Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 95 of 250
Found at i:30831983 original size:17 final size:17
Alignment explanation
Indices: 30831961--30831994 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30831951 AATAAAAGTG
30831961 TCCATCTTCTCAATTTA
1 TCCATCTTCTCAATTTA
30831978 TCCATCTTCTCAATTTA
1 TCCATCTTCTCAATTTA
30831995 GTCCCTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TCCATCTTCTCAATTTA
Found at i:30843795 original size:101 final size:101
Alignment explanation
Indices: 30843620--30843909 Score: 420
Period size: 101 Copynumber: 2.9 Consensus size: 101
30843610 TATTCAAACA
* *
30843620 TAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTCTTA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
*
30843685 TGATAAGACCATATCTGGGTTATGGT-ACTATGGACG
66 TGATAAGACCATAACTGGGTTAT-GTCACTATGGACG
* *
30843721 TAAGACCATGGCTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGTTATGACATTCTTA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
* * * *
30843786 TGATAAGACCCTAAATAGATTATGTCACTATGGACG
66 TGATAAGACCATAACTGGGTTATGTCACTATGGACG
* * * * * *
30843822 TAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTAA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
*
30843887 TAATAAGACCATAACTGGGTTAT
66 TGATAAGACCATAACTGGGTTAT
30843910 AGCACTACAA
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 2 0.01
101 164 0.99
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
TGATAAGACCATAACTGGGTTATGTCACTATGGACG
Found at i:30843945 original size:101 final size:100
Alignment explanation
Indices: 30843620--30843976 Score: 396
Period size: 101 Copynumber: 3.6 Consensus size: 100
30843610 TATTCAAACA
* * * * *
30843620 TAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTCTTA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* *
30843685 TGATAAGACCATATCTGGGTTATGGTACTATGGACG
66 TGATAAGACCATAACTGGGTTAT-GCACTATGGACG
* * *
30843721 TAAGACCATGGCTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGTTATGACATTCTTA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* * * *
30843786 TGATAAGACCCTAAATAGATTATGTCACTATGGACG
66 TGATAAGACCATAACTGGGTTATG-CACTATGGACG
* * * * *
30843822 TAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTAA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* *** *
30843887 TAATAAGACCATAACTGGGTTATAGCACTACAAATG
66 TGATAAGACCATAACTGGGTTAT-GCACTATGGACG
* * * * *
30843923 TAAGACCGTGGCAGGGCCATGGCA--ATATATATGTAAGACCATAG-TGGGACTATG
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGG-CTATG
30843977 GCACAATAGA
Statistics
Matches: 218, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
98 3 0.01
99 23 0.11
100 1 0.00
101 190 0.87
102 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (100 bp):
TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
TGATAAGACCATAACTGGGTTATGCACTATGGACG
Found at i:30846206 original size:27 final size:27
Alignment explanation
Indices: 30846168--30846318 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
30846158 ATACTTTAGT
30846168 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * * *
30846195 TTACTAAAATACCCTTGGTATATAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
30846222 TCACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
*
30846249 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* ** *
30846276 TTACCGAAATACCCCT-GTAGGGTAGAA
1 TTACCAAAATACCCCTGGT-TTGTAAAA
*
30846303 TTACCGAAATACCCCT
1 TTACCAAAATACCCCT
30846319 ATAGGGTAGA
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 106 0.98
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTTTGTAAAA
Found at i:30846313 original size:81 final size:80
Alignment explanation
Indices: 30846168--30846468 Score: 241
Period size: 81 Copynumber: 3.7 Consensus size: 80
30846158 ATACTTTAGT
** ** * * *
30846168 TTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTA-TATAAAATCACCAAAAT
1 TTACCAAAATACCCCT-GTTTGTAAAATTACCGAAATACCCTT-GTAGGGTAGAATTACCGAAAT
**
30846232 ACCCCTAGT-TTGTAAAA
64 ACCCCTA-TAGGGTAAAA
*
30846249 TTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA
1 TTACCAAAATACCCCT-GTTTGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATA
*
30846314 CCCCTATAGGGTAGAA
65 CCCCTATAGGGTAAAA
* ** * * * * *
30846330 TTACCGAAATACCCCTGTAGGGTAGAATTACCGGAATACCTTTGTAGGGTAGAAATATCGAAATA
1 TTACCAAAATACCCCTGT-TTGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATA
* * *
30846395 CCCTTGTAGGGTAGAA
65 CCCCTATAGGGTAAAA
* ** ** * * *
30846411 CTACTGAAATACCCCTGTAAGGTAGAATTACC-AAGATA-CCTTGTGGGGTAAAATTACC
1 TTACCAAAATACCCCTGT-TTGTAAAATTACCGAA-ATACCCTTGTAGGGTAGAATTACC
30846469 ATTTTGCCCC
Statistics
Matches: 184, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
80 22 0.12
81 162 0.88
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (80 bp):
TTACCAAAATACCCCTGTTTGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
CCCTATAGGGTAAAA
Found at i:30846323 original size:27 final size:27
Alignment explanation
Indices: 30846247--30846468 Score: 252
Period size: 27 Copynumber: 8.3 Consensus size: 27
30846237 TAGTTTGTAA
* ** *
30846247 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
30846274 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30846301 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30846328 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
30846355 AATTACCGGAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30846382 AAATATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30846409 AACTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30846436 AATTACC-AAGATA-CCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
30846462 AATTACC
1 AATTACC
30846469 ATTTTGCCCC
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.12
27 149 0.88
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30846902 original size:6 final size:6
Alignment explanation
Indices: 30846871--30846950 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
30846861 TTGCATTCAC
* * *
30846871 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
30846920 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
30846951 TCACCTAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.07
6 48 0.80
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:30846903 original size:19 final size:19
Alignment explanation
Indices: 30846881--30846938 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
30846871 ATTCTGATTT
30846881 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
30846900 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
30846912 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
30846931 TGATTCTG
1 TGATTCTG
30846939 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:30846909 original size:31 final size:31
Alignment explanation
Indices: 30846871--30846965 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 31
30846861 TTGCATTCAC
30846871 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
30846902 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
30846933 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
30846964 AT
1 AT
30846966 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:30853712 original size:53 final size:54
Alignment explanation
Indices: 30853583--30853837 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
30853573 ACACGGGTAC
* * * *
30853583 CTTACCATTGCCATGACTTGTCATGGTCTTACTTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
30853632 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
30853685 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
30853740 CTTATCAATGCAATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
30853793 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30853838 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:30853774 original size:108 final size:110
Alignment explanation
Indices: 30853630--30853827 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
30853620 ATCCTTTTGA
* * *
30853630 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCAATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
30853693 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
30853738 AACTTATCAATGCAATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCAATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
30853803 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
30853828 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCAATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30855245 original size:48 final size:47
Alignment explanation
Indices: 30855180--30855351 Score: 158
Period size: 47 Copynumber: 3.6 Consensus size: 47
30855170 TATCTATGTT
*
30855180 GATGCCATGTTCCAGACATGGTCTTACACTGACACCTCTAT-ATGTGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGAC-CCTCTATAATGTGCC
* * *
30855228 GATGCCATGTCCCAGACATGTCTTACACT-AGCTCTTGTCTCAA--TGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGA-C-CCTCTAT-AATGTGCC
* * * *
30855275 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAATGTGGCA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGACCCTCTATAATGT-GCC
*
30855323 GATG-GATGTCCCAGACATGTCTTACACTG
1 GATGCCATGTCCCAGACATGTCTTACACTG
30855352 GCACACAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
45 2 0.02
46 13 0.13
47 52 0.51
48 34 0.33
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGACCCTCTATAATGTGCC
Found at i:30861587 original size:20 final size:21
Alignment explanation
Indices: 30861562--30861602 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30861552 CTTTGAAACT
*
30861562 GGGCAA-ATGCCCGTGTGGAA
1 GGGCAACACGCCCGTGTGGAA
30861582 GGGCAACACGCCCGTGTGGAA
1 GGGCAACACGCCCGTGTGGAA
30861603 CTTGTACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.24, G:0.39, T:0.12
Consensus pattern (21 bp):
GGGCAACACGCCCGTGTGGAA
Found at i:30864997 original size:28 final size:28
Alignment explanation
Indices: 30864957--30865017 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
30864947 TTTCGATGTT
* *
30864957 TTGCACACTAAGTTCCATACTCAATATC
1 TTGCACACAAAGTGCCATACTCAATATC
* * *
30864985 TTGCACACAAAGTGCCATTCTTAATATT
1 TTGCACACAAAGTGCCATACTCAATATC
30865013 TTGCA
1 TTGCA
30865018 TACTACGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (28 bp):
TTGCACACAAAGTGCCATACTCAATATC
Found at i:30878837 original size:40 final size:42
Alignment explanation
Indices: 30878743--30878895 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 42
30878733 CCGAGGCTAT
30878743 GTGTAAGACCATATCTGGGATAGGGCATCATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATAGGGCATCATTATGAGATTTC
* * * * *
30878785 GTGCAAGGCCATATTTGGGATA-TG-A-CATTGATGTGATTTC
1 GTGTAAGACCATATCTGGGATAGGGCATCATT-ATGAGATTTC
* * * * *
30878825 GTGTAAGACCATAGCTGGGCTACTGGTATCGA-TATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-GGGCATC-ATTATGAGATTTC
* * *
30878868 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATAGGGCAT
30878896 TGGTATGGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
39 4 0.05
40 27 0.31
41 1 0.01
42 25 0.29
43 27 0.31
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATAGGGCATCATTATGAGATTTC
Found at i:30878889 original size:83 final size:82
Alignment explanation
Indices: 30878743--30878897 Score: 186
Period size: 83 Copynumber: 1.9 Consensus size: 82
30878733 CCGAGGCTAT
* * * * * *
30878743 GTGTAAGACCATATCTGGGATAGGGCATCATTATGAGATTTCGTGCAAGGCCATATTTGGGATAT
1 GTGTAAGACCATAGCTGGGATAGGGCATCATTATGAGATTACATGCAAGACCATATCTAGGATAT
30878808 GACATTGATGTGATTTC
66 GACATTGATGTGATTTC
* * * *
30878825 GTGTAAGACCATAGCTGGGCTACTGGTATCGA-TATGAGATTACATGTAAGACCATATCTAGGAT
1 GTGTAAGACCATAGCTGGGATA-GGGCATC-ATTATGAGATTACATGCAAGACCATATCTAGGAT
*
30878889 ATGGCATTG
64 ATGACATTG
30878898 GTATGGTACT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
82 20 0.33
83 39 0.65
84 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (82 bp):
GTGTAAGACCATAGCTGGGATAGGGCATCATTATGAGATTACATGCAAGACCATATCTAGGATAT
GACATTGATGTGATTTC
Found at i:30909410 original size:43 final size:42
Alignment explanation
Indices: 30909278--30909432 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
30909268 CCAAGGCTCT
* * *
30909278 GTGTAAGACCATATCTGGGATAGGGCATC-ATTATCAGATTTC
1 GTGTAAGACCATAGCTGGGATATGGCATCGA-TATGAGATTTC
* * * *
30909320 GTGCAAGACCATATCTGGGATATGGCATTGATATGACATTTC
1 GTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTC
* *
30909362 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGATTTC
*
30909405 ATGTAAGACCATAGCTGGGATATGGCAT
1 GTGTAAGACCATAGCTGGGATATGGCAT
30909433 TGGTATGGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 60 0.61
43 38 0.39
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTC
Found at i:30909415 original size:85 final size:84
Alignment explanation
Indices: 30909278--30909439 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 84
30909268 CCAAGGCTCT
* * * *
30909278 GTGTAAGACCATATCTGGGATAGGGCATCATTATCAGATTTCGTGCAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATAGGGCATCATTATCAGATTACATGCAAGACCATAGCTGGGATAT
30909343 GGCATTGATATGACATTTC
66 GGCATTGATATGACATTTC
* * * *
30909362 GTGTAAGACCATAGCTGGGCTATTGGCATCGA-TATGAGATTACATGTAAGACCATAGCTGGGAT
1 GTGTAAGACCATAGCTGGGATA-GGGCATC-ATTATCAGATTACATGCAAGACCATAGCTGGGAT
*
30909426 ATGGCATTGGTATG
64 ATGGCATTGATATG
30909440 GTACTATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 20 0.30
85 46 0.69
86 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATAGGGCATCATTATCAGATTACATGCAAGACCATAGCTGGGATAT
GGCATTGATATGACATTTC
Found at i:30909689 original size:11 final size:11
Alignment explanation
Indices: 30909673--30909697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30909663 TTTAGTTCAA
30909673 GTTAAATGTAT
1 GTTAAATGTAT
30909684 GTTAAATGTAT
1 GTTAAATGTAT
30909695 GTT
1 GTT
30909698 TATAATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
GTTAAATGTAT
Found at i:30938511 original size:71 final size:71
Alignment explanation
Indices: 30938395--30938537 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
30938385 TAACACCCTG
30938395 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
1 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
30938460 TTGTGC
66 TTGTGC
* *
30938466 AATTTGGGCTTAGAAGTTTTGGGCCTTGAGCATGGGAGTGGTTGAAGGCAGCTTATAATATTCTG
1 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
30938531 TTGTGC
66 TTGTGC
30938537 A
1 A
30938538 TGTAAATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.34
Consensus pattern (71 bp):
AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
TTGTGC
Found at i:30939366 original size:27 final size:27
Alignment explanation
Indices: 30939336--30939573 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
30939326 AATACCAAAG
*
30939336 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
**
30939363 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
30939390 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
30939417 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
30939444 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
30939471 TACCATTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
30939498 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
** *
30939525 TACCCTCGATTTATGGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
30939552 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
30939574 CGAAATACCC
Statistics
Matches: 186, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:30939426 original size:81 final size:81
Alignment explanation
Indices: 30939336--30939574 Score: 361
Period size: 81 Copynumber: 3.0 Consensus size: 81
30939326 AATACCAAAG
30939336 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
30939401 TATAGAATTACTATTT
66 TATAGAATTACCATTT
* * * * *
30939417 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCATTGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
30939482 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * ** *
30939498 TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTATGGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
30939563 TACAAAATTACC
66 TATAGAATTACC
30939575 GAAATACCCT
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 140 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:30939583 original size:81 final size:81
Alignment explanation
Indices: 30939309--30939584 Score: 331
Period size: 81 Copynumber: 3.4 Consensus size: 81
30939299 ATTACTGAAA
* * *
30939309 TACCCTCGACTTGTAAAAATACCA-AAGTACCCTCGATTTACAGAATTACTGTTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACCATAA-TACCCTCGATTTACAGAATTACTGTTTTACCCTCGAT
30939373 TTACAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * ** *
30939390 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
* *
30939455 TACAAAATTACCATTT
66 TACAGAATTACCGTTT
* * * ** * *
30939471 TACCATTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
** *
30939536 TATGGAATTACTGTTT
66 TACAGAATTACCGTTT
*
30939552 TACCCTCGATTTACAAAATTACCGA-AATACCCT
1 TACCCTCGATTTATAAAATTACC-ATAATACCCT
30939585 TGTAGGGTAG
Statistics
Matches: 166, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
81 165 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:30939601 original size:27 final size:27
Alignment explanation
Indices: 30939571--30939763 Score: 269
Period size: 27 Copynumber: 7.1 Consensus size: 27
30939561 TTTACAAAAT
*
30939571 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
30939598 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
30939625 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
30939652 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
30939679 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
30939706 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
30939733 TACTTAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
30939760 TACC
1 TACC
30939764 ATGATACCCT
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:30939770 original size:27 final size:27
Alignment explanation
Indices: 30939568--30939801 Score: 210
Period size: 27 Copynumber: 8.7 Consensus size: 27
30939558 CGATTTACAA
*
30939568 AATTACCGA-AATACCCTTGTAGGGTAG
1 AATTACC-ATAATACCCCTGTAGGGTAG
* *
30939595 AAATACCGA-AATACCCTTGTAGGGTAG
1 AATTACC-ATAATACCCCTGTAGGGTAG
* *
30939622 AAATACTGA-AATACCCCTGTAGGGTAG
1 AATTAC-CATAATACCCCTGTAGGGTAG
* *
30939649 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCATAATACCCCTGTAGGGTAG
*
30939676 AATTACCGA-AATACCCTTGTAGGGTAG
1 AATTACC-ATAATACCCCTGTAGGGTAG
* *
30939703 AAATACTGA-AATACCCCTGTAGGGTAG
1 AATTAC-CATAATACCCCTGTAGGGTAG
*
30939730 AATTA-CTTAAATACCCCTGTAGGGTAG
1 AATTACCAT-AATACCCCTGTAGGGTAG
* * * *
30939757 AATTACCATGATACCCTTGTGGGGTAA
1 AATTACCATAATACCCCTGTAGGGTAG
* **
30939784 AACTACCATTTTACCCCT
1 AATTACCATAATACCCCT
30939802 AGGGTGTTAA
Statistics
Matches: 178, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 174 0.98
28 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCATAATACCCCTGTAGGGTAG
Found at i:30939771 original size:54 final size:54
Alignment explanation
Indices: 30939568--30939782 Score: 263
Period size: 54 Copynumber: 4.0 Consensus size: 54
30939558 CGATTTACAA
* * *
30939568 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGA-AATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACC-ATAATACCCCTGTAGGGTAG
* * * *
30939622 AAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCATAATACCCCTGTAGGGTAG
* * *
30939676 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGA-AATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATAC-CATAATACCCCTGTAGGGTAG
* * * * *
30939730 AATTACTTAAATACCCCTGTAGGGTAGAATTACCATGATACCCTTGTGGGGTA
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCATAATACCCCTGTAGGGTA
30939783 AAACTACCAT
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 136 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCATAATACCCCTGTAGGGTAG
Found at i:30939801 original size:81 final size:81
Alignment explanation
Indices: 30939576--30939782 Score: 353
Period size: 81 Copynumber: 2.6 Consensus size: 81
30939566 AAAATTACCG
* *
30939576 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
30939641 TAGGGTAGAATTACTA
66 TAGGGTAGAATTACTA
30939657 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
*
30939722 TAGGGTAGAATTACTT
66 TAGGGTAGAATTACTA
* *
30939738 AAATACCCCTGTAGGGTAGAATTACC-ATGATACCCTTGTGGGGTA
1 AAATACCCCTGTAGGGTAGAATTACCGA-AATACCCTTGTAGGGTA
30939783 AAACTACCAT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 1 0.01
81 119 0.99
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
TAGGGTAGAATTACTA
Found at i:30940132 original size:27 final size:28
Alignment explanation
Indices: 30940096--30940153 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
30940086 GGCAGCCTCA
*
30940096 CTGTAATCTGGTGGCCTAGCCACAATAT
1 CTGTAATCTGGTGACCTAGCCACAATAT
* * *
30940124 CTGT-ATCTGGTGACTTCGTCACAATAT
1 CTGTAATCTGGTGACCTAGCCACAATAT
30940151 CTG
1 CTG
30940154 GTAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (28 bp):
CTGTAATCTGGTGACCTAGCCACAATAT
Found at i:30940133 original size:67 final size:67
Alignment explanation
Indices: 30940016--30940169 Score: 229
Period size: 67 Copynumber: 2.3 Consensus size: 67
30940006 GAGGAAGTAT
* * *
30940016 TCTGGCAGCCTCGCTGCAATCTGCTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCACTGCAATCTGCTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
30940081 TA
66 TA
* *
30940083 TCTGGCAGCCTCACTGTAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTGCTGGCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACA
30940147 ATA
65 ATA
* *
30940150 TCTGGTAGCCTCGCTGCAAT
1 TCTGGCAGCCTCACTGCAAT
30940170 TTCTGTGGTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 8 0.10
67 70 0.90
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCACTGCAATCTGCTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:30940281 original size:6 final size:6
Alignment explanation
Indices: 30940272--30940451 Score: 163
Period size: 6 Copynumber: 29.3 Consensus size: 6
30940262 TTGCATTCAC
* *
30940272 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
30940322 ATTTTG ATTCTG GTTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
30940371 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
30940420 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
30940452 AATGTTTCTT
Statistics
Matches: 142, Mismatches: 18, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
5 10 0.07
6 115 0.81
7 10 0.07
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:30940307 original size:31 final size:31
Alignment explanation
Indices: 30940272--30940381 Score: 145
Period size: 31 Copynumber: 3.5 Consensus size: 31
30940262 TTGCATTCAC
30940272 ATTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
* *
30940303 ATTCTGATTCTG-TTACCTAATT--TTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATACTG
*
30940334 GTTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
30940365 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
30940382 GATTTTGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.04
30 4 0.06
31 53 0.79
32 4 0.06
33 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATACTG
Found at i:30940341 original size:37 final size:37
Alignment explanation
Indices: 30940294--30940430 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
30940284 ATTCTATTAC
*
30940294 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
* *
30940331 CTGGTTCTGATTCTGATTCTATTACCTGATACTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCT-A-A-T--TT-TGATT
* * * *
30940374 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
30940411 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
30940431 CATTTTGATT
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
37 48 0.57
38 2 0.02
39 1 0.01
40 2 0.02
41 1 0.01
42 2 0.02
43 28 0.33
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
Found at i:30940347 original size:43 final size:43
Alignment explanation
Indices: 30940275--30940430 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
30940265 CATTCACATT
*
30940275 CTGATTCTGATTCT-ATTACCTGATACTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATT--CTGATTCTGATTCTGATTCTGTTAC
* * *
30940319 CT-A-----ATTTTGATTCTGGTTCTGATTCTGATTCTATTAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
* * *
30940356 CTGATACTGATTCTGATTCTGATTCTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
30940399 CTGATTCTGATTCTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCTGATTCTGATTCT
30940431 CATTTTGATT
Statistics
Matches: 94, Mismatches: 11, Indels: 15
0.78 0.09 0.12
Matches are distributed among these distances:
37 24 0.26
38 5 0.05
39 3 0.03
43 60 0.64
44 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
Found at i:30944735 original size:33 final size:33
Alignment explanation
Indices: 30944685--30944768 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
30944675 GTTTATTGTC
30944685 CCAACGGACTATCTCTGTTCTGTACTTACTATT
1 CCAACGGACTATCTCTGTTCTGTACTTACTATT
* * * * *
30944718 CCAAC-GAGCTATTTCTGTTTTGTATTTACTGTC
1 CCAACGGA-CTATCTCTGTTCTGTACTTACTATT
**
30944751 CCAACAAACTATCTCTGT
1 CCAACGGACTATCTCTGT
30944769 GGATGCCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 2 0.05
33 39 0.93
34 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (33 bp):
CCAACGGACTATCTCTGTTCTGTACTTACTATT
Found at i:30949464 original size:46 final size:46
Alignment explanation
Indices: 30949411--30949501 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
30949401 TATATATACA
* * *
30949411 CATCTCATACA-TTTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATT-TCACATTAACCATTCGGCTTTACCACATATC
* *
30949457 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATTTCACATTAACCATTCGGCTTTACCACATAT
30949502 ATACACTTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.26, C:0.32, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAACCATTCGGCTTTACCACATATC
Found at i:30949582 original size:94 final size:93
Alignment explanation
Indices: 30949481--30949712 Score: 293
Period size: 94 Copynumber: 2.5 Consensus size: 93
30949471 TTCGCATTAA
* ** * * *
30949481 CCATTCGGCTTTCCCACATATATACACTTCCACGTTCATCACATTGGCCATTCGGTCTTATCACA
1 CCATTCGGCCTTAGCACATATATACACTT-CACATTCATCACATTGGCCATTCGGCCTTAGCACA
*
30949546 CAAATGCATGTTCACATTCATCACATTTT
65 CAAATGCATGTTCACATTCATCACATTTG
* * * * * * *
30949575 CCATTCGGCCTTAGCACACAAATGCATGTTCATATTCATCACATTTGTCATTCGGCCTTAGCACA
1 CCATTCGGCCTTAGCACATATATACA-CTTCACATTCATCACATTGGCCATTCGGCCTTAGCACA
30949640 CAAATGCATGTTCACATTCATCACATTTG
65 CAAATGCATGTTCACATTCATCACATTTG
* *
30949669 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTAGCACATATATACAC-TTCACATTCATCACAT
30949713 AAAATCCTAA
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
94 113 0.98
95 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (93 bp):
CCATTCGGCCTTAGCACATATATACACTTCACATTCATCACATTGGCCATTCGGCCTTAGCACAC
AAATGCATGTTCACATTCATCACATTTG
Found at i:30949712 original size:47 final size:47
Alignment explanation
Indices: 30949515--30949683 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
30949505 CACTTCCACG
* * *
30949515 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
* *
30949562 TTCATCACATTTTCCATTCGGCCTTAGCACACAAATGCATGTTCATA
1 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
*
30949609 TTCATCACATTTGTCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
30949656 TTCATCACATTTGCCATTCGGCCTTAGC
1 TTCATCACATTTGCCATTCGGCCTTAGC
30949684 TCATATATAC
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
Found at i:30956166 original size:74 final size:74
Alignment explanation
Indices: 30956045--30956193 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
30956035 GTCCAGAAAA
30956045 ACCCGAAGTATTCTTAGATCGGCCTGAGTCATCTCTAAATTTCTTCGATGACTAATGAAAAGATT
1 ACCCGAAGTATTCTTAGATCGGCCTGAGTCATCTCTAAATTTCTTCGATGACTAATGAAAAGATT
30956110 TTCCCGAAG
66 TTCCCGAAG
30956119 ACCCGAAGTATTCTTAGATCGGCCTGAGTCATCTCTAAATTTCTTCGATGACTAATGAAAAGATT
1 ACCCGAAGTATTCTTAGATCGGCCTGAGTCATCTCTAAATTTCTTCGATGACTAATGAAAAGATT
30956184 TTCCCGAAG
66 TTCCCGAAG
30956193 A
1 A
30956194 TCTTTTACGG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (74 bp):
ACCCGAAGTATTCTTAGATCGGCCTGAGTCATCTCTAAATTTCTTCGATGACTAATGAAAAGATT
TTCCCGAAG
Found at i:30958050 original size:45 final size:44
Alignment explanation
Indices: 30957961--30958090 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
30957951 CCGAATTTAT
* * *
30957961 TCACC-GCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
** *
30958003 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCAGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
30958048 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCAGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
30958091 CTGTACAACA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 4 0.05
43 5 0.07
44 14 0.18
45 52 0.68
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:30961642 original size:71 final size:71
Alignment explanation
Indices: 30961526--30961668 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
30961516 TAACACCCTG
30961526 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTA
1 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTA
30961591 TTGTGC
66 TTGTGC
* *
30961597 AATTTGGGCTTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
1 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTA
30961662 TTGTGC
66 TTGTGC
30961668 A
1 A
30961669 TGTAAATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.33
Consensus pattern (71 bp):
AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTA
TTGTGC
Found at i:30962497 original size:27 final size:27
Alignment explanation
Indices: 30962467--30962625 Score: 237
Period size: 27 Copynumber: 5.9 Consensus size: 27
30962457 AATACCAAAG
30962467 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30962494 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
30962521 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30962548 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
30962575 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30962602 TACCCTCGATTTACAAAATTACTG
1 TACCCTCGATTTACAGAATTACTG
30962626 AAATACCCTT
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:30962568 original size:81 final size:81
Alignment explanation
Indices: 30962467--30962625 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 81
30962457 AATACCAAAG
* * *
30962467 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
30962532 TACAGAATTACTGTTT
66 TACAAAATTACTGTTT
*
30962548 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
30962613 TACAAAATTACTG
66 TACAAAATTACTG
30962626 AAATACCCTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:30962646 original size:54 final size:54
Alignment explanation
Indices: 30962535--30962652 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
30962525 CTCGATTTAC
** *** **
30962535 AGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTGATGGAT
* *
30962589 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTT-ATAGGGT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTGAT-GGAT
*
30962643 AGAAATACCA
1 AGAATTACCA
30962653 AAATACCCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTGATGGAT
Found at i:30962656 original size:27 final size:27
Alignment explanation
Indices: 30962626--30962849 Score: 189
Period size: 27 Copynumber: 8.0 Consensus size: 27
30962616 AAAATTACTG
* *
30962626 AAATACCCTTATAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAAATACCA
*
30962653 AAATACCCTTGTAGGGTAGAAATACCGAAATA
1 AAATACCCCTGTAGGGTAGAAATACC-----A
* * *
30962685 CCGAAATACCCCTATAGGGTAGAATTACTA
1 ---AAATACCCCTGTAGGGTAGAAATACCA
* *
30962715 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCA
* ***
30962742 AAATACCCTTGTAGGGTAGAAATAGTG
1 AAATACCCCTGTAGGGTAGAAATACCA
* *
30962769 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAAATACCA
* *
30962796 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCA
* * *
30962823 AGATACCCTTGTGGGGTA-AAATTACCA
1 AAATACCCCTGTAGGGTAGAAA-TACCA
30962850 TTTTACCCCT
Statistics
Matches: 165, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.01
27 139 0.84
30 1 0.01
32 1 0.01
35 22 0.13
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCA
Found at i:30962719 original size:35 final size:35
Alignment explanation
Indices: 30962645--30962721 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
30962635 TATAGGGTAG
* * *
30962645 AAATACCAAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCAAAATACCCCTATAGGGTAGAAATACCA
* * *
30962680 AAATACCGAAATACCCCTATAGGGTAGAATTACTA
1 AAATACCAAAATACCCCTATAGGGTAGAAATACCA
30962715 AAATACC
1 AAATACC
30962722 CCTGTAGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (35 bp):
AAATACCAAAATACCCCTATAGGGTAGAAATACCA
Found at i:30962722 original size:62 final size:62
Alignment explanation
Indices: 30962625--30962748 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
30962615 CAAAATTACT
* *
30962625 GAAATACCCTTATAGGGTAGAAATACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACC
1 GAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATACC
* * *
30962687 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACC
1 GAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATACC
30962749 CTTGTAGGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (62 bp):
GAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATACC
Found at i:30962814 original size:81 final size:80
Alignment explanation
Indices: 30962687--30962844 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 80
30962677 CCGAAATACC
30962687 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
30962752 GTAGGGTAGAAATAGT
66 GTAGGGTA-AAATAGT
* *
30962768 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTT
1 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
*
30962833 GTGGGGTAAAAT
66 GTAGGGTAAAAT
30962845 TACCATTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 4 0.05
81 70 0.95
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (80 bp):
GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
GTAGGGTAAAATAGT
Found at i:30962846 original size:54 final size:54
Alignment explanation
Indices: 30962683--30962849 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
30962673 AATACCGAAA
* * *
30962683 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
1 TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * * *
30962737 TACCGAAATACCCTTGTAGGGTAGAAATAGTGAAATACCCCTGTAGGGTAGAAT
1 TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * * * * *
30962791 TACTAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAAT
1 TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
30962845 TACCA
1 TACCA
30962850 TTTTACCCCT
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
Found at i:30963182 original size:67 final size:68
Alignment explanation
Indices: 30963074--30963231 Score: 192
Period size: 71 Copynumber: 2.3 Consensus size: 68
30963064 GAGGAAGTAT
* * * * *
30963074 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCTAC-ATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
30963138 ATA
66 ATA
* * *
30963141 TCTGGCAGCCTCACTGTAATCTGGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCAC--A-ATATATCTGTTCTGGTGACCTAGCC
30963206 ACAATA
63 ACAATA
* *
30963212 TCTGGTAGCCTCGCTGCAAT
1 TCTGGCAGCCTCACTGCAAT
30963232 TTCTGTGGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 32 0.42
71 44 0.58
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (68 bp):
TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:30963343 original size:6 final size:6
Alignment explanation
Indices: 30963334--30963495 Score: 118
Period size: 6 Copynumber: 26.3 Consensus size: 6
30963324 TTGCATTCAC
* *
30963334 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
30963384 ATTTTG ATTCTG GTTTTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
30963433 ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
30963482 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
30963496 AATGTTTCTT
Statistics
Matches: 122, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
5 9 0.07
6 96 0.79
7 11 0.09
8 6 0.05
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:30963369 original size:31 final size:31
Alignment explanation
Indices: 30963334--30963474 Score: 153
Period size: 31 Copynumber: 4.5 Consensus size: 31
30963324 TTGCATTCAC
30963334 ATTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
* *
30963365 ATTCTGATTCTG-TTACCTAATT--TTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATACTG
* * *
30963396 GTTTTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
* * * *
30963427 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
30963458 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
30963475 CATTTTGATT
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
29 2 0.02
30 4 0.04
31 78 0.86
32 4 0.04
33 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATACTG
Found at i:30963391 original size:25 final size:25
Alignment explanation
Indices: 30963337--30963395 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
30963327 CATTCACATT
*
30963337 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
30963362 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
*
30963387 TTGATTCTG
1 CTGATTCTG
30963396 GTTTTGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:30963404 original size:37 final size:37
Alignment explanation
Indices: 30963363--30963444 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
30963353 TACCTGATAC
** *
30963363 TGATTCTGATTCTGTTACCTAATTTTGATTCTGGTTT
1 TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
*
30963400 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
30963437 TGATTCTG
1 TGATTCTG
30963445 TCACCTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (37 bp):
TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
Found at i:30963427 original size:19 final size:19
Alignment explanation
Indices: 30963362--30963463 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 19
30963352 TTACCTGATA
30963362 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
* *
30963381 CTAATTTTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
*
30963399 TTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
30963418 CTGATACTGATTCTG--A-
1 CTGATTCTGATTCTGTTAC
*
30963434 -T--TT-TGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
30963449 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
30963464 ATTCTGATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
12 8 0.12
13 1 0.02
14 1 0.02
15 1 0.02
16 1 0.02
17 4 0.06
18 13 0.20
19 33 0.51
20 3 0.05
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.49
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:30967802 original size:33 final size:33
Alignment explanation
Indices: 30967717--30967813 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
30967707 ATGGATCCTA
* * *
30967717 TTTGTGTTTATTGTCCCAACGGACTATCTCTGT
1 TTTGTATTTACTGTCCCAACGGACTATCTCTAT
* * * * *
30967750 TCTGTACTTACTATTCCAAC-GAGCTATTTCTAT
1 TTTGTATTTACTGTCCCAACGGA-CTATCTCTAT
**
30967783 TTTGTATTTACTGTCCCAACAAACTATCTCT
1 TTTGTATTTACTGTCCCAACGGACTATCTCT
30967814 GTGGATGCCA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
32 2 0.04
33 45 0.94
34 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (33 bp):
TTTGTATTTACTGTCCCAACGGACTATCTCTAT
Found at i:30975455 original size:26 final size:26
Alignment explanation
Indices: 30975426--30975593 Score: 99
Period size: 26 Copynumber: 6.8 Consensus size: 26
30975416 TCCTCTCTCA
*
30975426 AGCCATATAA-CAGGAAGGTCACAAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
30975452 AGCCATTAATCGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
***
30975478 AGCC--T-ATCAGGAAGCT-A-TTCG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * * *
30975499 GGCTATATAAT-AAGAAGCTCA-TAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
30975524 AGCCA-TAATCAGGAAGTTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * *
30975549 A-ACTTTCAATCAGGAAGCTCACGAAG
1 AGCCATT-AATCAGGAAGCTCACAAAG
30975575 AGCC-TTCAATCAGG-AGCTC
1 AGCCATT-AATCAGGAAGCTC
30975594 TGGACAACCA
Statistics
Matches: 110, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.03
22 1 0.01
23 14 0.13
24 18 0.16
25 21 0.19
26 52 0.47
27 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:30987286 original size:25 final size:23
Alignment explanation
Indices: 30987236--30987286 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
30987226 ACCGGACTAT
* *
30987236 ATAATAGGAAGCTCATAAGAGCC
1 ATAATAGGAAGCTCAAAAGAACC
*
30987259 ATAATCGGAAAGCTCACAAAGAACC
1 ATAATAGG-AAGCTCA-AAAGAACC
30987284 ATA
1 ATA
30987287 TCAAAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.30
24 7 0.30
25 9 0.39
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (23 bp):
ATAATAGGAAGCTCAAAAGAACC
Found at i:30987384 original size:25 final size:25
Alignment explanation
Indices: 30987356--30987404 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30987346 AAATAGCTAA
*
30987356 TTTAA-CGGAAAGTTCATGAAGAGCC
1 TTTAATCGGAAAGCTCAT-AAGAGCC
*
30987381 TTTAATCGGAATGCTCATAAGAGC
1 TTTAATCGGAAAGCTCATAAGAGC
30987405 TAAGGTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
TTTAATCGGAAAGCTCATAAGAGCC
Found at i:30994844 original size:33 final size:32
Alignment explanation
Indices: 30994797--30994866 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
30994787 AATAATTTAC
*
30994797 TTTTCTGGTGTTTGGATGA-ATCTGTGTAAAATA
1 TTTTCTGGTATTTGGATGATATCT-TG-AAAATA
* * *
30994830 TTTTCTGTTATTTGGCTGATTTCTTGAAAATA
1 TTTTCTGGTATTTGGATGATATCTTGAAAATA
30994862 TTTTC
1 TTTTC
30994867 CTGAATAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 11 0.34
33 18 0.56
34 3 0.09
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (32 bp):
TTTTCTGGTATTTGGATGATATCTTGAAAATA
Found at i:30997543 original size:31 final size:30
Alignment explanation
Indices: 30997507--30997568 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
30997497 GGAGATGGAA
*
30997507 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAACGGAAGAAAAA-AAAGCTT
*
30997538 AAAGTTGAAGAACGGAAGAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
30997568 A
1 A
30997569 CCTGGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.15
Consensus pattern (30 bp):
AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
Found at i:31001439 original size:37 final size:37
Alignment explanation
Indices: 31001389--31001467 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31001379 TTATTACGAA
* *
31001389 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
31001426 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
31001463 GTCTT
1 GTCTT
31001468 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:31001664 original size:47 final size:47
Alignment explanation
Indices: 31001586--31001935 Score: 583
Period size: 47 Copynumber: 7.4 Consensus size: 47
31001576 CCCTTCGGGA
* * * * * * *
31001586 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31001633 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31001680 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31001727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31001774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31001821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31001868 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31001917 CTTATCACATATATACACT
1 CTTATCACATATATACACT
31001936 GTCTTGGCTG
Statistics
Matches: 286, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 239 0.84
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31004456 original size:30 final size:30
Alignment explanation
Indices: 31004408--31004467 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31004398 TTCCCAAGCC
* * *
31004408 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATATAATTATGCAAAAGTT
* *
31004438 TAGGGGAAAAAATATAATTTTGCCAAAGTT
1 TAGGGGAAAAAATATAATTATGCAAAAGTT
31004468 CGTATTAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAATATAATTATGCAAAAGTT
Found at i:31009301 original size:22 final size:23
Alignment explanation
Indices: 31009262--31009305 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
31009252 TGGCTGGGAA
*
31009262 GGAACGAGAGAAAAGGAAAGAAT
1 GGAAAGAGAGAAAAGGAAAGAAT
31009285 GGAAAGAGAG-AAAGGAAAGAA
1 GGAAAGAGAGAAAAGGAAAGAA
31009306 ATAAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.36, T:0.02
Consensus pattern (23 bp):
GGAAAGAGAGAAAAGGAAAGAAT
Found at i:31015228 original size:29 final size:30
Alignment explanation
Indices: 31015196--31015252 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
31015186 ACCATGAATA
*
31015196 TAATTAAACTAACAA-ATTCAACCAAAAAC
1 TAATTAAACTAACAAGACTCAACCAAAAAC
*
31015225 TAATTACACTAACAAGACTCAACCAAAA
1 TAATTAAACTAACAAGACTCAACCAAAA
31015253 GCAATCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (30 bp):
TAATTAAACTAACAAGACTCAACCAAAAAC
Found at i:31020731 original size:25 final size:25
Alignment explanation
Indices: 31020703--31020758 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
31020693 TAAACTCAAG
**
31020703 AATTCTCTAGAAAGCTTTTGTGGTA
1 AATTCTCTAGAAAGCCATTGTGGTA
* * * *
31020728 AATTTTTTGGAAAGCCATTGTGGTT
1 AATTCTCTAGAAAGCCATTGTGGTA
31020753 AATTCT
1 AATTCT
31020759 TAAGAAAACC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (25 bp):
AATTCTCTAGAAAGCCATTGTGGTA
Found at i:31039741 original size:39 final size:39
Alignment explanation
Indices: 31039687--31039765 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
31039677 TATTCAAAAG
*
31039687 ATGAAACTAAACATGCCGAGCATTTGAGAATCTTATTGC
1 ATGAAACTAAACATGCCGAGCATTTAAGAATCTTATTGC
*
31039726 ATGAAACTGAACATGCCGAGCATTTAAGAATCTTATTGC
1 ATGAAACTAAACATGCCGAGCATTTAAGAATCTTATTGC
31039765 A
1 A
31039766 GACTCTGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (39 bp):
ATGAAACTAAACATGCCGAGCATTTAAGAATCTTATTGC
Found at i:31042816 original size:40 final size:40
Alignment explanation
Indices: 31042783--31042977 Score: 338
Period size: 40 Copynumber: 4.8 Consensus size: 40
31042773 AGCCAAGATA
31042783 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
31042823 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
31042863 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
* *
31042903 TAGTAACACGCACAAATGCCTTCGGGACTTAGCCTGGAAC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
*
31042943 TAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGCC
1 TAGTAACT--CGCACAAATGCCTTCGGGACTTAGCC
31042978 AGGTGATCAT
Statistics
Matches: 149, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
40 124 0.83
41 21 0.14
42 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAC
Found at i:31051151 original size:40 final size:40
Alignment explanation
Indices: 31051107--31051323 Score: 330
Period size: 40 Copynumber: 5.4 Consensus size: 40
31051097 CGCTCGAATA
* *
31051107 CCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* *
31051147 CCTTCGGGACTTAGCTCGAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
31051187 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
31051227 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* *
31051267 CCTTCGGGACTTAGCCTGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
31051308 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
31051324 AGGTGATCAT
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 139 0.84
41 21 0.13
42 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:31055333 original size:22 final size:24
Alignment explanation
Indices: 31055299--31055342 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
31055289 ATTGGTTTGG
*
31055299 TTTGAGATGATGATAT-GATGAGT
1 TTTGAGATGATGAAATGGATGAGT
*
31055322 TTTGTGAT-ATGAAATGGATGA
1 TTTGAGATGATGAAATGGATGA
31055343 TATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (24 bp):
TTTGAGATGATGAAATGGATGAGT
Found at i:31065340 original size:39 final size:39
Alignment explanation
Indices: 31065295--31065489 Score: 237
Period size: 39 Copynumber: 5.0 Consensus size: 39
31065285 TCAAAAGTAC
* * *
31065295 CGAAGTACAATAGAGGCATGTAAGTGCAATCAGGGGTAT
1 CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
* * * * * *
31065334 CAAAGTACAACAAGGGCACGTAATTGCAATTAGGGGTAT
1 CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
* * *
31065373 CGAAGTACGACAGGGGCACGTAAGTGCGATCAGGGGTAC
1 CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
* * * *
31065412 CGAAGTACGATAGGGGCACGTAAGTGTAATTAAGGGTAC
1 CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
*
31065451 CGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTAT
1 CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
31065490 AATTTTATAA
Statistics
Matches: 132, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (39 bp):
CGAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTAT
Found at i:31065387 original size:19 final size:18
Alignment explanation
Indices: 31065365--31065427 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
31065355 AATTGCAATT
31065365 AGGGGTATCGAAGTACGAC
1 AGGGGTA-CGAAGTACGAC
* *
31065384 AGGGGCACGTAAGTGCGATC
1 AGGGGTACG-AAGTACGA-C
*
31065404 AGGGGTACCGAAGTACGAT
1 AGGGGTA-CGAAGTACGAC
31065423 AGGGG
1 AGGGG
31065428 CACGTAAGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 2 0.06
19 18 0.50
20 14 0.39
21 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.41, T:0.14
Consensus pattern (18 bp):
AGGGGTACGAAGTACGAC
Found at i:31065429 original size:78 final size:78
Alignment explanation
Indices: 31065291--31065488 Score: 270
Period size: 78 Copynumber: 2.5 Consensus size: 78
31065281 GCTATCAAAA
* * * * *
31065291 GTACCGAAGTACAATAGAGGCATGTAAGTGCAATCAGGGGTATCAAAGTACAACAAGGGCACGTA
1 GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGTA
* *
31065356 ATTGCAATTAGGG
66 AGTGCAATTAAGG
* * * * * *
31065369 GTATCGAAGTACGACAGGGGCACGTAAGTGCGATCAGGGGTACCGAAGTACGATAGGGGCACGTA
1 GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGTA
*
31065434 AGTGTAATTAAGG
66 AGTGCAATTAAGG
31065447 GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTA
1 GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTA
31065489 TAATTTTATA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 104 1.00
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.18
Consensus pattern (78 bp):
GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGTA
AGTGCAATTAAGG
Found at i:31065436 original size:19 final size:19
Alignment explanation
Indices: 31065375--31065486 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 19
31065365 AGGGGTATCG
*
31065375 AAGTACGACAGGGGCACGT
1 AAGTACGATAGGGGCACGT
* *
31065394 AAGTGCGATCAGGGGTACCG-
1 AAGTACGAT-AGGGGCA-CGT
31065414 AAGTACGATAGGGGCACGT
1 AAGTACGATAGGGGCACGT
*** * *
31065433 AAGTGTAATTAAGGGTACCG-
1 AAGTACGA-TAGGGGCA-CGT
31065453 AAGTACGATAGGGGCACGT
1 AAGTACGATAGGGGCACGT
*
31065472 AAGTGCGATCAGGGG
1 AAGTACGAT-AGGGG
31065487 TATAATTTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
18 4 0.06
19 32 0.46
20 30 0.43
21 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.38, T:0.16
Consensus pattern (19 bp):
AAGTACGATAGGGGCACGT
Found at i:31067142 original size:15 final size:16
Alignment explanation
Indices: 31067122--31067151 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31067112 GAAAATTGCC
31067122 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
31067137 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
31067152 TGGAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:31070665 original size:15 final size:16
Alignment explanation
Indices: 31070645--31070674 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31070635 GAAAATTGCC
31070645 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
31070660 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
31070675 TGGAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:31075201 original size:46 final size:46
Alignment explanation
Indices: 31075103--31075271 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
31075093 GGCGAGGGCT
* * * *
31075103 AGTGTAAGACATGTCTGGGACAAGCATCGGCCACGAGACGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGTAAGCC
* * *
31075149 AATGTAAGACATGTCTAGGACATGCATCGACTACGAGA-GGATAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGTA-AGCC
* ** * *
31075195 AGTGTAAGACCACGTCTAGGACATGGCATCGACTTA--AGATATGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGAC-TACGAGACGTAAGCC
*
31075242 AGTGTAAGACCGTGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATC
31075272 AGCACCTTAC
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 44 0.43
47 46 0.45
48 8 0.08
49 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGTAAGCC
Found at i:31075264 original size:140 final size:140
Alignment explanation
Indices: 31075011--31075264 Score: 309
Period size: 140 Copynumber: 1.8 Consensus size: 140
31075001 TGTGAGCTAG
* * * * *
31075011 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAATCAGTGCAAGACCATGTCTGGTA
1 TGTAAGACATGTCTAGGACATGCATCGACCACATGAGGAGAATCAGTGCAAGACCACGTCTGGTA
* * * *
31075076 CATGGCATCGACATTGAGGCGAGGGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCCACGAGA
66 CATGGCATCGACATTGAAGAGAGAGCTAGTGTAAGACATGTCTAGGACAAGCATCGGCCACGAGA
31075141 CGTAAGCCAA
131 CGTAAGCCAA
* * * *
31075151 TGTAAGACATGTCTAGGACATGCATCGACTACGA-GAGGATAGTCAGTGTAAGACCACGTCTAGG
1 TGTAAGACATGTCTAGGACATGCATCGACCAC-ATGAGGAGAATCAGTGCAAGACCACGTCT-GG
* *
31075215 -ACATGGCATCGAC-TT-AAGATATGAGCTAGTGTAAGACCGTGTCTAGGACA
64 TACATGGCATCGACATTGAAGAGA-GAGCTAGTGTAAGA-CATGTCTAGGACA
31075265 TGGCATCAGC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
138 3 0.03
139 15 0.16
140 74 0.78
141 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.21
Consensus pattern (140 bp):
TGTAAGACATGTCTAGGACATGCATCGACCACATGAGGAGAATCAGTGCAAGACCACGTCTGGTA
CATGGCATCGACATTGAAGAGAGAGCTAGTGTAAGACATGTCTAGGACAAGCATCGGCCACGAGA
CGTAAGCCAA
Found at i:31082812 original size:47 final size:45
Alignment explanation
Indices: 31082571--31082833 Score: 147
Period size: 46 Copynumber: 5.7 Consensus size: 45
31082561 CATTCGTTTG
* * * * *
31082571 TGAGCTAGTGTAAGACATGTTTGGGACATGCATCAGC-C-ACATTA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-CA
* *
31082615 TGAGAGCCAGT-TAAGACCATCTCTGGGACATGGCATCGGCATTGAGACA
1 T--GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGACA
* * * * * * * * *
31082664 AGGGCTAGTGTAAGATATGTTTGGAACATGCATTGGCCACGAGACG
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACA
* * ** *
31082710 TAAGCCAGTGTAAGACATGTCTAGGACATGCATTAGCTACGAGAGGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGA-CA
* * * *
31082757 T-AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTGAGATA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGACA
* *
31082803 TGAGCCAGTGTAAGACCGTGTCTAGGACATG
1 TGAGCCAGTGTAAGA-CATGTCTGGGACATG
31082834 GCACCGGCAC
Statistics
Matches: 164, Mismatches: 41, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 77 0.47
47 65 0.40
48 12 0.07
49 1 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACA
Found at i:31082834 original size:47 final size:48
Alignment explanation
Indices: 31082619--31082841 Score: 142
Period size: 47 Copynumber: 4.8 Consensus size: 48
31082609 ACATTATGAG
* * * ** *
31082619 AGCCAGT-TAAGACCATCTCTGGGACATGGCATCGGC-ATTGAGACAAG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGAGGAT
* * * * * * *
31082666 GGCTAGTGTAAGA-TATGT-TTGGAACAT-GCATTGGCCACGAGACG-T
1 AGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCTACGAGAGGAT
**
31082711 AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATTAGCTACGAGAGGAT
1 -AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAGGAT
* * * * *
31082758 AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCT-TGAGA-TAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAGGAT
* *
31082804 GAGCCAGTGTAAGACCGTGTCTAGGACATGGCACCGGC
1 -AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
31082842 ACCTTACCTT
Statistics
Matches: 139, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
46 62 0.45
47 65 0.47
48 12 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAGGAT
Found at i:31092492 original size:20 final size:23
Alignment explanation
Indices: 31092456--31092499 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
31092446 GCTATATTAG
31092456 AAATGCTAACTAAAATGT-CTTA
1 AAATGCTAACTAAAATGTACTTA
31092478 AAATG-TAAC-AAAATGTACTTA
1 AAATGCTAACTAAAATGTACTTA
31092499 A
1 A
31092500 GTGCAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATGCTAACTAAAATGTACTTA
Found at i:31099315 original size:29 final size:29
Alignment explanation
Indices: 31099229--31099327 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
31099219 AGGATTGCCT
* * *
31099229 TTGTGGCGATCTCTGTTAAAAGGAAGCCT
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
*
31099258 TTGTGGTGATCTCTATTATAAGGAAGCCC
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
* *
31099287 TTGTGACGATCTTTATTATAAGGAAGCCC
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
* *
31099316 TTCTGGTGATCT
1 TTGTGGCGATCT
31099328 GATCGACTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (29 bp):
TTGTGGCGATCTCTATTATAAGGAAGCCC
Found at i:31100468 original size:20 final size:22
Alignment explanation
Indices: 31100435--31100474 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
31100425 TCAAGCAGCG
*
31100435 AAATTAATGCAATAAGATAGAA
1 AAATTAATGCAATAAAATAGAA
31100457 AAATTAA-G-AATAAAATAG
1 AAATTAATGCAATAAAATAG
31100475 TCTAGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 1 0.06
22 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (22 bp):
AAATTAATGCAATAAAATAGAA
Found at i:31101902 original size:18 final size:18
Alignment explanation
Indices: 31101844--31101903 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
31101834 TTCTCATTTT
*
31101844 CAACAACTTTCTTCTTTAG
1 CAACAACTTCCTTC-TTAG
* *
31101863 GAACAACTTCCTCTCCT-G
1 CAACAACTTCCT-TCTTAG
*
31101881 CAACAACTTCCTTCTTAA
1 CAACAACTTCCTTCTTAG
31101899 CAACA
1 CAACA
31101904 GTGTCTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.09
18 17 0.52
19 11 0.33
20 2 0.06
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.32
Consensus pattern (18 bp):
CAACAACTTCCTTCTTAG
Found at i:31103867 original size:15 final size:15
Alignment explanation
Indices: 31103844--31103874 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31103834 CTTGTCATGC
*
31103844 CATCTTTTGGTTTTT
1 CATCGTTTGGTTTTT
31103859 CATCGTTTGGTTTTT
1 CATCGTTTGGTTTTT
31103874 C
1 C
31103875 CTTGTAAATT
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:0.06, C:0.16, G:0.16, T:0.61
Consensus pattern (15 bp):
CATCGTTTGGTTTTT
Found at i:31110618 original size:17 final size:17
Alignment explanation
Indices: 31110571--31110622 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
31110561 ATCCAACAAA
31110571 GCCCGGTAAATGATAAT
1 GCCCGGTAAATGATAAT
** *
31110588 GCCTGCAATAAATGATATT
1 GCC--CGGTAAATGATAAT
31110607 GCCCGGTAAATGATAA
1 GCCCGGTAAATGATAA
31110623 ATGGTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (17 bp):
GCCCGGTAAATGATAAT
Found at i:31115724 original size:28 final size:30
Alignment explanation
Indices: 31115676--31115731 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
31115666 TACCAATTTT
*
31115676 AGAAAGAAAATAAAGTGCAAA-AAACACAA
1 AGAAAGAAAATAAAATGCAAACAAACACAA
31115705 AGAAA-AAAATAAACAT-CAAACAAACAC
1 AGAAAGAAAATAAA-ATGCAAACAAACAC
31115732 CATCCCCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.70, C:0.14, G:0.09, T:0.07
Consensus pattern (30 bp):
AGAAAGAAAATAAAATGCAAACAAACACAA
Found at i:31116640 original size:29 final size:29
Alignment explanation
Indices: 31116606--31116697 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
31116596 GCGTTATGGG
31116606 TATCTCTGTGAAAATGATGCCTTTGTGGC
1 TATCTCTGTGAAAATGATGCCTTTGTGGC
* * *
31116635 TATCTCAGTG-AAATGA-GCATTGTTATGGC
1 TATCTCTGTGAAAATGATGC-CT-TTGTGGC
* * *
31116664 TATCTCTGTTAAAAGGATGCCTTTGTGGT
1 TATCTCTGTGAAAATGATGCCTTTGTGGC
31116693 TATCT
1 TATCT
31116698 TTATCAAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 2 0.04
28 7 0.14
29 33 0.66
30 6 0.12
31 2 0.04
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (29 bp):
TATCTCTGTGAAAATGATGCCTTTGTGGC
Found at i:31125120 original size:106 final size:106
Alignment explanation
Indices: 31124928--31125138 Score: 368
Period size: 106 Copynumber: 2.0 Consensus size: 106
31124918 TAGGAAAAGT
*
31124928 CTGATGAGATAGCTCATTGCTATATGTTGGTAAACATGACCAACACTCAGTATAAACAAATAGAG
1 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
*
31124993 AGCTATAAGACTGATAAAGTGATTCTAGATAAGCTAGAAGC
66 AGCTATAAGACTGATAAAGTGATTCCAGATAAGCTAGAAGC
* *
31125034 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCGGTATAATCAAATAGAG
1 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
* *
31125099 AGCTATAAGACTGCTATAGTGATTCCAGATAAGCTAGAAG
66 AGCTATAAGACTGATAAAGTGATTCCAGATAAGCTAGAAG
31125139 ACATGTTCAG
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (106 bp):
CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
AGCTATAAGACTGATAAAGTGATTCCAGATAAGCTAGAAGC
Found at i:31127087 original size:16 final size:17
Alignment explanation
Indices: 31127056--31127088 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31127046 AAACTCATTT
*
31127056 TTATTGTTTCTTAAAAA
1 TTATTGTATCTTAAAAA
31127073 TTATTGTAT-TTAAAAA
1 TTATTGTATCTTAAAAA
31127089 ATCCTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
TTATTGTATCTTAAAAA
Found at i:31128148 original size:37 final size:37
Alignment explanation
Indices: 31128043--31128149 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
31128033 ATTTTCTGTA
* * *
31128043 GGCATGCTTTACATGCGAATCAAAATATCAAAAATAT
1 GGCATGCTTAACATGAGAATCAAAATATCAGAAATAT
** *
31128080 TACATGCTTAACATGCA-AATCAAAATTTCAGAAATAT
1 GGCATGCTTAACATG-AGAATCAAAATATCAGAAATAT
* *
31128117 GGCATGCTTAACATGAGAATTAGAATATCAGAA
1 GGCATGCTTAACATGAGAATCAAAATATCAGAA
31128150 TAGTAACATA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.98
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (37 bp):
GGCATGCTTAACATGAGAATCAAAATATCAGAAATAT
Found at i:31131732 original size:40 final size:40
Alignment explanation
Indices: 31131672--31131855 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
31131662 TATTCGAATG
* *
31131672 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
31131712 ATATCAGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* **
31131752 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
31131792 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
31131832 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31131856 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 121 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:31135343 original size:20 final size:20
Alignment explanation
Indices: 31135318--31135362 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31135308 AGGGACTAAA
* *
31135318 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
31135338 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
31135358 ATGAA
1 ATGAA
31135363 TACATGCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:31139961 original size:22 final size:21
Alignment explanation
Indices: 31139917--31139963 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
31139907 CCTCCAACTA
*
31139917 GGGCATGTCCTATGGTCACAC
1 GGGCATGTCCTATGGCCACAC
31139938 GGGCATGTCCCT-TGGACCACAC
1 GGGCATGT-CCTATGG-CCACAC
31139960 GGGC
1 GGGC
31139964 GTGTGAGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (21 bp):
GGGCATGTCCTATGGCCACAC
Found at i:31142712 original size:35 final size:35
Alignment explanation
Indices: 31142671--31142740 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
31142661 CCGTATACAG
31142671 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
1 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
*
31142706 GTTTGTGGTGGTATTTATTGATGATATTTTGGTTT
1 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
31142741 ACTCTCAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.56
Consensus pattern (35 bp):
GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
Found at i:31149724 original size:43 final size:43
Alignment explanation
Indices: 31149648--31149793 Score: 174
Period size: 43 Copynumber: 3.4 Consensus size: 43
31149638 GATAAATCCC
* * *
31149648 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCATGCCTA
1 GCAGGCTTAGTGCTGGTGATGTGTATTCAGGCCTTCGTGCCTA
* * *
31149689 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGGGCCTA
1 GCAGGCTTAGTGCTGGTGATGTGTATTCAGGCCTTCGTGCCTA
31149732 GCAGGCTTCA-TGCTGGTGATGTGTATTCTA-GCCTTCGTGCCTA
1 GCAGGCTT-AGTGCTGGTGATGTGTATTC-AGGCCTTCGTGCCTA
* *
31149775 GCAGGCGTAATGCTGGTGA
1 GCAGGCTTAGTGCTGGTGA
31149794 AATGATATGT
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
41 15 0.17
42 3 0.03
43 71 0.79
44 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCTGGTGATGTGTATTCAGGCCTTCGTGCCTA
Found at i:31151751 original size:39 final size:40
Alignment explanation
Indices: 31151708--31151792 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
31151698 TCCCTTTTTA
31151708 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTC-
1 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
* *
31151747 TTCTTTTAATTACCAAATGACCAAAATGCCTTTAGGGTCT
1 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
31151787 TTCTTT
1 TTCTTT
31151793 AAAATTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (40 bp):
TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
Found at i:31152346 original size:20 final size:20
Alignment explanation
Indices: 31152321--31152359 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31152311 AGGGACTAAA
* *
31152321 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
31152341 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
31152360 TATAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:31155335 original size:27 final size:26
Alignment explanation
Indices: 31155284--31155384 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
31155274 CTCATATCTG
* * *
31155284 TAGGCTAGTATTATTGAAATACCCCTA
1 TAGG-TAGAATTACTGAAATGCCCCTA
*
31155311 TAGCGTCGAATTACTGAAATGCCCCTA
1 TAG-GTAGAATTACTGAAATGCCCCTA
** *
31155338 TAGGATAGAATTACTGAAATGTACCTG
1 TAGG-TAGAATTACTGAAATGCCCCTA
31155365 TAGGGTAGAATTACTGAAAT
1 TA-GGTAGAATTACTGAAAT
31155385 ACCCTTGGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 59 0.94
28 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (26 bp):
TAGGTAGAATTACTGAAATGCCCCTA
Found at i:31155403 original size:27 final size:27
Alignment explanation
Indices: 31155373--31155720 Score: 260
Period size: 27 Copynumber: 12.9 Consensus size: 27
31155363 TGTAGGGTAG
* *
31155373 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGCAA
* *
31155400 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGCAA
** *
31155426 AATTACCAAAATACCCTCT-ATTAGCAA
1 AATTACTGAAATACCCT-TGATTTGCAA
** * *
31155453 AATTACAAAAATACCCTTGGTTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
** *
31155480 AATTACCAAAATACCCTTGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
* * * ***
31155507 AATTA-TCAAAATACCTTTAATTTTTGA
1 AATTACT-GAAATACCCTTGATTTGCAA
* *
31155534 AATTA-TCGAAATACCCTCGATTTGTAA
1 AATTACT-GAAATACCCTTGATTTGCAA
*
31155561 AATTA-TCGAAATACCCTTGATTTGGAA
1 AATTACT-GAAATACCCTTGATTTGCAA
* * *
31155588 AATTATTGAAATACCTTTGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGCAA
* *
31155615 AATTA-TAGAAATACCCCTGATTTACAA
1 AATTACT-GAAATACCCTTGATTTGCAA
*
31155642 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTACTGAAATACCCTTGA-TTTGC-AA
* * * *
31155670 AATTACAGAAATACCATTGGTTTGGAA
1 AATTACTGAAATACCCTTGATTTGCAA
* * *
31155697 AATTACCGAGATACCCTTGGTTTG
1 AATTACTGAAATACCCTTGATTTG
31155721 TAGATTTACC
Statistics
Matches: 274, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.09
27 223 0.81
28 25 0.09
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGCAA
Found at i:31155537 original size:81 final size:80
Alignment explanation
Indices: 31155373--31155722 Score: 298
Period size: 81 Copynumber: 4.3 Consensus size: 80
31155363 TGTAGGGTAG
* ** ** * *
31155373 AATTACTGAAATACCCTTGGTTTACAAAATTACTGAATACCCTTGGTTT-ACAAAATTACCAAAA
1 AATTACAGAAATACCCTTGGTTTGTAAAATTACAAAATACCCTTGATTTGA-AAAATTATCAAAA
* * *
31155437 TACCCTCTA-TTAGCAA
65 TA-CCTTTATTTTGGAA
* *
31155453 AATTACAAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTATCAAAA
1 AATTACAGAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTTGATTTGAAAAATTATCAAAA
*
31155518 TACCTTTAATTTTTG-A
65 TACCTTT-ATTTTGGAA
* * * * **
31155534 AATTATC-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGGAAAATTATTGAA
1 AATTA-CAGAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTTGATTTGAAAAATTATCAAA
31155598 ATACCTTTGA-TTTGGAA
64 ATACCTTT-ATTTTGGAA
* * * ** *
31155615 AATTATAGAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCAAAAATTA-CAGA
1 AATTACAGAAATACCCTTGGTTTGTAAAATTACA-AAATACCCTTGA-TTTGAAAAATTATCA-A
* **
31155679 AATACCATTGGTTTGGAA
63 AATACCTTTATTTTGGAA
* *
31155697 AATTACCGAGATACCCTTGGTTTGTA
1 AATTACAGAAATACCCTTGGTTTGTA
31155723 GATTTACCAA
Statistics
Matches: 217, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
80 37 0.17
81 132 0.61
82 48 0.22
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (80 bp):
AATTACAGAAATACCCTTGGTTTGTAAAATTACAAAATACCCTTGATTTGAAAAATTATCAAAAT
ACCTTTATTTTGGAA
Found at i:31156028 original size:41 final size:41
Alignment explanation
Indices: 31155971--31156092 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
31155961 GAAGGAAGAA
* * *
31155971 ATTGAGAATCGCATGGTTACTTGACAATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
*
31156012 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* * * * * *
31156053 GTTAAGGATTGTATGGTTGCTTGACGTTTGTGGATCCACC
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
31156093 TGTGGCTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:31156287 original size:22 final size:22
Alignment explanation
Indices: 31156234--31156288 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
31156224 AGGAAATTAT
**
31156234 CCTGATTATGGCTTTGTGACAA
1 CCTGATTATGGCGCTGTGACAA
* *
31156256 CCT-ACATATGGCGCTGTGCCAA
1 CCTGA-TTATGGCGCTGTGACAA
31156278 CCTGATTATGG
1 CCTGATTATGG
31156289 TTGTGTGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (22 bp):
CCTGATTATGGCGCTGTGACAA
Found at i:31156519 original size:22 final size:22
Alignment explanation
Indices: 31156494--31156542 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
31156484 TGCTGTGATG
31156494 TTTACGGCT-ATGTGCTGTCCTA
1 TTTACGG-TGATGTGCTGTCCTA
*
31156516 TTTACGGTGATGTGCTGTCCTG
1 TTTACGGTGATGTGCTGTCCTA
31156538 TTTAC
1 TTTAC
31156543 AGCCTTGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.43
Consensus pattern (22 bp):
TTTACGGTGATGTGCTGTCCTA
Found at i:31157434 original size:13 final size:13
Alignment explanation
Indices: 31157418--31157442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31157408 CAAATTTTGT
31157418 AAAGAAATGATGA
1 AAAGAAATGATGA
31157431 AAAGAAATGATG
1 AAAGAAATGATG
31157443 GAAATCCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (13 bp):
AAAGAAATGATGA
Found at i:31160696 original size:46 final size:45
Alignment explanation
Indices: 31160588--31160985 Score: 274
Period size: 45 Copynumber: 8.8 Consensus size: 45
31160578 GATCGGAGGG
* * * *
31160588 TGCCATGGTGTCTTTCAACTATGGTCTTATTTATTCTT-AACTTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATT-TTCATCGTGA
* *
31160633 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CATCGTGA
* * * * *
31160679 TGCCATAGTGTCTTTCAATTATTGTCTTATTCATTTTCCTTCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CATCGTGA
* *
31160725 TGCCATAGTGTCTTCCAACTATGGTCTTATTCA-TTTGATTCGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCA-TCGTGA
* * ** * *** *
31160770 TGCCATAGTGTCTTTTAGCTACAGTCTTACTCGA-TAAAATTGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTTCATCGTGA
* * ** * ***
31160815 TGCCATACTATCTTTCAGTTATGGTCTTACTTGA-TAGAATCGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTTCATCGTGA
** * * * *
31160860 TGCCATAACGCCTTTCAACTATGGTCTTACTC-GTTTC-TGGT-A
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGTGA
* * *
31160902 TGGTTCCATAGTGTCTTTCAACTATGGTCTTATTTA-TTTC-TGGTATA
1 T-G--CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGT-GA
*
31160949 GTGCCATAGTGTCTTTCAACTATGGTCTTAATCATTT
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
31160986 CCTTCAAGCC
Statistics
Matches: 282, Mismatches: 57, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 4 0.01
45 188 0.67
46 81 0.29
47 2 0.01
48 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGTGA
Found at i:31160709 original size:91 final size:90
Alignment explanation
Indices: 31160588--31160784 Score: 238
Period size: 91 Copynumber: 2.2 Consensus size: 90
31160578 GATCGGAGGG
* * *
31160588 TGCCATGGTGTCTTTCAACTATGGTCTTATT-TATT-CTTAACTTGATGCCATAGTGTCTTTCAA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTATATTCCTT--CATGATGCCATAGTGTCTTCCAA
*
31160651 CCATGGTCTTATTCATTTTCCA-TCGTGT
64 CCATGGTCTTATTCA-TTT-CATTCGTGA
* * * *
31160679 TGCCATAGTGTCTTTCAATTATTGTCTTATTCATTTTCCTTCATGTTGCCATAGTGTCTTCCAAC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATT-ATATTCCTTCATGATGCCATAGTGTCTTCCAAC
* *
31160744 TATGGTCTTATTCATTTGATTCGTGA
65 CATGGTCTTATTCATTTCATTCGTGA
31160770 TGCCATAGTGTCTTT
1 TGCCATAGTGTCTTT
31160785 TAGCTACAGT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 51 0.55
92 34 0.37
93 3 0.03
94 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (90 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTATATTCCTTCATGATGCCATAGTGTCTTCCAACC
ATGGTCTTATTCATTTCATTCGTGA
Found at i:31162587 original size:27 final size:27
Alignment explanation
Indices: 31162541--31162592 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31162531 CTTTAAGGCA
**
31162541 AACCTTTTAAAGGATGCCTTCGTGGTG
1 AACCTTTTAAAGGACACCTTCGTGGTG
*
31162568 AACCTTTTAAAGGACACCTTTGTGG
1 AACCTTTTAAAGGACACCTTCGTGG
31162593 CGAAACGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (27 bp):
AACCTTTTAAAGGACACCTTCGTGGTG
Found at i:31162606 original size:27 final size:27
Alignment explanation
Indices: 31162576--31162644 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
31162566 TGAACCTTTT
*
31162576 AAAGGACACCTTTGTGGCG-AAACGCTG
1 AAAGGAAACCTTTGTGG-GAAAACGCTG
*
31162603 AAAGGAAAACCTTTGTGGGAAAATGCTG
1 AAAGG-AAACCTTTGTGGGAAAACGCTG
31162631 AAAGGAAAACCTTT
1 AAAGG-AAACCTTT
31162645 ATGGCCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (27 bp):
AAAGGAAACCTTTGTGGGAAAACGCTG
Found at i:31162619 original size:28 final size:29
Alignment explanation
Indices: 31162583--31162649 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
31162573 TTTAAAGGAC
31162583 ACCTTTGTGGCG-AAACGCTGAAAGGAAA
1 ACCTTTGTGGCGAAAACGCTGAAAGGAAA
*
31162611 ACCTTTGTGG-GAAAATGCTGAAAGGAAA
1 ACCTTTGTGGCGAAAACGCTGAAAGGAAA
*
31162639 ACCTTTATGGC
1 ACCTTTGTGGC
31162650 CAGTACTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (29 bp):
ACCTTTGTGGCGAAAACGCTGAAAGGAAA
Found at i:31168021 original size:30 final size:30
Alignment explanation
Indices: 31167987--31168048 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
31167977 ACTAAACTTA
31167987 ATTATCTAATAATCTAAGAACGCGACAGAG
1 ATTATCTAATAATCTAAGAACGCGACAGAG
31168017 ATTATCTAATAATCTAAGAACGCGACAGAG
1 ATTATCTAATAATCTAAGAACGCGACAGAG
31168047 AT
1 AT
31168049 AAAAGAATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (30 bp):
ATTATCTAATAATCTAAGAACGCGACAGAG
Found at i:31170533 original size:40 final size:40
Alignment explanation
Indices: 31170489--31170707 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
31170479 CACTCGAATA
*
31170489 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
31170529 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
31170569 CCTTCGGGACTTAGCCCGGAACTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
31170609 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* *
31170649 CCTTCGGAACTTAGCCCGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
*
31170690 CCTTCGAGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
31170708 ATTATCATCC
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 141 0.84
41 21 0.13
42 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:31178134 original size:40 final size:40
Alignment explanation
Indices: 31178103--31178362 Score: 425
Period size: 40 Copynumber: 6.5 Consensus size: 40
31178093 CGCTCGAATA
*
31178103 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
31178143 CTTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
31178183 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
31178223 CCTTCGGGACTTAGCCCAGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
31178263 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* *
31178303 CCTTCGGGACTTAGCCTGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
*
31178344 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31178363 TTATCATCCA
Statistics
Matches: 208, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 181 0.87
41 22 0.11
42 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:31185363 original size:25 final size:24
Alignment explanation
Indices: 31185335--31185382 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
31185325 TCTAACCATT
31185335 TAAT-CATATTATATAATTTAATAAG
1 TAATACATATTA-AT-ATTTAATAAG
31185360 TAATCACATATTAATATTTAATA
1 TAAT-ACATATTAATATTTAATA
31185383 CATTGCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 12 0.57
26 2 0.10
27 7 0.33
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATACATATTAATATTTAATAAG
Found at i:31194432 original size:22 final size:22
Alignment explanation
Indices: 31194398--31194462 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
31194388 GCAAATACAT
*
31194398 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
31194420 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
31194442 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
31194463 AATAGTTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:31194661 original size:41 final size:41
Alignment explanation
Indices: 31194603--31194721 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
31194593 TTCAAAGCCA
*
31194603 CGGTGGATCCACGGTCGTCAAGCAACCCTACGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAAT
* * *
31194644 CGGTGGATCCACAGTCGTCAAGCAACCATGCGATCTTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAAT
* *
31194685 CAGTGGATCCACGGTCGTCAAGCAACCATTCGATCCT
1 CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
31194722 CAATTTCTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAAT
Found at i:31195019 original size:27 final size:27
Alignment explanation
Indices: 31194990--31195306 Score: 153
Period size: 27 Copynumber: 11.7 Consensus size: 27
31194980 ATCTACAAGC
*
31194990 CAAGGGTATTTCGGTAATTTCGCAAAC
1 CAAGGGTATTTCGGTAATTTCGCAAAT
* * ***
31195017 CAATGGTATTTCTGTAATATTTTTAAAGT
1 CAAGGGTATTTCGGTAAT-TTCGCAAA-T
* ** * *
31195046 TAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTCGCAAAT
*
31195073 C-AGGGATATTTCTGTAATTTAC-CAAAT
1 CAAGGG-TATTTCGGTAATTT-CGCAAAT
* *
31195100 CAAGGGTATTTTGCTAAATTTC-CAAAT
1 CAAGGGTATTTCGGT-AATTTCGCAAAT
** **
31195127 C-AGAGGTATTTTAGTAATTTTACAAAT
1 CAAG-GGTATTTCGGTAATTTCGCAAAT
* * *
31195154 CGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTCGCAAAT
* * * *
31195181 TAAGGATATTTCAGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTCGCAAAT
* * * *
31195207 CTAGGGGTATTTTGGTAATTTTGCTAAT
1 C-AAGGGTATTTCGGTAATTTCGCAAAT
* * * * *
31195235 CAAGTGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTCGCAAAT
* * * *
31195262 CAAGGCTA-TTCAGTAATTTTC-TAAAC
1 CAAGGGTATTTCGGTAA-TTTCGCAAAT
* *
31195288 CAAGGATATTTCAGTAATT
1 CAAGGGTATTTCGGTAATT
31195307 CTACCATACA
Statistics
Matches: 229, Mismatches: 48, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
26 31 0.14
27 159 0.69
28 24 0.10
29 15 0.07
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTCGCAAAT
Found at i:31195216 original size:81 final size:81
Alignment explanation
Indices: 31195049--31195228 Score: 192
Period size: 81 Copynumber: 2.2 Consensus size: 81
31195039 TTAAAGTTAA
* ** * *
31195049 GGGTATTTTTGTAATTTTGTAAATCAGGGATATTTCTGTAATTTACCAAATCAAGGGTATTTTGC
1 GGGTATTTTAGTAATTTTACAAATCAGGGATATTTCTGTAATTTACCAAATCAAGGATATTTAGC
31195114 TAAATTTCCAAATCAG
66 TAAATTTCCAAATCAG
* *
31195130 AGGTATTTTAGTAATTTTACAAATCGAGGG-TATTTC-GATAATTT-CACAAATTAAGGATATTT
1 GGGTATTTTAGTAATTTTACAAATC-AGGGATATTTCTG-TAATTTAC-CAAATCAAGGATATTT
31195192 CAG-T-AATTTCACAAA-CTAG
63 -AGCTAAATTTC-CAAATC-AG
*
31195211 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
31195229 GCTAATCAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
80 9 0.11
81 70 0.83
82 5 0.06
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCAGGGATATTTCTGTAATTTACCAAATCAAGGATATTTAGC
TAAATTTCCAAATCAG
Found at i:31195325 original size:27 final size:27
Alignment explanation
Indices: 31195295--31195359 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
31195285 AACCAAGGAT
*
31195295 ATTTCAGTAATTCTACCATACAGGGGC
1 ATTTCAGTAATTATACCATACAGGGGC
* *
31195322 ATTTCAGTAATTATACCCTATAGGGGC
1 ATTTCAGTAATTATACCATACAGGGGC
*
31195349 AATTCAGTAAT
1 ATTTCAGTAAT
31195360 ACTAGCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTATACCATACAGGGGC
Found at i:31195368 original size:27 final size:26
Alignment explanation
Indices: 31195297--31195371 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
31195287 CCAAGGATAT
* * *
31195297 TTCAGTAATTCTACCATACAGGGGCAT
1 TTCAGTAATACTACC-TATAGGGGCAA
31195324 TTCAGTAATTA-TACCCTATAGGGGCAA
1 TTCAGTAA-TACTA-CCTATAGGGGCAA
31195351 TTCAGTAATACTAGCCTATAG
1 TTCAGTAATACTA-CCTATAG
31195372 ATATGAGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 36 0.88
28 3 0.07
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (26 bp):
TTCAGTAATACTACCTATAGGGGCAA
Done.