAAGTTGTAGTGGAGCGGATTCAAATAATAGATCTTATGTCTCTGAAATTGCAGCAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
4628959 ATCGCATCAAGTCTTATCTCCCTTAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
4629024 CTGAAGTTGCAGTGGGGCAAACT
196 CTGAAGTTGCAGTGGGGCAGACT
*
4629047 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAGGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* ** * * * * *
4629112 CTTGAAGTTATAGTGGAGTGGATT-AAACAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
4629176 ATTGCATCAGATCTTA
131 ATCGCATCAGGTCTTA
4629192 CTTCCCAGAC
Statistics
Matches: 926, Mismatches: 87, Indels: 10
0.91 0.09 0.01
Matches are distributed among these distances:
217 49 0.05
218 677 0.73
219 200 0.22
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (218 bp):
GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
CTGAAGTTGCAGTGGGGCAGACT
Found at i:4628628 original size:45 final size:44
Alignment explanation
Indices: 4627966--4629168 Score: 318
Period size: 44 Copynumber: 27.6 Consensus size: 44
4627956 GAAGGTGGTG
* * *
4627966 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * * * * * *
4628010 AATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * * ** *
4628053 AGATCTTATCTCTCTAAAGTTGTAGTAGAGTGGA-T--CG-CA-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * * * *
4628093 CAAGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGAC-CAAGAAAGC
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * **
4628138 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACATGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAGACAGT
* * *
4628184 GAATCTTATCTACCTG-AGTTTGTAGTGGAGCAGATTGAAG-CTAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGAC-AGT
* * * * * * *
4628229 AATCCTATCTCCCTGAAGTTGCGGTGGAGCAAATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* ** ** * *
4628272 AGATCTTATCTCTCTGAAGTTGCAGCAGAGTGGA-TCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACAGT
* * * * * * **
4628315 -GTCTTATCTCCCTGAGGTTGCAGCGAAGCAGAC-CAAGAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * **
4628357 AAGTCTTATCCCCCTGAAGTTGCAGAGGGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * *
4628402 GAATCTTATCTTCCTG-AGTTTGC-GATGGAG-ATTATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAG-TGGAGCA-GACTGAAGACAGT
* * * * * * *
4628447 AATCCTATCTCCCTCAAGTGGCAGTGGAG-AGAATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTGAAGACAGT
* * * * * *
4628490 AGATCTTATCTCTCTGAAGTAGCAGTAGAGCGGA-TCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACAGT
* * * * * * * *
4628533 -GTCTTATCTCCTTGAGGTTACAGCGGAGCAGAC-CAAGAAAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * **
4628575 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * *
4628620 GAATCTTATCTTCCTG-AGTTTACAGTGGAGCAGATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGT
* * * * * *
4628665 AATCCTATCTCCCTGAAGTGGCAGTGGAGC-GAATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTGAAGACAGT
* * * * * *
4628708 AGATCTTATCTCTCTGAAGTTACAGTAGAGCGGA-TCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACAGT
* * * * ** * * *
4628751 -GTCTAATCTCTCTGAGGTTGCAGCAGAGCAGAC-CAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * **
4628793 AAGTCTTATCCCCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTGAAGACAGT
* * * *
4628838 GAATCTTATCTCCCTG-AGTTTGCAGTGCAGCACATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGT
* * * * * * * *
4628883 AATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * ** ** *
4628926 AGATCTTATGTCTCTGAAATTGCAGCAGAGTGGA-T--CG-CA-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * * * *
4628966 CAAGTCTTATCTCCCTTAGGTTGCAGCGGAGCAGAC-CAAGAAAGC
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * **
4629011 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAAACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* * * *
4629056 GAATCTTATCTTCCTG-AGTTTGCAGTGGAGCAGATTGAGGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGT
* * ** ** * *
4629101 AATCCTATCTCCTTGAAGTTATAGTGGAGTGGA-TTAA-ACAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
* *
4629143 AGATCTTATCTCTCTGAGGTTGCAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGT
4629169 AGAGTAGATT
Statistics
Matches: 824, Mismatches: 263, Indels: 145
0.67 0.21 0.12
Matches are distributed among these distances:
40 7 0.01
41 128 0.16
42 4 0.00
43 45 0.05
44 442 0.54
45 157 0.19
46 39 0.05
47 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT
Found at i:4630671 original size:24 final size:24
Alignment explanation
Indices: 4630604--4630672 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
4630594 ATTAATATGA
*
4630604 TTTAAATTTATCAT-GCATCATAGT
1 TTTAAATTTATCATAG-ATTATAGT
* *
4630628 TTAAAATTTATCATATATTATAGT
1 TTTAAATTTATCATAGATTATAGT
*
4630652 TTTAAACTTATCATAGATTAT
1 TTTAAATTTATCATAGATTAT
4630673 TATTTATGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTAAATTTATCATAGATTATAGT
Found at i:4639883 original size:24 final size:22
Alignment explanation
Indices: 4639840--4639899 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
4639830 AATATTATTT
4639840 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT--ATCATAGTTTA
*
4639864 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATAT-C-ATAGTTTA
*
4639888 AAACTTATCATA
1 AAATTTATCATA
4639900 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 29 0.91
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATCATAGTTTA
Found at i:4643566 original size:23 final size:23
Alignment explanation
Indices: 4643536--4643581 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4643526 TTTAACCTTT
4643536 ACAAAACACTATCTTTTCACTAG
1 ACAAAACACTATCTTTTCACTAG
4643559 ACAAAACACTATCTTTTCACTAG
1 ACAAAACACTATCTTTTCACTAG
4643582 CCTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.30
Consensus pattern (23 bp):
ACAAAACACTATCTTTTCACTAG
Found at i:4647248 original size:50 final size:50
Alignment explanation
Indices: 4647175--4647272 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
4647165 TGAAAGAATC
* * * *
4647175 ATATCGTGTAAGATCATAGCTGGTGGGCTATGGCGTCATATGGAAAGACA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
*
4647225 ATATCGTGTAAGACCATAACTGGTGGATTATGGCATCATATGGAAAGA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGA
4647273 TCTAAAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (50 bp):
ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
Found at i:4647472 original size:60 final size:60
Alignment explanation
Indices: 4647408--4647626 Score: 269
Period size: 60 Copynumber: 3.6 Consensus size: 60
4647398 GGCAAATCTT
* * *
4647408 TGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTC-TTTGTGGAAAAAATC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATG-CATTTGTGGAAAAAATC
* * * * *
4647468 TGGAAAGGGAAGCCTTTGTGACAAGTACTGAATGAAAATGATGCATTTGTGGAAAATATC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATGCATTTGTGGAAAAAATC
* * * *
4647528 TGGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAACTC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATG-CATTTGTGGAAAAAATC
* ** *
4647589 TTGAAAGGAAAGCCTTTATGGTGAGTAGTGAATGAAAA
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAA
4647627 TGACGCCCTT
Statistics
Matches: 137, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
59 1 0.01
60 90 0.66
61 46 0.34
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (60 bp):
TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATGCATTTGTGGAAAAAATC
Found at i:4647484 original size:29 final size:29
Alignment explanation
Indices: 4647452--4647548 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
4647442 AAAAGGATGT
4647452 CTTTGTGGAAAAAATCTGGAAAGGGAAGC
1 CTTTGTGGAAAAAATCTGGAAAGGGAAGC
* * ** *
4647481 CTTTGT-G-ACAAGTACTGAATGAAAATGATGC
1 CTTTGTGGAAAAAAT-CTG---GAAAGGGAAGC
* * *
4647512 ATTTGTGGAAAATATCTGGAAAGGAAAGC
1 CTTTGTGGAAAAAATCTGGAAAGGGAAGC
4647541 CTTTGTGG
1 CTTTGTGG
4647549 CAAGTACTGA
Statistics
Matches: 48, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
27 4 0.08
28 4 0.08
29 20 0.42
31 13 0.27
32 4 0.08
33 3 0.06
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (29 bp):
CTTTGTGGAAAAAATCTGGAAAGGGAAGC
Found at i:4647578 original size:32 final size:31
Alignment explanation
Indices: 4647419--4647575 Score: 103
Period size: 31 Copynumber: 5.2 Consensus size: 31
4647409 GGAAATGAAA
* * *
4647419 GCCTTTATGGCGAGTACTAAATGAAAAGGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
* * ** * *
4647450 GTCTTTGTGGAAAAAATCTG---GAAAGGGAA
1 GCCTTTGTGGCAAGTA-CTGAATGAAAAGGAT
* *
4647479 GCCTTTGTGACAAGTACTGAATGAAAATGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
* * * *
4647510 GCATTTGTGGAAAATATCTG---G-AAAGGAAA
1 GCCTTTGTGGCAAGTA-CTGAATGAAAAGG-AT
4647539 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
4647570 GCCTTT
1 GCCTTT
4647576 TGTAGAAAAA
Statistics
Matches: 89, Mismatches: 27, Indels: 20
0.65 0.20 0.15
Matches are distributed among these distances:
28 10 0.11
29 33 0.37
31 36 0.40
32 10 0.11
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (31 bp):
GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
Found at i:4647639 original size:121 final size:121
Alignment explanation
Indices: 4647394--4647695 Score: 342
Period size: 121 Copynumber: 2.5 Consensus size: 121
4647384 TTGAAAGACT
* * * * * *
4647394 TTGTGGCAAATCTTTGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTC-TTTGT
1 TTGTGGAAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGT
* * * * *
4647458 GGAAAAAATCTGGAAAGGGAAGCCTTTGTGACAAGTACTGAATGAAAATGATGCAT
66 AGAAAAAATCTGGAAAGGAAAGCCTTTATGACAAGTACTGAATGAAAATGACGCAC
* *
4647514 TTGTGGAAAATATCTGGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGAAAAGGATGCCTTTTGT
1 TTGTGGAAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGT
* * *** * *
4647579 AGAAAAACTCTTGAAAGGAAAGCCTTTATGGTGAGTAGTGAATGAAAATGACGCCC
66 AGAAAAAATCTGGAAAGGAAAGCCTTTATGACAAGTACTGAATGAAAATGACGCAC
* * * *
4647635 TTGT-GACAAA-ACTTTGGAAAGGAAAGTCTTTGGGGTGAGTACTGAAT-AAAAAGATGCCTTT
1 TTGTGGA-AAATA-TTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTT
4647696 ATGGTAGATT
Statistics
Matches: 153, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
120 67 0.44
121 86 0.56
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.27
Consensus pattern (121 bp):
TTGTGGAAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGT
AGAAAAAATCTGGAAAGGAAAGCCTTTATGACAAGTACTGAATGAAAATGACGCAC
Found at i:4647672 original size:60 final size:62
Alignment explanation
Indices: 4647407--4647687 Score: 247
Period size: 60 Copynumber: 4.6 Consensus size: 62
4647397 TGGCAAATCT
* * * * * * * *
4647407 TTGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTCT-TTGTGGAAAAAATC
1 TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTC
* *** * * * *
4647468 -TGGAAAGGGAAGCCTTTGTGACAAGTACTGAATGAAAATGATGCAT-TTGTGGAAAATA-TC
1 TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAA-ACTC
** * *
4647528 -TGGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAACTC
1 TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTC
* * *
4647589 TT-GAAAGGAAAGCCTTTATGGTGAGTAGTGAATGAAAATGACGCC-CTTGT-GACAAAACT-
1 TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCCTCTTGTAGA-AAAACTC
* * *
4647648 TTGGAAAGGAAAGTCTTTGGGGTGAGTACTGAATAAAAAG
1 TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAG
4647688 ATGCCTTTAT
Statistics
Matches: 187, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
59 4 0.02
60 133 0.71
61 49 0.26
62 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (62 bp):
TTGGAAAGGAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTC
Found at i:4663206 original size:39 final size:40
Alignment explanation
Indices: 4663117--4663373 Score: 211
Period size: 40 Copynumber: 6.5 Consensus size: 40
4663107 TTGAATGCTG
* * * *
4663117 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAA-TATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-AACTAAA
* * *
4663157 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAG-AACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTAACTAAA
***
4663196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
***
4663236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
* * *
4663276 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
* * * * ** * * *
4663315 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
*
4663355 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
4663374 TACGTGATTT
Statistics
Matches: 184, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.02
39 77 0.42
40 96 0.52
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
Found at i:4663246 original size:40 final size:40
Alignment explanation
Indices: 4663192--4663338 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
4663182 GTGCGAGAAC
4663192 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
4663232 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * **
4663272 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * *
4663311 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
4663339 TGAACGAGGA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 34 0.34
40 67 0.66
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:4663253 original size:79 final size:78
Alignment explanation
Indices: 4663117--4663373 Score: 243
Period size: 79 Copynumber: 3.3 Consensus size: 78
4663107 TTGAATGCTG
* * * * * *
4663117 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
*
4663180 TTGTGCGAGAACTAAA
63 TTGTGCGAGAGCTAAA
* *
4663196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
* *
4663261 GTGCGAGTTGTTAAA
65 GTGCGAG-AGCTAAA
* * * * *
4663276 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
** *
4663340 GAACGAGGAGCTATA
65 GTGCGA-GAGCTAAA
*
4663355 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
4663374 TACGTGATTT
Statistics
Matches: 147, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 15 0.10
79 98 0.67
80 34 0.23
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGAGCTAAA
Found at i:4671148 original size:40 final size:39
Alignment explanation
Indices: 4671117--4671326 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
4671107 GGACTAAGAT
* *
4671117 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4671157 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4671197 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
4671237 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
4671277 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4671316 CCGAAGGCATT
1 CCGAAGGCATT
4671327 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4671280 original size:120 final size:120
Alignment explanation
Indices: 4671064--4671326 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
4671054 TTGAATGCTG
* *
4671064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4671128 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4671184 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
4671247 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4671303 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4671327 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4671346 original size:79 final size:80
Alignment explanation
Indices: 4671065--4671361 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
4671055 TGAATGCTGT
* ** * * * **
4671065 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
4671128 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
4671145 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
4671209 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
4671225 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
4671289 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
4671304 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
4671362 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:4682849 original size:15 final size:15
Alignment explanation
Indices: 4682826--4682855 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4682816 CCATATTTTC
*
4682826 ATTTTTTTTTCATTT
1 ATTTCTTTTTCATTT
4682841 ATTTCTTTTTCATTT
1 ATTTCTTTTTCATTT
4682856 TCTCTCCTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTCTTTTTCATTT
Found at i:4689690 original size:27 final size:27
Alignment explanation
Indices: 4689652--4689706 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
4689642 TGCTTTATGA
*
4689652 TTGTGTTTATTCTCGGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
4689679 TTGTGTTTATTCTCAGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
4689706 T
1 T
4689707 GCTTAGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (27 bp):
TTGTGTTTATTCTCAGAATTGTTAAAG
Found at i:4693290 original size:14 final size:14
Alignment explanation
Indices: 4693271--4693303 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4693261 TTATCCTATT
4693271 AAAAAC-AATTTTCA
1 AAAAACTAATTTT-A
4693285 AAAAACTAATTTTA
1 AAAAACTAATTTTA
4693299 AAAAA
1 AAAAA
4693304 TAGTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAACTAATTTTA
Found at i:4693849 original size:30 final size:30
Alignment explanation
Indices: 4693794--4693858 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4693784 TTAAATTTTA
4693794 TTATTAAAATAAAATTATAATATTAAATAAT
1 TTATTAAAATAAAATTATAATATT-AATAAT
* * * *
4693825 TTATTGAAAT-AATTTATTATATTAATAGT
1 TTATTAAAATAAAATTATAATATTAATAAT
4693854 TTATT
1 TTATT
4693859 TTTGATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTAAAATAAAATTATAATATTAATAAT
Found at i:4693850 original size:13 final size:13
Alignment explanation
Indices: 4693814--4693842 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4693804 AAAATTATAA
4693814 TATT-AAATAATT
1 TATTGAAATAATT
4693826 TATTGAAATAATT
1 TATTGAAATAATT
4693839 TATT
1 TATT
4693843 ATATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TATTGAAATAATT
Found at i:4696478 original size:3 final size:3
Alignment explanation
Indices: 4696472--4696496 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4696462 TCTTAGCAAG
4696472 ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC A
4696497 ACAACAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:4702143 original size:21 final size:21
Alignment explanation
Indices: 4702117--4702159 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4702107 TCAGATTCAA
*
4702117 ATCATACTTGGCATATAACAT
1 ATCATACTTAGCATATAACAT
4702138 ATCATACTTAGCATATAACAT
1 ATCATACTTAGCATATAACAT
4702159 A
1 A
4702160 CAAATCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
ATCATACTTAGCATATAACAT
Found at i:4708577 original size:50 final size:50
Alignment explanation
Indices: 4708505--4708620 Score: 115
Period size: 50 Copynumber: 2.3 Consensus size: 50
4708495 TATCCTAGAT
* ** * * ** *
4708505 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCTATGCCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTACCAGAC
* * *
4708555 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCGTGTACCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTACCAGAC
* *
4708605 ATTGTCTTACATGGGA
1 ATGGTCTTACAGGGGA
4708621 TCTTTTTACC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTACCAGAC
Found at i:4711857 original size:44 final size:43
Alignment explanation
Indices: 4711804--4711923 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 43
4711794 AAGAGCACTG
* * * *
4711804 AAGTTCTAAAAAGAGAGCACTGAAGTGTTGATCAATGAGTACCA
1 AAGTACTAAAAA-AGAGCACCGAAGTGTTGAACAAGGAGTACCA
* *
4711848 AAGTACTAAACAAAGAGCACCGAAGTGCTGAACAGGGAGTACCA
1 AAGTACTAAA-AAAGAGCACCGAAGTGTTGAACAAGGAGTACCA
* *
4711892 AAGTACTGAACAAAGAGCACCAAAGTGTTGAA
1 AAGTACT-AAAAAAGAGCACCGAAGTGTTGAA
4711924 TAGAAAGCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 61 0.94
45 4 0.06
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (43 bp):
AAGTACTAAAAAAGAGCACCGAAGTGTTGAACAAGGAGTACCA
Found at i:4711914 original size:66 final size:66
Alignment explanation
Indices: 4711773--4711917 Score: 155
Period size: 66 Copynumber: 2.2 Consensus size: 66
4711763 ACCATAGTAG
* * * * ** ** *
4711773 AGAGCACCATAGTGCTAAACAAAGAGCACTGAAGTTCTAAAAAGAGAGCACTGAAGTGTTGATCA
1 AGAGCACCAAAGTACTAAACAAAGAGCACCGAAGTGCTAAAAAGAGAGCACCAAAGTACTGAACA
4711838 A
66 A
* * * * * *
4711839 TGAGTACCAAAGTACTAAACAAAGAGCACCGAAGTGCTGAACAGGGAGTACCAAAGTACTGAACA
1 AGAGCACCAAAGTACTAAACAAAGAGCACCGAAGTGCTAAAAAGAGAGCACCAAAGTACTGAACA
4711904 A
66 A
4711905 AGAGCACCAAAGT
1 AGAGCACCAAAGT
4711918 GTTGAATAGA
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (66 bp):
AGAGCACCAAAGTACTAAACAAAGAGCACCGAAGTGCTAAAAAGAGAGCACCAAAGTACTGAACA
A
Found at i:4711915 original size:22 final size:22
Alignment explanation
Indices: 4711773--4711940 Score: 106
Period size: 22 Copynumber: 7.6 Consensus size: 22
4711763 ACCATAGTAG
* *
4711773 AGAGCACCATAGTGCTAAACAA
1 AGAGCACCAAAGTGCTGAACAA
** * *
4711795 AGAGCACTGAAGTTCT-AAAAA
1 AGAGCACCAAAGTGCTGAACAA
** * *
4711816 GAGAGCACTGAAGTGTTGATCAA
1 -AGAGCACCAAAGTGCTGAACAA
* * * *
4711839 TGAGTACCAAAGTACTAAACAA
1 AGAGCACCAAAGTGCTGAACAA
* *
4711861 AGAGCACCGAAGTGCTGAACAG
1 AGAGCACCAAAGTGCTGAACAA
* * *
4711883 GGAGTACCAAAGTACTGAACAA
1 AGAGCACCAAAGTGCTGAACAA
* *
4711905 AGAGCACCAAAGTGTTGAATAGA
1 AGAGCACCAAAGTGCTGAACA-A
*
4711928 A-AGCACAAAAGTG
1 AGAGCACCAAAGTG
4711941 TTAAACCCGT
Statistics
Matches: 109, Mismatches: 34, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
21 4 0.04
22 100 0.92
23 5 0.05
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTGAACAA
Found at i:4715399 original size:11 final size:11
Alignment explanation
Indices: 4715362--4715408 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4715352 TTGTTTTATG
4715362 TTTTAACA-TA
1 TTTTAACATTA
*
4715372 TTTTAACAATA
1 TTTTAACATTA
**
4715383 ACTTAACATTA
1 TTTTAACATTA
4715394 TTTTAACATATA
1 TTTTAACAT-TA
4715406 TTT
1 TTT
4715409 CTCTTAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 8 0.27
11 17 0.57
12 5 0.17
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTTAACATTA
Found at i:4720278 original size:5 final size:5
Alignment explanation
Indices: 4720268--4720316 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
4720258 TGTACTTGTT
* * *
4720268 TTTTC TTTTC TTTTC TTTT- TATTA TTTTC TTTTTC TTTTT TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
4720317 ATAACAGTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:4721905 original size:33 final size:33
Alignment explanation
Indices: 4721868--4721933 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
4721858 AAGGAAATCA
*
4721868 GCAGGACAGATAAATTTATCCACTCTTACTAGT
1 GCAGGAAAGATAAATTTATCCACTCTTACTAGT
4721901 GCAGGAAAGATAAATTTATCCACTCTTACTAGT
1 GCAGGAAAGATAAATTTATCCACTCTTACTAGT
4721934 ACGTCCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (33 bp):
GCAGGAAAGATAAATTTATCCACTCTTACTAGT
Found at i:4723924 original size:27 final size:27
Alignment explanation
Indices: 4723874--4723926 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
4723864 TAACATCTCA
* **
4723874 ACCATTTGGATTTTTGTTGAGACCAAT
1 ACCATTTGGATTGTCATTGAGACCAAT
*
4723901 ACCATTTGGATTGTCATTGGGACCAA
1 ACCATTTGGATTGTCATTGAGACCAA
4723927 GATCATTCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (27 bp):
ACCATTTGGATTGTCATTGAGACCAAT
Found at i:4723933 original size:27 final size:27
Alignment explanation
Indices: 4723874--4723933 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
4723864 TAACATCTCA
* ** *
4723874 ACCATTTGGATTTTTGTTGAGACCAAT
1 ACCATTTGGATTGTCATTGAGACCAAG
*
4723901 ACCATTTGGATTGTCATTGGGACCAAG
1 ACCATTTGGATTGTCATTGAGACCAAG
*
4723928 ATCATT
1 ACCATT
4723934 CCCATTTCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
ACCATTTGGATTGTCATTGAGACCAAG
Found at i:4728992 original size:12 final size:12
Alignment explanation
Indices: 4728975--4729001 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4728965 CCATATTCTC
4728975 ATTCATCCAACT
1 ATTCATCCAACT
4728987 ATTCATCCAACT
1 ATTCATCCAACT
4728999 ATT
1 ATT
4729002 TGGCTGACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTCATCCAACT
Found at i:4734727 original size:17 final size:17
Alignment explanation
Indices: 4734701--4734739 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4734691 AACCTATACT
*
4734701 AAAAATGAAAAGA-AAA
1 AAAAAGGAAAAGAGAAA
4734717 AGAAAAGGAAAAGAGAAA
1 A-AAAAGGAAAAGAGAAA
4734735 AAAAA
1 AAAAA
4734740 ACCTAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGGAAAAGAGAAA
Found at i:4737528 original size:12 final size:12
Alignment explanation
Indices: 4737496--4737530 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4737486 CATCTAACTT
4737496 TACTCCTATTCC
1 TACTCCTATTCC
* *
4737508 TAATTCTATTCC
1 TACTCCTATTCC
4737520 TACTCCTATTC
1 TACTCCTATTC
4737531 TTATGTCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (12 bp):
TACTCCTATTCC
Found at i:4739091 original size:17 final size:18
Alignment explanation
Indices: 4739065--4739103 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
4739055 AACTTAAACT
4739065 AAAAATGAAAAGAAAAAG
1 AAAAATGAAAAGAAAAAG
*
4739083 AAAAA-GAAAAGAGAAAG
1 AAAAATGAAAAGAAAAAG
4739100 AAAA
1 AAAA
4739104 CATAACATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAATGAAAAGAAAAAG
Found at i:4742860 original size:18 final size:19
Alignment explanation
Indices: 4742837--4742878 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4742827 TGTAGAAGGA
* *
4742837 TGAAATTG-AGGTCAATTT
1 TGAAATTGAAGCTCAAATT
4742855 TGAAATTGAAGCTCAAATT
1 TGAAATTGAAGCTCAAATT
4742874 TGAAA
1 TGAAA
4742879 GTTATGATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (19 bp):
TGAAATTGAAGCTCAAATT
Found at i:4744597 original size:12 final size:13
Alignment explanation
Indices: 4744578--4744613 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
4744568 AAGCATGGAA
4744578 GATTAGTTGTTGT
1 GATTAGTTGTTGT
4744591 G-TTAGTTGTTGT
1 GATTAGTTGTTGT
*
4744603 GATGAGTTGTT
1 GATTAGTTGTT
4744614 TGGTGCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (13 bp):
GATTAGTTGTTGT
Found at i:4748861 original size:17 final size:17
Alignment explanation
Indices: 4748839--4748871 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4748829 TTTCAAATTT
4748839 TTTTATCTTT-TTTTTTA
1 TTTTAT-TTTATTTTTTA
4748856 TTTTATTTTATTTTTT
1 TTTTATTTTATTTTTT
4748872 TCAAAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTTTATTTTTTA
Found at i:4759027 original size:17 final size:17
Alignment explanation
Indices: 4759005--4759046 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4758995 AAACCTATGT
* *
4759005 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
4759022 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
4759039 AGCCCAAA
1 GGCCCAAA
4759047 GTAGATTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:4771288 original size:13 final size:13
Alignment explanation
Indices: 4771270--4771295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4771260 GACCTCAAAG
4771270 AAATCATTTCAGT
1 AAATCATTTCAGT
4771283 AAATCATTTCAGT
1 AAATCATTTCAGT
4771296 CGACCTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTCAGT
Found at i:4778589 original size:132 final size:132
Alignment explanation
Indices: 4778492--4779055 Score: 939
Period size: 132 Copynumber: 4.3 Consensus size: 132
4778482 TGCTGCAACT
4778492 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
4778557 TCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
4778622 GC
131 GC
* * *
4778624 TCAGGGAGACAAGGCTTGGTGGCTTAAATTTTCTTCCTACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
4778689 TCTTCGATTTGCTCCACTACTGCTTAGGGATATAAGATCTACAATTTTCAACCTACTCCACTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
4778754 GC
131 GC
* * *
4778756 TTAGGGAGACAAGACTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
4778821 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGTTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
4778886 GC
131 GC
*
4778888 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
4778953 TCTTTGAGCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
*
4779018 AC
131 GC
* * **
4779020 TAAGGGAGACAAGGCTTGGTGTCTTTGATCTGCTTC
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTC
4779056 GCTGTCAGTG
Statistics
Matches: 400, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 400 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
GC
Found at i:4778726 original size:44 final size:44
Alignment explanation
Indices: 4778542--4778990 Score: 155
Period size: 44 Copynumber: 10.2 Consensus size: 44
4778532 TATCTTGGAA
** *
4778542 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * * *
4778586 AGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * * *
4778630 AGACAAGGCTTGGTGGCTTAAATTTTCTTCCTACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCC-ACTACTGCTTAGG-G
* *
4778674 AGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * *
4778718 ATATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
4778762 AGACAAGACTTG--GTAGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
4778806 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * ** * * *
4778850 AGATAAGATCTACAATTTTCAACCTACTCCGTTGCTGCTCAAGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
4778894 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
** * *
4778938 AGATAAGATTTGCCGTCTTTGAGCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
4778982 AGATAAGAT
1 AGATAAGAT
4778991 CTACAATTTT
Statistics
Matches: 272, Mismatches: 111, Indels: 44
0.64 0.26 0.10
Matches are distributed among these distances:
42 17 0.06
43 13 0.05
44 216 0.79
45 14 0.05
46 12 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:4791532 original size:30 final size:30
Alignment explanation
Indices: 4791498--4791570 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
4791488 CCGCTAAGAA
*
4791498 ACGCGCAGATCCTGGGTCCGGGTCGGGTCG
1 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
*
4791528 ACGCGCGGATCCTGGGTCTGGGTCGGGTCG
1 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
4791558 ACGCGCGGATCCT
1 ACGCGCGGATCCT
4791571 TCCTTCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.10, C:0.30, G:0.42, T:0.18
Consensus pattern (30 bp):
ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
Found at i:4793263 original size:41 final size:41
Alignment explanation
Indices: 4793200--4793308 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
4793190 TTTCGGGACA
*
4793200 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGGT-T
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT-GGTCT
*
4793241 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
4793282 TTAGCAGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
4793309 AAAAACATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 60 0.95
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:4793699 original size:22 final size:21
Alignment explanation
Indices: 4793650--4793727 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 21
4793640 TATGATTTAG
*
4793650 AGTTTAAGGTTTA-AGAGTTACT
1 AGTTTAAGGTTTATGGA-TTA-T
*
4793672 ATTTTAAGGTTTATGGATTAT
1 AGTTTAAGGTTTATGGATTAT
* *
4793693 GAGTTTAAGGGTTATGGTTTAT
1 -AGTTTAAGGTTTATGGATTAT
*
4793715 AGTTTATGGTTTA
1 AGTTTAAGGTTTA
4793728 AGATTTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 12 0.26
22 33 0.70
23 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.47
Consensus pattern (21 bp):
AGTTTAAGGTTTATGGATTAT
Found at i:4793719 original size:7 final size:7
Alignment explanation
Indices: 4793674--4793762 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
4793664 GAGTTACTAT
*
4793674 TTTAAGG
1 TTTATGG
4793681 TTTATGG
1 TTTATGG
*
4793688 ATTATGAG
1 TTTATG-G
*
4793696 TTTAAGG
1 TTTATGG
*
4793703 GTTATGG
1 TTTATGG
*
4793710 TTTATAG
1 TTTATGG
4793717 TTTATGG
1 TTTATGG
* *
4793724 TTTAAGA
1 TTTATGG
*
4793731 TTTAGGG
1 TTTATGG
*
4793738 TTTAAGG
1 TTTATGG
* **
4793745 GTTGCGG
1 TTTATGG
4793752 TTTATGG
1 TTTATGG
4793759 TTTA
1 TTTA
4793763 ATGTTATAGG
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:4793720 original size:21 final size:21
Alignment explanation
Indices: 4793630--4793763 Score: 74
Period size: 21 Copynumber: 6.3 Consensus size: 21
4793620 AAGGTTTTTG
* *
4793630 GTTT-AGGGTATATGATTTAGA
1 GTTTAAGGGT-TATGGTTTATA
* *
4793651 GTTTAAGGTTTAAGAG-TTACTA
1 GTTTAAGGGTTATG-GTTTA-TA
* * *
4793673 TTTTAAGGTTTATGGATTATGA
1 GTTTAAGGGTTATGGTTTAT-A
4793695 GTTTAAGGGTTATGGTTTATA
1 GTTTAAGGGTTATGGTTTATA
* * * * **
4793716 GTTTATGGTTTAAGATTTAGG
1 GTTTAAGGGTTATGGTTTATA
** *
4793737 GTTTAAGGGTTGCGGTTTATG
1 GTTTAAGGGTTATGGTTTATA
4793758 GTTTAA
1 GTTTAA
4793764 TGTTATAGGT
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
21 49 0.56
22 38 0.44
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GTTTAAGGGTTATGGTTTATA
Found at i:4793801 original size:21 final size:21
Alignment explanation
Indices: 4793777--4793840 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
4793767 TATAGGTTAA
4793777 GGGTTGAGGTTTAAGGTTTAG
1 GGGTTGAGGTTTAAGGTTTAG
4793798 GGGTTGAGAG-TTAAGAG-TTAG
1 GGGTTGAG-GTTTAAG-GTTTAG
* *
4793819 GGGTTTAGGATTTAGGGTTTAG
1 GGGTTGAGG-TTTAAGGTTTAG
4793841 ATTAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTTGAGGTTTAAGGTTTAG
Found at i:4793967 original size:16 final size:17
Alignment explanation
Indices: 4793948--4793986 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4793938 AAATTCTTTA
4793948 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
4793964 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
4793981 TAAATA
1 TAAATA
4793987 TAGTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:4794197 original size:21 final size:22
Alignment explanation
Indices: 4794173--4794213 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4794163 ATGGTTTATT
4794173 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
4794194 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
4794214 GGGGTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:4794216 original size:8 final size:8
Alignment explanation
Indices: 4794194--4794222 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4794184 GGGATTTAAA
4794194 GTTTAGGG
1 GTTTAGGG
4794202 G-TTAGGG
1 GTTTAGGG
4794209 GTTTAGGG
1 GTTTAGGG
4794217 GTTTAG
1 GTTTAG
4794223 AGTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (8 bp):
GTTTAGGG
Found at i:4794603 original size:36 final size:35
Alignment explanation
Indices: 4794542--4794609 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
4794532 TTTAAAAAAA
* *
4794542 TTAATAAATAAATAAAATCACTTAACTAATAATTT
1 TTAATAAATAAATAAAATAACTTAACAAATAATTT
*
4794577 TTAATAAATAAAATAAAA-AATTTTAACAAATAA
1 TTAATAAAT-AAATAAAATAA-CTTAACAAATAA
4794610 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.36
36 18 0.64
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (35 bp):
TTAATAAATAAATAAAATAACTTAACAAATAATTT
Found at i:4794666 original size:39 final size:39
Alignment explanation
Indices: 4794623--4794707 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
4794613 AATAAAATCA
*
4794623 CTAAAAATAAGCATTAGCGGCGCTTTTCGAAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
* * * *
4794662 CTAAAAATGAGCATTAGTGGCGTTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
*
4794701 CAAAAAA
1 CTAAAAA
4794708 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
Found at i:4795538 original size:38 final size:38
Alignment explanation
Indices: 4795458--4795539 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
4795448 GGTTACAAAC
* * * *
4795458 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
4795496 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
4795534 TTTATC
1 TTTATC
4795540 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:4799732 original size:43 final size:43
Alignment explanation
Indices: 4799697--4800053 Score: 509
Period size: 43 Copynumber: 8.3 Consensus size: 43
4799687 TTTGTTGTTT
* ** * *
4799697 AAGCATCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* *
4799740 AAGCGTCGCTAAAGGTCAGGGTCTTTAGTGGCGTTTGTCGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* * *
4799783 AAGCGTCGCTAAAAGTCATCGTCTTTAGCGGCGTTTGTCGAAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* *
4799826 AAGCGACGCTAAAGATCATGGTCTTTAGCGGCGTTTGTCGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* * *
4799869 AAGCGTCGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
*
4799912 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* * *
4799955 AAGCGTCGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* *
4799998 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGGA
1 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
*
4800040 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
4800054 TTAGCGACGC
Statistics
Matches: 282, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
42 17 0.06
43 265 0.94
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
Found at i:4800160 original size:22 final size:21
Alignment explanation
Indices: 4800123--4800167 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
4800113 TTTAGCGGCG
* *
4800123 CTAAAAAACGCTGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
4800144 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
4800166 CT
1 CT
4800168 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:4801420 original size:24 final size:26
Alignment explanation
Indices: 4801393--4801457 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 26
4801383 TCTCATGTTT
*
4801393 ATATAATATATATTAATAGTTCG-A-
1 ATATAATATATATTAACAGTTCGTAG
*
4801417 ATATACATGTAT-TTAACAGTTCGTAG
1 ATATA-ATATATATTAACAGTTCGTAG
4801443 AGTTATAATATATAT
1 A--TATAATATATAT
4801458 CCAAACTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 15 0.47
25 6 0.19
26 1 0.03
27 5 0.16
28 5 0.16
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (26 bp):
ATATAATATATATTAACAGTTCGTAG
Found at i:4810030 original size:57 final size:60
Alignment explanation
Indices: 4809942--4810080 Score: 196
Period size: 57 Copynumber: 2.3 Consensus size: 60
4809932 CATATTACCT
* * *
4809942 GTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A-GATCACTC
1 GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAATAGGATCACCC
4809999 GTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCATGATAGGATCACCC
1 GTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATCA--ATAGGATCACCC
4810061 GTCCGGGCTAGATCCTTTTT
1 GTCCGGGCTAGATCCTTTTT
4810081 ACCGTCAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
56 6 0.08
57 38 0.53
60 1 0.01
61 1 0.01
62 20 0.28
63 6 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (60 bp):
GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAATAGGATCACCC
Found at i:4816080 original size:12 final size:12
Alignment explanation
Indices: 4816063--4816087 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4816053 CATTTTATTA
4816063 ATTTTAAAAATT
1 ATTTTAAAAATT
4816075 ATTTTAAAAATT
1 ATTTTAAAAATT
4816087 A
1 A
4816088 AAAATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:4824631 original size:11 final size:11
Alignment explanation
Indices: 4824615--4824665 Score: 84
Period size: 11 Copynumber: 4.6 Consensus size: 11
4824605 TTCAAAAATT
4824615 CTCTTAAGTTC
1 CTCTTAAGTTC
4824626 CTCTTAAGTTC
1 CTCTTAAGTTC
*
4824637 CTTTTAAGTTC
1 CTCTTAAGTTC
*
4824648 CTCTTAAGTTT
1 CTCTTAAGTTC
4824659 CTCTTAA
1 CTCTTAA
4824666 CTCCCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.49
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:4824638 original size:33 final size:33
Alignment explanation
Indices: 4824601--4824665 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
4824591 TCCTTTCAAT
4824601 TTCCTTCAAAAATT-CTCTTAAGTTCCTCTTAAG
1 TTCCTT-AAAAATTCCTCTTAAGTTCCTCTTAAG
** * *
4824634 TTCCTTTTAAGTTCCTCTTAAGTTTCTCTTAA
1 TTCCTTAAAAATTCCTCTTAAGTTCCTCTTAA
4824666 CTCCCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (33 bp):
TTCCTTAAAAATTCCTCTTAAGTTCCTCTTAAG
Found at i:4824710 original size:12 final size:12
Alignment explanation
Indices: 4824671--4824714 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
4824661 CTTAACTCCC
*
4824671 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
4824683 ATTTTAAAAATA
1 TTTTTTAAAATA
4824695 TTTTTTAAAAT-
1 TTTTTTAAAATA
4824706 TTTTTTAAA
1 TTTTTTAAA
4824715 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:4825828 original size:7 final size:7
Alignment explanation
Indices: 4825816--4825840 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4825806 AGTCGATTGA
4825816 TATTTAG
1 TATTTAG
4825823 TATTTAG
1 TATTTAG
4825830 TATTTAG
1 TATTTAG
4825837 TATT
1 TATT
4825841 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Done.